Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 181 of 316
Found at i:58388365 original size:54 final size:54
Alignment explanation
Indices: 58388191--58388366 Score: 171
Period size: 54 Copynumber: 3.3 Consensus size: 54
58388181 AATACTTTAG
* * * * * *
58388191 TTTACCAAATTACTGAAATACCCCCAGA--TATAAAATTACCAAAGTACCCCCGG
1 TTTACAAAATTACTAAAATACCCTC-GACTTGTAAAATTACCAAAGTACCCTCGA
* ** * *
58388244 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAA-TACCCTC-A
1 TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCTCGA
* *
58388297 GTTTGCAAAATTACTAAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCGA
1 -TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
*
58388352 ATTACAAAATTACTA
1 TTTACAAAATTACTA
58388367 TTTTACCCTC
Statistics
Matches: 99, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.02
53 22 0.22
54 71 0.72
55 4 0.04
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.28
Consensus pattern (54 bp):
TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
Found at i:58388397 original size:27 final size:27
Alignment explanation
Indices: 58388343--58388807 Score: 570
Period size: 27 Copynumber: 17.2 Consensus size: 27
58388333 ATTATCAAAG
* *
58388343 TACCCTCGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
58388370 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
58388397 TACCCTCAATTGACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
58388424 TACCCTCGATTGATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
58388451 TACCCTCGATTTATAGAATTACTGTTC
1 TACCCTCGATTTACAAAATTACTGTTT
* *
58388478 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
**
58388505 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
58388532 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
58388559 TACCCTCAATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
58388586 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
58388613 TACCCTCGATTTACAAAAATTACTGTTT
1 TACCCTCGATTTAC-AAAATTACTGTTT
* **
58388641 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
58388668 TACCCTTGATTAACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
58388695 TACCTTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
58388722 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
58388749 TACCCTCGGTTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * **
58388776 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
58388803 TACCC
1 TACCC
58388808 CTAGGGTGTT
Statistics
Matches: 389, Mismatches: 48, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
27 364 0.94
28 25 0.06
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:58389174 original size:27 final size:26
Alignment explanation
Indices: 58389134--58389193 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
58389124 CCACATATAT
* *
58389134 ATATCTATTCTGGTGGCCTAGGCACA
1 ATATCTGTTCTGGTGACCTAGGCACA
* * *
58389160 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGGCACA
58389187 ATATCTG
1 ATATCTG
58389194 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGGCACA
Found at i:58389350 original size:31 final size:31
Alignment explanation
Indices: 58389312--58389391 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
58389302 TTGCATTCAC
*
58389312 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTATCACCTGATACTG
* * *
58389343 ATTCTGATTTTGATTCTGTCACTTGATTCTG
1 ATTCTGATTTTGATTCTATCACCTGATACTG
**
58389374 ATTCTGATCCTGATTCTA
1 ATTCTGATTTTGATTCTA
58389392 GTTCTGATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATCACCTGATACTG
Found at i:58389351 original size:6 final size:6
Alignment explanation
Indices: 58389312--58389399 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
58389302 TTGCATTCAC
* * *
58389312 ATTCTG ATTTTG ATTCT- ATTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
58389361 -TCACTTG ATTCTG ATTCTG ATCCTG ATTCT- AGTTCTG AT
1 AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
58389400 ATTGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 5 0.08
6 50 0.78
7 6 0.09
8 3 0.05
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:58391129 original size:43 final size:43
Alignment explanation
Indices: 58391060--58391193 Score: 155
Period size: 43 Copynumber: 3.1 Consensus size: 43
58391050 TACGTCTAAA
* * *
58391060 ACCATATCTGGGATA-TGGCATCGATATGAGACTTCATGTACG
1 ACCATAACTAGGATATTGGCATCGATATGAGACTTCATGTAAG
* * *
58391102 ACCATAACTAGGCTATTGGCATAGATATGAGACTTTATGTAAG
1 ACCATAACTAGGATATTGGCATCGATATGAGACTTCATGTAAG
* * * *
58391145 ACCATAGCTGGGATATTGGCATCGATACGA-AATTACATGTAAG
1 ACCATAACTAGGATATTGGCATCGATATGAGACTT-CATGTAAG
58391188 ACCATA
1 ACCATA
58391194 TAAGGGATAT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 15 0.19
43 62 0.81
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (43 bp):
ACCATAACTAGGATATTGGCATCGATATGAGACTTCATGTAAG
Found at i:58392283 original size:16 final size:17
Alignment explanation
Indices: 58392253--58392285 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
58392243 ATGCATGGTG
58392253 AATGTGAATTGTTTGCA
1 AATGTGAATTGTTTGCA
*
58392270 AATGT-AATTTTTTGCA
1 AATGTGAATTGTTTGCA
58392286 TGAATATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.45
Consensus pattern (17 bp):
AATGTGAATTGTTTGCA
Found at i:58398301 original size:23 final size:22
Alignment explanation
Indices: 58398273--58398329 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
58398263 TTCAGCTCAT
58398273 TAGAGCTTACCGTATCAAC-TCA
1 TAGAGCTTACCGT-TCAACTTCA
* *
58398295 TATGAGCTTACTGTTCAACTTGA
1 TA-GAGCTTACCGTTCAACTTCA
58398318 TAGAGCTTACCG
1 TAGAGCTTACCG
58398330 GTTTAGCTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (22 bp):
TAGAGCTTACCGTTCAACTTCA
Found at i:58398323 original size:22 final size:22
Alignment explanation
Indices: 58398268--58398329 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
58398258 CTGTTTTCAG
58398268 CTCATTAGAGCTTACCGTATCAA
1 CTCA-TAGAGCTTACCGTATCAA
*
58398291 CTCATATGAGCTTACTGT-TCAA
1 CTCATA-GAGCTTACCGTATCAA
*
58398313 CTTGATAGAGCTTACCG
1 C-TCATAGAGCTTACCG
58398330 GTTTAGCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 16 0.47
23 18 0.53
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (22 bp):
CTCATAGAGCTTACCGTATCAA
Found at i:58402881 original size:10 final size:10
Alignment explanation
Indices: 58402868--58402906 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
58402858 ATATGTGAAT
58402868 ATATCATGGC
1 ATATCATGGC
58402878 ATATCATGTGC
1 ATATCATG-GC
58402889 ATATCATGGC
1 ATATCATGGC
58402899 ATATCATG
1 ATATCATG
58402907 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:58402894 original size:21 final size:21
Alignment explanation
Indices: 58402868--58402907 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
58402858 ATATGTGAAT
58402868 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
58402889 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
58402908 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:58406992 original size:39 final size:39
Alignment explanation
Indices: 58406948--58407026 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
58406938 TTGCTAAAAG
58406948 AAAAACAATGACAATTGAGAGGCTTCCTAGCTAGGTTGA
1 AAAAACAATGACAATTGAGAGGCTTCCTAGCTAGGTTGA
58406987 AAAAACAATGACAATTGAGAGGCTTCCTAGCTAGGTTGA
1 AAAAACAATGACAATTGAGAGGCTTCCTAGCTAGGTTGA
58407026 A
1 A
58407027 TGACTAACCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (39 bp):
AAAAACAATGACAATTGAGAGGCTTCCTAGCTAGGTTGA
Found at i:58424520 original size:26 final size:26
Alignment explanation
Indices: 58424456--58424552 Score: 95
Period size: 26 Copynumber: 3.7 Consensus size: 26
58424446 CCATAGATCG
* * **
58424456 CCACAAAGGCTTCGATTTCATATATTG
1 CCACAAAGGCTTCCATTTCAGATA-CA
* * *
58424483 CCACAAAAGCTTTCATTTCGGATACA
1 CCACAAAGGCTTCCATTTCAGATACA
*
58424509 CCACAAAGGCTTCCATTTCAGATACC
1 CCACAAAGGCTTCCATTTCAGATACA
**
58424535 CCACAAAGATTTCCATTT
1 CCACAAAGGCTTCCATTT
58424553 TCTGACGTGT
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
26 38 0.67
27 19 0.33
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.29
Consensus pattern (26 bp):
CCACAAAGGCTTCCATTTCAGATACA
Found at i:58424748 original size:49 final size:50
Alignment explanation
Indices: 58424663--58424760 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 50
58424653 CTTTTAGTTC
* * * *
58424663 TTTCCATATGATGCCCTAACCCACCAATTATAGTCTT-CACGATATGGTA
1 TTTCCATAAGATGCCATAACCCACCAACTACAGTCTTACACGATATGGTA
* * * *
58424712 TTTCCATAAGATGCCATAGCCCGCCAACTACGGTCTTACATGATATGGT
1 TTTCCATAAGATGCCATAACCCACCAACTACAGTCTTACACGATATGGT
58424761 GCAATAGACT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
49 30 0.75
50 10 0.25
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (50 bp):
TTTCCATAAGATGCCATAACCCACCAACTACAGTCTTACACGATATGGTA
Found at i:58426279 original size:47 final size:48
Alignment explanation
Indices: 58426199--58426317 Score: 129
Period size: 47 Copynumber: 2.5 Consensus size: 48
58426189 AAGCCTGTAG
* * *
58426199 AAGA-CATGTCTGGGACAT-GCATCGACTACGAGATGAT-AGTTAGTGT
1 AAGACCATGTCTGGGACATGGCATCAACTACGAGAT-ATAAGCTAGCGT
* * *
58426245 AAGACCATGTCTAGGACATGGCATCAAC-ATGAGATTTAAGCTAGCGT
1 AAGACCATGTCTGGGACATGGCATCAACTACGAGATATAAGCTAGCGT
* *
58426292 AGGACCGTGTCTGGGACATGGCATCA
1 AAGACCATGTCTGGGACATGGCATCA
58426318 GCTCTTTACC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
46 5 0.08
47 49 0.80
48 7 0.11
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
AAGACCATGTCTGGGACATGGCATCAACTACGAGATATAAGCTAGCGT
Found at i:58429534 original size:25 final size:25
Alignment explanation
Indices: 58429493--58429543 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
58429483 TGAGAAATAG
*
58429493 TTGAGAAAATGACATGAAGCTTACT
1 TTGAGAAAAGGACATGAAGCTTACT
*
58429518 TTGAGAAAAGGATATGAAGCTTACT
1 TTGAGAAAAGGACATGAAGCTTACT
58429543 T
1 T
58429544 AGCTTTAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (25 bp):
TTGAGAAAAGGACATGAAGCTTACT
Found at i:58433734 original size:46 final size:45
Alignment explanation
Indices: 58433676--58433847 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
58433666 GGGTTATTGT
* **
58433676 GGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA
1 GGGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACAAGATGA
* *
58433722 GGGCCAGTGTAAGACTATGTCTGGGACATGGCATTGGCATCAAGATG-
1 GGGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGCCA-CAAGATGA
* * *
58433769 GGTGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCAAGATGTA
1 GG-GCCAGTGTAAGACATGTCTGGGACATGCATCG-CCACAAGATG-A
* *
58433817 -AGCCTGTGTAAGACATGTCTGGGACATGCAT
1 GGGCCAGTGTAAGACATGTCTGGGACATGCAT
58433848 TGGCTACGAG
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
46 53 0.50
47 31 0.30
48 21 0.20
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
GGGCCAGTGTAAGACATGTCTGGGACATGCATCGCCACAAGATGA
Found at i:58433860 original size:46 final size:45
Alignment explanation
Indices: 58433682--58433897 Score: 152
Period size: 46 Copynumber: 4.6 Consensus size: 45
58433672 TTGTGGGCTA
* * ** * *
58433682 GTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGGGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGA-AGCCT
* * *
58433728 GTGTAAGACTATGTCTGGGACATGGCATTGGC-ATCAAGATG-GGTGCT
1 GTGTAAGAC-ATGTCTGGGACAT-GCATCGGCTA-CAAGATGAAG-CCT
* *
58433775 AGTGTAAGACATGTCTAGGACATGCATCGACCT-CAAGATGTAAGCCT
1 -GTGTAAGACATGTCTGGGACATGCATCG-GCTACAAGATG-AAGCCT
* * *
58433822 GTGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGATAG-TT
1 GTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGA-AGCCT
* *
58433867 AGTGTGAGACCATGTCTAGGACATGGCATCG
1 -GTGTAAGA-CATGTCTGGGACAT-GCATCG
58433898 ACATGAGATA
Statistics
Matches: 137, Mismatches: 19, Indels: 26
0.75 0.10 0.14
Matches are distributed among these distances:
45 4 0.03
46 64 0.47
47 43 0.31
48 26 0.19
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAAGCCT
Found at i:58433884 original size:93 final size:95
Alignment explanation
Indices: 58433678--58433942 Score: 255
Period size: 94 Copynumber: 2.8 Consensus size: 95
58433668 GTTATTGTGG
* * ** * *
58433678 GCTAGTGTAAGACATGTCTGGGACAT-GCATC-AGCCACATTATG-AGGGCCAGTGTAAGACTAT
1 GCTAGTGTAAGACATGTCTAGGACATGGCATCGA-CCTCAAGATGTA-AGCCTGTGTAAGACTAT
*
58433740 GTCTGGGACATGGCATTGGCATCAAGATGGGT
64 GTCTGGGACATGGCATTGGCATCAAGATGGAT
58433772 GCTAGTGTAAGACATGTCTAGGACAT-GCATCGACCTCAAGATGTAAGCCTGTGTAAGAC-ATGT
1 GCTAGTGTAAGACATGTCTAGGACATGGCATCGACCTCAAGATGTAAGCCTGTGTAAGACTATGT
*
58433835 CTGGGACAT-GCATTGGC-TACGAGAT-GAT
66 CTGGGACATGGCATTGGCAT-CAAGATGGAT
* * * * * *
58433863 AGTTAGTGTGAGACCATGTCTAGGACATGGCATCGACAT-GAGATATGAA--CTAGTGTAAGACC
1 -GCTAGTGTAAGA-CATGTCTAGGACATGGCATCGACCTCAAGATGT-AAGCCT-GTGTAAGACT
*
58433925 GTGTCTGGGACATGGCAT
62 ATGTCTGGGACATGGCAT
58433943 CGGCTCCTTA
Statistics
Matches: 147, Mismatches: 14, Indels: 19
0.82 0.08 0.11
Matches are distributed among these distances:
91 3 0.02
92 25 0.17
93 41 0.28
94 72 0.49
95 6 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTAGGACATGGCATCGACCTCAAGATGTAAGCCTGTGTAAGACTATGT
CTGGGACATGGCATTGGCATCAAGATGGAT
Found at i:58433906 original size:47 final size:46
Alignment explanation
Indices: 58433678--58433944 Score: 149
Period size: 47 Copynumber: 5.7 Consensus size: 46
58433668 GTTATTGTGG
* * **
58433678 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAT--TATGA-GG
1 GCTAGTGTAAGACATGTCTAGGACATGCATC-G--ACATGAGATGATAA
* * * * * *
58433724 GCCAGTGTAAGACTATGTCTGGGACATGGCATTGGCATCAAGATGGGT--
1 GCTAGTGTAAGAC-ATGTCTAGGACAT-GCATCGACAT-GAGAT-GATAA
* *
58433772 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCAAGATG-TAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACAT-GAGATGATAA
* * * *
58433818 GCCT-GTGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGAT-A
1 G-CTAGTGTAAGACATGTCTAGGACATGCATCGAC-ATGAGATGATAA
* *
58433864 GTTAGTGTGAGACCATGTCTAGGACATGGCATCGACATGAGAT-ATGAA
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGACATGAGATGAT-AA
* *
58433912 -CTAGTGTAAGACCGTGTCTGGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCG
58433945 GCTCCTTACC
Statistics
Matches: 178, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
44 1 0.01
45 5 0.03
46 69 0.39
47 77 0.43
48 25 0.14
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGACATGAGATGATAA
Found at i:58437547 original size:21 final size:21
Alignment explanation
Indices: 58437494--58437547 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
58437484 TTTTCACGGT
* * *
58437494 AAAATAAATTTTATATATTTT
1 AAAATTAATTTTATATATCTA
* **
58437515 AAATTTTGTTTTATATATCTA
1 AAAATTAATTTTATATATCTA
58437536 AAAATTAATTTT
1 AAAATTAATTTT
58437548 GAAAGTTTTT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
AAAATTAATTTTATATATCTA
Found at i:58438018 original size:58 final size:56
Alignment explanation
Indices: 58437932--58438053 Score: 147
Period size: 58 Copynumber: 2.1 Consensus size: 56
58437922 TTTTAAGACT
* * * * *
58437932 TGAACTTAGCAACTTTTTCCACAATGGGGTTTCAATTTTTTTTGTTCAAATTAGGTCC
1 TGAACTTGGCAACTTGTTCCACAATGGGGCTT-AAATTTTTTT-TTCAAATTAGGCCC
* *
58437990 TGAACTTGGCAA-TTGTTCTCACATTGGGGCTTAAATTTTTTTTTCAAGTTAGGCCC
1 TGAACTTGGCAACTTGTTC-CACAATGGGGCTTAAATTTTTTTTTCAAATTAGGCCC
58438046 TGAACTTG
1 TGAACTTG
58438054 ATAAATATTC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 20 0.36
57 14 0.25
58 22 0.39
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (56 bp):
TGAACTTGGCAACTTGTTCCACAATGGGGCTTAAATTTTTTTTTCAAATTAGGCCC
Found at i:58438049 original size:56 final size:58
Alignment explanation
Indices: 58437932--58438085 Score: 161
Period size: 56 Copynumber: 2.7 Consensus size: 58
58437922 TTTTAAGACT
* * * * * *
58437932 TGAACTTAGCAACTTTTTC-CACAATGGGGTTTCAATTTTTTTTGTTCAAATTAGGTCC
1 TGAACTTGGCAA-TTATTCTCACATTGGGGCTTCAAATTTTTTTGTTCAAATTAGGCCC
* *
58437990 TGAACTTGGCAATTGTTCTCACATTGGGGCTT-AAATTTTTTT-TTCAAGTTAGGCCC
1 TGAACTTGGCAATTATTCTCACATTGGGGCTTCAAATTTTTTTGTTCAAATTAGGCCC
** * * *
58438046 TGAACTTGATAAATATTCTCATATTGGGACTTCAAATTTT
1 TGAACTTGGCAATTATTCTCACATTGGGGCTTCAAATTTT
58438086 CTTTATCCAA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
56 38 0.47
57 21 0.26
58 22 0.27
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (58 bp):
TGAACTTGGCAATTATTCTCACATTGGGGCTTCAAATTTTTTTGTTCAAATTAGGCCC
Found at i:58441514 original size:25 final size:26
Alignment explanation
Indices: 58441454--58441502 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
58441444 ATTTGTTTTA
58441454 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATGTTTTTAAAT
58441478 ATATTTGATTTATTATGTTTTTAAA
1 ATATTTGATTTATTATGTTTTTAAA
58441503 ATTTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATGTTTTTAAAT
Found at i:58443752 original size:140 final size:139
Alignment explanation
Indices: 58443492--58443841 Score: 370
Period size: 140 Copynumber: 2.5 Consensus size: 139
58443482 TGTTGCTTCT
* * * * *
58443492 AACTTGAAGTAACATAAAAT-AAAAATACAAATATGAGTAGTAAAGGAATTGAACTTGAGACT-A
1 AACTTGAAGCAACATGAAATAAAAAATACAAATATGAGTAGGAAA-GAATTGAACCTAAGACTCA
* * *
58443555 AGGATGTAATTGTAATTATATAACCATCCAACGAAAGAACTAGTATATTAAAGAAAAAATTTAAA
65 AGGATGTAATTGCAACTATATAACCATCCAACGAAAGAACTAATATATTAAAGAAAAAA-TT--A
58443620 ATTAAAA-AAAAA
127 ATTAAAATAAAAA
* *
58443632 AACTTGAAGCAACATGAAATAAAAAATATAAATATAAGTAGGAAAGAATTTGAACCTAAGACTCA
1 AACTTGAAGCAACATGAAATAAAAAATACAAATATGAGTAGGAAAGAA-TTGAACCTAAGACTCA
* * * * * *
58443697 AGGATGTATTTGCAACTATCTAACCATCTAACTAAAGAACTAATATGTT-TA-AAAAAATTAATT
65 AGGATGTAATTGCAACTATATAACCATCCAACGAAAGAACTAATATATTAAAGAAAAAATTAATT
*
58443760 AAAATTTTAAAA
130 AAAA--TAAAAA
* * * ** *
58443772 AGCCTGAAGCAACATGAAATAAAAAATACAAATGTGAGTA-GAAGAGAAATCAAACCCAAGACTC
1 AACTTGAAGCAACATGAAATAAAAAATACAAATATGAGTAGGAA-AG-AATTGAACCTAAGACTC
58443836 AAGGAT
64 AAGGAT
58443842 AGAAACATTA
Statistics
Matches: 177, Mismatches: 25, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
137 8 0.05
139 5 0.03
140 86 0.49
141 36 0.20
142 42 0.24
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (139 bp):
AACTTGAAGCAACATGAAATAAAAAATACAAATATGAGTAGGAAAGAATTGAACCTAAGACTCAA
GGATGTAATTGCAACTATATAACCATCCAACGAAAGAACTAATATATTAAAGAAAAAATTAATTA
AAATAAAAA
Found at i:58446725 original size:79 final size:81
Alignment explanation
Indices: 58446589--58446773 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
58446579 TTGAATGATG
* *
58446589 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
58446653 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * **
58446668 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
58446730 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
58446748 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58446774 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:58446787 original size:40 final size:40
Alignment explanation
Indices: 58446590--58446773 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
58446580 TGAATGATGT
* * * *
58446590 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
58446630 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
58446670 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
58446708 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
58446749 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
58446774 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:58446795 original size:79 final size:79
Alignment explanation
Indices: 58446590--58446806 Score: 192
Period size: 79 Copynumber: 2.7 Consensus size: 79
58446580 TGAATGATGT
** * * * ** *
58446590 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-AAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCAAT
*
58446653 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** *
58446670 CCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
*
58446735 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * * *
58446749 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACAAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
58446807 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 72 0.62
80 41 0.35
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
GCGAGATACTAATA
Found at i:58453656 original size:39 final size:40
Alignment explanation
Indices: 58453613--58453780 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
58453603 CTCGTTCAAG
* * * *
58453613 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
58453652 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
58453692 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
58453732 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
58453772 TGCCTTCGG
1 TGCCTTCGG
58453781 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:58453764 original size:80 final size:80
Alignment explanation
Indices: 58453648--58453833 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
58453638 AGTAACTCAT
* * *
58453648 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
58453712 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
58453727 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
58453791 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
58453808 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
58453834 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:58453793 original size:40 final size:40
Alignment explanation
Indices: 58453650--58453833 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
58453640 TAACTCATAC
* *
58453650 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
58453690 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
58453730 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
58453770 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
58453811 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
58453834 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:58457807 original size:79 final size:81
Alignment explanation
Indices: 58457671--58457855 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
58457661 TTGAATGATG
* *
58457671 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
58457735 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * **
58457750 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
58457812 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
58457830 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58457856 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:58457869 original size:40 final size:41
Alignment explanation
Indices: 58457671--58457855 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
58457661 TTGAATGATG
* * *
58457671 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
58457711 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
58457751 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
58457790 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
58457831 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58457856 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:58457878 original size:79 final size:79
Alignment explanation
Indices: 58457724--58457888 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
58457714 GGACTAAGAT
* * **
58457724 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAA
* *
58457789 ATCCGGGTTAAGTC
66 ATCCGAGTTAAATC
* * *
58457803 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACAAGTTA-C
* *
58457866 TATATCC-AGTTAAATT
63 TAAATCCGAGTTAAATC
58457882 CCGAAGG
1 CCGAAGG
58457889 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAA
ATCCGAGTTAAATC
Found at i:58462012 original size:40 final size:40
Alignment explanation
Indices: 58461964--58462151 Score: 340
Period size: 40 Copynumber: 4.7 Consensus size: 40
58461954 GCAAACACAT
* * *
58461964 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
58462004 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
58462044 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
58462084 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
58462124 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
58462152 TCCAATGCTC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:58470664 original size:40 final size:40
Alignment explanation
Indices: 58470616--58470803 Score: 340
Period size: 40 Copynumber: 4.7 Consensus size: 40
58470606 GCAAACACAT
* * *
58470616 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
58470656 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
58470696 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
58470736 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
58470776 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
58470804 TCCAATGCTC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:58473433 original size:28 final size:28
Alignment explanation
Indices: 58473368--58473518 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
58473358 GAGATTGGCG
* * * *
58473368 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
58473397 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
58473425 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
58473453 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
58473481 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
58473508 CTGAGTGTGCG
1 CTAAGTGTGCG
58473519 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.21
28 74 0.65
29 15 0.13
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:58476080 original size:27 final size:27
Alignment explanation
Indices: 58476061--58476244 Score: 201
Period size: 27 Copynumber: 6.8 Consensus size: 27
58476051 ATTACCAAAG
* *
58476061 TACCCCCGATTTATAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
58476088 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
58476115 TACCCTCGATTTATAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
58476142 TACCCCTCGATTTACAGAATTATCGTTT
1 TACCCC-CGATTTACAGAATTACCATTT
* * *
58476170 TACCCTCGATTTACAGAATTGCCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
*
58476197 TACCCTCGA-TTACAGAATTA-CAGTTT
1 TACCCCCGATTTACAGAATTACCA-TTT
** *
58476223 TACCCTTGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
58476245 TAAAATACCC
Statistics
Matches: 138, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
25 1 0.01
26 21 0.15
27 93 0.67
28 23 0.17
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:58476169 original size:82 final size:81
Alignment explanation
Indices: 58476061--58476244 Score: 275
Period size: 82 Copynumber: 2.3 Consensus size: 81
58476051 ATTACCAAAG
*
58476061 TACCCC-CGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
1 TACCCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGA-
*
58476125 TTATAGAATTACCA-TTT
65 TTACAGAATTA-CAGTTT
* *
58476142 TACCCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTGCCGTTTTACCCTCGAT
1 TACCCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
58476207 TACAGAATTACAGTTT
66 TACAGAATTACAGTTT
* *
58476223 TA-CCCTTGATTTACAAAATTAC
1 TACCCCTCGATTTACAGAATTAC
58476245 TAAAATACCC
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
80 19 0.20
81 21 0.22
82 54 0.57
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (81 bp):
TACCCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
TACAGAATTACAGTTT
Found at i:58476173 original size:55 final size:53
Alignment explanation
Indices: 58476061--58476244 Score: 262
Period size: 55 Copynumber: 3.4 Consensus size: 53
58476051 ATTACCAAAG
* *
58476061 TACCCCCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTA-CGTTT
* *
58476115 TACCCTCGATTTATAGAATTACCATTTTACCCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTA-CCCTCGATTTACAGAATTA-CGTTT
*
58476170 TACCCTCGATTTACAGAATTGCCGTTTTACCCTCGA-TTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTAC-GTTT
* *
58476223 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
58476245 TAAAATACCC
Statistics
Matches: 119, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 34 0.29
54 34 0.29
55 50 0.42
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (53 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACGTTT
Found at i:58476253 original size:27 final size:27
Alignment explanation
Indices: 58476223--58476391 Score: 180
Period size: 27 Copynumber: 6.3 Consensus size: 27
58476213 ATTACAGTTT
* *
58476223 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
*
58476250 TACCCTTGGTTTATAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
58476277 TACCC-TCAATTAGTAAAATTACCAAAA
1 TACCCTTGATTTA-TAAAATTACCAAAA
* * * *
58476304 TACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
58476331 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
58476358 TACCATTGATTTGTAAAA-TACCGAAA
1 TACCCTTGATTTATAAAATTACCAAAA
58476384 TACCCTTG
1 TACCCTTG
58476392 TAGGGTAGAA
Statistics
Matches: 123, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 18 0.15
27 102 0.83
28 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACCAAAA
Found at i:58476323 original size:81 final size:80
Alignment explanation
Indices: 58476237--58476388 Score: 232
Period size: 81 Copynumber: 1.9 Consensus size: 80
58476227 CTTGATTTAC
* *
58476237 AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCAATTAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCATCAATTAGTAAAA-TACCAA
58476302 AATACCCCTGGTTTGT
65 AATACCCCTGGTTTGT
* ** * *
58476318 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTGATTTGTAAAATACCGAA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCATCAATTAGTAAAATACCAAA
58476383 ATACCC
66 ATACCC
58476389 TTGTAGGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 12 0.19
81 52 0.81
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCATCAATTAGTAAAATACCAAA
ATACCCCTGGTTTGT
Found at i:58476418 original size:27 final size:27
Alignment explanation
Indices: 58476380--58476619 Score: 245
Period size: 27 Copynumber: 8.9 Consensus size: 27
58476370 GTAAAATACC
58476380 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
** *
58476407 GAAATACCCTTGTATAGTAGAAATAC-
1 GAAATACCCTTGTAGGGTAGAATTACT
*
58476433 GAAATA-CCTCTGTAGGGTAGAATTATT
1 GAAATACCCT-TGTAGGGTAGAATTACT
*
58476460 GAAATACCCCTT-TAAGGTAGAATTA-T
1 GAAATA-CCCTTGTAGGGTAGAATTACT
*
58476486 CGAAATACCCCTGTAGGGTAGAATTACT
1 -GAAATACCCTTGTAGGGTAGAATTACT
* * * *
58476514 AAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
58476541 GAAATACCCTTGTAGGGCAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
58476568 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* * * *
58476595 GAGATACCCATGTGGGGTAAAATTA
1 GAAATACCCTTGTAGGGTAGAATTA
58476620 TCATTTTGCC
Statistics
Matches: 179, Mismatches: 27, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
25 3 0.02
26 23 0.13
27 148 0.83
28 2 0.01
29 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACT
Found at i:58476500 original size:54 final size:54
Alignment explanation
Indices: 58476376--58476619 Score: 305
Period size: 54 Copynumber: 4.5 Consensus size: 54
58476366 ATTTGTAAAA
* * *
58476376 TACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTATA-GTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTA-AGGTAGAAT
* * *
58476430 TA-CGAAATACCTCTGTAGGGTAGAATTATTGAAATACCCCTTTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
* *
58476483 TATCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
* * * *
58476537 TACCGAAATACCCTTGTAGGGCAGAAATACCGAAATACCCCTGT-AGGATAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGG-TAGAAT
* * * *
58476591 TACCGAGATACCCATGTGGGGTAAAATTA
1 TACCGAAATACCCCTGTAGGGTAGAATTA
58476620 TCATTTTGCC
Statistics
Matches: 165, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
52 1 0.01
53 48 0.29
54 116 0.70
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
Found at i:58476602 original size:81 final size:81
Alignment explanation
Indices: 58476376--58476603 Score: 273
Period size: 81 Copynumber: 2.8 Consensus size: 81
58476366 ATTTGTAAAA
* * * *
58476376 TACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTA-TAGTAGAAATA-CGAAATA
1 TACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGA-TAGAATTACCGAAATA
* *
58476439 CCTCTGTAGGGTAGAAT
65 CCCCTGTAAGGTAGAAT
** * * * **
58476456 TATTGAAATACCCCTT-TAAGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTAAAATA
1 TACCGAAATA-CCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATA
58476520 CCCCTGTAAGGTAGAAT
65 CCCCTGTAAGGTAGAAT
* * *
58476537 TACCGAAATACCCTTGTAGGGCAGAAATACCGAAATACCCCTGTAGGATAGAATTACCGAGATAC
1 TACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATAC
58476602 CC
66 CC
58476604 ATGTGGGGTA
Statistics
Matches: 121, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
80 45 0.37
81 76 0.63
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
TACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATAC
CCCTGTAAGGTAGAAT
Found at i:58476784 original size:16 final size:16
Alignment explanation
Indices: 58476763--58476793 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58476753 CAAATATGGG
58476763 CATGACATTCTGCATA
1 CATGACATTCTGCATA
*
58476779 CATGACATTTTGCAT
1 CATGACATTCTGCAT
58476794 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (16 bp):
CATGACATTCTGCATA
Found at i:58476910 original size:24 final size:25
Alignment explanation
Indices: 58476826--58476919 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
58476816 AGGAAGTGCT
*
58476826 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
58476851 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
58476876 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
58476900 AAAAGGTCTTTTCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
58476920 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 18 0.28
25 47 0.72
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:58476926 original size:23 final size:24
Alignment explanation
Indices: 58476826--58476932 Score: 126
Period size: 25 Copynumber: 4.4 Consensus size: 24
58476816 AGGAAGTGCT
* *
58476826 AAAAGGGCTTTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
58476850 GAAAAGGGCTTTGCCCCAGTTTACC
1 -AAAAGGGCTTTGCCCCAGTTTATC
58476875 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* * *
58476900 AAAAGGTCTTTTCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
58476923 AAAAGAGGCT
1 AAAAG-GGCT
58476933 AGGCCTCTAG
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.12
24 19 0.25
25 47 0.63
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:58482640 original size:40 final size:40
Alignment explanation
Indices: 58482542--58482759 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
58482532 AAGCCAAGTA
* * *
58482542 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
58482580 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58482620 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58482660 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58482700 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
*
58482741 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58482760 TTATCATCCA
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 12 0.08
39 17 0.11
40 104 0.65
41 22 0.14
42 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58484983 original size:15 final size:15
Alignment explanation
Indices: 58484959--58485006 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
58484949 AGGAAACCGA
58484959 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
58484974 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
58484988 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
58485004 ATA
1 ATA
58485007 CGATACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:58488091 original size:93 final size:93
Alignment explanation
Indices: 58487932--58488102 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
58487922 GCCCCTAAGT
* *
58487932 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAGGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
58487997 CGAGTTTGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* **
58488025 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTGGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
58488090 CGAGTTCGGATGC
66 CGAGTTCGGATGC
58488103 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:58488099 original size:46 final size:46
Alignment explanation
Indices: 58487927--58488099 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
58487917 AACCCGCCCC
* *
58487927 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * * * *
58487973 TAGGTGAACTCAGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
58488021 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
58488066 TAAGTGAACTGGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58488100 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 57 0.56
47 27 0.27
48 1 0.01
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:58499471 original size:3 final size:3
Alignment explanation
Indices: 58499463--58499669 Score: 60
Period size: 3 Copynumber: 67.3 Consensus size: 3
58499453 AATAGGGGTG
*
58499463 ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CATA CAT- ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA ATA -ATA
* * *
58499510 ATA ATA ATA GTA GTCA GA-A ATA A-A A-A ATA ATA A-A AGTA ACA ATA
1 ATA ATA ATA ATA AT-A -ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
* * * * **
58499554 ATG ATA GTA ATA AT- ATAA ATA A-A TATGG AGA GGA CATA TATA AT-
1 ATA ATA ATA ATA ATA AT-A ATA ATA -AT-A ATA ATA -ATA -ATA ATA
58499598 ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA ATA ATA
* * *
58499643 TTA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
58499670 AAAAATAAAA
Statistics
Matches: 156, Mismatches: 24, Indels: 48
0.68 0.11 0.21
Matches are distributed among these distances:
2 20 0.13
3 107 0.69
4 27 0.17
5 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:58500210 original size:18 final size:18
Alignment explanation
Indices: 58500159--58500211 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
58500149 TTGATGGTGT
58500159 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
58500177 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
58500189 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
58500207 AGGTG
1 AGGTG
58500212 GCTAGGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:58500836 original size:87 final size:87
Alignment explanation
Indices: 58500733--58501740 Score: 1173
Period size: 87 Copynumber: 11.7 Consensus size: 87
58500723 TTCAGCTTGG
* * **
58500733 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGATGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
58500798 AAGATCTGTAAATTTAGCCTGT
66 AAGATCTGTAAATTTAGCCTGT
* ** * * *
58500820 TACCCTACTGTTTAGGGG-TTAAGGCTTGTCACCTTCGATCTATTACCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGG-T
*
58500884 TAAGATCTGTAAATCTTCAGCCTAT
65 TAAGATCTGTAAAT-TT-AGCCTGT
** * * *
58500909 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTATTTCCCTACTGTTTA---GG--
1 TACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
58500969 --G-TCTGTAAATTTAGCCTGT
66 AAGATCTGTAAATTTAGCCTGT
* ** *
58500988 TACCCTACTGTTTAGGGG-TTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGG-T
58501052 TAAGATCTGTAAATCTTCAGCCTGT
65 TAAGATCTGTAAAT-TT-AGCCTGT
** * *
58501077 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGTTTA---GG--
1 TACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* *
58501137 --G-TCTATAAATTTAACCTGT
66 AAGATCTGTAAATTTAGCCTGT
* * * * *
58501156 TACCCTACTACTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCTACTGCTTATGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* *
58501221 AAGATCTGTAAATTCAGCCTAT
66 AAGATCTGTAAATTTAGCCTGT
* *
58501243 TACCCTACTGCTTAGGGGTTTAAGG-TCCATCGCCTTTGATCTGATTCCCTACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-CATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * *
58501307 TAAGATCTATAAATTCCA-CCTAT
65 TAAGATCTGTAAATT-TAGCCTGT
* *
58501330 TACCCTACTGCTTAGGGGTTTAAGG-TCCATTGCCTTTGATCTGTTTCCCTACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-CATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
** *
58501394 TAAGATCTGTAAATCCAACCTGT
65 TAAGATCTGTAAATTTAGCCTGT
* * * * *
58501417 TACCCTACTACTTAGGGGTTTAAGGTTCATTGCCTTTGATCT-ATTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
58501481 AAGATCTGTAAATTTAGCCTGT
66 AAGATCTGTAAATTTAGCCTGT
* * * * * * *
58501503 TACCCTTCTACTTAGGGAG-TTAAGGCCCGTCGCTTTCGATTTGTTTCCCTACTACTTAGGGGGT
1 TACCCTACTGCTTAGGG-GTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * *
58501567 TAAGATCTGTAAATTCAACCTAT
65 TAAGATCTGTAAATTTAGCCTGT
*
58501590 TACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
58501655 AAGATCTGTAAATTTAGCCTGT
66 AAGATCTGTAAATTTAGCCTGT
* * * * *
58501677 TACCCTACTACTTAGGGAG-TTAAGGCCCATCACTTTCGATCTGTTTCCCTACTGCTTAAGGGGT
1 TACCCTACTGCTTAGGG-GTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
58501741 CAAATCTACT
Statistics
Matches: 811, Mismatches: 78, Indels: 64
0.85 0.08 0.07
Matches are distributed among these distances:
78 37 0.05
79 81 0.10
80 4 0.00
81 19 0.02
82 4 0.00
86 113 0.14
87 423 0.52
88 8 0.01
89 47 0.06
90 75 0.09
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (87 bp):
TACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGTAAATTTAGCCTGT
Found at i:58500968 original size:44 final size:44
Alignment explanation
Indices: 58500819--58501657 Score: 287
Period size: 43 Copynumber: 19.6 Consensus size: 44
58500809 ATTTAGCCTG
*
58500819 TTACCCTACTGTTTAGGGG-TTAAGGCTTGTCACCTTCGATCTA
1 TTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTA
* * * *
58500862 TTACCCTACTGCTTAGGGGGTTTAA-GATCTGTAAATCTTC-AGCCTA
1 TTACCCTACTGCTTA-GGGGTTTAAGGCT-TGT-CACCTTCGA-TCTA
58500908 TTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTA
1 TTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTA
* * * ** * * *
58500952 TTTCCCTACTGTTTA-GGG--T----C-TGTAAATTTAG-CCTG
1 TTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTA
* *
58500987 TTACCCTACTGTTTAGGGG-TTAAGGCTTGTCACCTTCGATCTG
1 TTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTA
* * * * * *
58501030 TTTCCCTACTGCTTAGGGGGTTTAA-GATCTGTAAATCTTC-AGCCTG
1 TTACCCTACTGCTTA-GGGGTTTAAGGCT-TGT-CACCTTCGA-TCTA
*
58501076 TTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTG
1 TTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTA
* * * *
58501120 TTTCCCTACTGTTTA-GGGTCTATAA--ATT-TAACC-T-G-----
1 TTACCCTACTGCTTAGGGGT-T-TAAGGCTTGTCACCTTCGATCTA
* * ** * *
58501155 TTACCCTACTACTTAGGGGTTTAAGGCTTATCGTCTTTGATCTG
1 TTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTA
* * ** *
58501199 TTTCCCTACTGCTTATGGGG-TTAA-GATCTGT-AAATTC-AGCCTA
1 TTACCCTACTGCTTA-GGGGTTTAAGGCT-TGTCACCTTCGA-TCTA
** * *
58501242 TTACCCTACTGCTTAGGGGTTTAAGG-TCCATCGCCTTTGATCTGA
1 TTACCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCGATCT-A
* * * ** * *
58501287 TT-CCCTACTGCTTAGGGGGTTAA-GATCTAT-AAATTCCACCTA
1 TTACCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCGATCTA
* *
58501329 TTACCCTACTGCTTAGGGGTTTAAGGTCCATTG---CCTTTGATCTG
1 TTACCCTACTGCTTAGGGGTTTAAGG--C-TTGTCACCTTCGATCTA
* * * ** * * * *
58501373 TTTCCCTACTGCTTAGGGGGTTAA-GATCTGT-AAATCCAACCTG
1 TTACCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCGATCTA
* * ** *
58501416 TTACCCTACTACTTAGGGGTTTAAGG-TTCATTGCCTTTGATCTA
1 TTACCCTACTGCTTAGGGGTTTAAGGCTT-GTCACCTTCGATCTA
* * * ** * * *
58501460 TT-CCCTACTGCTTAGGGGGTTAA-GATCTGTAAATTTAG-CCTG
1 TTACCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCGATCTA
* * ** * * * *
58501502 TTACCCTTCTACTTAGGGAG-TTAAGGCCCGTCGCTTTCGATTTG
1 TTACCCTACTGCTTAGGG-GTTTAAGGCTTGTCACCTTCGATCTA
* * * * ** * *
58501546 TTTCCCTACTACTTAGGGGGTTAA-GATCTGT-AAATTCAACCTA
1 TTACCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCGATCTA
* * *
58501589 TTACCCTACTGCTTAGGGGTTTAAGG-TTCATCGCCTTCGATCTG
1 TTACCCTACTGCTTAGGGGTTTAAGGCTT-GTCACCTTCGATCTA
* *
58501633 TTTCCCTACTGCTTAGGGGGTTAAG
1 TTACCCTACTGCTTAGGGGTTTAAG
58501658 ATCTGTAAAT
Statistics
Matches: 584, Mismatches: 146, Indels: 131
0.68 0.17 0.15
Matches are distributed among these distances:
34 3 0.01
35 29 0.05
36 16 0.03
37 4 0.01
38 1 0.00
39 1 0.00
40 2 0.00
41 5 0.01
42 26 0.04
43 198 0.34
44 195 0.33
45 53 0.09
46 50 0.09
47 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (44 bp):
TTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTA
Found at i:58501881 original size:44 final size:43
Alignment explanation
Indices: 58501743--58501990 Score: 189
Period size: 44 Copynumber: 5.7 Consensus size: 43
58501733 TAAGGGGTCA
* * *
58501743 AATCTACTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC
1 AATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCC
** * * * ** *
58501786 -ATGCTGAAATCTTCAATCTGCTTCACTGTAAGCACAGTAATGTC
1 AAT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCC
*
58501830 AGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCC
1 A-ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCC
* *
58501874 AAATCTGCTATTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC
1 -AATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCC
** * * * *
58501918 -ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTC
1 AAT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCC
* *
58501962 AGATCTACTATCTTTGATCTGTTCCCTAT
1 A-ATCTGCTATCTTCGATCTGTTCCCTAT
58501991 CAAATCTTTT
Statistics
Matches: 157, Mismatches: 36, Indels: 23
0.73 0.17 0.11
Matches are distributed among these distances:
42 4 0.03
43 22 0.14
44 99 0.63
45 28 0.18
46 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (43 bp):
AATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCC
Found at i:58501981 original size:132 final size:132
Alignment explanation
Indices: 58501741--58502659 Score: 1407
Period size: 132 Copynumber: 7.1 Consensus size: 132
58501731 CTTAAGGGGT
* * * *
58501741 CAAATCTACTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
*
58501806 CTTCACTGTAAGCACAGTAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
58501871 GC
131 GC
58501873 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
58501938 CTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTTGATCTGTTCCCTAT---CA-A---AT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
58501996 --
131 GC
* *
58501996 C---T-T-TTATTTTCAACTTGTTCCTTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
58502056 CTTCACTGTAAGAACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
58502121 GC
131 GC
* *
58502123 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
58502188 CTTCACTGTAAGCACAGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
58502253 GC
131 GC
* * *
58502255 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAAGAATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * *
58502320 CTTCACTGTAAGTACAAGAATGTTAGATCTGCTATCTTCGATATGTTCCCTATAAACACAGTGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
58502385 GC
131 GC
* * *
58502387 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACATGGATGCCATGCTGAAATCTTCGATCTA
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * *
58502452 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTATTCCCTATAAGCACAAGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
58502517 GC
131 GC
58502519 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * *
58502584 CTTCACTGTAAGCACGGGAATGTCAGATCTGCTATCTTTGATTTGTTCCCTATAAACATAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
58502649 GC
131 GC
*
58502651 TAAATCTGC
1 CAAATCTGC
58502660 AATCTTCGAT
Statistics
Matches: 719, Mismatches: 54, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
118 104 0.14
119 1 0.00
120 1 0.00
121 2 0.00
122 1 0.00
123 1 0.00
125 4 0.01
127 1 0.00
128 1 0.00
129 2 0.00
130 1 0.00
131 1 0.00
132 599 0.83
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (132 bp):
CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
GC
Found at i:58502132 original size:44 final size:43
Alignment explanation
Indices: 58502011--58502672 Score: 448
Period size: 44 Copynumber: 15.0 Consensus size: 43
58502001 ATTTTCAACT
* *
58502011 TGTTCCTTATAAGCACAGGGATGCC-ATGCTGAAATCTTCGATC
1 TGTTCCCTATAAGCACAGGGATGCCAAT-CTGATATCTTCGATC
* * * * * *
58502054 TGCTTCACTGTAAGAACAGGAATGTCAGATCTGTTATCTTCGATC
1 TG-TTCCCTATAAGCACAGGGATGCCA-ATCTGATATCTTCGATC
* * *
58502099 TGTTCCCTATAAGCACAGGGATGCCAAATCTGTTATTTTC-AAC
1 TGTTCCCTATAAGCACAGGGATGCC-AATCTGATATCTTCGATC
* *
58502142 TTGTTCCCTATAAGCACAGGGATGCC-ATGCTGAAATCTTTGATC
1 -TGTTCCCTATAAGCACAGGGATGCCAAT-CTGATATCTTCGATC
* * * *
58502186 TGCTTCACTGTAAGCACA-GGAGTGTCAGATCTGTTATCTTCGATC
1 TG-TTCCCTATAAGCACAGGGA-TGCCA-ATCTGATATCTTCGATC
* * *
58502231 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTC-AAC
1 TGTTCCCTATAAGCACAGGGATGCC-AATCTGATATCTTCGATC
* * * *
58502274 TTGTTCCCTATAAGCACAAGAATGCC-ATGCTGAAATCTTTGATC
1 -TGTTCCCTATAAGCACAGGGATGCCAAT-CTGATATCTTCGATC
* * * * * ** * *
58502318 TGCTTCACTGTAAGTACAAGAATGTTAGATCTGCTATCTTCGATA
1 TG-TTCCCTATAAGCACAGGGATGCCA-ATCTGATATCTTCGATC
* * * * *
58502363 TGTTCCCTATAAACACAGTGATGCCAAATCTGTTATTTTC-AAC
1 TGTTCCCTATAAGCACAGGGATGCC-AATCTGATATCTTCGATC
* *
58502406 TTGTTCCCTATAAGCACATGGATGCC-ATGCTGAAATCTTCGATC
1 -TGTTCCCTATAAGCACAGGGATGCCAAT-CTGATATCTTCGATC
* * * * * *
58502450 TACTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATC
1 T-GTTCCCTATAAGCACAGGGATGCCA-ATCTGATATCTTCGATC
* * * * *
58502495 TATTCCCTATAAGCACAAGGATGCCAAATCTGCTATTTTC-AAC
1 TGTTCCCTATAAGCACAGGGATGCC-AATCTGATATCTTCGATC
*
58502538 TTGTTCCCTATAAGCACAGGGATGCC-ATGCTGAAATCTTCGATC
1 -TGTTCCCTATAAGCACAGGGATGCCAAT-CTGATATCTTCGATC
* * * * * *
58502582 TGCTTCACTGTAAGCAC-GGGAATGTCAGATCTGCTATCTTTGATT
1 TG-TTCCCTATAAGCACAGGG-ATGCCA-ATCTGATATCTTCGATC
* * *
58502627 TGTTCCCTATAAACATAGGGATGCTAAATCTGCA-ATCTTCGATC
1 TGTTCCCTATAAGCACAGGGATGC-CAATCTG-ATATCTTCGATC
58502671 TG
1 TG
58502673 CTCTCCGCCG
Statistics
Matches: 475, Mismatches: 107, Indels: 73
0.73 0.16 0.11
Matches are distributed among these distances:
42 8 0.02
43 52 0.11
44 325 0.68
45 80 0.17
46 10 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (43 bp):
TGTTCCCTATAAGCACAGGGATGCCAATCTGATATCTTCGATC
Found at i:58502786 original size:88 final size:87
Alignment explanation
Indices: 58502662--58502984 Score: 522
Period size: 88 Copynumber: 3.7 Consensus size: 87
58502652 AAATCTGCAA
* * * *
58502662 TCTTCGATCTGCTCTCCGCC-GCTACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTC-CCGCCTGGTACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
58502726 ACGTGAAAGCCAAATCAGCTATG
65 ACGTGAAAGCCAAATCAGCTATG
58502749 TCTTCGATCTGCTCCCTGCCTGGTACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCC-GCCTGGTACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
58502814 ACGTGAAAGCCAAATCAGCTATG
65 ACGTGAAAGCCAAATCAGCTATG
* *
58502837 TCTTCAATCTGCTTCCCGCCTGGTACAAAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
1 TCTTCGATCTGC-TCCCGCCTGGTACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
58502902 ACGTGAAAGCCAAATCAGCTATG
65 ACGTGAAAGCCAAATCAGCTATG
* * *
58502925 TCTTCGATCTGCTTCCTGCCTGATATAGAGATGCCAAATCATCTTGGATCTGCTTCAACG
1 TCTTCGATCTGC-TCCCGCCTGGTACAGAGATGCCAAATCATCTTGGATCTGCTTCAACG
58502985 AAGCTCAGAT
Statistics
Matches: 222, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
86 2 0.01
87 17 0.08
88 199 0.90
89 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCGCCTGGTACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:58502826 original size:41 final size:41
Alignment explanation
Indices: 58502781--58502918 Score: 102
Period size: 41 Copynumber: 3.2 Consensus size: 41
58502771 GTACAGAGAT
58502781 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
** * ** ** *
58502822 GCCAAATCAGCTATGTCTTCAATCTGCTTC-CCGCCTGGTACA-AAG-AT
1 GCCAAAT---C-A--TCTTGGATCTGCTTCAACG--T-AAACACGTGAAA
58502869 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
58502910 GCCAAATCA
1 GCCAAATCA
58502919 GCTATGTCTT
Statistics
Matches: 69, Mismatches: 16, Indels: 24
0.63 0.15 0.22
Matches are distributed among these distances:
39 3 0.04
40 2 0.03
41 30 0.43
42 2 0.03
43 1 0.01
44 2 0.03
45 1 0.01
46 2 0.03
47 21 0.30
48 2 0.03
49 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (41 bp):
GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
Found at i:58502936 original size:47 final size:47
Alignment explanation
Indices: 58502790--58502939 Score: 129
Period size: 47 Copynumber: 3.3 Consensus size: 47
58502780 TGCCAAATCA
*
58502790 TCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
1 TCTTCGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* * ** ** *
58502837 TCTTCAATCTGCTTC-CCGCCTGGTACA-AAG-ATGCCAAAT---C-A--
1 TCTTCGATCTGCTTCAACG--T-AAACACGTGAAAGCCAAATCAGCTATG
*
58502878 TCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
1 TCTTCGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
58502925 TCTTCGATCTGCTTC
1 TCTTCGATCTGCTTC
58502940 CTGCCTGATA
Statistics
Matches: 74, Mismatches: 17, Indels: 24
0.64 0.15 0.21
Matches are distributed among these distances:
39 3 0.04
40 2 0.03
41 21 0.28
42 2 0.03
43 1 0.01
44 2 0.03
45 1 0.01
46 2 0.03
47 35 0.47
48 2 0.03
49 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (47 bp):
TCTTCGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
Found at i:58504852 original size:8 final size:8
Alignment explanation
Indices: 58504841--58504908 Score: 55
Period size: 8 Copynumber: 7.6 Consensus size: 8
58504831 CTTTTTGGCA
58504841 TTTTTTGT
1 TTTTTTGT
58504849 TTTTTTGTTT
1 TTTTTTG--T
58504859 TTTTTTGT
1 TTTTTTGT
*
58504867 TGTTTTGTT
1 TTTTTTG-T
*
58504876 TTCTTCTTCTT
1 TT-TT-TT-GT
58504887 TTTTTGTGT
1 TTTTT-TGT
58504896 TTTTTTGT
1 TTTTTTGT
58504904 TTTTT
1 TTTTT
58504909 ATTTATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
8 22 0.45
9 9 0.18
10 13 0.27
11 5 0.10
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (8 bp):
TTTTTTGT
Found at i:58506951 original size:21 final size:20
Alignment explanation
Indices: 58506923--58506962 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
58506913 ATGTGTATTT
58506923 TGAAGTTTCTTGATAGATTA
1 TGAAGTTTCTTGATAGATTA
*
58506943 TGAATGTTTGTTGATAGATT
1 TGAA-GTTTCTTGATAGATT
58506963 TACAAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.47
Consensus pattern (20 bp):
TGAAGTTTCTTGATAGATTA
Found at i:58508360 original size:43 final size:43
Alignment explanation
Indices: 58508294--58508383 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
58508284 TTGAAAAATT
58508294 ATGAGTTAATGTGTGAATAAACTTTATGTTAACTCATTGTTTG
1 ATGAGTTAATGTGTGAATAAACTTTATGTTAACTCATTGTTTG
*
58508337 ATGATTTAATGTGTGAATAAACTTTATGTTAACTCATTGTTTG
1 ATGAGTTAATGTGTGAATAAACTTTATGTTAACTCATTGTTTG
58508380 ATGA
1 ATGA
58508384 CATAAATGCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (43 bp):
ATGAGTTAATGTGTGAATAAACTTTATGTTAACTCATTGTTTG
Found at i:58510705 original size:21 final size:21
Alignment explanation
Indices: 58510679--58510723 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
58510669 CAAAAGCAAT
58510679 CAAAACATGCCATTTAATACA
1 CAAAACATGCCATTTAATACA
* * *
58510700 CAAAACATGTCATTTCATTCA
1 CAAAACATGCCATTTAATACA
58510721 CAA
1 CAA
58510724 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.27
Consensus pattern (21 bp):
CAAAACATGCCATTTAATACA
Found at i:58514028 original size:21 final size:20
Alignment explanation
Indices: 58514000--58514038 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
58513990 ATGTGTATTT
58514000 TGAAGTTTCTTGATAGATTG
1 TGAAGTTTCTTGATAGATTG
*
58514020 TGAATGTTTGTTGATAGAT
1 TGAA-GTTTCTTGATAGAT
58514039 GTATAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTGATAGATTG
Found at i:58516014 original size:48 final size:48
Alignment explanation
Indices: 58515958--58516277 Score: 271
Period size: 48 Copynumber: 6.7 Consensus size: 48
58515948 GGGTAAATTA
* *
58515958 CCGATGCCACGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATG
**
58516006 CCGATGCCATGTCCCATTCATGGTCTTACACTGGCTCTCATA--ATATGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCA-AT-G
* * * * * * * * *
58516054 CCAACAG-CATGTCCTAGACATGGTCCTAAACTAGCACACATATCGATG
1 CCGA-TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATG
* *
58516102 CAGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTC--AT-AATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATG
** * * *
58516147 TGGCTGACAGCATGTCCCAGACATGGTCTTAAACTAGCATACT--TATCAATG
1 CCGATG-C--CATGTCCCAGACATGGTCTTACACTGGC-T-CTCATATCAATG
* * *
58516198 CAGATTCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAAT-G
**
58516246 CCGACACCATGTCCCAGACATGGTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
58516278 AGCACACATA
Statistics
Matches: 216, Mismatches: 40, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
45 6 0.03
46 6 0.03
47 5 0.02
48 184 0.85
49 4 0.02
50 5 0.02
51 6 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATG
Found at i:58516137 original size:96 final size:96
Alignment explanation
Indices: 58515968--58516290 Score: 450
Period size: 96 Copynumber: 3.4 Consensus size: 96
58515958 CCGATGCCAC
* * * * * * **
58515968 GTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATGCCGATGCCATGTCCCATTCATGGTCTT
1 GTCCCAGACATGGTCTTAAACTAGCACACATATCAATGCAGATGCCATGTCCCAGACATGGTCTT
* *
58516033 ACACTGGCTCTCATAATATGGCCAACAGCAT
66 ACACTGGCTCTCATAATGTGGCCGACAGCAT
* * * *
58516064 GTCCTAGACATGGTCCTAAACTAGCACACATATCGATGCAGATGCCATGTCCTAGACATGGTCTT
1 GTCCCAGACATGGTCTTAAACTAGCACACATATCAATGCAGATGCCATGTCCCAGACATGGTCTT
*
58516129 ACACTGGCTCTCATAATGTGGCTGACAGCAT
66 ACACTGGCTCTCATAATGTGGCCGACAGCAT
* * *
58516160 GTCCCAGACATGGTCTTAAACTAGCATACTTATCAATGCAGATTCCATGTCCCAGACATGGTCTT
1 GTCCCAGACATGGTCTTAAACTAGCACACATATCAATGCAGATGCCATGTCCCAGACATGGTCTT
*
58516225 ACACTGGCTCTCAT-ATCGTGGCCGACACCAT
66 ACACTGGCTCTCATAAT-GTGGCCGACAGCAT
*
58516256 GTCCCAGACATGGTCTTACACTAGCACACATATCA
1 GTCCCAGACATGGTCTTAAACTAGCACACATATCA
58516291 CCCAATGTCA
Statistics
Matches: 199, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
95 2 0.01
96 197 0.99
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
GTCCCAGACATGGTCTTAAACTAGCACACATATCAATGCAGATGCCATGTCCCAGACATGGTCTT
ACACTGGCTCTCATAATGTGGCCGACAGCAT
Found at i:58521729 original size:40 final size:40
Alignment explanation
Indices: 58521685--58521948 Score: 310
Period size: 40 Copynumber: 6.7 Consensus size: 40
58521675 GCTCCTCGTT
*
58521685 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAATTCGCA
* *
58521725 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
* *
58521765 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
* * *
58521805 CAAAGGCCTTCGGGACTTAACCCGGATTTGGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAT-TCGCA
*
58521845 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAT-TCGCA
* * *
58521884 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-AATTCGCA
58521925 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58521949 CAGAATTCAA
Statistics
Matches: 201, Mismatches: 15, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 50 0.25
40 139 0.69
41 9 0.04
42 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
Found at i:58529843 original size:40 final size:40
Alignment explanation
Indices: 58529799--58530062 Score: 310
Period size: 40 Copynumber: 6.7 Consensus size: 40
58529789 GCTCCTCGTT
*
58529799 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAATTCGCA
* *
58529839 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
* *
58529879 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
* * *
58529919 CAAAGGCCTTCGGGACTTAACCCGGATTTGGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAT-TCGCA
*
58529959 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAT-TCGCA
* * *
58529998 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-AATTCGCA
58530039 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58530063 CAGAATTCAA
Statistics
Matches: 201, Mismatches: 15, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 50 0.25
40 139 0.69
41 9 0.04
42 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
Found at i:58533568 original size:21 final size:21
Alignment explanation
Indices: 58533544--58533591 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
58533534 GGCACACGCT
58533544 CGTGTGGAAGGGTGACACACC
1 CGTGTGGAAGGGTGACACACC
*
58533565 CGTGTGGAAGGGTGACACGCC
1 CGTGTGGAAGGGTGACACACC
58533586 CGTGTG
1 CGTGTG
58533592 TTTTTTTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.42, T:0.17
Consensus pattern (21 bp):
CGTGTGGAAGGGTGACACACC
Found at i:58535215 original size:48 final size:48
Alignment explanation
Indices: 58535144--58535391 Score: 309
Period size: 48 Copynumber: 5.2 Consensus size: 48
58535134 CACAGTTGTT
* *
58535144 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGTATC
1 ATTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATC
* * *
58535192 ATTATGTAAGCCAGTGAAAGACCATGTCTGGGACATGGCATTGGCATT
1 ATTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATC
*
58535240 ATTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAGCATC
1 ATTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATC
* * * * * *
58535288 ATTAAGTGAGCTAGTGTAAGAACATGTCTGGGACAAGGCATCGGCATT
1 ATTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATC
* * ** * * *
58535336 ATTATGAGAGCCAGTGTAATACCATAACTGAGATATGGCATCGGCATC
1 ATTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATC
58535384 -TATATGTG
1 AT-TATGTG
58535392 TAAGATTTCC
Statistics
Matches: 171, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
47 1 0.01
48 170 0.99
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (48 bp):
ATTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATC
Found at i:58541333 original size:48 final size:48
Alignment explanation
Indices: 58541273--58541459 Score: 277
Period size: 48 Copynumber: 3.9 Consensus size: 48
58541263 CACTGCTATT
* *
58541273 ATTATGTGAGCCAGTGTAAGACCATGTCCAGGACATGGCATCAGCATC
1 ATTATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATC
* *
58541321 ATTATGTCAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
1 ATTATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATC
* * *
58541369 ATTATGTGA-CCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCATT
1 ATTATGTGAGCC-AGTGTAAGACCATGTCTAGGACATGGCATCGGCATC
* *
58541417 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCG
1 ATTATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
58541460 AAATCGATAT
Statistics
Matches: 126, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 2 0.02
48 122 0.97
49 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (48 bp):
ATTATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATC
Found at i:58545957 original size:80 final size:79
Alignment explanation
Indices: 58545873--58546044 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
58545863 GGACTAAGAT
*
58545873 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
58545937 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
58545953 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
58546018 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
58546032 CCGAAGGCATTTG
1 CCGAAGGCATTTG
58546045 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:58546024 original size:39 final size:39
Alignment explanation
Indices: 58545820--58546042 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
58545810 TTGAATGCTG
* * * * *
58545820 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
58545860 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
58545899 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
58545940 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
58545980 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
58546019 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58546043 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:58546062 original size:79 final size:80
Alignment explanation
Indices: 58545900--58546067 Score: 180
Period size: 79 Copynumber: 2.1 Consensus size: 80
58545890 AGATACAAAT
* * *
58545900 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
58545965 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * * *
58545980 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
58546044 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
58546059 TCC-GGTTAA
1 TCCGGGTTAA
58546068 ATTCCGAAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
78 6 0.08
79 48 0.67
80 18 0.25
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:58549327 original size:9 final size:9
Alignment explanation
Indices: 58549313--58549346 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
58549303 TGACAAAGAA
58549313 TTAAAGGAG
1 TTAAAGGAG
58549322 TTAAAGGAG
1 TTAAAGGAG
58549331 TTAAAGGAG
1 TTAAAGGAG
58549340 TTGAAAG
1 TT-AAAG
58549347 CTCAGTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (9 bp):
TTAAAGGAG
Found at i:58553816 original size:39 final size:39
Alignment explanation
Indices: 58553665--58553834 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 39
58553655 GGACTAAGAT
*
58553665 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
58553705 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
58553745 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
58553785 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
58553824 CCGAAGGCATT
1 CCGAAGGCATT
58553835 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
39 38 0.32
40 75 0.64
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:58553854 original size:79 final size:80
Alignment explanation
Indices: 58553692--58553859 Score: 180
Period size: 79 Copynumber: 2.1 Consensus size: 80
58553682 AGATACAAAT
* * *
58553692 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
58553757 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * * *
58553772 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
58553836 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
58553851 TCC-GGTTAA
1 TCCGGGTTAA
58553860 ATCCGAAGGT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
78 6 0.08
79 48 0.67
80 18 0.25
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:58555351 original size:48 final size:48
Alignment explanation
Indices: 58555296--58555517 Score: 171
Period size: 48 Copynumber: 4.6 Consensus size: 48
58555286 TGCCACGTCT
* * *
58555296 CAGACATGGTCTTACACTGGCTTACATGTCGAAGCTGATGACATGTCC
1 CAGACATGGTCTTACACTGGCTCACATATCGAAGCTAATGACATGTCC
* * * * *
58555344 TAGACATGGTCTTACACTAGCACACATATCGATGCTAATGCCATGTCC
1 CAGACATGGTCTTACACTGGCTCACATATCGAAGCTAATGACATGTCC
* * * * ** * *
58555392 CAGACCTGGTCTTACACTGGCTCTCATAAC-ATTGCCGATGCCATGTTC
1 CAGACATGGTCTTACACTGGCTCACATATCGA-AGCTAATGACATGTCC
* * * ** **
58555440 CAAACATGGTCTTATA-TGGACTCTCATATCGTGGCCGAT-ACCATGTCC
1 CAGACATGGTCTTACACTGG-CTCACATATCGAAGCTAATGA-CATGTCC
* *
58555488 CAGACATGGTCTTACACTAGCACACATATC
1 CAGACATGGTCTTACACTGGCTCACATATC
58555518 ACCCAATGTC
Statistics
Matches: 139, Mismatches: 30, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
47 4 0.03
48 133 0.96
49 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
CAGACATGGTCTTACACTGGCTCACATATCGAAGCTAATGACATGTCC
Found at i:58556284 original size:21 final size:21
Alignment explanation
Indices: 58556260--58556300 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
58556250 TTCACATAGG
58556260 CGTGTGCCTTGGACACACGGC
1 CGTGTGCCTTGGACACACGGC
* * *
58556281 CGTGTTCCTTTGCCACACGG
1 CGTGTGCCTTGGACACACGG
58556301 GCATATGAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.34, G:0.29, T:0.24
Consensus pattern (21 bp):
CGTGTGCCTTGGACACACGGC
Found at i:58558815 original size:15 final size:13
Alignment explanation
Indices: 58558784--58558808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58558774 TATTTTAAAA
58558784 TTATTTTTTGTGT
1 TTATTTTTTGTGT
58558797 TTATTTTTTGTG
1 TTATTTTTTGTG
58558809 AATTTATGCC
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:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (13 bp):
TTATTTTTTGTGT
Found at i:58562690 original size:47 final size:45
Alignment explanation
Indices: 58562624--58562791 Score: 171
Period size: 47 Copynumber: 3.6 Consensus size: 45
58562614 TTTGAGTGCT
58562624 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGAGCC
* * *
58562670 AGTGTAAGACCATGTTTGGGACATGGCATCGG--TATTGA-GACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATGA-GA--GCC
* * *
58562718 AGTGTAAGACATTTCTGGGACATGCATCGGCCTCAATGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTATGAGAGCC
*
58562765 AGTGTAAAACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
58562792 TAGCTAAGAG
Statistics
Matches: 100, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
45 5 0.05
46 19 0.19
47 52 0.52
48 18 0.18
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGAGCC
Found at i:58562778 original size:94 final size:94
Alignment explanation
Indices: 58562617--58562788 Score: 274
Period size: 94 Copynumber: 1.8 Consensus size: 94
58562607 GGGGTTATTT
* *
58562617 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCA
1 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGAACA
*
58562682 TGTTTGGGACATGGCATCGGTATTGAGAC
66 TGTCTGGGACATGGCATCGGTATTGAGAC
* * *
58562711 GAGTGCTAGTGTAAGACATTTCTGGGACATGCATCGGCCTCAATGATGATAGCCAGTGTAA-AAC
1 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGAAC
58562775 ATGTCTGGGACATG
65 ATGTCTGGGACATG
58562789 CATTAGCTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
94 54 0.76
95 17 0.24
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (94 bp):
GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGAACA
TGTCTGGGACATGGCATCGGTATTGAGAC
Found at i:58563878 original size:13 final size:13
Alignment explanation
Indices: 58563860--58563886 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58563850 TGGCCATGTA
58563860 AAAGGACACGGGC
1 AAAGGACACGGGC
58563873 AAAGGACACGGGC
1 AAAGGACACGGGC
58563886 A
1 A
58563887 TGTGTCTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.37, T:0.00
Consensus pattern (13 bp):
AAAGGACACGGGC
Found at i:58569417 original size:68 final size:66
Alignment explanation
Indices: 58569345--58569493 Score: 176
Period size: 67 Copynumber: 2.2 Consensus size: 66
58569335 CATCATGTGT
* * * *
58569345 ACAAGAGAGCTACGCGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACG-G-CA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
58569408 TGTAG
62 TGTAG
* * *
58569413 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGCATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
58569478 AG
65 AG
58569480 ACAAGAGAGCTACG
1 ACAAGAGAGCTACG
58569494 AGATAAACTA
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 3 0.04
67 27 0.38
68 14 0.20
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGGCATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:58573690 original size:94 final size:95
Alignment explanation
Indices: 58573529--58573896 Score: 319
Period size: 94 Copynumber: 3.9 Consensus size: 95
58573519 GGTTATTTGT
* * *
58573529 GTGCTAGTGTAAAA-CATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCA
1 GTGCTAGTGTAAAACCATGTCTGGGACATGCATCGGCCACGATGATGATAGCCAGTGTAAGAACA
58573592 TGTCTGGGACATGGCATCAGTATTGAGACGA
66 TGTCTGGGACATGGCATCAGTA-TGAGACGA
* * * *
58573623 GTGCTAGTGTAAGA-CATTTCTGGGACATGCATCGGCCTCGATGATGATAGCCTGTGTAA-AACA
1 GTGCTAGTGTAAAACCATGTCTGGGACATGCATCGGCCACGATGATGATAGCCAGTGTAAGAACA
*
58573686 TGTCTGGGACAT-GCATCAGCTA--AGA-GTT
66 TGTCTGGGACATGGCATCAG-TATGAGACG-A
* * * * * * *
58573714 GTGCTAGTATAAGACCATGTCTGGGATATGACATCAG-CACGTAT-ATACAAGAGCTAGTGTAAG
1 GTGCTAGTGTAAAACCATGTCTGGGACATG-CATCGGCCACG-ATGAT--GATAGCCAGTGTAAG
* ** **
58573777 ACCATGTCTGGGACATGGCATTGGCCTCGATGACGA
62 AACATGTCTGGGACATGGCATCAGTAT-GA-GACGA
* * * *
58573813 -TAGCCAGTGTAAAACCATGTCTGGGACATGGCATTGGCCTCGATGACGATAGCCAGTGTAA-AA
1 GT-GCTAGTGTAAAACCATGTCTGGGACAT-GCATCGGCCACGATGATGATAGCCAGTGTAAGAA
*
58573876 CCATGTTTGGGACATGGCATC
64 -CATGTCTGGGACATGGCATC
58573897 GGCAACTTAT
Statistics
Matches: 217, Mismatches: 37, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
90 1 0.00
91 16 0.07
92 18 0.08
93 14 0.06
94 63 0.29
95 31 0.14
96 5 0.02
97 1 0.00
98 31 0.14
99 31 0.14
100 6 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (95 bp):
GTGCTAGTGTAAAACCATGTCTGGGACATGCATCGGCCACGATGATGATAGCCAGTGTAAGAACA
TGTCTGGGACATGGCATCAGTATGAGACGA
Found at i:58573835 original size:49 final size:49
Alignment explanation
Indices: 58573534--58573899 Score: 301
Period size: 49 Copynumber: 7.7 Consensus size: 49
58573524 TTTGTGTGCT
* * * *
58573534 AGTGTAAAA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGATGACGATAGCC
* * ** * *
58573580 AGTGTAAGACCATGTCTGGGACATGGCATCAGTATTGA-GACGAGT-GCT
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGATGACGA-TAGCC
* * *
58573628 AGTGTAAGA-CATTTCTGGGACAT-GCATCGGCCTCGATGATGATAGCC
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGATGACGATAGCC
* * * * * *
58573675 TGTGTAAAA-CATGTCTGGGACAT-GCATCAG-CT--AAGA-GTTGTGCT
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGATGACGAT-AGCC
* * * * * * * * * *
58573719 AGTATAAGACCATGTCTGGGATATGACATCAG-CACGTATATACAAGAGCT
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCG-AT-GACGATAGCC
* *
58573769 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATGACGATAGCC
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGATGACGATAGCC
*
58573818 AGTGTAAAACCATGTCTGGGACATGGCATTGGCCTCGATGACGATAGCC
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGATGACGATAGCC
*
58573867 AGTGTAAAACCATGTTTGGGACATGGCATCGGC
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGC
58573900 AACTTATTCC
Statistics
Matches: 255, Mismatches: 50, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
43 2 0.01
44 11 0.04
45 13 0.05
46 27 0.11
47 59 0.23
48 20 0.08
49 87 0.34
50 33 0.13
51 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGATGACGATAGCC
Found at i:58585558 original size:73 final size:73
Alignment explanation
Indices: 58585460--58585595 Score: 209
Period size: 73 Copynumber: 1.9 Consensus size: 73
58585450 ATTCCGATGA
* * *
58585460 GAATAAACATATGACAAGGTCAAACAAAAGTTTATTTAACTATACTACTTGTCCATCTAAAAAAA
1 GAATAAACATATGACAAGGCCAAACAAAAGCTTATTTAACTATACTACTTATCCATCTAAAAAAA
58585525 TAGTGTGC
66 TAGTGTGC
* * * *
58585533 GAATAGACATATGATAGGGCCAAACAAAAGCTTATTTAACTATACTACTTATCTATCTAAAAA
1 GAATAAACATATGACAAGGCCAAACAAAAGCTTATTTAACTATACTACTTATCCATCTAAAAA
58585596 TAGTATGTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 56 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (73 bp):
GAATAAACATATGACAAGGCCAAACAAAAGCTTATTTAACTATACTACTTATCCATCTAAAAAAA
TAGTGTGC
Found at i:58594101 original size:48 final size:48
Alignment explanation
Indices: 58594027--58594159 Score: 194
Period size: 48 Copynumber: 2.8 Consensus size: 48
58594017 TAGGGTTATG
*
58594027 TATGATCCCATGTAAGACCATGTCTGGCACATGGCATTGGCATCGATA
1 TATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
58594075 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
1 TATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
** * *
58594123 TATGATTTCGTGTAAGACCATGTCTGGGGCATGGCAT
1 TATGATCCCATGTAAGACCATGTCTGGGACATGGCAT
58594160 CGATATGAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (48 bp):
TATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:58594111 original size:42 final size:42
Alignment explanation
Indices: 58594064--58594239 Score: 97
Period size: 42 Copynumber: 4.0 Consensus size: 42
58594054 CACATGGCAT
58594064 TGGCATCGATATGTGATCCCATGTAAGACCATATCTGGGATATGGCA
1 TGGCATCGATATGTGATCCCATGTAAGACCATATCTGGG--AT---A
* ** * * **
58594111 TTGGCATCGATATATGATTTCGTGTAAGACCATGTCTGGGGCA
1 -TGGCATCGATATGTGATCCCATGTAAGACCATATCTGGGATA
* * * *
58594154 TGGCATCGATA--TGAGCCATCGTGTAAGACTATAGT-TGGGCTA
1 TGGCATCGATATGTGATCC--CATGTAAGACCATA-TCTGGGATA
* * ** * *
58594196 TGGCTTCGATCTGTGATCTGATATAAGACCATATCTAGGATA
1 TGGCATCGATATGTGATCCCATGTAAGACCATATCTGGGATA
58594238 TG
1 TG
58594240 CTATTGGCGT
Statistics
Matches: 98, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 54 0.55
43 2 0.02
44 4 0.04
48 34 0.35
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATGTGATCCCATGTAAGACCATATCTGGGATA
Found at i:58596858 original size:16 final size:19
Alignment explanation
Indices: 58596819--58596860 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
58596809 ACATATTTGA
58596819 AATAATTATTTGATTTTAT
1 AATAATTATTTGATTTTAT
58596838 AATAATTATTTGATTTTAT
1 AATAATTATTTGATTTTAT
58596857 AATA
1 AATA
58596861 TAAAACATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
AATAATTATTTGATTTTAT
Found at i:58597410 original size:25 final size:22
Alignment explanation
Indices: 58597364--58597411 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 22
58597354 TGTATCCTAG
*
58597364 TAAATATAAAAAAATACTTATT
1 TAAATATAAAAAAATACATATT
58597386 TAAATATTAAAAAAAATAACATATT
1 TAAATA-T-AAAAAAAT-ACATATT
58597411 T
1 T
58597412 CTTTAATTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 1 0.05
24 8 0.36
25 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAATATAAAAAAATACATATT
Found at i:58597713 original size:51 final size:50
Alignment explanation
Indices: 58597605--58597740 Score: 132
Period size: 51 Copynumber: 2.7 Consensus size: 50
58597595 ACTTTCCCCA
* * ***
58597605 AAAAATTTTACTTCACTCTAAACCTCTAAAACTTTTTTTTATTTTCTCTCC
1 AAAACTTTTACTTCCCT-TAAACCTCTAATTTTTTTTTTTATTTTCTCTCC
* * *
58597656 GAAACTTTTACTTCCCTTAAACCTCTAATTTTTTTCCTTTTGTTTTCTC-CT
1 AAAACTTTTACTTCCCTTAAACCTCTAATTTTTTT--TTTTATTTTCTCTCC
* * *
58597707 AAAACTTTTACTTCCCCTAGACTTC-AATTTTTTT
1 AAAACTTTTACTTCCCTTAAACCTCTAATTTTTTT
58597741 AAAATTTATA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
50 24 0.34
51 36 0.51
52 11 0.15
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.49
Consensus pattern (50 bp):
AAAACTTTTACTTCCCTTAAACCTCTAATTTTTTTTTTTATTTTCTCTCC
Found at i:58599559 original size:64 final size:64
Alignment explanation
Indices: 58599457--58599584 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
58599447 TATTTAAGAA
*
58599457 AATTGTGTGAGAAATTATTTTTATCTTAAAACTTTATTTATTCTAATTAAAAAAATATAATTAT
1 AATTGTGTGAGAAATTATTTTTATCTTAAAACTCTATTTATTCTAATTAAAAAAATATAATTAT
58599521 AATTGTGTGAGAAATTATTTTTATCTTAAAACTCTATTTATTCTAATTAAAAAAATATAATTAT
1 AATTGTGTGAGAAATTATTTTTATCTTAAAACTCTATTTATTCTAATTAAAAAAATATAATTAT
58599585 GGAGTTGATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.46
Consensus pattern (64 bp):
AATTGTGTGAGAAATTATTTTTATCTTAAAACTCTATTTATTCTAATTAAAAAAATATAATTAT
Found at i:58600868 original size:11 final size:11
Alignment explanation
Indices: 58600852--58600888 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
58600842 ATAAGCTGTA
58600852 TTTATAAGATG
1 TTTATAAGATG
*
58600863 TTTAT-AG-TA
1 TTTATAAGATG
58600872 TTTATAAGATG
1 TTTATAAGATG
58600883 TTTATA
1 TTTATA
58600889 GGACTCCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.27
10 4 0.18
11 12 0.55
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (11 bp):
TTTATAAGATG
Found at i:58600874 original size:20 final size:20
Alignment explanation
Indices: 58600849--58600889 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
58600839 AGAATAAGCT
58600849 GTATTTATAAGATGTTTATA
1 GTATTTATAAGATGTTTATA
58600869 GTATTTATAAGATGTTTATA
1 GTATTTATAAGATGTTTATA
58600889 G
1 G
58600890 GACTCCCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (20 bp):
GTATTTATAAGATGTTTATA
Found at i:58605341 original size:48 final size:48
Alignment explanation
Indices: 58605254--58605583 Score: 206
Period size: 46 Copynumber: 7.0 Consensus size: 48
58605244 AATCTTACAC
* * * * *
58605254 ATATCGATGCTGATGCCATATCCCAGATATGGTCTTACACTGGCTCTCAT
1 ATATCTATGCTGATG-CATGTTCCAGACAT-GTCTTACACTAGCTCTCAT
*
58605304 ATATCTATGCTGATGCATGTTCCAGACATGTCTTACACTGGCTCTCAT
1 ATATCTATGCTGATGCATGTTCCAGACATGTCTTACACTAGCTCTCAT
** * * *
58605352 ATATCCGTACCGATGCATG-TCCTAGACATGTCTTACACTAG----CAC
1 ATATCTATGCTGATGCATGTTCC-AGACATGTCTTACACTAGCTCTCAT
* *
58605396 ATCTCGTA-G-TCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACAT
1 ATATC-TATGCT-GATGCATGTTCCAGACATGTCTTACACTAGCTCT-CAT
* * *
58605444 -T-TCGAGGCTGATGCATG-TCCTAGGCATGTCTTACACTAGCTCT--T
1 ATATCTATGCTGATGCATGTTCC-AGACATGTCTTACACTAGCTCTCAT
* * * * * * * *
58605488 GTCTCAATGCCGACGCATGTCCCAGACATGTCTTATACTAGCATTTCAT
1 ATATCTATGCTGATGCATGTTCCAGACATGTCTTACACTAGC-TCTCAT
* * * * *
58605537 A-ATGT-GGCCGATCCATG-TCCTAGACATGTCTTACACTAGCTCACAT
1 ATATCTATGCTGATGCATGTTCC-AGACATGTCTTACACTAGCTCTCAT
58605583 A
1 A
58605584 ACAGCAGTGT
Statistics
Matches: 222, Mismatches: 39, Indels: 42
0.73 0.13 0.14
Matches are distributed among these distances:
44 33 0.15
45 6 0.03
46 66 0.30
47 37 0.17
48 54 0.24
49 12 0.05
50 14 0.06
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (48 bp):
ATATCTATGCTGATGCATGTTCCAGACATGTCTTACACTAGCTCTCAT
Found at i:58605422 original size:92 final size:91
Alignment explanation
Indices: 58605310--58605576 Score: 278
Period size: 92 Copynumber: 2.9 Consensus size: 91
58605300 TCATATATCT
* * *
58605310 ATGCTGATGCATGTTCCAGACATGTCTTACACTGGCTCTCATATATCCGTACCGATGCATGTCCT
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TCATATAT-CGTACCGATGCATGTCCT
58605375 AGACATGTCTTACACTAGCAC-ATCTC-
64 AGACATGTCTTACACTAGCACTATCTCA
* * *
58605401 GTAGTCGATGCATGTCCCAGACATGTCTTACACTAGCTTACAT-T-TCG-AGGCTGATGCATGTC
1 AT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTT-CATATATCGTA--CCGATGCATGTC
* * *
58605463 CTAGGCATGTCTTACACTAGCTCTTGTCTCA
62 CTAGACATGTCTTACACTAGCAC-TATCTCA
* * * *
58605494 ATGCCGACGCATGTCCCAGACATGTCTTATACTAGCATTTCATA-AT-GTGGCCGATCCATGTCC
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGC--TTCATATATCGT-ACCGATGCATGTCC
58605557 TAGACATGTCTTACACTAGC
63 TAGACATGTCTTACACTAGC
58605577 TCACATAACA
Statistics
Matches: 146, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
88 1 0.01
89 2 0.01
90 33 0.23
91 3 0.02
92 69 0.47
93 35 0.24
94 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (91 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTCATATATCGTACCGATGCATGTCCTAG
ACATGTCTTACACTAGCACTATCTCA
Found at i:58605474 original size:46 final size:47
Alignment explanation
Indices: 58605315--58605583 Score: 220
Period size: 46 Copynumber: 5.8 Consensus size: 47
58605305 TATCTATGCT
*
58605315 GATGCATGTTCC-AGACATGTCTTACACTGGCTCT-CATATATCCGTA--CC
1 GATGCATG-TCCTAGACATGTCTTACACTAGCT-TACATAT-T-CG-AGGCC
* *
58605363 GATGCATGTCCTAGACATGTCTTACACTAGC--ACAT-CTCGTA-GTC
1 GATGCATGTCCTAGACATGTCTTACACTAGCTTACATATTCG-AGGCC
* *
58605407 GATGCATGTCCCAGACATGTCTTACACTAGCTTACAT-TTCGAGGCT
1 GATGCATGTCCTAGACATGTCTTACACTAGCTTACATATTCGAGGCC
* * * * *
58605453 GATGCATGTCCTAGGCATGTCTTACACTAGC-T-CTTGTCTCAATGCC
1 GATGCATGTCCTAGACATGTCTTACACTAGCTTACATAT-TCGAGGCC
* * * * * *
58605499 GACGCATGTCCCAGACATGTCTTATACTAGCATTTCATAAT-GTGGCC
1 GATGCATGTCCTAGACATGTCTTACACTAGC-TTACATATTCGAGGCC
* *
58605546 GATCCATGTCCTAGACATGTCTTACACTAGCTCACATA
1 GATGCATGTCCTAGACATGTCTTACACTAGCTTACATA
58605584 ACAGCAGTGT
Statistics
Matches: 181, Mismatches: 29, Indels: 24
0.77 0.12 0.10
Matches are distributed among these distances:
43 4 0.02
44 34 0.19
45 3 0.02
46 77 0.43
47 33 0.18
48 28 0.15
49 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (47 bp):
GATGCATGTCCTAGACATGTCTTACACTAGCTTACATATTCGAGGCC
Found at i:58615832 original size:13 final size:13
Alignment explanation
Indices: 58615814--58615838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58615804 CAACCAAGTA
58615814 AGGTCACACGGCT
1 AGGTCACACGGCT
58615827 AGGTCACACGGC
1 AGGTCACACGGC
58615839 CATGTACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.32, G:0.32, T:0.12
Consensus pattern (13 bp):
AGGTCACACGGCT
Found at i:58617209 original size:45 final size:45
Alignment explanation
Indices: 58617159--58617246 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
58617149 CCAAAACATG
* *
58617159 TGTCACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACAACAACTCAATGAGTTCAGA
*
58617204 TGTCACATATATCATGAACTCAGACAACAACTCAATGAGTTCA
1 TGTCACATACATCATGAACTCAGACAACAACTCAATGAGTTCA
58617247 CATCATATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACAACAACTCAATGAGTTCAGA
Found at i:58619874 original size:22 final size:21
Alignment explanation
Indices: 58619837--58619888 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
58619827 TACATCATGG
*
58619837 AGTGTGAACACATTAATGTTTT
1 AGTGTGAACACATTAA-GTGTT
58619859 AGTGTGAACA-ACTTAAGTGTT
1 AGTGTGAACACA-TTAAGTGTT
58619880 AGATGTGAA
1 AG-TGTGAA
58619889 TGTGTTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (21 bp):
AGTGTGAACACATTAAGTGTT
Found at i:58623576 original size:22 final size:21
Alignment explanation
Indices: 58623530--58623576 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
58623520 ATAACTTAAA
* *
58623530 AAATTAATAATAATATTACTT
1 AAATTAATAATAATAATACTC
58623551 AAATT-ATAATATATTAATACTC
1 AAATTAATAATA-A-TAATACTC
58623573 AAAT
1 AAAT
58623577 AAAATATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTAATAATAATAATACTC
Found at i:58630962 original size:48 final size:48
Alignment explanation
Indices: 58630728--58630964 Score: 217
Period size: 48 Copynumber: 4.9 Consensus size: 48
58630718 TGGTGAATTT
* * * * * *
58630728 CCGATGCCATGTTCCAAATATTGTCTTACATTGGCTCACATGTCGA-GG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGG
* * * * ** *
58630776 CTGATGCCGTATCCCAAACATGGTCTTACATTGGCTCTTGTCTCAAT-G
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGG
* * * * * **
58630824 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACAACATCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGG
* *
58630872 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGG
* * *
58630920 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCA
58630965 CCCAAATGGC
Statistics
Matches: 149, Mismatches: 38, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
47 2 0.01
48 147 0.99
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGG
Found at i:58631133 original size:31 final size:31
Alignment explanation
Indices: 58631095--58631157 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
58631085 CAACACATAA
58631095 TAACGATAAAGTTACCTTACTTACGTACAAC
1 TAACGATAAAGTTACCTTACTTACGTACAAC
58631126 TAACGATAAAGTTACCTTACTTACGTACAAC
1 TAACGATAAAGTTACCTTACTTACGTACAAC
58631157 T
1 T
58631158 TACCTCGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (31 bp):
TAACGATAAAGTTACCTTACTTACGTACAAC
Found at i:58632770 original size:12 final size:12
Alignment explanation
Indices: 58632753--58632777 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58632743 CATGTATGTT
58632753 TGAAAATTTTTA
1 TGAAAATTTTTA
58632765 TGAAAATTTTTA
1 TGAAAATTTTTA
58632777 T
1 T
58632778 TATTTACTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:58640040 original size:37 final size:39
Alignment explanation
Indices: 58639978--58640079 Score: 127
Period size: 37 Copynumber: 2.7 Consensus size: 39
58639968 ATCCAACCAA
* * *
58639978 AACACGCCAAGTGCTCCGAAAAGCTAATCCAATT-A-AT
1 AACACGCCAAATGCTCAGAAGAGCTAATCCAATTGATAT
* *
58640015 AACATGCCAAATGCTTAGAAGAGCTAATCCAATTGATAT
1 AACACGCCAAATGCTCAGAAGAGCTAATCCAATTGATAT
* *
58640054 AACACGCGAAATGCTCCGAAGAGCTA
1 AACACGCCAAATGCTCAGAAGAGCTA
58640080 TACATCCACC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 29 0.54
38 1 0.02
39 24 0.44
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.20
Consensus pattern (39 bp):
AACACGCCAAATGCTCAGAAGAGCTAATCCAATTGATAT
Found at i:58644617 original size:14 final size:16
Alignment explanation
Indices: 58644598--58644634 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
58644588 AGAAAATGAC
58644598 GATATATGAAA-A-GT
1 GATATATGAAATAGGT
*
58644612 GATATAGGAAATAGGT
1 GATATATGAAATAGGT
58644628 GATATAT
1 GATATAT
58644635 ATATGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 10 0.53
15 1 0.05
16 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (16 bp):
GATATATGAAATAGGT
Found at i:58648639 original size:50 final size:50
Alignment explanation
Indices: 58648564--58648663 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
58648554 TTGGTATCAG
* *
58648564 AGGCCCCCAGAGTAATGATTCTTGGAAAGACTGATATCATAATATCCATT
1 AGGCCCCCAGAGTAACGATTCTTGGAAAGAATGATATCATAATATCCATT
* *
58648614 AGGCCCTCGGAGTAACGATTCTTGGAAAGAATGATATCATAATATCCATT
1 AGGCCCCCAGAGTAACGATTCTTGGAAAGAATGATATCATAATATCCATT
58648664 GTAAGTTCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (50 bp):
AGGCCCCCAGAGTAACGATTCTTGGAAAGAATGATATCATAATATCCATT
Found at i:58649121 original size:40 final size:40
Alignment explanation
Indices: 58649066--58649156 Score: 155
Period size: 40 Copynumber: 2.3 Consensus size: 40
58649056 TATTGCTAAA
* *
58649066 AAAGAAAGATTTTATCAGCCATATCAAATATGGATTATTC
1 AAAGAATGATTTTATCAGCCATATCAAATATAGATTATTC
*
58649106 AAAGAATGATTTTATCAGCCATATCAAATATAGATTCTTC
1 AAAGAATGATTTTATCAGCCATATCAAATATAGATTATTC
58649146 AAAGAATGATT
1 AAAGAATGATT
58649157 GGAAGCCCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (40 bp):
AAAGAATGATTTTATCAGCCATATCAAATATAGATTATTC
Found at i:58650731 original size:34 final size:34
Alignment explanation
Indices: 58650693--58650761 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
58650683 AAACAAGTTG
58650693 ATAAATTGTTTATTATTGTCATACGGTCTTACTA
1 ATAAATTGTTTATTATTGTCATACGGTCTTACTA
*
58650727 ATAAATTGTTTATTATTTTCATACGGTCTTACTA
1 ATAAATTGTTTATTATTGTCATACGGTCTTACTA
58650761 A
1 A
58650762 GCTATAAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (34 bp):
ATAAATTGTTTATTATTGTCATACGGTCTTACTA
Found at i:58654418 original size:28 final size:28
Alignment explanation
Indices: 58654378--58654436 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
58654368 GAAATTAGAG
58654378 TAAGAGTTAGGAAATTTCTCGATTTTGC
1 TAAGAGTTAGGAAATTTCTCGATTTTGC
58654406 TAAGAGTTAGGAAATTTCTCGATTTTGC
1 TAAGAGTTAGGAAATTTCTCGATTTTGC
58654434 TAA
1 TAA
58654437 TCAAAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (28 bp):
TAAGAGTTAGGAAATTTCTCGATTTTGC
Found at i:58658076 original size:11 final size:11
Alignment explanation
Indices: 58658062--58658096 Score: 56
Period size: 10 Copynumber: 3.4 Consensus size: 11
58658052 ATATATTTTT
58658062 AAAAAATT-TA
1 AAAAAATTCTA
58658072 AAAAAATTCT-
1 AAAAAATTCTA
58658082 AAAAAATTCTA
1 AAAAAATTCTA
58658093 AAAA
1 AAAA
58658097 TATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAAAATTCTA
Found at i:58667084 original size:229 final size:230
Alignment explanation
Indices: 58666721--58667155 Score: 746
Period size: 229 Copynumber: 1.9 Consensus size: 230
58666711 AGGCCGTATG
*
58666721 GACAGTCGAAATGGAAGCACATGGCTGTGTCCTAGCCCATGTCTGACCCCGTGTAACTCTCTGAC
1 GACAGTCGAAATGGAAGCACATGGCTGTGTCCCAGCCCATGTCTGACCCCGTGTAACTCTCTGAC
* * *
58666786 TTGGGTCACACGGCCAACTCACATGCCCGTGTGGCTAGCCCCTGTGTCCTAAAAATGGCCATACA
66 TTAGGTCACACGACCAACTCACACGCCCGTGTGGCTAGCCCCTGTGTCCTAAAAATGGCCATACA
* * *
58666851 CGCTCATGTGTGAGGCTGTATGCTAGGTCATGCCAAACCTATAGGGTATACTGACTTATGCCACA
131 CGCTCATGTGTGAGGCCGTATGCTAGGCCATGCCAAACCTATAGGGTATACTGACTAATGCCACA
58666916 CGGCCAAGTCACACGTCTGTGTCACAGGTCGTGTT
196 CGGCCAAGTCACACGTCTGTGTCACAGGTCGTGTT
* * *
58666951 GACATTCGAAATGGGAGCACATGGCTGTGTCCCAGCCCGTGTCTGA-CCCGTGTAACTCTCTGAC
1 GACAGTCGAAATGGAAGCACATGGCTGTGTCCCAGCCCATGTCTGACCCCGTGTAACTCTCTGAC
58667015 TTAGGTCACACGACCAACTCACACGCCCGTGTGGCTAGCCCCTGTGTCCTAAAAATGGCCATACA
66 TTAGGTCACACGACCAACTCACACGCCCGTGTGGCTAGCCCCTGTGTCCTAAAAATGGCCATACA
* *
58667080 CGCTCATGTGTGAGGCCGTGTGCTAGGCCGTGCCAAACCTATAGGGTATACTGACTAATGCCACA
131 CGCTCATGTGTGAGGCCGTATGCTAGGCCATGCCAAACCTATAGGGTATACTGACTAATGCCACA
*
58667145 TGGCCAAGTCA
196 CGGCCAAGTCA
58667156 TACGCCCGTG
Statistics
Matches: 192, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
229 150 0.78
230 42 0.22
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (230 bp):
GACAGTCGAAATGGAAGCACATGGCTGTGTCCCAGCCCATGTCTGACCCCGTGTAACTCTCTGAC
TTAGGTCACACGACCAACTCACACGCCCGTGTGGCTAGCCCCTGTGTCCTAAAAATGGCCATACA
CGCTCATGTGTGAGGCCGTATGCTAGGCCATGCCAAACCTATAGGGTATACTGACTAATGCCACA
CGGCCAAGTCACACGTCTGTGTCACAGGTCGTGTT
Found at i:58668524 original size:124 final size:124
Alignment explanation
Indices: 58668304--58668545 Score: 448
Period size: 124 Copynumber: 2.0 Consensus size: 124
58668294 CTCGCACCAA
58668304 AAGTGCTATATCATGGCCCGAAGCAACTCAATGTATCCCCTAATGACTTGTCACTAGCATACTAA
1 AAGTGCTATATCATGGCCCGAAGCAACTCAATGTATCCCCTAATGACTTGTCACTAGCATACTAA
* *
58668369 ACTATTCCTAGGGTTCAACCGGGATTTTCGAATGTCATATCGTCGTCAAATCACACTAG
66 ACTATTCCTAAGGTTCAACCGGGATTTTCGAATGTCATATCGCCGTCAAATCACACTAG
*
58668428 AAGTGCTATATCATGGCCCGAAGCAACTCAATGTATCCCCTAATGACTTGTCACTAGCATCCTAA
1 AAGTGCTATATCATGGCCCGAAGCAACTCAATGTATCCCCTAATGACTTGTCACTAGCATACTAA
*
58668493 ACTATTCCTAAGGTTCAACCGGGATTTTCGAATGTCATATCGCCGTCGAATCA
66 ACTATTCCTAAGGTTCAACCGGGATTTTCGAATGTCATATCGCCGTCAAATCA
58668546 TTATCGTTCA
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 114 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (124 bp):
AAGTGCTATATCATGGCCCGAAGCAACTCAATGTATCCCCTAATGACTTGTCACTAGCATACTAA
ACTATTCCTAAGGTTCAACCGGGATTTTCGAATGTCATATCGCCGTCAAATCACACTAG
Found at i:58674472 original size:650 final size:650
Alignment explanation
Indices: 58673231--58674527 Score: 2486
Period size: 650 Copynumber: 2.0 Consensus size: 650
58673221 TCAATGTCTC
*
58673231 TTTTCTCTAGGTCTTTTCACATGATTTTGCCTCACTTCCCATATCCTCTTCACAAGTATTATGAA
1 TTTTCTCTAGGTCTTTTCACATGATTTTGCCTCACTTCCCATATCCCCTTCACAAGTATTATGAA
*
58673296 TATACAATTCAATACAATATATCTCAGTAGGAGAACATGACGTTTCTATATCATCTAACTTAAGA
66 TATACAATTCAATACAATACATCTCAGTAGGAGAACATGACGTTTCTATATCATCTAACTTAAGA
58673361 GATTCAAGGAAAAAATTCTCGCTATCATCTTTTTCTGGTTCACCAAGTTTGCCATCACAAATCTC
131 GATTCAAGGAAAAAATTCTCGCTATCATCTTTTTCTGGTTCACCAAGTTTGCCATCACAAATCTC
* *
58673426 TTTTCCGCTAGAATATGAGTCAATAAAAGGTACAAAGTCGTACTTACTTTGTTCTCTAGTTGGAT
196 TTTTCCGCTAGAATATGAGTCAACAAAAGGTACAAAGTCATACTTACTTTGTTCTCTAGTTGGAT
58673491 ATTGAATTGGACATTGGAAACCTTTATGATCTTTTGAACTACACCAATAACATTGCACAAAAGGT
261 ATTGAATTGGACATTGGAAACCTTTATGATCTTTTGAACTACACCAATAACATTGCACAAAAGGT
58673556 GATAGCTCAATCGTATTCCTCCTTTCGTTTGACCATCGCCCATTGAATTGACAAACTAATTTGTG
326 GATAGCTCAATCGTATTCCTCCTTTCGTTTGACCATCGCCCATTGAATTGACAAACTAATTTGTG
*
58673621 ATCATTTTTTCCATCATAATAAGTCTCTTGATCATTCTTTCCATGAAATTCTAGAATTGAGAACT
391 ATCATTTTTTCCATCACAATAAGTCTCTTGATCATTCTTTCCATGAAATTCTAGAATTGAGAACT
58673686 TTGATTTAGTTAAAAAATGTTGCTCATAGTCATTATTAACAAAAGTCTCATCATTTGCACAAGAG
456 TTGATTTAGTTAAAAAATGTTGCTCATAGTCATTATTAACAAAAGTCTCATCATTTGCACAAGAG
* *
58673751 ACACATTGAGCATTATTTGCACGAAGACGAGGCTGATAACCTTATCTCTCCAATTACGATTCCAA
521 ACACATTGAGCATTATTTGCACGAAGACGAGGCTAATAACCTTATCTCCCCAATTACGATTCCAA
58673816 CGCTCAATTTTGGTACTTTAGACATTCCAAATTTTTACTGATTGTGTCTAGAATAGCGTCACGTT
586 CGCTCAATTTTGGTACTTTAGACATTCCAAATTTTTACTGATTGTGTCTAGAATAGCGTCACGTT
58673881 TTTTCTCTAGGTCTTTTCACATGATTTTGCCTCACTTCCCATATCCCCTTCACAAGTATTATGAA
1 TTTTCTCTAGGTCTTTTCACATGATTTTGCCTCACTTCCCATATCCCCTTCACAAGTATTATGAA
* * *
58673946 TATACAATTCAGTACAATACATCTCAGTAGGAGAACATGACGTTTCTATCTCATCTAACTTAATA
66 TATACAATTCAATACAATACATCTCAGTAGGAGAACATGACGTTTCTATATCATCTAACTTAAGA
*
58674011 GATTCAAGGAAAAAATTCTTGCTATCATCTTTTTCTGGTTCACCAAGTTTGCCATCACAAATCTC
131 GATTCAAGGAAAAAATTCTCGCTATCATCTTTTTCTGGTTCACCAAGTTTGCCATCACAAATCTC
58674076 TTTTCCGCTAGAATATGAGTCAACAAAAGGTACAAAGTCATACTTACTTTGTTCTCTAGTTGGAT
196 TTTTCCGCTAGAATATGAGTCAACAAAAGGTACAAAGTCATACTTACTTTGTTCTCTAGTTGGAT
58674141 ATTGAATTGGACATTGGAAACCTTTATGATCTTTTGAACTACACCAATAACATTGCACAAAAGGT
261 ATTGAATTGGACATTGGAAACCTTTATGATCTTTTGAACTACACCAATAACATTGCACAAAAGGT
*
58674206 GATAGCTCAATCGTATTCCTCCTTTCGTTTGACCATCTCCCATTGAATTGACAAACTAATTTGTG
326 GATAGCTCAATCGTATTCCTCCTTTCGTTTGACCATCGCCCATTGAATTGACAAACTAATTTGTG
58674271 ATCATTTTTTCCATCACAATAAGTCTCTTGATCATTCTTTCCATGAAATTCTAGAATTGAGAACT
391 ATCATTTTTTCCATCACAATAAGTCTCTTGATCATTCTTTCCATGAAATTCTAGAATTGAGAACT
58674336 TTGATTTAGTTAAAAAATGTTGCTCATAGTCATTATTAACAAAAGTCTCATCATTTGCACAAGAG
456 TTGATTTAGTTAAAAAATGTTGCTCATAGTCATTATTAACAAAAGTCTCATCATTTGCACAAGAG
58674401 ACACATTGAGCATTATTTGCACGAAGACGAGGCTAATAACCTTATCTCCCCAATTACGATTCCAA
521 ACACATTGAGCATTATTTGCACGAAGACGAGGCTAATAACCTTATCTCCCCAATTACGATTCCAA
58674466 CGCTCAATTTTGGTACTTTAGACATTCCAAATTTTTACTGATTGTGTCTAGAATAGCGTCAC
586 CGCTCAATTTTGGTACTTTAGACATTCCAAATTTTTACTGATTGTGTCTAGAATAGCGTCAC
58674528 ATTTATGAAC
Statistics
Matches: 635, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
650 635 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (650 bp):
TTTTCTCTAGGTCTTTTCACATGATTTTGCCTCACTTCCCATATCCCCTTCACAAGTATTATGAA
TATACAATTCAATACAATACATCTCAGTAGGAGAACATGACGTTTCTATATCATCTAACTTAAGA
GATTCAAGGAAAAAATTCTCGCTATCATCTTTTTCTGGTTCACCAAGTTTGCCATCACAAATCTC
TTTTCCGCTAGAATATGAGTCAACAAAAGGTACAAAGTCATACTTACTTTGTTCTCTAGTTGGAT
ATTGAATTGGACATTGGAAACCTTTATGATCTTTTGAACTACACCAATAACATTGCACAAAAGGT
GATAGCTCAATCGTATTCCTCCTTTCGTTTGACCATCGCCCATTGAATTGACAAACTAATTTGTG
ATCATTTTTTCCATCACAATAAGTCTCTTGATCATTCTTTCCATGAAATTCTAGAATTGAGAACT
TTGATTTAGTTAAAAAATGTTGCTCATAGTCATTATTAACAAAAGTCTCATCATTTGCACAAGAG
ACACATTGAGCATTATTTGCACGAAGACGAGGCTAATAACCTTATCTCCCCAATTACGATTCCAA
CGCTCAATTTTGGTACTTTAGACATTCCAAATTTTTACTGATTGTGTCTAGAATAGCGTCACGTT
Found at i:58675220 original size:22 final size:19
Alignment explanation
Indices: 58675195--58675236 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
58675185 TGATAATAAC
58675195 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
58675217 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
58675236 T
1 T
58675237 CAATTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:58675227 original size:16 final size:15
Alignment explanation
Indices: 58675195--58675233 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
58675185 TGATAATAAC
58675195 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
58675211 TTATTATAATATATAT
1 TAATTATAAT-TATAT
58675227 TAATTAT
1 TAATTAT
58675234 TATCAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Done.