Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 179 of 240
Found at i:55327557 original size:19 final size:20
Alignment explanation
Indices: 55327517--55327560 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
55327507 ATCTCTTTAG
* *
55327517 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
55327536 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
55327555 GCATTA
1 GCATTA
55327561 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:55329661 original size:9 final size:9
Alignment explanation
Indices: 55329647--55329701 Score: 96
Period size: 9 Copynumber: 6.3 Consensus size: 9
55329637 TGAATTCAAA
55329647 AAAAAAATC
1 AAAAAAATC
55329656 -AAAAAATC
1 AAAAAAATC
55329664 AAAAAAATC
1 AAAAAAATC
55329673 AAAAAAATC
1 AAAAAAATC
55329682 -AAAAAATC
1 AAAAAAATC
55329690 AAAAAAATC
1 AAAAAAATC
55329699 AAA
1 AAA
55329702 GTCAAAATAG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.36
9 28 0.64
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:55329669 original size:17 final size:17
Alignment explanation
Indices: 55329648--55329701 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
55329638 GAATTCAAAA
55329648 AAAAAATC-AAAAAATC
1 AAAAAATCAAAAAAATC
55329664 AAAAAAATCAAAAAAATC
1 -AAAAAATCAAAAAAATC
55329682 AAAAAATCAAAAAAATC
1 AAAAAATCAAAAAAATC
55329699 AAA
1 AAA
55329702 GTCAAAATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 28 0.78
18 8 0.22
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAAATCAAAAAAATC
Found at i:55329681 original size:26 final size:26
Alignment explanation
Indices: 55329647--55329701 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
55329637 TGAATTCAAA
55329647 AAAAAAATCAAAAAATCAAAAAAATC
1 AAAAAAATCAAAAAATCAAAAAAATC
55329673 AAAAAAATCAAAAAATCAAAAAAATC
1 AAAAAAATCAAAAAATCAAAAAAATC
55329699 AAA
1 AAA
55329702 GTCAAAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (26 bp):
AAAAAAATCAAAAAATCAAAAAAATC
Found at i:55330711 original size:21 final size:21
Alignment explanation
Indices: 55330685--55330731 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
55330675 GCTCAAATAT
55330685 TGATCAGAATGGGGCATGAAG
1 TGATCAGAATGGGGCATGAAG
* *
55330706 TGATCAGATTGGGGCATGTAG
1 TGATCAGAATGGGGCATGAAG
55330727 TGATC
1 TGATC
55330732 CTGCTATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.11, G:0.36, T:0.26
Consensus pattern (21 bp):
TGATCAGAATGGGGCATGAAG
Found at i:55331965 original size:88 final size:88
Alignment explanation
Indices: 55331816--55332413 Score: 860
Period size: 88 Copynumber: 6.7 Consensus size: 88
55331806 ACGAAGTTAT
*
55331816 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCGTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
55331881 TGATGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGATAAA
* *
55331904 AGATCTTGCCTTCCGGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTA
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
55331969 TGATGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGATAAA
* * *
55331992 AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCAAAGACACAAACCTTAACCTTGCCTCTCT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC--A----AACCTTGCCTCTCT
*
55332057 CGGTTGTGATGGAGCTGGTTGAAGACAAA
60 CGGTTGTGATGGAGCTGGTTGAAGATAAA
* *
55332086 AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
55332151 TGATGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGATAAA
* *
55332174 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCCCTCAGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
55332239 TGATGGAGCTGGTTGAAGACAAC
66 TGATGGAGCTGGTTGAAGATAAA
* * *
55332262 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCAGTTA
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * **
55332327 TGGTGGAGCTGATTAAAGATAGC
66 TGATGGAGCTGGTTGAAGATAAA
* * ** * *
55332350 AGATCTTGCCTTCCTGCGTTAACAATGAAGCAGATTGAA-A-ACAAAGCCTTGCCTC-CATCGGT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAA-CCTTGCCTCTC-TCGGT
55332412 TG
64 TG
55332414 CAGTGAAGCT
Statistics
Matches: 468, Mismatches: 34, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
86 6 0.01
87 15 0.03
88 361 0.77
90 1 0.00
92 1 0.00
94 84 0.18
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGATAAA
Found at i:55332301 original size:270 final size:270
Alignment explanation
Indices: 55331816--55332312 Score: 895
Period size: 270 Copynumber: 1.8 Consensus size: 270
55331806 ACGAAGTTAT
* *
55331816 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCGTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCGAAGACACAAACCGTGCCTCTCTCGGTTG
55331881 TGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCGGCATTGACAGCGAAGCAGGTCGAAGAC
66 TGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCGGCATTGACAGCGAAGCAGGTCGAAGAC
* * *
55331946 ACAAACCTTGCCTCTCTCGGTTATGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCTGCAT
131 ACAAACCTTGCCTCCCTCAGTTATGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
55332011 TGACAGCAAAGCAAGTCAAAGACACAAACCTTAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
196 TGACAGCAAAGCAAGTCAAAGACACAAACCTTAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
55332076 TGAAGACAAA
261 TGAAGACAAA
*
55332086 AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCGAAGACACAAACCGTGCCTCTCTCGGTTG
*
55332151 TGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
66 TGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCGGCATTGACAGCGAAGCAGGTCGAAGAC
* *
55332216 ACAAACCTTGCCTCCCTCAGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCAT
131 ACAAACCTTGCCTCCCTCAGTTATGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
* *
55332281 TGACAGCGAAGCAGGTCAAAGACACAAACCTT
196 TGACAGCAAAGCAAGTCAAAGACACAAACCTT
55332313 GCCTCTCTCA
Statistics
Matches: 216, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
270 216 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (270 bp):
AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCGAAGACACAAACCGTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCGGCATTGACAGCGAAGCAGGTCGAAGAC
ACAAACCTTGCCTCCCTCAGTTATGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
TGACAGCAAAGCAAGTCAAAGACACAAACCTTAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
TGAAGACAAA
Found at i:55332638 original size:175 final size:175
Alignment explanation
Indices: 55332414--55333035 Score: 983
Period size: 175 Copynumber: 3.6 Consensus size: 175
55332404 CCATCGGTTG
* * * *
55332414 CAGTGAAGCTGATTAAAATAAATGATCTTATCTCTCTAAAGTTATAGTAGAGTAGATCGCACCAG
1 CAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAG
* *
55332479 GTCTTATTTCCCTGATATTACAGTGGAACAAACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
66 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
*
55332544 ACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCTCTGAGATTA
131 ACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
* * *
55332589 CAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTAAAGTTATAGTAGACTAGATCGCACCAG
1 CAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAG
55332654 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
66 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
*
55332719 ACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
131 ACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
* * * ** *
55332764 CAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAA
1 CAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAG
55332829 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
66 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
*
55332894 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
131 ACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
* * * * ***
55332939 CAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTCAG
1 CAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAG
* * * *
55333004 ATCTTATCTCCCTGAGATTACAGCGGAGCAGA
66 GTCTTATTTCCCTGAGATTACAGTGGAACAGA
55333036 TTGAAGTTAG
Statistics
Matches: 418, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 418 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (175 bp):
CAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAG
GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
ACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
Found at i:55332675 original size:85 final size:84
Alignment explanation
Indices: 55332580--55333037 Score: 255
Period size: 85 Copynumber: 5.3 Consensus size: 84
55332570 TCCTATCTCT
*
55332580 CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTAAAGTTATAGTAGACTAGA
1 CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCT-AAGTTACAGTAGACTAGA
*
55332645 TCGCACCAGGTCTTATTTCC
65 TCGCAACAGGTCTTATTTCC
* * ** * * * *
55332665 CTGAGATTACAGTGGAACAGACCGAAGAATTTC-A-GATCTTATCTCCCTGAGATTACAGTGGAG
1 CTGAGATTACAGTGGAGCGGA-TTAA-AA--CCAATGATCTTATCTCTCTAAG-TTACAGTAGA-
* * * * * *
55332728 C-AGATTGAAGATAGTAATCCTATCTCC
60 CTAGATCGCA-ACAG--GTCTTATTTCC
* *
55332755 CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGA
1 CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCT-AAGTTACAGTAGACTAGA
** *
55332820 TCGCGTCAAGTCTTATTTCC
65 TCGCAACAGGTCTTATTTCC
* * ** * * * **
55332840 CTGAGATTACAGTGGAACAGACCGAAGAATTTC-A-GATCTTATCTCCCTGAGATTACAGCGGAG
1 CTGAGATTACAGTGGAGCGGA-TTAA-AA--CCAATGATCTTATCTCTCTAAG-TTACAGTAGA-
* * * *
55332903 C-AGATTG-AAGCTAGTAATCCTATCTCC
60 CTAGATCGCAA-C-AG--GTCTTATTTCC
** * * *
55332930 CTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGA
1 CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCT-AAGTTACAGTAGACTAGA
*** * *
55332995 TCGTGTCAGATCTTATCTCC
65 TCGCAACAGGTCTTATTTCC
* *
55333015 CTGAGATTACAGCGGAGCAGATT
1 CTGAGATTACAGTGGAGCGGATT
55333038 GAAGTTAGTA
Statistics
Matches: 277, Mismatches: 68, Indels: 56
0.69 0.17 0.14
Matches are distributed among these distances:
85 77 0.28
86 10 0.04
87 64 0.23
88 62 0.22
89 10 0.04
90 54 0.19
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (84 bp):
CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTAAGTTACAGTAGACTAGAT
CGCAACAGGTCTTATTTCC
Found at i:55333028 original size:129 final size:129
Alignment explanation
Indices: 55332871--55333164 Score: 498
Period size: 129 Copynumber: 2.3 Consensus size: 129
55332861 CCGAAGAATT
55332871 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
55332936 TTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
*
55333000 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
55333065 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
66 TTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
* * * * *
55333129 TTAGGTCTTATTTCCCTGAGATTACAGTGGAACAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA
55333165 CCGAAGAATT
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 155 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
Found at i:55333151 original size:85 final size:84
Alignment explanation
Indices: 55333002--55333344 Score: 294
Period size: 88 Copynumber: 4.0 Consensus size: 84
55332992 AGATCGTGTC
* * * * *
55333002 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGAT
1 AGATCTTATCTCTCTGAAG-TTACAGCAGAGTAGATCG-AGTTAG--ATCTTATCTCCCTGAGAT
**
55333066 TACAGTGGAGTGGATTAAAATAA
62 TACAGTGGAGCAGATTAAAATAA
* * *
55333089 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTTAGGTCTTATTTCCCTGAGATTAC
1 A-GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGAGTTAGATCTTATCTCCCTGAGATTAC
* ** **
55333154 AGTGGAACAGACCGAAGAATTTC
65 AGTGGAGCAGA-TTAA-AA-TAA
* * ** * * * *
55333177 AGATCTTATCTCCCTG-AGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAAT
1 AGATCTTATCTCTCTGAAG-TTACAGCAGAGTAGATCG-AGTTAG--ATCTTATCTCCCTGAGAT
*
55333241 TACAGTGGAGCGGATTAAAATAA
62 TACAGTGGAGCAGATTAAAATAA
* * * *
55333264 ATGATCTTATCTCTCTGAAGTTAGAGTAGAGTAGATCGTGTCAGATCTTATCTCCCTGAGATTAC
1 A-GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGAGTTAGATCTTATCTCCCTGAGATTAC
*
55333329 AGCGGAGCAGATTAAA
65 AGTGGAGCAGATTAAA
55333345 GCTAGTAATC
Statistics
Matches: 199, Mismatches: 46, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
85 59 0.30
86 4 0.02
87 41 0.21
88 63 0.32
89 6 0.03
90 26 0.13
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (84 bp):
AGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGAGTTAGATCTTATCTCCCTGAGATTACA
GTGGAGCAGATTAAAATAA
Found at i:55333181 original size:175 final size:175
Alignment explanation
Indices: 55333000--55333339 Score: 563
Period size: 175 Copynumber: 1.9 Consensus size: 175
55332990 GTAGATCGTG
* * *
55333000 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
*
55333065 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
* * * *
55333130 TAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
131 CAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAGAATT
55333175 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
* * * *
55333240 TTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTAGAGTAGAGTAGATCGTGT
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
*
55333305 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA
131 CAGATCTTATCTCCCTGAGATTACAGCGGAACAGA
55333340 TTAAAGCTAG
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 152 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (175 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
CAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAGAATT
Found at i:55333333 original size:129 final size:129
Alignment explanation
Indices: 55333175--55333430 Score: 449
Period size: 129 Copynumber: 2.0 Consensus size: 129
55333165 CCGAAGAATT
*
55333175 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTAAAGCTAGTAATCCTATCTCCCTGAAA
* * * *
55333240 TTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTAGAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGTG
* *
55333304 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTAAAGCTAGTAATCCTATCTCCCTGAAA
55333369 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCG
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCG
55333431 CATCAGGTTT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTAAAGCTAGTAATCCTATCTCCCTGAAA
TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGTG
Found at i:55333458 original size:129 final size:129
Alignment explanation
Indices: 55333175--55333495 Score: 437
Period size: 129 Copynumber: 2.5 Consensus size: 129
55333165 CCGAAGAATT
*
55333175 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
1 TCAGATCTTACCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
* * * * **
55333240 TTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTAGAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCA
* * * *
55333304 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTACCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
55333369 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCA
* * * * ** * * * *
55333433 TCAGGTTTTACCTCCCT-ATGGTTACAGTGGATTACATTGAAGCCAGTAATTCTCTCTCCCTGA
1 TCAGATCTTACCTCCCTGA-GATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGA
55333496 CGTTACGGAG
Statistics
Matches: 170, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
128 1 0.01
129 169 0.99
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (129 bp):
TCAGATCTTACCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCA
Found at i:55333463 original size:304 final size:304
Alignment explanation
Indices: 55332696--55333438 Score: 1324
Period size: 304 Copynumber: 2.4 Consensus size: 304
55332686 CCGAAGAATT
*
55332696 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* *
55332761 TTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
*
55332826 CAAGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
131 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* *
55332891 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
196 ATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTGGAGCGGATTAAA
55332956 ATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
261 ATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
*
55333000 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* *
55333065 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
*
55333130 TAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
131 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
55333195 ATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTGGAGCGGATTAAA
196 ATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTGGAGCGGATTAAA
* * *
55333260 ATAAATGATCTTATCTCTCTGAAGTTAGAGTAGAGTAGATCGTG
261 ATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
* *
55333304 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* * *
55333369 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
55333434 CAGGT
131 CAGGT
55333439 TTTACCTCCC
Statistics
Matches: 418, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
304 418 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (304 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTGGAGCGGATTAAA
ATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
Found at i:55335654 original size:21 final size:21
Alignment explanation
Indices: 55335628--55335669 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
55335618 AAAGGGTCTG
55335628 TTAAAATGAATTTTTTCAGAA
1 TTAAAATGAATTTTTTCAGAA
55335649 TTAAAATGAATTTTTTCAGAA
1 TTAAAATGAATTTTTTCAGAA
55335670 AAGTGGGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (21 bp):
TTAAAATGAATTTTTTCAGAA
Found at i:55336114 original size:19 final size:17
Alignment explanation
Indices: 55336092--55336151 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
55336082 ATTATCTTCT
55336092 TCATTATTTTAATGTATTA
1 TCATTATTTT-AT-TATTA
*
55336111 TCATT-TATTATTATTA
1 TCATTATTTTATTATTA
*
55336127 TTATTATTTCTATTATTA
1 TCATTATTT-TATTATTA
*
55336145 TTATTAT
1 TCATTAT
55336152 GTATATTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 9 0.25
17 4 0.11
18 18 0.50
19 5 0.14
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
TCATTATTTTATTATTA
Found at i:55336123 original size:3 final size:3
Alignment explanation
Indices: 55336115--55336182 Score: 68
Period size: 3 Copynumber: 22.3 Consensus size: 3
55336105 GTATTATCAT
55336115 TTA TTA TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA TGTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA
* * *
55336160 CTG TTA CTTA TCA TTA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA T
55336183 GTGATAGCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 3 0.06
3 45 0.83
4 6 0.11
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:55336247 original size:16 final size:17
Alignment explanation
Indices: 55336220--55336255 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
55336210 TTTTCTAACC
55336220 TATTTAATATATATAAA
1 TATTTAATATATATAAA
55336237 TATTT-ATATATATAAA
1 TATTTAATATATATAAA
55336253 TAT
1 TAT
55336256 CTATGTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTAATATATATAAA
Found at i:55340289 original size:286 final size:286
Alignment explanation
Indices: 55339772--55340343 Score: 1002
Period size: 286 Copynumber: 2.0 Consensus size: 286
55339762 TATTTAGTTG
* *
55339772 CCAAAGCTATGCACACCTTATTTTGTGCACTTGGCTTGAAAGGATATATTAAAGTATCATTTTGT
1 CCAAAGCTATGCACACCTTATTTTGTGCACTTGGCTTGAAAGAATATATTAAAGTATCATCTTGT
* * * *
55339837 TCCAATGCCAATGAGATATGGGATTAGCTTGAAGTCACACATGAACGTATTAGCCAATTAAAGAA
66 TCCAATGCCAATGAGATATGGGATAAGCTTGAAGTCACACATGAACATATCAGCCAATTAAAAAA
*
55339902 GTCTAAAGTTGGAATTCTTACTCTAAATTATGAAACCTTCAAGATGAAGCTCGAAGAAGATATCA
131 GTCTAAAGTTGGAATTCTTACTCTAAATTATGAAACCTTCAAAATGAAGCTCGAAGAAGATATCA
*
55339967 AGACGATGTTCGACCGGTTTACTATCATCATCAATGGATTAAAGTCTTAT-GAGAAGACATATCC
196 AGACGATGTTCGACCAGTTTACTATCATCATCAATGGATTAAAGTCTTATAG-GAAGACATATCC
55340031 AAATGAAAAGGTGGTAAGGAAGATGCT
260 AAATGAAAAGGTGGTAAGGAAGATGCT
* * *
55340058 CCAAGGCTATGCACACCTTATTTTGTGTACTTGGCTTGAAAGAATATATTAGAGTATCATCTTGT
1 CCAAAGCTATGCACACCTTATTTTGTGCACTTGGCTTGAAAGAATATATTAAAGTATCATCTTGT
55340123 TCCAATGCCAATGAGATATGGGATAAGCTTGAAGTCACACATGAACATATCAGCCAATTAAAAAA
66 TCCAATGCCAATGAGATATGGGATAAGCTTGAAGTCACACATGAACATATCAGCCAATTAAAAAA
* *
55340188 GTCTAAAGTTGGAATTCTTACTCTAAATTATGAAACCTTCAAAATGAAGCTCGAGGGAGATATCA
131 GTCTAAAGTTGGAATTCTTACTCTAAATTATGAAACCTTCAAAATGAAGCTCGAAGAAGATATCA
*
55340253 AGACGATGTTCGATCAGTTTACTATCATCATCAATGGATTAAAGTCTTATAGGAAGACATATCCA
196 AGACGATGTTCGACCAGTTTACTATCATCATCAATGGATTAAAGTCTTATAGGAAGACATATCCA
55340318 AATGAAAAGGTGGTAAGGAAGATGCT
261 AATGAAAAGGTGGTAAGGAAGATGCT
55340344 TCGCAGCTTG
Statistics
Matches: 271, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
286 270 1.00
287 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (286 bp):
CCAAAGCTATGCACACCTTATTTTGTGCACTTGGCTTGAAAGAATATATTAAAGTATCATCTTGT
TCCAATGCCAATGAGATATGGGATAAGCTTGAAGTCACACATGAACATATCAGCCAATTAAAAAA
GTCTAAAGTTGGAATTCTTACTCTAAATTATGAAACCTTCAAAATGAAGCTCGAAGAAGATATCA
AGACGATGTTCGACCAGTTTACTATCATCATCAATGGATTAAAGTCTTATAGGAAGACATATCCA
AATGAAAAGGTGGTAAGGAAGATGCT
Found at i:55350229 original size:6 final size:6
Alignment explanation
Indices: 55350220--55350288 Score: 59
Period size: 6 Copynumber: 10.7 Consensus size: 6
55350210 TAAGTCTAAG
*
55350220 AAAATA AAAATAA AAAATA AAACA-A AAAATA AAAATAA AACAACTA AAAACA
1 AAAATA AAAAT-A AAAATA AAA-ATA AAAATA AAAAT-A AA-AA-TA AAAATA
*
55350272 AAACATA AAAAGA AAAA
1 AAA-ATA AAAATA AAAA
55350289 AAAGAAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
5 1 0.02
6 29 0.55
7 17 0.32
8 5 0.09
9 1 0.02
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.10
Consensus pattern (6 bp):
AAAATA
Found at i:55350236 original size:13 final size:13
Alignment explanation
Indices: 55350220--55350289 Score: 79
Period size: 13 Copynumber: 5.3 Consensus size: 13
55350210 TAAGTCTAAG
*
55350220 AAAATAAAAATAA
1 AAAATAAAAACAA
55350233 AAAAT-AAAACAA
1 AAAATAAAAACAA
*
55350245 AAAATAAAAATAA
1 AAAATAAAAACAA
55350258 AACAACTAAAAACAA
1 AA-AA-TAAAAACAA
* *
55350273 AACATAAAAAGAA
1 AAAATAAAAACAA
55350286 AAAA
1 AAAA
55350290 AAGAAAAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
12 11 0.23
13 24 0.50
14 3 0.06
15 10 0.21
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.10
Consensus pattern (13 bp):
AAAATAAAAACAA
Found at i:55350237 original size:7 final size:7
Alignment explanation
Indices: 55350220--55350312 Score: 54
Period size: 7 Copynumber: 13.7 Consensus size: 7
55350210 TAAGTCTAAG
55350220 AAAAT-A
1 AAAATAA
55350226 AAAATAA
1 AAAATAA
55350233 AAAAT--
1 AAAATAA
*
55350238 AAAACAA
1 AAAATAA
55350245 AAAAT-A
1 AAAATAA
55350251 AAAATAA
1 AAAATAA
55350258 AACAACT-A
1 AA-AA-TAA
*
55350266 AAAACAA
1 AAAATAA
*
55350273 AACATAA
1 AAAATAA
*
55350280 AAAGAAAA
1 AAA-ATAA
*
55350288 AAAAGAA
1 AAAATAA
*
55350295 AAAAGAA
1 AAAATAA
*
55350302 AACA-AA
1 AAAATAA
55350308 AAAAT
1 AAAAT
55350313 CAATAATAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 16 0.24
7 36 0.53
8 11 0.16
9 1 0.01
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (7 bp):
AAAATAA
Found at i:55350246 original size:18 final size:18
Alignment explanation
Indices: 55350225--55350262 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
55350215 CTAAGAAAAT
55350225 AAAAATAAAAAATAAAACA
1 AAAAAT-AAAAATAAAACA
55350244 AAAAATAAAAATAAAACA
1 AAAAATAAAAATAAAACA
55350262 A
1 A
55350263 CTAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAATAAAAATAAAACA
Found at i:55350296 original size:28 final size:29
Alignment explanation
Indices: 55350220--55350311 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
55350210 TAAGTCTAAG
* * *
55350220 AAAATAAAAATAAAAAATAAAACAAAAAATA
1 AAAAGAAAAA-AAAGAA-AAAACAAAACATA
* * **
55350251 AAAA-TAAAACAACTAAAAACAAAACATA
1 AAAAGAAAAAAAAGAAAAAACAAAACATA
* *
55350279 AAAAGAAAAAAAAGAAAAAAGAAAACAAA
1 AAAAGAAAAAAAAGAAAAAACAAAACATA
55350308 AAAA
1 AAAA
55350312 TCAATAATAA
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
28 16 0.33
29 25 0.51
30 4 0.08
31 4 0.08
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.08
Consensus pattern (29 bp):
AAAAGAAAAAAAAGAAAAAACAAAACATA
Found at i:55350320 original size:3 final size:3
Alignment explanation
Indices: 55350314--55350387 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
55350304 CAAAAAAATC
* * * * * *
55350314 AAT AAT AAT AAT CAT AAT CAT AAT CAT AAT AAT AAC AGT AA- AACA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
*
55350359 AAT AAT AAT AGT AAT GAA- AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
55350388 ACATGAAAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
2 4 0.07
3 46 0.85
4 4 0.07
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:55350336 original size:12 final size:12
Alignment explanation
Indices: 55350310--55350348 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
55350300 AAAACAAAAA
55350310 AATCAATAATAAT
1 AATC-ATAATAAT
*
55350323 AATCATAATCAT
1 AATCATAATAAT
55350335 AATCATAATAAT
1 AATCATAATAAT
55350347 AA
1 AA
55350349 CAGTAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (12 bp):
AATCATAATAAT
Found at i:55350408 original size:17 final size:18
Alignment explanation
Indices: 55350358--55350408 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
55350348 ACAGTAAAAC
*
55350358 AAATAATAATAGTA-ATGA
1 AAATAATAATA-AACATGA
55350376 AAATAATAATAAACATGA
1 AAATAATAATAAACATGA
55350394 AAACTAA-AA-AAACAT
1 AAA-TAATAATAAACAT
55350409 TGATTAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 20 0.67
19 3 0.10
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.22
Consensus pattern (18 bp):
AAATAATAATAAACATGA
Found at i:55350554 original size:15 final size:14
Alignment explanation
Indices: 55350532--55350585 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
55350522 TAGATCAGTA
55350532 AAATAAAAATAAAT
1 AAATAAAAATAAAT
55350546 AATATAAAAATAAAT
1 AA-ATAAAAATAAAT
55350561 AAATAATAAATTAGAAT
1 AAATAA-AAA-TA-AAT
*
55350578 AAAGAAAA
1 AAATAAAA
55350586 GGGTAAAAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 6 0.17
15 17 0.49
16 4 0.11
17 8 0.23
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:55352246 original size:30 final size:30
Alignment explanation
Indices: 55352171--55352252 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 30
55352161 GGTTAGGCAG
* * *
55352171 ACGCCCGCGTAAGCCACATGGGCTAGACAT
1 ACGCCCGTGTAAGCCACACGGGCTAGACAC
* * * * *
55352201 ATGTCTGTGTCAGCCAGACGGGCTAGACAC
1 ACGCCCGTGTAAGCCACACGGGCTAGACAC
* *
55352231 ACGCCCGTGTGAGCCATACGGG
1 ACGCCCGTGTAAGCCACACGGG
55352253 TTGGAAACAT
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (30 bp):
ACGCCCGTGTAAGCCACACGGGCTAGACAC
Found at i:55355951 original size:18 final size:18
Alignment explanation
Indices: 55355906--55355978 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
55355896 CAAATAGAAT
55355906 AGATGCAGATACA-ATAAC
1 AGATGCAGATACAGAT-AC
* ** *
55355924 TGATATAGATTCAGATAC
1 AGATGCAGATACAGATAC
*
55355942 AGATGCAGATGCAGATAC
1 AGATGCAGATACAGATAC
* * *
55355960 GGATTCAGACACAGATAC
1 AGATGCAGATACAGATAC
55355978 A
1 A
55355979 AATATAGTGT
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
18 39 0.95
19 2 0.05
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (18 bp):
AGATGCAGATACAGATAC
Found at i:55363656 original size:47 final size:43
Alignment explanation
Indices: 55363575--55363676 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 43
55363565 AAAACAATTT
** *
55363575 AAAATAAATAATAATTTAAAATAAATGATTTATAGGAACAACTC
1 AAAATAAATAATAATTTAAAATAAACAATATATAGGAA-AACTC
* *
55363619 AAAATAAATAATAAAAGTTTCAAATAAACAATATATAGGAAAACTT
1 AAAATAAATAAT--AA-TTTAAAATAAACAATATATAGGAAAACTC
55363665 AAAATAAATAAT
1 AAAATAAATAAT
55363677 GATAAAACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 12 0.24
46 18 0.36
47 20 0.40
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (43 bp):
AAAATAAATAATAATTTAAAATAAACAATATATAGGAAAACTC
Found at i:55363777 original size:15 final size:15
Alignment explanation
Indices: 55363757--55363789 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
55363747 AAAGATATAT
55363757 ATATAATAGTTTACA
1 ATATAATAGTTTACA
55363772 ATATAATAGTTTACA
1 ATATAATAGTTTACA
55363787 ATA
1 ATA
55363790 AATGATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
ATATAATAGTTTACA
Found at i:55363866 original size:20 final size:20
Alignment explanation
Indices: 55363841--55363880 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
55363831 AACGGTTTAA
55363841 AATTAATGATGATAAAAGAG
1 AATTAATGATGATAAAAGAG
55363861 AATTAATGATGATAAAAGAG
1 AATTAATGATGATAAAAGAG
55363881 CTTTCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (20 bp):
AATTAATGATGATAAAAGAG
Found at i:55371301 original size:16 final size:17
Alignment explanation
Indices: 55371273--55371317 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
55371263 ATAAGTTTAA
55371273 AAAAAATTAAAAATATTT
1 AAAAAA-TAAAAATATTT
55371291 AAAAAATAAAAATATTT
1 AAAAAATAAAAATATTT
55371308 -AAAAATAAAA
1 AAAAAATAAAA
55371318 GATTAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 10 0.37
17 11 0.41
18 6 0.22
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAATAAAAATATTT
Found at i:55371310 original size:10 final size:10
Alignment explanation
Indices: 55371268--55371314 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
55371258 TATATATAAG
*
55371268 TTTAAAAAAA
1 TTTAAAAATA
*
55371278 ATTAAAAATA
1 TTTAAAAATA
55371288 TTTAAAAA-A
1 TTTAAAAATA
55371297 --TAAAAATA
1 TTTAAAAATA
55371305 TTTAAAAATA
1 TTTAAAAATA
55371315 AAAGATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
7 6 0.19
8 1 0.03
9 1 0.03
10 23 0.74
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:55375186 original size:171 final size:170
Alignment explanation
Indices: 55374898--55375344 Score: 725
Period size: 171 Copynumber: 2.6 Consensus size: 170
55374888 CGGTATGGAG
* * * *
55374898 TACAATTTATTTTTAATTTGAAGTTTGGATTTCGGACCTTCGTTTAGGGAAATAAATGAATTACT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCACT
* *
55374963 GGAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTATTCCAATACTTGTTGTAACCTC
66 -GAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTATTCCAATACTTATTGTAACCTC
* * *
55375028 TAGTAATATTATTTTCGTCATATGATATGGCGTCTTGCAAT
130 TAGTAATATTATTTTCATCATAAGATATGGAGTCTTGCAAT
*
55375069 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTTGGGAAATGAATGAATCACT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCACT
* *
55375134 AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTTCAATACTTATTGTAACCTC
66 -GAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTATTCCAATACTTATTGTAACCTC
*
55375199 TCGTAATATTATTTTCATCATAAGATATGGAGTCTTGCAAT
130 TAGTAATATTATTTTCATCATAAGATATGGAGTCTTGCAAT
*
55375240 TACAATTTATTTTTAGTTCT-AAGTTTAGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCAC
1 TACAATTTATTTTTAGTT-TGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCAC
55375304 TGCAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAA
65 TG-AACGTTTTCAAATATTTATAGTGTTCCAATAACTATAA
55375345 ATGAATGGGT
Statistics
Matches: 258, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
170 1 0.00
171 256 0.99
172 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (170 bp):
TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCACT
GAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTATTCCAATACTTATTGTAACCTCT
AGTAATATTATTTTCATCATAAGATATGGAGTCTTGCAAT
Found at i:55377709 original size:14 final size:14
Alignment explanation
Indices: 55377673--55377712 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
55377663 ATGAATATTG
55377673 ATAT-GATAGG-AA
1 ATATCGATAGGAAA
55377685 A-ATCG-TAGGAAA
1 ATATCGATAGGAAA
55377697 ATATCGATAGGAAA
1 ATATCGATAGGAAA
55377711 AT
1 AT
55377713 TTTACCGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.25
12 5 0.21
13 4 0.17
14 9 0.38
ACGTcount: A:0.50, C:0.05, G:0.23, T:0.23
Consensus pattern (14 bp):
ATATCGATAGGAAA
Found at i:55381466 original size:21 final size:20
Alignment explanation
Indices: 55381427--55381467 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
55381417 TCAATAATTC
* *
55381427 ATTTCATATAAATCCAAAAT
1 ATTTCAAATAAAACCAAAAT
55381447 ATTTCAAATAAAAACCAAAAT
1 ATTTCAAAT-AAAACCAAAAT
55381468 TCTATAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTTCAAATAAAACCAAAAT
Found at i:55386753 original size:44 final size:45
Alignment explanation
Indices: 55386733--55386992 Score: 129
Period size: 45 Copynumber: 5.7 Consensus size: 45
55386723 TACAAGTTTG
55386733 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGCAAGTCTC
1 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGCAAGTCTC
* * * * * ** * *
55386778 ATTTCCCTGAAGTTGCAGTGGAACAGA-TTAAGGCTAAATTATAGACCTT
1 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAA-G--ATAGCA-AG-TCTC
* * ** * * *
55386827 ATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAG-TCACCAA-TCTTA
1 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGAT-AGCAAGTC-TC
* * * * * *
55386872 ATC-CCCTGAAGTTTCATTAGG-GCAGATTGAAGTTA-CAAGTCTT
1 ATCTCCCTGAAGATGCAGT-GGAGCAGACTGAAGATAGCAAGTCTC
* * *
55386915 ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAG-CTT
1 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGC-AAGTCTC
* * * *
55386960 ATGTCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAG
55386993 CTATAAATTA
Statistics
Matches: 166, Mismatches: 34, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
43 9 0.05
44 52 0.31
45 65 0.39
46 4 0.02
47 5 0.03
48 2 0.01
49 26 0.16
50 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (45 bp):
ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGCAAGTCTC
Found at i:55386949 original size:182 final size:180
Alignment explanation
Indices: 55386643--55387135 Score: 572
Period size: 181 Copynumber: 2.7 Consensus size: 180
55386633 TATGGCAAAT
* * * * *
55386643 CTTATCTCCCTAAAGTTACAGCGAAGCAGATTAAAGTCACTAATCTTACCCCCTGAAGTTAT-AG
1 CTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGTCAC-AATCTTATCCCCTGAAGTT-TCAG
* * * *
55386707 TGGGGTAGATTGCAGTTACAAGT-TTGATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGC
64 T-GGGCAGATTGAAGTTACAAGTCTT-ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGC
* *
55386771 -AAGTCTCATTTCCCTGAAGTTGCAGTGGAACAGATT-AAGGC-TAAATTATAGAC
127 AAAG-CTCATGTCCCTGAAGTTGCAGTGGAACAGATTGAA-GCATAAATTACAGAC
* * *
55386824 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGTCACCAATCTTAATCCCCTGAAGTTTCAT
1 CTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGTCA-CAATCTT-ATCCCCTGAAGTTTCAG
55386889 TAGGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
64 T-GGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
* *
55386954 AAGCTTATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGAT
128 AAGCTCATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGC-ATAAATTACAGAC
* ** * * * * * *
55387008 CTTATATCATTGAAGTTTTAGTAGAGTAGATCATA-TCA-AA-CATTATCTCCCTGAAGTTACAG
1 CTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGTCACAATC-TTATC-CCCTGAAGTTTCAG
*
55387070 TGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-CA
64 TGG-GCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
55387134 AA
128 AA
55387136 TCTTATCCCC
Statistics
Matches: 272, Mismatches: 29, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
180 10 0.04
181 114 0.42
182 102 0.38
183 10 0.04
184 36 0.13
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (180 bp):
CTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGTCACAATCTTATCCCCTGAAGTTTCAGTG
GGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAG
CTCATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCATAAATTACAGAC
Found at i:55386976 original size:45 final size:44
Alignment explanation
Indices: 55386693--55387251 Score: 298
Period size: 44 Copynumber: 12.4 Consensus size: 44
55386683 TAATCTTACC
** * * * *
55386693 CCCTGAAGTTATAGTGGGGTAGATTGCAGTTAC-AAGTTTGATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAGCTT-ATCT
* * * * *
55386737 CCCTGAAGATGCAGTGGAGCAGACTGAAGATAGC-AAGTCTCATTT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATA-CAAAG-CTTATCT
** * *
55386782 CCCTGAAGTTGCAGTGGAACAGATT-AAGGCTAAATTATAGACCTTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAA-GATACA--A-AG--CTTATCT
* * * * * *
55386831 CCCTGAAGTTGTAGTGGAGCAGGTTAAAG-TCACCAATCTTAATC-
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGAT-ACAAAGCTT-ATCT
* * * *
55386875 CCCTGAAGTTTCATTAGG-GCAGATTGAAGTTAC-AAGTCTTATCT
1 CCCTGAAGTTGCAGT-GGAGTAGATTGAAGATACAAAG-CTTATCT
* *
55386919 CCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAGCTTATGT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATA-CAAAGCTTATCT
** * *
55386964 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATAT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAG--ATACA--A-AG--CTTATCT
** ** * * *
55387015 CATTGAAGTTTTAGTAGAGTAGA-T-CATAT-CAAA-CATTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAGC-TTATCT
* * * *
55387056 CCCTGAAGTTACAGTGGAGCAGGTTGAAGTTAC-AAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAG-CTTATCT
* * *
55387100 CCCTGAAGTTGCAGTGGAGTAGACTGAAGATACAAATCTTATCC
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAGCTTATCT
* * * * * *
55387144 CCCTAAATTTGCAATGGGGTAGATTAAAGCTAC-AAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAG-CTTATCT
* * *
55387188 CCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCTAACCTTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATA-CAAAGCTTATCT
**
55387233 CCCTGAAGTTATAGTGGAG
1 CCCTGAAGTTGCAGTGGAG
55387252 CAGGCTAAAG
Statistics
Matches: 391, Mismatches: 89, Indels: 69
0.71 0.16 0.13
Matches are distributed among these distances:
40 1 0.00
41 21 0.05
42 1 0.00
43 14 0.04
44 178 0.46
45 99 0.25
46 9 0.02
47 7 0.02
48 4 0.01
49 32 0.08
50 3 0.01
51 22 0.06
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAGCTTATCT
Found at i:55387119 original size:181 final size:180
Alignment explanation
Indices: 55386667--55387141 Score: 563
Period size: 182 Copynumber: 2.6 Consensus size: 180
55386657 GTTACAGCGA
* * * * *
55386667 AGCAGATTAAAGTCACTAATCTT-ACCCCCTGAAGTTATAGTGGGGTAGATTGCAGTTACAAGT-
1 AGCAGATCAAAGTCAC-AATCTTAATCCCCTGAAGTTACAGT-GGGCAGATTGAAGTTACAAGTC
* * * *
55386730 TTGATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGC-AAGTCTCATTTCCCTGAAGTTGC
64 TT-ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAG-CTTATGTCCCTGAAGTTGC
* * * *
55386794 AGTGGAACAGATTAAGGCTAAATTATAGACCTTATCTCCCTGAAGTTGTAGTGG
127 AGTGGAACAGATTAAGGCTAAATTACAGACCTTATATCACTGAAGTTGTAGTAG
* * * *
55386848 AGCAGGTTAAAGTCACCAATCTTAATCCCCTGAAGTTTCATTAGGGCAGATTGAAGTTACAAGTC
1 AGCAGATCAAAGTCA-CAATCTTAATCCCCTGAAGTTACAGT-GGGCAGATTGAAGTTACAAGTC
55386913 TTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAGCTTATGTCCCTGAAGTTGCAG
64 TTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAGCTTATGTCCCTGAAGTTGCAG
* * *
55386978 TGGAACAGATTGAA-GCTATAAATTACAGATCTTATATCATTGAAGTTTTAGTAG
129 TGGAACAGATT-AAGGC--TAAATTACAGACCTTATATCACTGAAGTTGTAGTAG
* * *
55387032 AGTAGATCATA-TCA-AA-CATT-ATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAGT
1 AGCAGATCAAAGTCACAATC-TTAATC-CCCTGAAGTTACAGTGG-GCAGATTGAAGTTACAAGT
*
55387093 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-CAAATCTTAT
63 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAGCTTAT
55387142 CCCCCTAAAT
Statistics
Matches: 257, Mismatches: 27, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
180 15 0.06
181 94 0.37
182 102 0.40
183 10 0.04
184 36 0.14
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (180 bp):
AGCAGATCAAAGTCACAATCTTAATCCCCTGAAGTTACAGTGGGCAGATTGAAGTTACAAGTCTT
ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAGCTTATGTCCCTGAAGTTGCAGTG
GAACAGATTAAGGCTAAATTACAGACCTTATATCACTGAAGTTGTAGTAG
Found at i:55389254 original size:26 final size:26
Alignment explanation
Indices: 55389225--55389303 Score: 97
Period size: 26 Copynumber: 3.1 Consensus size: 26
55389215 GTCATGGAGG
*
55389225 TTATTTATTTTAAATTGTTGTGTATA
1 TTATTTATTTTAAATTGTTGTGCATA
* * *
55389251 TTATTCATTTTAATTTGTTTTGCATA
1 TTATTTATTTTAAATTGTTGTGCATA
**
55389277 TTATTTACCTTAAATTGTTGTGC-TA
1 TTATTTATTTTAAATTGTTGTGCATA
55389302 TT
1 TT
55389304 TACTTTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 4 0.09
26 40 0.91
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.59
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTGTGCATA
Found at i:55399753 original size:17 final size:17
Alignment explanation
Indices: 55399726--55399770 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
55399716 TATAAGTTTA
55399726 AAAAAATTAAAAAAATTT
1 AAAAAA-TAAAAAAATTT
**
55399744 AAAAAATAAAACTATTT
1 AAAAAATAAAAAAATTT
55399761 -AAAAATAAAA
1 AAAAAATAAAA
55399771 GATTAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.40
17 9 0.36
18 6 0.24
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAATAAAAAAATTT
Found at i:55399779 original size:15 final size:16
Alignment explanation
Indices: 55399742--55399779 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
55399732 TTAAAAAAAT
*
55399742 TTAAAAAATAAAACTA
1 TTAAAAAATAAAACGA
*
55399758 TTTAAAAATAAAA-GA
1 TTAAAAAATAAAACGA
55399773 TTAAAAA
1 TTAAAAA
55399780 GATGTTTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
TTAAAAAATAAAACGA
Found at i:55413670 original size:171 final size:171
Alignment explanation
Indices: 55413373--55413991 Score: 1033
Period size: 171 Copynumber: 3.6 Consensus size: 171
55413363 CGGTATGGAG
* * * * * *
55413373 TACAATTTATTTTTAATTTGAAGTTTGGATTTCGGACGTTCGTTTAGGGAAATAAATGAATTACT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
* * *
55413438 GGAACATTTTTCAAATATTTATAGTGTTTCAATAACTATAAGTGTTCCAATACTTATTGTAACCT
66 AGAAC-GTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCT
**
55413503 CTCGTAATATTATTTTTGTCATACGATATGGAGTCTTGCAAT
130 CTCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
* * *
55413545 TATAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTTGGGAAATGAATGAATCACT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
*
55413610 AGAACGTTTTCAAATATTTAAAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
66 AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
*
55413675 TCGTAATATTATTTTCATCATACGATATGAAGTCTTGCAAT
131 TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
*
55413716 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCAGACCTTTGTTTTGGGAAATGAATGAATCACT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
55413781 AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
66 AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
55413846 TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
131 TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
*
55413887 TACAATTTATTTTTAGTTCT-AAGTTTAGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCAC
1 TACAATTTATTTTTAGTT-TGAAGTTTGGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCAC
* *
55413951 TACAACTTTTTCAAATATTTATAGTGTTCCAATAACTATAA
65 TAGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAA
55413992 ATGAATGGGT
Statistics
Matches: 424, Mismatches: 22, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
171 361 0.85
172 63 0.15
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (171 bp):
TACAATTTATTTTTAGTTTGAAGTTTGGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
Found at i:55424484 original size:45 final size:45
Alignment explanation
Indices: 55424419--55425109 Score: 391
Period size: 44 Copynumber: 15.3 Consensus size: 45
55424409 TACAACTTTG
* * *
55424419 ATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAGCAAGTCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
* * * * * ** *
55424464 ATTTCCCTAAAGTTGTAGTGGAACAGATT-AAGGCTAAATTATAGACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-G--ATAGCA-AG-TCTT
* * * *
55424513 ATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAG-TCAACAA-TCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AGCAAGTCTT
* * *
55424557 AT-TCCCCTGAAGTTTCAGT-AAGGCAGATTGAAGTTA-CAAGTCTT
1 ATCT-CCCTGAAGTTGCAGTGGA-GCAGATTGAAGATAGCAAGTCTT
* * *
55424601 ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
* * **
55424646 ATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--AGCA-AG-TCTT
* ** ** * * * *
55424697 ATATCTTTGAAGTTTTAGTAGAGCAGA-T---CATATCAA-ACATT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTC-TT
* *
55424738 ATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
* * *
55424782 ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-CAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
* * * * * *
55424826 ATCCCCCTAAATTTGCAATGGGGCAGATTGAAGCTA-CAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
* * *
55424870 ATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATATCCAA-CCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-GCAAGTCTT
* * * * * *
55424915 ATCTCCCTAAAGTTACAGTGGAGCAGGTTAAAGCTA-CTAA-TCCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC-AAGTCTT
* * *
55424959 ATCTCCCTGAAGTTGCATTGGAGCGGATT-AAAATGATG-AA-TCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A-GCAAGTCTT
* ** * * *
55425003 ATAC-CTCTGAAGTTATAGTAGG-TCAGATTAAATCTACCATAGCAAGTCTT
1 AT-CTCCCTGAAGTTGCAGT-GGAGCAGATT-GA---A-GATAGCAAGTCTT
* * *
55425053 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
*
55425098 GTCTCCCTGAAG
1 ATCTCCCTGAAG
55425110 ATTACATTGA
Statistics
Matches: 495, Mismatches: 107, Indels: 88
0.72 0.16 0.13
Matches are distributed among these distances:
40 1 0.00
41 22 0.04
42 2 0.00
43 12 0.02
44 221 0.45
45 130 0.26
46 6 0.01
47 7 0.01
48 3 0.01
49 38 0.08
50 29 0.06
51 24 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
Found at i:55424633 original size:44 final size:43
Alignment explanation
Indices: 55424326--55424987 Score: 406
Period size: 44 Copynumber: 14.8 Consensus size: 43
55424316 CATTATGGCA
* * * * *
55424326 AATCTTATCTCCCTAAAGTTGCAGCGAAGCAGATTAAAGTCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
** * * *
55424369 TAATCTTA-C-CCCTTGAAGTTATAGTGGGGTAGATTGCAGTTAC
1 -AATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * *
55424412 AA-CTTTGATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAGC
1 AATC-TT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* * * * * * *
55424457 AAGTCTCATTTCCCTAAAGTTGTAGTGGAACAGATTAAGGCTAAATTAT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--AAGTTAC
* * * * *
55424506 AGACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGTCAAC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TAC
* *
55424551 AATCTTAT-TCCCCTGAAGTTTCAGT-AAGGCAGATTGAAGTTAC
1 AATCTTATCT-CCCTGAAGTTGCAGTGGA-GCAGATTGAAGTTAC
* * *
55424594 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* *
55424639 AAATCTTATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-------TTAC
* ** ** * *
55424690 AGATCTTATATCTTTGAAGTTTTAGTAGAGCAGA-T-CA--TATC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* *
55424731 AAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAC
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * *
55424775 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * * * * *
55424819 AAATCTTATCCCCCTAAATTTGCAATGGGGCAGATTGAAGCTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* *
55424863 AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATATCC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T-TAC
* * * * * *
55424909 AACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTAAAGCTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * *
55424952 TAATCCTATCTCCCTGAAGTTGCATTGGAGCGGATT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
55424988 AAAATGATGA
Statistics
Matches: 472, Mismatches: 104, Indels: 84
0.72 0.16 0.13
Matches are distributed among these distances:
40 4 0.01
41 25 0.05
42 8 0.02
43 33 0.07
44 222 0.47
45 107 0.23
46 7 0.01
47 1 0.00
48 1 0.00
49 29 0.06
50 7 0.01
51 26 0.06
52 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
Found at i:55424635 original size:182 final size:180
Alignment explanation
Indices: 55424329--55424981 Score: 575
Period size: 181 Copynumber: 3.6 Consensus size: 180
55424319 TATGGCAAAT
* * * *
55424329 CTTATCTCCCTAAAGTTGCAGCGAAGCAGATTAAAGTCACTAATCTTA-CCCCTTGAAGTTAT-A
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCAC-AATCTTATCCCC-TGAAGTT-TCA
* * * * * * *
55424392 GTGGGGTAGATTGCAGTTACAACT-TTGATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAG
63 GT-GGGCAGATTGAAGTTACAAGTCTT-ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAG
* * * *
55424456 CAAGTCTCATTTCCCTAAAGTTGTAGTGGAACAGATT-AAGGC-TAAATTATAGAC
126 CAAATCTCATGTCCCTAAAGTTGCAGTGGAACAGATTGAA-GCATAAATTACAGAC
*
55424510 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGTCAACAATCTTATTCCCCTGAAGTTTCAG
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTC-ACAATCTTA-TCCCCTGAAGTTTCAG
*
55424575 TAAGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
64 T-GGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
* * *
55424640 AATCTTATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGAT
128 AATCTCATGTCCCTAAAGTTGCAGTGGAACAGATTGAAGC-ATAAATTACAGAC
* ** * * * * *
55424694 CTTATATCTTTGAAGTTTTAGTAGAGCAGATCATA-TCA-AA-CATTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCACAATC-TTATC-CCCTGAAGTTTCAG
*
55424756 TGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-CA
64 TGG-GCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
* ** * * ** * *
55424820 AATCTTATCCCCCTAAATTTGCAATGGGGCAGATTGAAGC-T--A-CA-AG-T
128 AATCTCATGTCCCTAAAGTTGCAGTGGAACAGATTGAAGCATAAATTACAGAC
** * * * *
55424867 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAT-ATCCAACCTTATCTCCCTAAAGTTAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG-TCA--CAATCTTATC-CCCTGAAGTTTC
* * * * *
55424931 AGTGGAGCAGGTTAAAGCTACTAA-TCCTATCTCCCTGAAGTTGCATTGGAG
62 AGTGG-GCAGATTGAAGTTAC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAG
55424982 CGGATTAAAA
Statistics
Matches: 399, Mismatches: 55, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
173 27 0.07
174 3 0.01
175 2 0.01
176 1 0.00
177 62 0.16
178 4 0.01
180 39 0.10
181 117 0.29
182 97 0.24
183 10 0.03
184 37 0.09
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (180 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCACAATCTTATCCCCTGAAGTTTCAGTG
GGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAT
CTCATGTCCCTAAAGTTGCAGTGGAACAGATTGAAGCATAAATTACAGAC
Found at i:55424790 original size:181 final size:183
Alignment explanation
Indices: 55424399--55424861 Score: 532
Period size: 182 Copynumber: 2.6 Consensus size: 183
55424389 ATAGTGGGGT
* * * * * * *
55424399 AGATTGCAGTTACAACT-TTGATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAGCAAGTCT
1 AGATTGAAGTTACAAGTCTT-ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCT
* * * * *
55424463 CATTTCCCTAAAGTTGTAGTGGAACAGATT-AAGGC--TAAATTATAGACCTTATCTCCCTGAAG
65 TATCTCCCTAAAGTTGCAGTGGAACAGATTGAA-GCTATAAATTACAGACCTTATATCCCTGAAG
* * * *
55424525 TTGTAGTGGAGCAGGTTAAAGTCAACAATCTTATTCCCCTGAAGTTTCAGTAAGGC
129 TTGTAGTAGAGCAGATCAAAGTCAACAA-CTTATTCCCCTGAAGTTGCAGTAAGGC
55424581 AGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTT
1 AGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTT
* * * **
55424646 ATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATATCTTTGAAGTT
66 ATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGACCTTATATCCCTGAAGTT
* * *
55424711 TTAGTAGAGCAGATCATA-TC-A-AACATTA-TCTCCCTGAAGTTGCAGT-GGAGC
131 GTAGTAGAGCAGATCAAAGTCAACAAC-TTATTC-CCCTGAAGTTGCAGTAAG-GC
*
55424762 AGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-CAAATCTT
1 AGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTT
* * * **
55424826 ATCCCCCTAAATTTGCAATGGGGCAGATTGAAGCTA
66 ATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTA
55424862 CAAGTCTTAT
Statistics
Matches: 243, Mismatches: 31, Indels: 16
0.84 0.11 0.06
Matches are distributed among these distances:
180 41 0.17
181 76 0.31
182 83 0.34
183 6 0.02
184 37 0.15
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (183 bp):
AGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTT
ATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGACCTTATATCCCTGAAGTT
GTAGTAGAGCAGATCAAAGTCAACAACTTATTCCCCTGAAGTTGCAGTAAGGC
Found at i:55425446 original size:15 final size:15
Alignment explanation
Indices: 55425428--55425457 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55425418 ATAAAACCCC
55425428 CCAAAAATTAAAAGT
1 CCAAAAATTAAAAGT
*
55425443 CCAATAATTAAAAGT
1 CCAAAAATTAAAAGT
55425458 TCATTTACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (15 bp):
CCAAAAATTAAAAGT
Found at i:55426414 original size:10 final size:11
Alignment explanation
Indices: 55426396--55426424 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
55426386 ACTTTGGCCC
55426396 TTCATTTTATT
1 TTCATTTTATT
55426407 TT-ATTTTATT
1 TTCATTTTATT
55426417 TTCATTTT
1 TTCATTTT
55426425 TTCTTGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (11 bp):
TTCATTTTATT
Found at i:55426504 original size:8 final size:8
Alignment explanation
Indices: 55426491--55426519 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
55426481 CATGCTCAAT
55426491 TTATTAAA
1 TTATTAAA
55426499 TTATTAAA
1 TTATTAAA
55426507 TTATTAAA
1 TTATTAAA
55426515 TTATT
1 TTATT
55426520 TATTATTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TTATTAAA
Found at i:55426952 original size:26 final size:26
Alignment explanation
Indices: 55426923--55427001 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 26
55426913 GTCATGGAGG
* *
55426923 TTATTTATTTTAAATTGCTGTGTATA
1 TTATTTATTTTAAATTGTTGTGCATA
* * *
55426949 TTATTCATTTTAATTTGTTTTGCATA
1 TTATTTATTTTAAATTGTTGTGCATA
**
55426975 TTATTTACCTTAAATTGTTGTGC-TA
1 TTATTTATTTTAAATTGTTGTGCATA
55427000 TT
1 TT
55427002 TACTTTAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
25 4 0.09
26 39 0.91
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTGTGCATA
Found at i:55437432 original size:15 final size:16
Alignment explanation
Indices: 55437395--55437432 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
55437385 TAAAAAAAAT
*
55437395 TTAAAAAATAAAACTA
1 TTAAAAAATAAAACGA
*
55437411 TTTAAAAATAAAA-GA
1 TTAAAAAATAAAACGA
55437426 TTAAAAA
1 TTAAAAA
55437433 GATGTTTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
TTAAAAAATAAAACGA
Found at i:55441393 original size:169 final size:170
Alignment explanation
Indices: 55441012--55441456 Score: 664
Period size: 169 Copynumber: 2.6 Consensus size: 170
55441002 CGGTATGGAG
* * * * * *
55441012 TACAATTTATTTTTAATTTGAAGTTTGGATTTCAGACCTTCGTTTAGGAAAATAAATGAATTACT
1 TACAATTTATTTTTAGTTTGAAGTTTAGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
* * *
55441077 GGAATATTTTTAAATATTTATAGTGTTCCAATAACTACAAGTGTTCTAATACTTATTGTAACCTC
66 -GAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCTAATACTTATTGTAACCTC
* *
55441142 TCGTAATATTAGTTTCGTCATACGATATGAATTCTTGCAAT
130 TCGTAATATTAGTTTCATCATACGATATGAAGTCTTGCAAT
*
55441183 TACAATTTATTTTTAGTTTGAAG-TTAGGATTTCAGACCTTTGTTTTGGGAAATGAATGAATCAC
1 TACAATTTATTTTTAGTTTGAAGTTTA-GATTTCAGACCTTTGTTTAGGGAAATGAATGAATCAC
* *
55441247 TAGAACGTTTTCAAATATTTATACTGTTCCAATAACTATAAGTGTTC-AATACTTATTGTAACCT
65 T-GAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCTAATACTTATTGTAACCT
* * *
55441311 CTCTTAATATTATTTTCATCATACGAT-TGGAGTCTTGCAAT
129 CTCGTAATATTAGTTTCATCATACGATATGAAGTCTTGCAAT
55441352 TACAATTTATTTTTAGTTCT-AAGTTTAGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCAC
1 TACAATTTATTTTTAGTT-TGAAGTTTAGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCAC
55441416 TGCAACATTTTCAAATATTTATAGTGTTCCAATAACTATAA
65 TG-AACATTTTCAAATATTTATAGTGTTCCAATAACTATAA
55441457 ATGAATGGGT
Statistics
Matches: 249, Mismatches: 21, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
168 1 0.00
169 106 0.43
170 47 0.19
171 95 0.38
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (170 bp):
TACAATTTATTTTTAGTTTGAAGTTTAGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
GAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCTAATACTTATTGTAACCTCT
CGTAATATTAGTTTCATCATACGATATGAAGTCTTGCAAT
Found at i:55450331 original size:13 final size:13
Alignment explanation
Indices: 55450315--55450339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55450305 TTTACAAAAG
55450315 CAAATGGTTTTTA
1 CAAATGGTTTTTA
55450328 CAAATGGTTTTT
1 CAAATGGTTTTT
55450340 GGAAACACGA
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:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (13 bp):
CAAATGGTTTTTA
Found at i:55460584 original size:30 final size:31
Alignment explanation
Indices: 55460550--55460611 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
55460540 AAACATTTCT
* *
55460550 ACTTT-CCCCCTAAAATTTTTAC-TCCTTCCC
1 ACTTTACCCCC-AAAACTTTTACTTCCCTCCC
*
55460580 ACTTTACTCCCAAAACTTTTACTTCCCTCCC
1 ACTTTACCCCCAAAACTTTTACTTCCCTCCC
55460611 A
1 A
55460612 TCCCAACCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.37
Consensus pattern (31 bp):
ACTTTACCCCCAAAACTTTTACTTCCCTCCC
Found at i:55460917 original size:18 final size:18
Alignment explanation
Indices: 55460889--55460927 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
55460879 TCCCGCAAAA
55460889 TTTTACTCCCCC-AAACT
1 TTTTACTCCCCCTAAACT
55460906 TTTTATCTCCCCCTAAACT
1 TTTTA-CTCCCCCTAAACT
55460925 TTT
1 TTT
55460928 ACTTCTCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 7 0.35
19 8 0.40
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTACTCCCCCTAAACT
Found at i:55467190 original size:42 final size:41
Alignment explanation
Indices: 55467131--55467342 Score: 188
Period size: 42 Copynumber: 5.5 Consensus size: 41
55467121 ATTCATTGGT
* *
55467131 GGTTGCAAAGTGCTGATTCCACAGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AAGG
*
55467173 GGTTGCTAAGTGCTGATTCC-CCG-AGTC----AT-TG--GT
1 GGTTGCTAAGTGCTGATTCCACCGTA-TCTTAAATGTGAAGG
55467206 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
* * * *
55467247 GGCTTGCTAAGTGTTGATTTC-CCGAATC----AT-TG--GT
1 GG-TTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
* *
55467281 GGTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AAGG
55467323 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
55467343 CCGACTCATT
Statistics
Matches: 136, Mismatches: 14, Indels: 40
0.72 0.07 0.21
Matches are distributed among these distances:
33 37 0.27
34 14 0.10
35 1 0.01
36 4 0.03
37 4 0.03
38 4 0.03
39 4 0.03
40 1 0.01
41 13 0.10
42 54 0.40
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
Found at i:55467215 original size:33 final size:32
Alignment explanation
Indices: 55467173--55467381 Score: 130
Period size: 33 Copynumber: 5.8 Consensus size: 32
55467163 ATGTGAAAGG
55467173 GGTTGCTAAGTGCTGATTCCCCGAGTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGA-TCATTGGT
*
55467206 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-ATC----AT-TG--GT
* *
55467247 GGCTTGCTAAGTGTTGATTTCCCGAATCATTGGT
1 GG-TTGCTAAGTGCTGATTCCCCG-ATCATTGGT
* * *
55467281 GGTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-ATC----AT-TG---GT
55467323 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGA-TCATTGGT
* *
55467356 GGTTGCTAAGTGTTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
55467382 AACGGATAAC
Statistics
Matches: 141, Mismatches: 14, Indels: 42
0.72 0.07 0.21
Matches are distributed among these distances:
33 56 0.40
34 18 0.13
35 1 0.01
36 4 0.03
37 4 0.03
38 4 0.03
39 4 0.03
40 1 0.01
41 14 0.10
42 35 0.25
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (32 bp):
GGTTGCTAAGTGCTGATTCCCCGATCATTGGT
Found at i:55467217 original size:75 final size:75
Alignment explanation
Indices: 55467094--55467379 Score: 441
Period size: 75 Copynumber: 3.8 Consensus size: 75
55467084 TGATTCCCCC
* * *
55467094 AAGGGGTTGCTAAGTGCTGATT-CCCTAATTCATTGGTGGTTGCAAAGTGCTGATTCCACAGTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAA-TCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
55467158 CTTAAATGTGA
65 CTTAAATGTGA
*
55467169 AAGGGGTTGCTAAGTGCTGATTCCCCGAGTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
55467234 TTAAATGTG-
66 TTAAATGTGA
* * * *
55467243 AAGGGGCTTGCTAAGTGTTGATTTCCCGAATCATTGGTGGTTGCTAAGTGTTGATCCCACCGTAT
1 AAGGGG-TTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
55467308 CTTAAATGTGA
65 CTTAAATGTGA
* * *
55467319 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGTTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
55467380 ATAACGGATA
Statistics
Matches: 194, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
74 6 0.03
75 178 0.92
76 10 0.05
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:55474806 original size:102 final size:102
Alignment explanation
Indices: 55474630--55474860 Score: 401
Period size: 102 Copynumber: 2.3 Consensus size: 102
55474620 ATTGAATATA
*
55474630 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTTCTCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTTCTCGAATCATTGGT
55474695 GGTTGCTAAGTGCTGATTC-CACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGA-TCGCACCGTATCTTAAATGTG
* **
55474732 AAGGGGGTTGCTAAGTGTTGATTCCCCTGAGGGGTTGCTAAGTGCTGATTTCTCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTTCTCGAATCATTGGT
55474797 GGTTGCTAAGTGCTGATCGCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATCGCACCGTATCTTAAATGTG
*
55474834 AAAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
55474861 AACTCATTGG
Statistics
Matches: 122, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
101 2 0.02
102 120 0.98
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTTCTCGAATCATTGGT
GGTTGCTAAGTGCTGATCGCACCGTATCTTAAATGTG
Found at i:55476037 original size:10 final size:11
Alignment explanation
Indices: 55475982--55476072 Score: 58
Period size: 11 Copynumber: 7.9 Consensus size: 11
55475972 GGCCTATTTT
55475982 TATTTTAAAAA
1 TATTTTAAAAA
55475993 T-TTTTAAAAA
1 TATTTTAAAAA
****
55476003 TAAAAAAAAAA
1 TATTTTAAAAA
55476014 GTATTTTAAAAA
1 -TATTTTAAAAA
55476026 TATTTTAAAATAAA
1 TATTTT--AA-AAA
* *
55476040 AAATTTAAAAA
1 TATTTTAAAAA
* *
55476051 GTATGTAAAAAA
1 -TATTTTAAAAA
55476063 TATTTTAAAA
1 TATTTTAAAA
55476073 TTAAAAAAAT
Statistics
Matches: 58, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
10 10 0.17
11 23 0.40
12 16 0.28
13 2 0.03
14 7 0.12
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:55476062 original size:37 final size:38
Alignment explanation
Indices: 55476009--55476080 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 38
55475999 AAAATAAAAA
* *
55476009 AAAAAGTATTTTAAAAATATTTTAAAA-TAAAAAATTT
1 AAAAAGTATGTAAAAAATATTTTAAAATTAAAAAATTT
55476046 AAAAAGTATGTAAAAAATATTTTAAAATTAAAAAA
1 AAAAAGTATGTAAAAAATATTTTAAAATTAAAAAA
55476081 ATAAATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 25 0.78
38 7 0.22
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (38 bp):
AAAAAGTATGTAAAAAATATTTTAAAATTAAAAAATTT
Found at i:55478122 original size:18 final size:17
Alignment explanation
Indices: 55478074--55478123 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
55478064 CACTTAAAAG
55478074 AATTTTATTTTAATAAT
1 AATTTTATTTTAATAAT
* * *
55478091 GATATTAATGTTAATAAT
1 AAT-TTTATTTTAATAAT
55478109 AAATTTTATTTTAAT
1 -AATTTTATTTTAAT
55478124 TAAAAAATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
AATTTTATTTTAATAAT
Found at i:55479504 original size:19 final size:22
Alignment explanation
Indices: 55479455--55479500 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
55479445 AATCTATAAC
55479455 CTCTATAATCATTTTACTTCTT
1 CTCTATAATCATTTTACTTCTT
55479477 CTCTATAATCATTTTACTTCTT
1 CTCTATAATCATTTTACTTCTT
55479499 CT
1 CT
55479501 TAATTCTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (22 bp):
CTCTATAATCATTTTACTTCTT
Found at i:55481451 original size:24 final size:24
Alignment explanation
Indices: 55481415--55481470 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
55481405 AATTTGAGTT
55481415 TTGATTTGAGTGTTGTGATGGCAA
1 TTGATTTGAGTGTTGTGATGGCAA
* *
55481439 TTGGTTTGAGTGTTGTGATGGCAG
1 TTGATTTGAGTGTTGTGATGGCAA
55481463 TTGATTTG
1 TTGATTTG
55481471 GTCCTTGATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.16, C:0.04, G:0.36, T:0.45
Consensus pattern (24 bp):
TTGATTTGAGTGTTGTGATGGCAA
Found at i:55486199 original size:18 final size:17
Alignment explanation
Indices: 55486177--55486220 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
55486167 AAAAATTTAT
55486177 AAATTTTTAAAAAATAA
1 AAATTTTTAAAAAATAA
* *
55486194 AGAATTATGAAAAAATAA
1 A-AATTTTTAAAAAATAA
55486212 AAATTTTTA
1 AAATTTTTA
55486221 GAATTCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
AAATTTTTAAAAAATAA
Found at i:55505462 original size:90 final size:90
Alignment explanation
Indices: 55505309--55505473 Score: 321
Period size: 90 Copynumber: 1.8 Consensus size: 90
55505299 ATCAAGATGC
55505309 AGGAGATGTTTGAAATGTCTGATTTAGGGAAAATGTCCTATTTTCTGGGAATGGAGGTGACACAA
1 AGGAGATGTTTGAAATGTCTGATTTAGGGAAAATGTCCTATTTTCTGGGAATGGAGGTGACACAA
55505374 ACACAAGATGGGATATTCCTAAGAT
66 ACACAAGATGGGATATTCCTAAGAT
55505399 AGGAGATGTTTGAAATGTCTGATTTAGGGAAAATGTCCTATTTTCTGGGAATGGAGGTGACACAA
1 AGGAGATGTTTGAAATGTCTGATTTAGGGAAAATGTCCTATTTTCTGGGAATGGAGGTGACACAA
*
55505464 ACACAGGATG
66 ACACAAGATG
55505474 CCTCGAAGAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (90 bp):
AGGAGATGTTTGAAATGTCTGATTTAGGGAAAATGTCCTATTTTCTGGGAATGGAGGTGACACAA
ACACAAGATGGGATATTCCTAAGAT
Found at i:55510819 original size:40 final size:40
Alignment explanation
Indices: 55510760--55510971 Score: 268
Period size: 40 Copynumber: 5.3 Consensus size: 40
55510750 CATTTGAATG
*
55510760 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
55510800 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
55510840 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
55510880 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
55510920 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
55510960 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55510972 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.05
40 143 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:55519837 original size:30 final size:30
Alignment explanation
Indices: 55519795--55519853 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55519785 TTCTCACTCC
55519795 CAAGCTTCTGAACG-CAATATCGAGTCTTCA
1 CAAGCTTCTGAACGAC-ATATCGAGTCTTCA
*
55519825 CAAGC-TCTTGAACGACATATCTAGTCTTC
1 CAAGCTTC-TGAACGACATATCGAGTCTTC
55519854 TCAATCCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 23 0.88
31 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
CAAGCTTCTGAACGACATATCGAGTCTTCA
Found at i:55519886 original size:66 final size:66
Alignment explanation
Indices: 55519759--55519888 Score: 147
Period size: 66 Copynumber: 2.0 Consensus size: 66
55519749 CAAATCTTTT
* * * * *
55519759 CAAGCTCTTAAACAAGATATCATGTATTCTCACTCCCAAGCTTCTGAACGCAATATCGAGTCTTC
1 CAAGCTCTTAAACAACATATCATGTATTCTCAATCCCAAGATCCTAAACGCAATATCGAGTCTTC
55519824 A
66 A
* * * *
55519825 CAAGCTCTTGAACGACATATC-TAGTCTTCTCAATCCCAAGATCCTAAACG-AGATATTGAGTCT
1 CAAGCTCTTAAACAACATATCAT-GTATTCTCAATCCCAAGATCCTAAACGCA-ATATCGAGTCT
55519888 T
64 T
55519889 TCCAAACTCC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
65 2 0.04
66 51 0.96
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (66 bp):
CAAGCTCTTAAACAACATATCATGTATTCTCAATCCCAAGATCCTAAACGCAATATCGAGTCTTC
A
Found at i:55527215 original size:11 final size:10
Alignment explanation
Indices: 55527179--55527206 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
55527169 ATGATGAAGA
55527179 ACAAAAGTTC
1 ACAAAAGTTC
55527189 ACAAAAGTTC
1 ACAAAAGTTC
55527199 ACAAAAGT
1 ACAAAAGT
55527207 ATGACAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.18, G:0.11, T:0.18
Consensus pattern (10 bp):
ACAAAAGTTC
Found at i:55534897 original size:18 final size:17
Alignment explanation
Indices: 55534856--55534903 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
55534846 CTTTTTAATC
55534856 TTTTA-TTTTTAAATAG
1 TTTTATTTTTTAAATAG
**
55534872 TTTTATTTTTTAAATTT
1 TTTTATTTTTTAAATAG
55534889 TTTTAATTTTTTAAA
1 TTTT-ATTTTTTAAA
55534904 AACTTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.18
17 13 0.46
18 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTATTTTTTAAATAG
Found at i:55549865 original size:44 final size:42
Alignment explanation
Indices: 55549827--55550072 Score: 192
Period size: 44 Copynumber: 5.6 Consensus size: 42
55549817 TTTAATCCAT
* * *
55549827 TCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTTAA-CCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTCAATCC--C
* * * *
55549871 TCCACTGTAACTTCAGGGAGATAAGGTTTGATATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAA-GATTG-TAGCTTCAATC-CC
* * *
55549916 TCCACTGCAGCTTCAGGGAGATAAGACTTGTAGTTTTAATCTGCC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTCAATC--CC
* * * * *
55549961 -CCACTGCAAATTCAGGGGGATAAGATTTGTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTCAATC-CC
* *
55550004 TCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAA-CCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTCAATCC--C
55550048 TCCACTGCAACTTCAGGGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
55550073 GTTTGATATG
Statistics
Matches: 160, Mismatches: 33, Indels: 18
0.76 0.16 0.09
Matches are distributed among these distances:
43 2 0.01
44 120 0.75
45 37 0.23
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
TCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTCAATCCC
Found at i:55550027 original size:88 final size:89
Alignment explanation
Indices: 55549827--55550081 Score: 361
Period size: 88 Copynumber: 2.9 Consensus size: 89
55549817 TTTAATCCAT
* *
55549827 TCCACTGCAACTTCAAGGAGATAGGA-TTAGTAGCTTTAACCTGCTCCACTGTAACTTCAGGGAG
1 TCCACTGCAACTTCAAGGAGATAAGACTT-GTAGCTTTAACCTGCTCCACTGCAACTTCAGGGAG
*
55549891 ATAAGGTTTGATATCTTCAATCTGC
65 ATAAGGTTTGATATCTTCAATCTAC
* * * * * * *
55549916 TCCACTGCAGCTTCAGGGAGATAAGACTTGTAGTTTTAATCTGCCCCACTGCAAATTCAGGGGGA
1 TCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTTAACCTGCTCCACTGCAACTTCAGGGAGA
* *
55549981 TAAGATTTG-TATCTTCAGTCTAC
66 TAAGGTTTGATATCTTCAATCTAC
* *
55550004 TCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTTAACCTGCTCCACTGCAACTTCAGGGAGA
55550069 TAAGGTTTGATAT
66 TAAGGTTTGATAT
55550082 GATCTGCTCT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
88 76 0.54
89 64 0.45
90 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (89 bp):
TCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTTAACCTGCTCCACTGCAACTTCAGGGAGA
TAAGGTTTGATATCTTCAATCTAC
Found at i:55550221 original size:181 final size:180
Alignment explanation
Indices: 55549980--55550430 Score: 493
Period size: 182 Copynumber: 2.5 Consensus size: 180
55549970 ATTCAGGGGG
* *
55549980 ATAAGATTTG-TATCTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAAC
1 ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAT
* * * * * *
55550044 CTGCTCCACTGCAACTTCA-GGGAGATAAGGTT-TGA-TATGATCTGCTCTACTAAAACTTAAAA
66 CTGC-CCACTGAAACTTCAGGGGA-ATAAGATTGTGACTATAACCTACTCCACTAAAACTTAAAA
* * *
55550106 GATATAAGATCTGTAATTTATAG-CTTCAATCTGTTCCACTGCAACTTTAAGG-AC
129 GAGATAAGATCTATAA-TT-TAGCCTT-AATCTGTTCCACTGCAAC-TTAAGGAAA
* * *
55550160 ATAAGATTTGCTATCTTCAGTCTACTCCTCTGTAACTTCAGGGAGATAAGACTTTTAACTTCAAT
1 ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAT
* * * * **
55550225 CTGCCCTACTAAAACTTCAGGGGAATAAGATTGGTGACTTTAACCTACTCCACTACAACTTCAGG
66 CTGCCC-ACTGAAACTTCAGGGGAATAAGATT-GTGACTATAACCTACTCCACTAAAACTTAAAA
* * *
55550290 GAGGTAAGGTCTATAATTTAGCCTTAATCTGTTCCACTGCAACTTCAGGAAA
129 GAGATAAGATCTATAATTTAGCCTTAATCTGTTCCACTGCAACTTAAGGAAA
* * * *
55550342 ATGAGATTTGCTATCTTCAGTCTGCTCCACTGCATCTTCAGGGAGATCAA-ACTTGTAACTGCAA
1 ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGAT-AAGACTTGTAACTTCAA
* *
55550406 TCTACCCCACTGTAACTTCACGGGG
65 TCT-GCCCACTGAAACTTCA-GGGG
55550431 CAAGATTAGT
Statistics
Matches: 227, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
180 12 0.05
181 75 0.33
182 93 0.41
183 17 0.07
184 30 0.13
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (180 bp):
ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAT
CTGCCCACTGAAACTTCAGGGGAATAAGATTGTGACTATAACCTACTCCACTAAAACTTAAAAGA
GATAAGATCTATAATTTAGCCTTAATCTGTTCCACTGCAACTTAAGGAAA
Found at i:55550383 original size:182 final size:179
Alignment explanation
Indices: 55549951--55550408 Score: 487
Period size: 181 Copynumber: 2.5 Consensus size: 179
55549941 ACTTGTAGTT
** * **
55549951 TTAATCTGCCCCACTGCAAATTCAGGGGGATAAGATTTG-TATCTTCAGTCTACTCCACTGCAAC
1 TTAATCTGTTCCACTGCAACTTCA-GGAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAAC
* * ** *
55550015 TTCAAGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGAT
65 TTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTAAAACTTCAGGGAGATAAGATTTGAT
* * * * * *
55550080 ATGATCTGCTCTACTAAAACTTAAAAGATATAAGATCTGTAATTTATAGC
130 ATAACCTACTCCACTAAAACTTAAAAGAGATAAGATCTATAATTTATAGC
* * * *
55550130 TTCAATCTGTTCCACTGCAACTTTAAGGACATAAGATTTGCTATCTTCAGTCTACTCCTCTGTAA
1 TT-AATCTGTTCCACTGCAAC-TTCAGGAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAA
*
55550195 CTTCAGGGAGATAAGACTTTTAACTTCAATCTGC-CCTACTAAAACTTCAGGG-GAATAAGATTG
64 CTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCC-ACTAAAACTTCAGGGAG-ATAAGATT-
* * * ** * *
55550258 GTGACTTTAACCTACTCCACTACAACTTCAGGGAGGTAAGGTCTATAA-TT-TAGCC
126 -TGA-TATAACCTACTCCACTAAAACTTAAAAGAGATAAGATCTATAATTTATAG-C
* * *
55550313 TTAATCTGTTCCACTGCAACTTCAGGAAAATGAGATTTGCTATCTTCAGTCTGCTCCACTGCATC
1 TTAATCTGTTCCACTGCAACTTCAGG-AAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAAC
*
55550378 TTCAGGGAGATCAA-ACTTGTAACTGCAATCT
65 TTCAGGGAGAT-AAGACTTGTAACTTCAATCT
55550409 ACCCCACTGT
Statistics
Matches: 232, Mismatches: 36, Indels: 19
0.81 0.13 0.07
Matches are distributed among these distances:
179 2 0.01
180 30 0.13
181 81 0.35
182 79 0.34
183 10 0.04
184 30 0.13
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (179 bp):
TTAATCTGTTCCACTGCAACTTCAGGAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACT
TCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTAAAACTTCAGGGAGATAAGATTTGATA
TAACCTACTCCACTAAAACTTAAAAGAGATAAGATCTATAATTTATAGC
Found at i:55555092 original size:22 final size:21
Alignment explanation
Indices: 55555062--55555119 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
55555052 ATACAATCGT
*
55555062 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
*
55555083 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTTAG
55555106 AGATTTGATTTGTA
1 AGATTTGATTTGTA
55555120 GATACCATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.44
23 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:55555102 original size:23 final size:22
Alignment explanation
Indices: 55555072--55555116 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
55555062 AGATTTGATA
55555072 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAG-AGATATGATTT
*
55555095 TGTAATCTTAGAGATTTGATTT
1 TGTAATCTTAGAGATATGATTT
55555117 GTAGATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGATATGATTT
Found at i:55560238 original size:22 final size:21
Alignment explanation
Indices: 55560208--55560265 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
55560198 ATACAATCGT
*
55560208 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
*
55560229 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTTAG
55560252 AGATTTGATTTGTA
1 AGATTTGATTTGTA
55560266 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.44
23 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:55560248 original size:23 final size:22
Alignment explanation
Indices: 55560218--55560262 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
55560208 AGATTTGATA
55560218 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAG-AGATATGATTT
*
55560241 TGTAATCTTAGAGATTTGATTT
1 TGTAATCTTAGAGATATGATTT
55560263 GTAGATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGATATGATTT
Found at i:55564118 original size:43 final size:43
Alignment explanation
Indices: 55564064--55564267 Score: 329
Period size: 43 Copynumber: 4.7 Consensus size: 43
55564054 CTAATGAGTG
* *
55564064 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAAACCAAGACCT
1 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGACCT
*
55564107 TTAGCGACGC-TTTTCCTACAAACGCCGCTAAAGACCAGGACCT
1 TTAGCGGCGCTTTTTCC-ACAAACGCCGCTAAAGACCAGGACCT
55564150 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGACCT
1 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGACCT
*
55564193 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCAGGACCT
1 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGACCT
* * *
55564236 TTAGCAGTGCTTTTACCACAAACGCCGCTAAA
1 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAA
55564268 AACATGACTT
Statistics
Matches: 151, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
42 6 0.04
43 139 0.92
44 6 0.04
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (43 bp):
TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGACCT
Found at i:55564489 original size:18 final size:18
Alignment explanation
Indices: 55564466--55564525 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
55564456 TTAAAACAAG
55564466 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
55564484 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
55564501 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
55564519 TTACATT
1 TTACATT
55564526 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:55570217 original size:13 final size:13
Alignment explanation
Indices: 55570199--55570223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55570189 TGTCAATCTA
55570199 TTACATTAATTTG
1 TTACATTAATTTG
55570212 TTACATTAATTT
1 TTACATTAATTT
55570224 ATTTATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
TTACATTAATTTG
Found at i:55570720 original size:21 final size:21
Alignment explanation
Indices: 55570686--55570749 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
55570676 TCTCAAATCT
* *
55570686 TTAAACCCTAAATCACTAACTC
1 TTAACCCCT-AATCACTAACCC
*
55570708 TTAACCCCTAATCTCTAACCC
1 TTAACCCCTAATCACTAACCC
*
55570729 CTAACCCCTAA-CTACTAACCC
1 TTAACCCCTAATC-ACTAACCC
55570750 ATAAATCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 1 0.03
21 27 0.75
22 8 0.22
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (21 bp):
TTAACCCCTAATCACTAACCC
Found at i:55570841 original size:7 final size:7
Alignment explanation
Indices: 55570831--55570860 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
55570821 TAACGCAAAT
55570831 CCCTAAC
1 CCCTAAC
55570838 CCCTAAC
1 CCCTAAC
55570845 CCCTAAC
1 CCCTAAC
55570852 CCCTAAC
1 CCCTAAC
55570859 CC
1 CC
55570861 TTACACCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.60, G:0.00, T:0.13
Consensus pattern (7 bp):
CCCTAAC
Found at i:55571530 original size:41 final size:41
Alignment explanation
Indices: 55571466--55571750 Score: 408
Period size: 41 Copynumber: 7.0 Consensus size: 41
55571456 TCAAAAACGG
* *
55571466 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * * **
55571507 GCATTAGCGGCACTTCTTCAAAAACACCGCTAAAGGTCTAA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * * *
55571548 GCATTAGCGGAGCTTCTTCAAAAACGCCACTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
55571589 GCATTAGTGGCGCTTCTTTAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
55571630 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
55571671 GCATTAGCGGCGCATCTTCAAAAACGCCACTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * *
55571712 ACGTTAGCGGCGCTTCTTCAAAAACTCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
55571751 CAAAAACTCA
Statistics
Matches: 217, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 217 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:55571845 original size:39 final size:39
Alignment explanation
Indices: 55571791--55571919 Score: 152
Period size: 40 Copynumber: 3.3 Consensus size: 39
55571781 TAGGCTTGTT
* * *
55571791 GCGGCGCTTTTCAAAAAACACCGCTAATGCTT-ATTTTTT
1 GCGGCG-TTTTCAAAAAGCGCCGCTAATGCTTGATTTTTA
**
55571830 GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGACCTTTA
1 GCGGCGTTTT-CAAAAAGCGCCGCTAATGCTTGATTTTTA
* *
55571870 GCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTGGTTTTTA
1 GCGGCGTTTTCA-AAAAGCGCCGCTAATGCTTGATTTTTA
*
55571910 GTGGCGTTTT
1 GCGGCGTTTT
55571920 TTGTCCAAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
38 4 0.05
39 26 0.34
40 47 0.61
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (39 bp):
GCGGCGTTTTCAAAAAGCGCCGCTAATGCTTGATTTTTA
Found at i:55572671 original size:20 final size:20
Alignment explanation
Indices: 55572634--55572676 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
55572624 AAAATAAACA
* **
55572634 TATAATTATTTATTTAATAT
1 TATAATTATTCAAATAATAT
55572654 TATAATTATTCAAATAATAT
1 TATAATTATTCAAATAATAT
55572674 TAT
1 TAT
55572677 TGAAATAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TATAATTATTCAAATAATAT
Found at i:55572942 original size:17 final size:18
Alignment explanation
Indices: 55572904--55572942 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
55572894 TTACAATATG
**
55572904 TATTGGAACACTTATAGT
1 TATTGGAACACTTATAAA
55572922 TATTGGAACAC-TATAAA
1 TATTGGAACACTTATAAA
55572939 TATT
1 TATT
55572943 TGAAAACGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (18 bp):
TATTGGAACACTTATAAA
Found at i:55573029 original size:171 final size:170
Alignment explanation
Indices: 55572744--55573191 Score: 729
Period size: 171 Copynumber: 2.6 Consensus size: 170
55572734 ACCCATTCAT
55572744 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTT-CAGTGATTCATTCATTTCCCTAAACA
* * *
55572809 AAGGTCTGAAATCTAAACTT-AGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGA
65 AAGGTCCGAAATCCAAACTTCA-AACTAAAAATAAATTGTACTTGCAAGACTCCATATCGTATGA
* * *
55572873 TGAAAATAATATTACGAGAGGTTACAATATGTATTGGAACAC
129 CGAAAATAATATTAAGAGAGGTTACAATAAGTATTGGAACAC
* *
55572915 TTATAGTTATTGGAACACTATAAATATTTGAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTC-AGTGATTCATTCATTTCCCTAAACA
55572980 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTACTTGCAAGACTCCATATCGTATGAC
65 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTACTTGCAAGACTCCATATCGTATGAC
*
55573045 GCAAATAATATTAAGAGAGGTTACAATAAGTATTGGAACAC
130 GAAAATAATATTAAGAGAGGTTACAATAAGTATTGGAACAC
* * *
55573086 TTATAGTTATTGGAACATTATAAATATTTGAAAATGTTCAGTAATTCATTTATTTCCCTAAACGA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTCAGTGATTCATTCATTTCCCTAAAC-A
*
55573151 AA-GTCCGAAATCCAAACTTCAAATTAAAAATAAATTGTACT
65 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTACT
55573192 CCATACCGTA
Statistics
Matches: 259, Mismatches: 15, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
170 60 0.23
171 198 0.76
172 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (170 bp):
TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTCAGTGATTCATTCATTTCCCTAAACAA
AGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTACTTGCAAGACTCCATATCGTATGACG
AAAATAATATTAAGAGAGGTTACAATAAGTATTGGAACAC
Found at i:55573113 original size:17 final size:18
Alignment explanation
Indices: 55573070--55573113 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
55573060 AGAGGTTACA
*
55573070 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
55573088 ATAGTTATTGGAACA-TT
1 ATAAATATTGGAACACTT
55573105 ATAAATATT
1 ATAAATATT
55573114 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:55576387 original size:98 final size:98
Alignment explanation
Indices: 55576216--55576412 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
55576206 GTGCAATAAA
* *
55576216 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGACATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
55576281 CCTCTAAAATCTCAAACTCGGAATATTTCATTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCATTT
*
55576314 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
55576379 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCATTT
55576412 A
1 A
55576413 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCATTT
Found at i:55577878 original size:22 final size:21
Alignment explanation
Indices: 55577843--55577940 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
55577833 AAAGGGTATC
* *
55577843 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
55577864 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
55577887 TACATATCATATCTC--AGAT
1 TACAAATCATATCTCTAAGAT
*
55577906 TGCATATATCATA--TCTAAGAT
1 TACA-A-ATCATATCTCTAAGAT
* *
55577927 TGCATATCATATCT
1 TACAAATCATATCT
55577941 AGGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
19 15 0.24
21 20 0.32
22 17 0.27
23 11 0.17
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:55577886 original size:23 final size:22
Alignment explanation
Indices: 55577843--55577900 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
55577833 AAAGGGTATC
* *
55577843 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
55577864 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
55577887 TACATATCATATCT
1 TACAAATCATATCT
55577901 CAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:55577911 original size:19 final size:19
Alignment explanation
Indices: 55577879--55577972 Score: 134
Period size: 19 Copynumber: 4.8 Consensus size: 19
55577869 AATCATATCT
*
55577879 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
55577898 TCTCAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
55577919 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
55577938 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
55577957 CCTAAGATTGCATATC
1 TCTAAGATTGCATATC
55577973 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 49 0.73
21 18 0.27
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:55578013 original size:47 final size:47
Alignment explanation
Indices: 55577944--55578039 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
55577934 CATATCTAGG
55577944 ATTGCATATCATACCTAAGATTGCATATCCTCAAAAATTATGTTTCC
1 ATTGCATATCATACCTAAGATTGCATATCCTCAAAAATTATGTTTCC
55577991 ATTGCATATCATACCTAAGATTGCATATCCTCAAAAATTATGTTTCC
1 ATTGCATATCATACCTAAGATTGCATATCCTCAAAAATTATGTTTCC
55578038 AT
1 AT
55578040 ATGTGAGCCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (47 bp):
ATTGCATATCATACCTAAGATTGCATATCCTCAAAAATTATGTTTCC
Found at i:55578485 original size:132 final size:132
Alignment explanation
Indices: 55578248--55579032 Score: 1293
Period size: 132 Copynumber: 5.9 Consensus size: 132
55578238 CTGCAACTGC
*
55578248 AGGGAGATAAGA-CTTAGAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGC
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGC
* * * *
55578312 TTCAATGTACTCCACTGTAACCACAGGGAGGAAAAATCCGCCATCTTCGATCTACTCCACTATTG
65 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
55578377 CTT
130 CTT
* ** * * * *
55578380 AGGGAGATAAAATCTGAAATCTGAAATCTATTCCACTATTCCCCAGGGAAGTAGAGTTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * *
55578445 TAAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
55578510 TT
131 TT
* * *
55578512 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACGGTTGTCCAGGGAAGTAGAATTACTGACT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
55578577 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCGCCATCTTCAATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
55578642 TT
131 TT
*
55578644 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
*
55578709 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
55578774 TT
131 TT
***
55578776 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTTAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
55578841 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
55578906 TT
131 TT
* *
55578908 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAAGGAAGTAGAATAACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
55578973 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATATGCTCCACT
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
55579033 GTCAATGCAG
Statistics
Matches: 609, Mismatches: 43, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 606 1.00
133 3 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:55578537 original size:44 final size:44
Alignment explanation
Indices: 55578486--55578944 Score: 159
Period size: 44 Copynumber: 10.4 Consensus size: 44
55578476 AAAATCCGCC
* *
55578486 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
* ***
55578530 ATCTTCAATCTATTCCACGGTTG-TCCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCT-CAGGGAGA-TAAG-A-T-CTGAA
* * * * * **
55578574 A-CTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAAT-TCGCC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCT-GAA
* *
55578618 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
* **
55578662 ATCTTCAATCTATTCCACTGTTG-TCCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCT-CAGGGAGA-TAAG-A-T-CTGAA
* * * * * * **
55578706 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCTGCC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCTGAA
* * *
55578750 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
* ** * *
55578794 ATCTTCAATCTATTCCACTGTTGTTTAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGA-TAAG-A-T-CTGAA
* * * * * * * **
55578838 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCTGAA
* * *
55578882 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
*
55578926 ATCTTCAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
55578945 GTTGCCCAAG
Statistics
Matches: 294, Mismatches: 79, Indels: 84
0.64 0.17 0.18
Matches are distributed among these distances:
41 1 0.00
42 9 0.03
43 58 0.20
44 161 0.55
45 53 0.18
46 12 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
Found at i:55581608 original size:27 final size:27
Alignment explanation
Indices: 55581570--55581623 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
55581560 AACCCTGTTG
55581570 GTTAGCAATCAATTTTCTGTATGTATT
1 GTTAGCAATCAATTTTCTGTATGTATT
55581597 GTTAGCAATCAATTTTCTGTATGTATT
1 GTTAGCAATCAATTTTCTGTATGTATT
55581624 CACGCTGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (27 bp):
GTTAGCAATCAATTTTCTGTATGTATT
Found at i:55584445 original size:98 final size:98
Alignment explanation
Indices: 55584274--55584470 Score: 376
Period size: 98 Copynumber: 2.0 Consensus size: 98
55584264 GTGCAATAAA
*
55584274 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
55584339 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
55584372 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
55584437 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
55584470 A
1 A
55584471 TTATTTTTAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:55585385 original size:25 final size:25
Alignment explanation
Indices: 55585325--55585385 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
55585315 ATATATAGCT
55585325 AAAA-TAATAATAATTACATATGAA
1 AAAATTAATAATAATTACATATGAA
*
55585349 AATATTAATAATAATTACAT-T-AA
1 AAAATTAATAATAATTACATATGAA
55585372 CAAAATTAACTAAT
1 -AAAATTAA-TAAT
55585386 TTTAAGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.06
24 11 0.34
25 19 0.59
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAATTAATAATAATTACATATGAA
Found at i:55585936 original size:22 final size:21
Alignment explanation
Indices: 55585901--55585998 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
55585891 AAAGGGTATC
* *
55585901 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
55585922 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
55585945 TACATATCATATCTC--AGAT
1 TACAAATCATATCTCTAAGAT
*
55585964 TGCATATATCATA--TCTAAGAT
1 TACA-A-ATCATATCTCTAAGAT
* *
55585985 TGCATATCATATCT
1 TACAAATCATATCT
55585999 AGGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
19 15 0.24
21 20 0.32
22 17 0.27
23 11 0.17
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:55585944 original size:23 final size:22
Alignment explanation
Indices: 55585901--55585958 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
55585891 AAAGGGTATC
* *
55585901 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
55585922 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
55585945 TACATATCATATCT
1 TACAAATCATATCT
55585959 CAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:55585969 original size:19 final size:19
Alignment explanation
Indices: 55585937--55586030 Score: 134
Period size: 19 Copynumber: 4.8 Consensus size: 19
55585927 AATCATATCT
*
55585937 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
55585956 TCTCAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
55585977 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
55585996 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
55586015 TCTAAAATTGCATATC
1 TCTAAGATTGCATATC
55586031 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 49 0.73
21 18 0.27
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:55591178 original size:44 final size:44
Alignment explanation
Indices: 55591045--55591795 Score: 320
Period size: 44 Copynumber: 16.7 Consensus size: 44
55591035 CTTCAGTTTG
* *
55591045 CTCCACTGCAACTTCAGGGAGATAAGGCTTGCTATGGTAGATTTAATCTGA
1 CTCCACTGCAACTTCAGGGAGATAA-G-AT--T-T-GTAGCTTTAATCT-A
* * * ** * * *
55591096 C-CTACTGTAACTTCAGAGG-TATAAGATTCATCGTTTTAATCCA
1 CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTTAATCTA
* * * * * *
55591139 TTCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
* * * * *
55591183 CTCCACTGTAACTTCAGGGAGATAAGGTTTGATATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTA
* * * *
55591228 CTCCACTGTAGCTTCAGGGAGATAAGACTTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
* * * * * *
55591272 CCCCACTGCAAATTCAGGGGGATAAGATTTGTATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
** * * * * *
55591316 CTCCACTGCAACTTCAAAGAGATAAGACTTGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
* * * * *
55591360 CTCCACTGCAAGTTCAGGGAGATAAGGTTTG-A--TATGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
* ** ** * * * *
55591401 CTCTACTAAAACTTCAAAGATATAAGATCTGTAATTTATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGAT-A-A---G--ATTTGTAGCTTTAATCTA
* * * * *
55591452 TTCCACTGCAACTTTAGGGACATAAGATTTGCTATCTTTAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTA
* * * *
55591497 CTCCTCTGCAACTTCAGGGAGATAAGACTTT-TAACTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTTGTAGCTTTAATCTA
** * *
55591541 C-CCTACTAAAACTTCAGGG-GAATAAGATTGGT-GACTTTAACCTA
1 CTCC-ACTGCAACTTCAGGGAG-ATAAGATTTGTAG-CTTTAATCTA
* * * * * *
55591585 CTCCACTACAACTTCAGGGAGGTAAGGTCTGTAATTTAGCCTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAA-G-AT-T--TGTAGCTTTAATCTA
* * * * * * *
55591634 TTCCACTGCAACTTCAGGGAAATGAGATTTGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTA
* * * **
55591679 CTCCACTGCATCTTCAGGGAGATCAA-ACTTGTAACTGCAATCTA
1 CTCCACTGCAACTTCAGGGAGAT-AAGATTTGTAGCTTTAATCTA
* * * * * *
55591723 CCCCACTGTAACTTCACGGG-G-CAAGATTAGTGGCTTTAATCTG
1 CTCCACTGCAACTTCA-GGGAGATAAGATTTGTAGCTTTAATCTA
* * * *
55591766 TTTCACTGTAACTTTAGGGAGATAAGATTT
1 CTCCACTGCAACTTCAGGGAGATAAGATTT
55591796 ACCATAATGA
Statistics
Matches: 515, Mismatches: 151, Indels: 75
0.70 0.20 0.10
Matches are distributed among these distances:
41 21 0.04
42 6 0.01
43 34 0.07
44 254 0.49
45 110 0.21
46 9 0.02
47 2 0.00
48 5 0.01
49 31 0.06
50 19 0.04
51 24 0.05
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
Found at i:55591738 original size:182 final size:182
Alignment explanation
Indices: 55591259--55591743 Score: 534
Period size: 182 Copynumber: 2.7 Consensus size: 182
55591249 ATAAGACTTG
* ** * **
55591259 TAGCTTTAATCTGCCCCACTGCAAATTCAGGGGGATAAGATTTG-TATCTTCAGTCTACTCCACT
1 TAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCACT
** * * * * *
55591323 GCAACTTCAAAGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAAGTTCA-GGGAGATAAGG
66 GCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCCACTGAAACTTCAGGGGAGATAAGA
* * * * *
55591387 TTTGATATGATCTGCTCTACTAAAACTTCAAAGATATAAGATCTGTAATTTA
131 TTTGATATAACCTACTCCACTAAAACTTCAAAGAGATAAGATCTGTAATTTA
* * * *
55591439 TAG-CTTCAATCTGTTCCACTGCAACTTTAGGGACATAAGATTTGCTATCTTTAGTCTACTCCTC
1 TAGCCTT-AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCAC
* * *
55591503 TGCAACTTCAGGGAGATAAGACTTTTAACTTCAATCTGCCCTACTAAAACTTCAGGGGA-ATAAG
65 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCCACTGAAACTTCAGGGGAGATAAG
* * ** * *
55591567 ATTGGTGACTTTAACCTACTCCACTACAACTTCAGGGAGGTAAGGTCTGTAA-TT-
130 ATT--TGA-TATAACCTACTCCACTAAAACTTCAAAGAGATAAGATCTGTAATTTA
* *
55591621 TAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTTGCTATCTTCAGTCTGCTCCACT
1 TAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCACT
* * * *
55591686 GCATCTTCAGGGAGATCAA-ACTTGTAACTGCAATCTACCCCACTGTAACTTCACGGGG
66 GCAACTTCAGGGAGAT-AAGACTTGTAACTTCAATCTGCCCCACTGAAACTTCA-GGGG
55591744 CAAGATTAGT
Statistics
Matches: 253, Mismatches: 43, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
179 2 0.01
180 34 0.13
181 69 0.27
182 102 0.40
183 14 0.06
184 32 0.13
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (182 bp):
TAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCACT
GCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCCACTGAAACTTCAGGGGAGATAAGA
TTTGATATAACCTACTCCACTAAAACTTCAAAGAGATAAGATCTGTAATTTA
Found at i:55599840 original size:17 final size:18
Alignment explanation
Indices: 55599797--55599840 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
55599787 AGAGGTTACA
*
55599797 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
55599815 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
55599832 ATAAATATT
1 ATAAATATT
55599841 TGAAAACGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:55599927 original size:171 final size:171
Alignment explanation
Indices: 55599642--55600259 Score: 1015
Period size: 171 Copynumber: 3.6 Consensus size: 171
55599632 ACCCATTCAT
* *
55599642 TTATAGTTATTGGAACACTATAAATATTTAAAAATGTTGC-AGTGATTCATTCATTTCCCTAAAC
1 TTATAGTTATTGGAACACTATAAATATTTAAAAACGTT-CTAGTGATTCATTCATTTCCCAAAAC
* * *
55599706 AAAGGTCTGAAATCTAAACTT-AGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTAAG
65 AAAGGTCCGAAATCCAAACTTCA-AACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATG
* *
55599770 ATGAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
129 ACGCAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
*
55599813 TTATAGTTATTGGAACACTATAAATATTTGAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
1 TTATAGTTATTGGAACACTATAAATATTTAAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
*
55599878 AAGGTCCGAAATCTAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAC
66 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAC
55599943 GCAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
131 GCAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
*
55599984 TTATAGTTATTGGAACACTATAAATATTTAAAAACGTTCTAGTGATCCATTCATTTCCCAAAACA
1 TTATAGTTATTGGAACACTATAAATATTTAAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
*
55600049 ATGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAC
66 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAC
*
55600114 GCAAATAATATTACGAGAGGTTACAATTAGTATTGGAACAC
131 GCAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
* * * * * ** *
55600155 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTCCAGTAATTCATTTATTTCCTTAAACG
1 TTATAGTTATTGGAACACTATAAATATTTAAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
*
55600220 AAGGTCCGAAATCCAAACTTCAAATTAAAAATAAATTGTA
66 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTA
55600260 CTCCATGCCG
Statistics
Matches: 422, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
170 1 0.00
171 420 1.00
172 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (171 bp):
TTATAGTTATTGGAACACTATAAATATTTAAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAC
GCAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
Found at i:55600011 original size:17 final size:18
Alignment explanation
Indices: 55599968--55600011 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
55599958 AGAGGTTACA
*
55599968 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
55599986 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
55600003 ATAAATATT
1 ATAAATATT
55600012 TAAAAACGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:55600182 original size:17 final size:18
Alignment explanation
Indices: 55600144--55600182 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
55600134 TTACAATTAG
**
55600144 TATTGGAACACTTATAGT
1 TATTGGAACACTTATAAA
55600162 TATTGGAACAC-TATAAA
1 TATTGGAACACTTATAAA
55600179 TATT
1 TATT
55600183 TGAAAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (18 bp):
TATTGGAACACTTATAAA
Found at i:55609122 original size:27 final size:28
Alignment explanation
Indices: 55609070--55609122 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
55609060 GGCTTGTCTC
* *
55609070 TAATTTGGTCACCCCAATTTTATTTTTT
1 TAATTTGGTCACCCAAAATTTATTTTTT
55609098 TAATTTGGTCACCCAAAATTT-TTTT
1 TAATTTGGTCACCCAAAATTTATTTT
55609123 ATCAAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.51
Consensus pattern (28 bp):
TAATTTGGTCACCCAAAATTTATTTTTT
Found at i:55609130 original size:28 final size:28
Alignment explanation
Indices: 55609071--55609136 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
55609061 GCTTGTCTCT
* * **
55609071 AATTTGGTCACCCCAATTTTATTTTTTT
1 AATTTGGTCACCCAAATTTTATTTATCA
55609099 AATTTGGTCACCCAAAATTTT-TTTATCA
1 AATTTGGTCACCC-AAATTTTATTTATCA
55609127 AATTT-GTCAC
1 AATTTGGTCAC
55609137 TCCACTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.15
28 22 0.67
29 6 0.18
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (28 bp):
AATTTGGTCACCCAAATTTTATTTATCA
Found at i:55609782 original size:22 final size:22
Alignment explanation
Indices: 55609757--55609833 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
55609747 CCAAAATATT
55609757 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
55609779 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
55609803 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
55609825 ATCTCCTAA
1 ATCTCCTAA
55609834 TTAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:55609811 original size:46 final size:46
Alignment explanation
Indices: 55609744--55609838 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
55609734 ACAAAGATAG
55609744 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
55609790 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
55609836 AAA
1 AAA
55609839 AGAAAATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:55614354 original size:22 final size:22
Alignment explanation
Indices: 55614329--55614405 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
55614319 CCAAAATATT
55614329 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
55614351 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
55614375 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
55614397 ATCTCCTAA
1 ATCTCCTAA
55614406 TTAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:55614369 original size:46 final size:46
Alignment explanation
Indices: 55614316--55614410 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
55614306 ACAAAGATAG
55614316 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
55614362 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
55614408 AAA
1 AAA
55614411 AGAAAATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Done.