Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 74 of 196
Found at i:21235861 original size:50 final size:49
Alignment explanation
Indices: 21235736--21235929 Score: 140
Period size: 50 Copynumber: 3.9 Consensus size: 49
21235726 GATAATAACA
* * * * * *
21235736 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAACGCCACGTCCCAGACATGGTCTTACATGGGAT-TCTCATAT-CGG
* * ** * * *
21235785 TCCCAATGCCATATCCCATATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCACGTCCCAGACATGGTCTTACATGGGA-TTCTCATATCGG
*** ** * *
21235835 TGCCCGTGCCACGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCACGTCCCAGACATGGTCTTACATGGGA-TTCTCATATCGG
*
21235885 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCAT
1 TGCCAACGCCACGTCCCAGACATGGTCTTACATGGGAT-TCTCAT
21235930 TGTCTCAATG
Statistics
Matches: 111, Mismatches: 30, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
49 36 0.32
50 75 0.68
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (49 bp):
TGCCAACGCCACGTCCCAGACATGGTCTTACATGGGATTCTCATATCGG
Found at i:21243442 original size:50 final size:49
Alignment explanation
Indices: 21243387--21243511 Score: 133
Period size: 50 Copynumber: 2.5 Consensus size: 49
21243377 TATCCCAGAT
* ***
21243387 ATGGTCTTACATGGGAGTTCTCATATTGGTGCCCGTGCCACGTCCCAAAC
1 ATGGTCTTACATGGGA-TTCTCATATCGGTGCCAACGCCACGTCCCAAAC
** * * * *
21243437 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGA-TTCTCATATCGGTGCCAACGCCACGTCCCAAAC
21243487 ATGGTCTTACATGGGATCTCTCATA
1 ATGGTCTTACATGGGAT-TCTCATA
21243512 GTCCCAATGA
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (49 bp):
ATGGTCTTACATGGGATTCTCATATCGGTGCCAACGCCACGTCCCAAAC
Found at i:21260315 original size:50 final size:50
Alignment explanation
Indices: 21260243--21260523 Score: 289
Period size: 50 Copynumber: 5.5 Consensus size: 50
21260233 CCTGTACTGT
* * * * **
21260243 CAATGTCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
* * *
21260293 CCATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
** *
21260343 CAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
* * **
21260393 CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAATTTCAATAATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGC
* * * *
21260449 CAATGCCATGTCCCAGACATGGTCTTACACT---AGCTCACATATCGATGT
1 CAATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATATCGGTGC
*
21260497 CGATGCCATGTCCCAGACATGGTCTTA
1 CAATGCCATGTCCCAGACATGGTCTTA
21260524 TAAGAGATCA
Statistics
Matches: 199, Mismatches: 25, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
48 29 0.15
50 127 0.64
51 2 0.01
53 3 0.02
54 6 0.03
56 31 0.16
57 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
Found at i:21260543 original size:48 final size:48
Alignment explanation
Indices: 21260451--21260543 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
21260441 AATAATGCCA
** * * *
21260451 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACAAGAGATCACACACCGATGTCG
* *
21260499 ATGCCATGTCCCAGACATGGTCTTATAAGAGATCACACGCCGATG
1 ATGCCATGTCCCAGACATGGTCTTACAAGAGATCACACACCGATG
21260544 CCATATCCCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACAAGAGATCACACACCGATGTCG
Found at i:21264530 original size:25 final size:25
Alignment explanation
Indices: 21264470--21264583 Score: 133
Period size: 25 Copynumber: 4.6 Consensus size: 25
21264460 ATATTCATGT
* * *
21264470 AAGCTCATACGAGCTATGAAT-AGT
1 AAGCTCATACGAGCTATAAATCGGG
* *
21264494 ATGCTC-TCACGAGCTATGAATCGGG
1 AAGCTCAT-ACGAGCTATAAATCGGG
*
21264519 AAGCTCATACGAGCTGTAAATCGGG
1 AAGCTCATACGAGCTATAAATCGGG
* *
21264544 AAGCTCATACGAGCTGTAAATCGAG
1 AAGCTCATACGAGCTATAAATCGGG
21264569 AAGCTCATACGAGCT
1 AAGCTCATACGAGCT
21264584 GTAGTGTGCT
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
23 1 0.01
24 18 0.22
25 60 0.75
26 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (25 bp):
AAGCTCATACGAGCTATAAATCGGG
Found at i:21264584 original size:25 final size:25
Alignment explanation
Indices: 21264502--21264586 Score: 143
Period size: 25 Copynumber: 3.4 Consensus size: 25
21264492 GTATGCTCTC
* *
21264502 ACGAGCTATGAATCGGGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
21264527 ACGAGCTGTAAATCGGGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
*
21264552 ACGAGCTGTAAATCGAGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
21264577 ACGAGCTGTA
1 ACGAGCTGTA
21264587 GTGTGCTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
ACGAGCTGTAAATCGGGAAGCTCAT
Found at i:21270188 original size:14 final size:14
Alignment explanation
Indices: 21270169--21270195 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21270159 TTCGAGAGAT
21270169 TTGTGAGGTTTTTG
1 TTGTGAGGTTTTTG
21270183 TTGTGAGGTTTTT
1 TTGTGAGGTTTTT
21270196 CTATTTCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.00, G:0.33, T:0.59
Consensus pattern (14 bp):
TTGTGAGGTTTTTG
Found at i:21271971 original size:19 final size:19
Alignment explanation
Indices: 21271927--21271971 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
21271917 GTGAAAACAC
21271927 AAAAGAAAAGAAAAATGAGA
1 AAAAG-AAAGAAAAATGAGA
*
21271947 AGAAGAAAGAAAAATTGA-A
1 AAAAGAAAGAAAAA-TGAGA
21271966 AAAAGA
1 AAAAGA
21271972 TAGTGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (19 bp):
AAAAGAAAGAAAAATGAGA
Found at i:21284375 original size:20 final size:21
Alignment explanation
Indices: 21284350--21284399 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
21284340 GGTTTAAGCT
**
21284350 AAAAGGGT-TTTTAATTTTAA
1 AAAAGGGTATTTTAAAGTTAA
21284370 AAAA-GGTATTTTAAAGTTAA
1 AAAAGGGTATTTTAAAGTTAA
21284390 AAATAGGGTA
1 AAA-AGGGTA
21284400 AAATTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.12
20 17 0.68
21 1 0.04
22 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (21 bp):
AAAAGGGTATTTTAAAGTTAA
Found at i:21290012 original size:111 final size:110
Alignment explanation
Indices: 21289886--21290110 Score: 405
Period size: 111 Copynumber: 2.0 Consensus size: 110
21289876 TTTGAGATTC
*
21289886 ATGTATATTTTAAGTTGTAAGTTCAAAATCTACCTAGCCATGGTTCAAGCTTTGTTAAATGATGT
1 ATGTATATTTTAAGTTGTAAGTTCAAAATCTACCTAGCCATGGTTCAAGCTTTGTTAAATGATGG
21289951 AGGTGACATTCGGCCATGAATGTTACATTCTTGTGTAGGTATTTCG
66 AGGTGACATTCGGCCATGAATGTTACATTCTTG-GTAGGTATTTCG
21289997 ATGTATATTTTAAGTTGTAAGTTCAAAATCTACCTAGCCATGGTTCAAGCTTTGTTAAATGATGG
1 ATGTATATTTTAAGTTGTAAGTTCAAAATCTACCTAGCCATGGTTCAAGCTTTGTTAAATGATGG
* * *
21290062 AGGTGACATTCGGCCATGAATGTTACGTTCTTGGTTGGTATTTTG
66 AGGTGACATTCGGCCATGAATGTTACATTCTTGGTAGGTATTTCG
21290107 ATGT
1 ATGT
21290111 CTTTGGTGAT
Statistics
Matches: 110, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
110 14 0.13
111 96 0.87
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (110 bp):
ATGTATATTTTAAGTTGTAAGTTCAAAATCTACCTAGCCATGGTTCAAGCTTTGTTAAATGATGG
AGGTGACATTCGGCCATGAATGTTACATTCTTGGTAGGTATTTCG
Found at i:21291695 original size:27 final size:26
Alignment explanation
Indices: 21291661--21291854 Score: 172
Period size: 27 Copynumber: 7.6 Consensus size: 26
21291651 TAAATTGTAC
21291661 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
21291688 TGCACTAAGTGTGCGA--GACTATGT
1 AGCACTAAGTGTGCGATTGACTATGT
* *
21291712 TGCACT-A--GTGCGA---AATGATG-
1 AGCACTAAGTGTGCGATTGACT-ATGT
* *
21291732 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
21291760 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
21291787 AGCACTAAGTGTGCGATTGATTACGT
1 AGCACTAAGTGTGCGATTGACTATGT
* *
21291813 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
21291840 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21291855 GACTCAATAT
Statistics
Matches: 141, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.01
21 14 0.10
22 1 0.01
23 1 0.01
24 19 0.13
25 1 0.01
26 25 0.18
27 77 0.55
28 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:21291823 original size:53 final size:54
Alignment explanation
Indices: 21291734--21291854 Score: 163
Period size: 53 Copynumber: 2.3 Consensus size: 54
21291724 AAATGATGAT
* * *
21291734 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATGTA
1 GCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTGTGCGAGTTGACTATATA
** * *
21291788 GCACTAAGTGTGCG-ATTGATTACGTAGCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTGTGCGAGTTGACTATATA
*
21291841 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21291855 GACTCAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 45 0.76
54 14 0.24
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (54 bp):
GCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTGTGCGAGTTGACTATATA
Found at i:21299810 original size:53 final size:52
Alignment explanation
Indices: 21299715--21299915 Score: 242
Period size: 53 Copynumber: 3.8 Consensus size: 52
21299705 TAAATTGTAC
*
21299715 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGA-TATGTAGCACTAAGTGTGCGA-TTGACTATGT
* * * *
21299769 TGCACTAAGTGTGCGAAATGAAATG-ATGCACTAAGTGTGCGAATTGACCATGT
1 AGCACTAAGTGTGCGAATTGATATGTA-GCACTAAGTGTGCG-ATTGACTATGT
* * * *
21299822 GGCACTAAGTGTGCGAGTTGATATGTAGCACTAAGTGTGCGATTGATTACGT
1 AGCACTAAGTGTGCGAATTGATATGTAGCACTAAGTGTGCGATTGACTATGT
* * *
21299874 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGA-TATGTAGCACTAAGTGTGCG
21299916 GACTCAATAT
Statistics
Matches: 128, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
52 29 0.23
53 79 0.62
54 20 0.16
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGATATGTAGCACTAAGTGTGCGATTGACTATGT
Found at i:21299875 original size:26 final size:27
Alignment explanation
Indices: 21299715--21299915 Score: 248
Period size: 27 Copynumber: 7.6 Consensus size: 27
21299705 TAAATTGTAC
*
21299715 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
21299742 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* ** *
21299769 TGCACTAAGTGTGCGAAATGA-AATG-
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
21299794 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAGTTGACTATGT
*
21299822 GGCACTAAGTGTGCGAGTTGA-TATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
21299848 AGCACTAAGTGTGCGA-TTGATTACGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
21299874 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
21299901 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21299916 GACTCAATAT
Statistics
Matches: 153, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
25 4 0.03
26 61 0.40
27 88 0.58
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:21301405 original size:17 final size:17
Alignment explanation
Indices: 21301385--21301424 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
21301375 TTGGCGGACC
21301385 GTATCACCTGGCAGATA
1 GTATCACCTGGCAGATA
* * *
21301402 GTATCACTTGGCGGATT
1 GTATCACCTGGCAGATA
21301419 GTATCA
1 GTATCA
21301425 TCTAGTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (17 bp):
GTATCACCTGGCAGATA
Found at i:21301436 original size:17 final size:17
Alignment explanation
Indices: 21301402--21301457 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
21301392 CTGGCAGATA
* * *
21301402 GTATCACTTGGCGGATT
1 GTATCACCTAGCGAATT
* *
21301419 GTATCATCTAGTGAATT
1 GTATCACCTAGCGAATT
*
21301436 GTATCACCTAGCGAATA
1 GTATCACCTAGCGAATT
21301453 GTATC
1 GTATC
21301458 GCCATGTGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (17 bp):
GTATCACCTAGCGAATT
Found at i:21304568 original size:35 final size:35
Alignment explanation
Indices: 21304529--21304632 Score: 100
Period size: 37 Copynumber: 2.9 Consensus size: 35
21304519 GATGTACTGA
*
21304529 AAAAGTTGTGCCCAGCACTAGTCAGTTAAACCAAC
1 AAAAGTTGTGCCCAGCACTAGTCAGATAAACCAAC
* * ***
21304564 AAAAGTTTTGCACCCAGCACTGGTCAGATAAATTGAC
1 AAAAGTTGTG--CCCAGCACTAGTCAGATAAACCAAC
** * *
21304601 AATTGTTGTGCCCTGCACTAGTCGGATAAACC
1 AAAAGTTGTGCCCAGCACTAGTCAGATAAACC
21304633 GACGATGTTT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
35 26 0.49
37 27 0.51
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (35 bp):
AAAAGTTGTGCCCAGCACTAGTCAGATAAACCAAC
Found at i:21304664 original size:71 final size:72
Alignment explanation
Indices: 21304533--21304690 Score: 210
Period size: 71 Copynumber: 2.2 Consensus size: 72
21304523 TACTGAAAAA
* * *
21304533 GTTGTGCCCAGCACTAGTCAGTTAAACCAACAAAAGTTTTGCACCCAGCACTGGTCAGATAAATT
1 GTTGTGCCCTGCACTAGTCAGATAAACCAACAAAAGTTTTGCACCCAGCACTGGTCAGATAAACT
21304598 GACAATT
66 GACAATT
* * * * * *
21304605 GTTGTGCCCTGCACTAGTCGGATAAACCGAC-GATGTTTTGCGCCCAGCGCTGGTCAGATAAACT
1 GTTGTGCCCTGCACTAGTCAGATAAACCAACAAAAGTTTTGCACCCAGCACTGGTCAGATAAACT
21304669 GACAATT
66 GACAATT
* *
21304676 GTTGTACCCTACACT
1 GTTGTGCCCTGCACT
21304691 GATTGGTTAT
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
71 48 0.64
72 27 0.36
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (72 bp):
GTTGTGCCCTGCACTAGTCAGATAAACCAACAAAAGTTTTGCACCCAGCACTGGTCAGATAAACT
GACAATT
Found at i:21315082 original size:20 final size:20
Alignment explanation
Indices: 21315032--21315085 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
21315022 TGAACCCTTC
*
21315032 CATTTACTTAATTTCCATTG
1 CATTTACTTACTTTCCATTG
*
21315052 CATTTACTTACTTTTCATTG
1 CATTTACTTACTTTCCATTG
21315072 CATTTACTTACTTT
1 CATTTACTTACTTT
21315086 AGCTTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.54
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTG
Found at i:21316116 original size:44 final size:45
Alignment explanation
Indices: 21316032--21316222 Score: 226
Period size: 45 Copynumber: 4.3 Consensus size: 45
21316022 TTTTTTCAAC
* * * * *
21316032 CATGGTCTTATTCGTTTGATTCATGATGCCATAGCATCTTTCAG-
1 CATGGTCTTACTCGTTAGAATCGTGATGCCATAACATCTTTCAGT
* * * *
21316076 CTATTGTCTTACTCGATAGAATCGTG-TGCCATAACGTCTTTCAAT
1 C-ATGGTCTTACTCGTTAGAATCGTGATGCCATAACATCTTTCAGT
* *
21316121 CATGGTCTTGCTCGTTAGAATCGTGATGCCATAACGA-CTTTTAGT
1 CATGGTCTTACTCGTTAGAATCGTGATGCCATAAC-ATCTTTCAGT
* *
21316166 CATGCTCTTACTCGTTAGAATTGTGATGCCATAACATCTTTCAGT
1 CATGGTCTTACTCGTTAGAATCGTGATGCCATAACATCTTTCAGT
21316211 CATGGTCTTACT
1 CATGGTCTTACT
21316223 AGTTTCTGGT
Statistics
Matches: 122, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
44 38 0.31
45 84 0.69
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (45 bp):
CATGGTCTTACTCGTTAGAATCGTGATGCCATAACATCTTTCAGT
Found at i:21316136 original size:89 final size:90
Alignment explanation
Indices: 21316025--21316222 Score: 233
Period size: 89 Copynumber: 2.2 Consensus size: 90
21316015 CCATAGTTTT
* * * * *
21316025 TTTCAACCATGGTCTTATTCGTTTGATTCATGATGCCATAGC-ATCTTTCAG-CTATTG-TCTTA
1 TTTCAATCATGGTCTTACTCGTTAGAATCATGATGCCATAACGA-CTTTCAGTC-A-TGCTCTTA
*
21316087 CTCGATAGAATCGTG-TGCCATAACGTC
63 CTCGATAGAATCGTGATGCCATAACATC
* * *
21316114 TTTCAATCATGGTCTTGCTCGTTAGAATCGTGATGCCATAACGACTTTTAGTCATGCTCTTACTC
1 TTTCAATCATGGTCTTACTCGTTAGAATCATGATGCCATAACGACTTTCAGTCATGCTCTTACTC
* *
21316179 GTTAGAATTGTGATGCCATAACATC
66 GATAGAATCGTGATGCCATAACATC
*
21316204 TTTCAGTCATGGTCTTACT
1 TTTCAATCATGGTCTTACT
21316223 AGTTTCTGGT
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
88 2 0.02
89 60 0.65
90 30 0.33
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (90 bp):
TTTCAATCATGGTCTTACTCGTTAGAATCATGATGCCATAACGACTTTCAGTCATGCTCTTACTC
GATAGAATCGTGATGCCATAACATC
Found at i:21318571 original size:54 final size:54
Alignment explanation
Indices: 21318503--21318639 Score: 202
Period size: 54 Copynumber: 2.5 Consensus size: 54
21318493 GAAATAGGGC
* * *
21318503 CACACGGCTGTGTCGTAGGCCATGTGCTAAATCGTGTAACAATCTATTTTGGCT
1 CACACGGCCGTGTCGTAGGCCGTGTGCTAAACCGTGTAACAATCTATTTTGGCT
* *
21318557 CACACGACCGTGTCGTAGGCTGTGTGCTAAACCGTGTAACAATCTATTTTGGCT
1 CACACGGCCGTGTCGTAGGCCGTGTGCTAAACCGTGTAACAATCTATTTTGGCT
* **
21318611 CACATGGCCGTGTCACAGGCCGTGTGCTA
1 CACACGGCCGTGTCGTAGGCCGTGTGCTA
21318640 GACTGTGCAG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (54 bp):
CACACGGCCGTGTCGTAGGCCGTGTGCTAAACCGTGTAACAATCTATTTTGGCT
Found at i:21325027 original size:20 final size:20
Alignment explanation
Indices: 21324986--21325084 Score: 119
Period size: 20 Copynumber: 5.0 Consensus size: 20
21324976 GATGCATAAT
* * *
21324986 AGAGTCACCGAAGTGTAGAC
1 AGAGGCACCGAAGTGCAAAC
*
21325006 AGAGGCA-CGAATGTGCGAAC
1 AGAGGCACCGAA-GTGCAAAC
* *
21325026 AGATGCACCGAAATGCAAAC
1 AGAGGCACCGAAGTGCAAAC
*
21325046 AGAGGCACCGAAGTGCAAAG
1 AGAGGCACCGAAGTGCAAAC
21325066 AGAGGCACCGAAGTGCAAA
1 AGAGGCACCGAAGTGCAAA
21325085 TCCCATACAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
19 4 0.06
20 59 0.88
21 4 0.06
ACGTcount: A:0.39, C:0.21, G:0.30, T:0.09
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAC
Found at i:21334827 original size:44 final size:44
Alignment explanation
Indices: 21334764--21334853 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
21334754 CTCAACAATT
21334764 CTCACGCTACCAATACTAGCAGTCAGTGAATTAACGAATTTCAA
1 CTCACGCTACCAATACTAGCAGTCAGTGAATTAACGAATTTCAA
21334808 CTCACGCTACCAATACTAGCAGTCAGTGAATTAACGAATTTCAA
1 CTCACGCTACCAATACTAGCAGTCAGTGAATTAACGAATTTCAA
21334852 CT
1 CT
21334854 TACTCTATCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (44 bp):
CTCACGCTACCAATACTAGCAGTCAGTGAATTAACGAATTTCAA
Found at i:21339899 original size:20 final size:21
Alignment explanation
Indices: 21339860--21339901 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
21339850 AAGCTTGTTG
*
21339860 AGCTCAATTGAGCTTATTTCC
1 AGCTCAATTGAGCTCATTTCC
*
21339881 AGCTCAA-TGAGCTCGTTTCC
1 AGCTCAATTGAGCTCATTTCC
21339901 A
1 A
21339902 TCTTTCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (21 bp):
AGCTCAATTGAGCTCATTTCC
Found at i:21339973 original size:13 final size:14
Alignment explanation
Indices: 21339950--21339978 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21339940 AATAAATTAT
21339950 TTAATTTTAGTTAG
1 TTAATTTTAGTTAG
21339964 TTAA-TTTAGTTAG
1 TTAATTTTAGTTAG
21339977 TT
1 TT
21339979 TAGTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTAATTTTAGTTAG
Found at i:21346587 original size:21 final size:21
Alignment explanation
Indices: 21346548--21346587 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21346538 ATTTTTAGGT
*
21346548 TTTTAGTTAGTTCTATTTTCC
1 TTTTAGTTAGTCCTATTTTCC
21346569 TTTTAGTTTAGTCCT-TTTT
1 TTTTAG-TTAGTCCTATTTT
21346588 ATACTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.12, C:0.12, G:0.10, T:0.65
Consensus pattern (21 bp):
TTTTAGTTAGTCCTATTTTCC
Found at i:21348519 original size:23 final size:23
Alignment explanation
Indices: 21348462--21348797 Score: 107
Period size: 23 Copynumber: 14.5 Consensus size: 23
21348452 AATCTTATTT
*
21348462 AAACTTATAATCTAA-TTTACTA
1 AAACTTAAAATCTAATTTTACTA
*
21348484 AAA-TCTATCAATCTAATTTTACTA
1 AAACT-TA-AAATCTAATTTTACTA
* *
21348508 AAACTTAAAATCAAATTCTACTTA
1 AAACTTAAAATCTAATTTTAC-TA
* * * *
21348532 TAA-TTATAA--TAATTTTTTTCCA
1 AAACTTAAAATCTAA--TTTTACTA
*** *
21348554 AAA-TTAAAATCTAAACCTATTA
1 AAACTTAAAATCTAATTTTACTA
*
21348576 AAAGCTAAAAATCTAATTTTACTA
1 AAA-CTTAAAATCTAATTTTACTA
* *
21348600 CAACTTAAAATCTAATTTTTATTA
1 AAACTTAAAATCTAA-TTTTACTA
* * *** * *
21348624 AAAATTACAAA-CGAATCCCATTT
1 AAACTTA-AAATCTAATTTTACTA
* * *
21348647 AAACTTATAATTTAA-TTTATTA
1 AAACTTAAAATCTAATTTTACTA
* ** *
21348669 AAACCTATCGATCTAATTTTAATA
1 AAACTTA-AAATCTAATTTTACTA
* * *
21348693 GAACTTAAAATCAAATTCTAACTA
1 AAACTTAAAATCTAATT-TTACTA
** * * *
21348717 AAA-TTCTAATATAATTTTTTCCA
1 AAACTTAAAATCTAA-TTTTACTA
*** *
21348740 AAA-TTAAAATCTAAACCTATTA
1 AAACTTAAAATCTAATTTTACTA
*
21348762 AAAGCTAAAAATCTAATTTTACTA
1 AAA-CTTAAAATCTAATTTTACTA
*
21348786 CAACTTAAAATC
1 AAACTTAAAATC
21348798 AAACCCTTTT
Statistics
Matches: 217, Mismatches: 77, Indels: 39
0.65 0.23 0.12
Matches are distributed among these distances:
21 3 0.01
22 34 0.16
23 91 0.42
24 85 0.39
25 4 0.02
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.38
Consensus pattern (23 bp):
AAACTTAAAATCTAATTTTACTA
Found at i:21348589 original size:92 final size:90
Alignment explanation
Indices: 21348493--21349306 Score: 776
Period size: 92 Copynumber: 8.8 Consensus size: 90
21348483 AAAATCTATC
* * *
21348493 AATCTAATTTTACTAAAACTTAAAATCAAATTCTACTTATAATTATAA-TAATTTTTTTCCAAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTA-AATTATAACTAA--TTTTTCCAAAA
* *
21348557 TTAAAATCTAAACCTATTAAAAGCTAAA
63 TTATAATCTAAACCTATTAAAACCTAAA
* ** * * * *
21348585 AATCTAATTTTACTACAACTTAAAATCTAATTTTTATTAAAAATTACAAACGAATCCCATTT--A
1 AATCTAATTTTACTACAACTTAAAATC-AAATCCTATT-TAAATTA-TAACTAAT---TTTTCCA
* * ** **
21348648 AACTTATAAT-TTAATTTATTAAAACCTATC
60 AAATTATAATCTAAACCTATTAAAACCTAAA
* * * * * * * *
21348678 GATCTAATTTTAATAGAACTTAAAATCAAATTCTAACTAAAATTCTAATATAATTTTTTCCAAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCT-ATTTAAATTATAA-CTAA-TTTTTCCAAAA
* *
21348743 TTAAAATCTAAACCTATTAAAAGCTAAA
63 TTATAATCTAAACCTATTAAAACCTAAA
* * *
21348771 AATCTAATTTTACTACAACTTAAAATCAAACCCT-TTTAAACCTATAATCTAATTTTACCAAAAT
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAA-TTATAA-CTAATTTTTCCAAAAT
*
21348835 TATAATCTAAACCTATTAGAACCTAAA
64 TATAATCTAAACCTATTAAAACCTAAA
* ** * * *
21348862 AATATAATACTATTACAACTTAAAATCAAATCCTATTTAAACCTATTATCTAATTTTTCCAAAAT
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAA-TTA-TAACTAATTTTTCCAAAAT
* *
21348927 TATGATCTAAGCCTATTAAAACCTAAA
64 TATAATCTAAACCTATTAAAACCTAAA
* *
21348954 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAACCTATAATCTAATTTTACCAAAAT
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAA-TTATAA-CTAATTTTTCCAAAAT
*
21349019 TATAATCTAAACCTATTAGAACCTAAA
64 TATAATCTAAACCTATTAAAACCTAAA
* ** * * *
21349046 AATATAATACTACTACAACTCAAAATCAAATCCTATTT-AATCCTATTATCTATTTTTTTCCAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAT--TA-TAACTA-ATTTTTCCAAA
* * *
21349110 ATTATTATCTAAGCCTATTAGAACCTAAA
62 ATTATAATCTAAACCTATTAAAACCTAAA
* * *
21349139 ATTCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAACCTATAAACTAATTTTACCAAAAT
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAA-TTAT-AACTAATTTTTCCAAAAT
* * * *
21349204 TACAATATAAACCTACTAGAACCTAAA
64 TATAATCTAAACCTATTAAAACCTAAA
* * *
21349231 AATATAATTTTACTACAACTTCAAATCAAATCCTATTTAAATCTATAATCTAATTTTACCAAAAT
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAT-TATAA-CTAATTTTTCCAAAAT
* *
21349296 TAAAACCTAAA
64 TATAATCTAAA
21349307 AATATAGTTT
Statistics
Matches: 597, Mismatches: 99, Indels: 52
0.80 0.13 0.07
Matches are distributed among these distances:
90 3 0.01
91 76 0.13
92 323 0.54
93 176 0.29
94 14 0.02
95 2 0.00
96 3 0.01
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (90 bp):
AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAATTATAACTAATTTTTCCAAAATTA
TAATCTAAACCTATTAAAACCTAAA
Found at i:21348631 original size:185 final size:186
Alignment explanation
Indices: 21348430--21348797 Score: 614
Period size: 185 Copynumber: 2.0 Consensus size: 186
21348420 AAATCTATTT
** *
21348430 TTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATCTAATTTACTAAAATCTATCAA
1 TTTTTATTAAAAATTACAAACGAATCCCATTTAAACTTATAATCTAATTTACTAAAACCTATCAA
* * *
21348495 TCTAATTTTACTAAAACTTAAAATCAAATTCT-ACTTATAATTATAATA-ATTTTTTTCCAAAAT
66 TCTAATTTTAATAAAACTTAAAATCAAATTCTAAC-TAAAATTATAATATAATTTTTTCCAAAAT
21348558 TAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAATCTAA
130 TAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAATCTAA
* * *
21348615 TTTTTATTAAAAATTACAAACGAATCCCATTTAAACTTATAATTTAATTTATTAAAACCTATCGA
1 TTTTTATTAAAAATTACAAACGAATCCCATTTAAACTTATAATCTAATTTACTAAAACCTATCAA
* *
21348680 TCTAATTTTAATAGAACTTAAAATCAAATTCTAACTAAAATTCTAATATAATTTTTTCCAAAATT
66 TCTAATTTTAATAAAACTTAAAATCAAATTCTAACTAAAATTATAATATAATTTTTTCCAAAATT
21348745 AAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAATC
131 AAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAATC
21348798 AAACCCTTTT
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
185 100 0.59
186 70 0.41
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.39
Consensus pattern (186 bp):
TTTTTATTAAAAATTACAAACGAATCCCATTTAAACTTATAATCTAATTTACTAAAACCTATCAA
TCTAATTTTAATAAAACTTAAAATCAAATTCTAACTAAAATTATAATATAATTTTTTCCAAAATT
AAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAATCTAA
Found at i:21349175 original size:277 final size:275
Alignment explanation
Indices: 21348664--21349306 Score: 854
Period size: 277 Copynumber: 2.3 Consensus size: 275
21348654 TAATTTAATT
*** * * * ** * * *
21348664 TATTAAAACCTATCGATCTAATTTTAATAGAACTTAAAATCAAATTCTAACTAAAATTCTAATAT
1 TATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAACTATAATCT
* * * ** *
21348729 AATTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAA
66 AA-TTTTACCAAAATTAAAATCTAAACCTATTAAAACCTAAAAATATAATACTACTACAACTCAA
21348794 AATCAAACCCTTTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCT
130 AATCAAACCCTTTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCT
* * * *
21348859 AAAAATATAATACTATTACAACTTAAAATCAAATCCTATTTAAACCTATTATCTAATTTTTCCAA
195 AAAAATATAATACTACTACAACTTAAAATCAAATCCTATTTAAACCTATAAACTAATTTTACCAA
** * *
21348924 AATTATGATCTAAGCC
260 AATTACAATATAAACC
*
21348940 TATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAACCTATAATCT
1 TATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAACTATAATCT
* *
21349005 AATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATACTACTACAACTCAAA
66 AATTTTACCAAAATTAAAATCTAAACCTATTAAAACCTAAAAATATAATACTACTACAACTCAAA
* * * * * * *
21349070 ATCAAATCCTATTTAATCCTATTATCTATTTTTTTCCAAAATTATTATCTAAGCCTATTAGAACC
131 ATCAAACCCT-TTTAAACCTATAATCTA-ATTTTACCAAAATTATAATCTAAACCTATTAGAACC
* * **
21349135 TAAAATTCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAACCTATAAACTAATTTTACCA
194 TAAAAATATAATACTACTACAACTTAAAATCAAATCCTATTTAAACCTATAAACTAATTTTACCA
21349200 AAATTACAATATAAACC
259 AAATTACAATATAAACC
* * * * *
21349217 TACTAGAACCTAAAAATATAATTTTACTACAACTTCAAATCAAATCCTATTTAAATCTATAATCT
1 TATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAACTATAATCT
*
21349282 AATTTTACCAAAATTAAAACCTAAA
66 AATTTTACCAAAATTAAAATCTAAA
21349307 AATATAGTTT
Statistics
Matches: 319, Mismatches: 46, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
275 64 0.20
276 70 0.22
277 185 0.58
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (275 bp):
TATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAACTATAATCT
AATTTTACCAAAATTAAAATCTAAACCTATTAAAACCTAAAAATATAATACTACTACAACTCAAA
ATCAAACCCTTTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTA
AAAATATAATACTACTACAACTTAAAATCAAATCCTATTTAAACCTATAAACTAATTTTACCAAA
ATTACAATATAAACC
Found at i:21349217 original size:185 final size:184
Alignment explanation
Indices: 21348732--21349297 Score: 904
Period size: 185 Copynumber: 3.1 Consensus size: 184
21348722 CTAATATAAT
* * *
21348732 TTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAAT
1 TTTTTCCAAAATTATAATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
*
21348797 CAAACCCT-TTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
66 CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
* * *
21348861 AAATATAATACTATTACAACTTAAAATCAAATCCTATTTAAACCTATTATCTAA
131 AAATATAATACTACTACAACTCAAAATCAAATCCTATTTAATCCTATTATCTAA
*
21348915 TTTTTCCAAAATTATGATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
1 TTTTTCCAAAATTATAATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
21348980 CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
66 CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
*
21349045 AAATATAATACTACTACAACTCAAAATCAAATCCTATTTAATCCTATTATCTATT
131 AAATATAATACTACTACAACTCAAAATCAAATCCTATTTAATCCTATTATCTA-A
* * *
21349100 TTTTTCCAAAATTATTATCTAAGCCTATTAGAACCTAAAATTCTAATTTTACTACAACTTAAAAT
1 TTTTTCCAAAATTATAATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
* * * *
21349165 CAAATCCTATTTAAACCTATAAACTAATTTTACCAAAATTACAATATAAACCTACTAGAACCTAA
66 CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
** *
21349230 AAATATAATTTTACTACAACTTC-AAATCAAATCCTATTTAAAT-CTATAATCTAA
131 AAATATAATACTACTACAAC-TCAAAATCAAATCCTATTT-AATCCTATTATCTAA
*
21349284 TTTTACCAAAATTA
1 TTTTTCCAAAATTA
21349298 AAACCTAAAA
Statistics
Matches: 358, Mismatches: 21, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
183 68 0.19
184 119 0.33
185 166 0.46
186 5 0.01
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.35
Consensus pattern (184 bp):
TTTTTCCAAAATTATAATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
AAATATAATACTACTACAACTCAAAATCAAATCCTATTTAATCCTATTATCTAA
Found at i:21350076 original size:12 final size:12
Alignment explanation
Indices: 21350059--21350092 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
21350049 CTACGCATGC
21350059 AAAGCGAAAACG
1 AAAGCGAAAACG
21350071 AAAGCGAAAACG
1 AAAGCGAAAACG
21350083 AAAGCGAAAA
1 AAAGCGAAAA
21350093 GGAGAAGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.15, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGCGAAAACG
Found at i:21350142 original size:15 final size:16
Alignment explanation
Indices: 21350114--21350149 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
21350104 CTCACCTTCG
21350114 ATTTCCTCTCCTTTTT
1 ATTTCCTCTCCTTTTT
21350130 ATTTCCTCT-CTTTTT
1 ATTTCCTCTCCTTTTT
*
21350145 TTTTC
1 ATTTC
21350150 AATCTTCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTCCTCTCCTTTTT
Found at i:21350412 original size:2 final size:2
Alignment explanation
Indices: 21350405--21350461 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
21350395 ATGAAAGGTT
*
21350405 GA GA GA GA GA GA GA GA GA GA GA AA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
21350447 GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA G
21350462 TGTGTGTGTG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21350466 original size:2 final size:2
Alignment explanation
Indices: 21350461--21350488 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21350451 GAGAGAGAGA
21350461 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
21350489 CTGAGAACTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:21354953 original size:107 final size:106
Alignment explanation
Indices: 21354780--21354978 Score: 319
Period size: 107 Copynumber: 1.9 Consensus size: 106
21354770 TTTTTAATGC
*
21354780 TTAAGAATGTATTGGTCCTTTTGACGCGAAATGGAATGACAACCAAGCACCCCACCCCAGTTACT
1 TTAAGAATGTATTGGCCCTTTTGACGCGAAATGGAATGACAACCAAGCACCCCACCCCAGTTACT
* *
21354845 CAGCCCAACATACTCCTAATTTATTATATTATATATATTGT
66 CAGCCCAACACACTCCTAATTAATTATATTATATATATTGT
* *
21354886 TTAAGAATGTATTGGCCCTTTTGATGC-AAAGTGGAATGACAACCCAAGCATCCCACCCCAGTTA
1 TTAAGAATGTATTGGCCCTTTTGACGCGAAA-TGGAATGACAA-CCAAGCACCCCACCCCAGTTA
*
21354950 CTCAGCCCAACACACTCTTAATTAATTAT
64 CTCAGCCCAACACACTCCTAATTAATTAT
21354979 TTTTTGTTTA
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
105 3 0.04
106 36 0.42
107 46 0.54
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (106 bp):
TTAAGAATGTATTGGCCCTTTTGACGCGAAATGGAATGACAACCAAGCACCCCACCCCAGTTACT
CAGCCCAACACACTCCTAATTAATTATATTATATATATTGT
Found at i:21355792 original size:17 final size:17
Alignment explanation
Indices: 21355761--21355819 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
21355751 AACATGAAAG
*
21355761 AAAAT-AAAGAAAATAA
1 AAAATAAAATAAAATAA
*
21355777 AAAATAAAATAAAATAT
1 AAAATAAAATAAAATAA
* *
21355794 ATAACAAAATAAAAATAA
1 AAAATAAAAT-AAAATAA
*
21355812 AAATTAAA
1 AAAATAAA
21355820 TTGGGTTGCC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
16 5 0.15
17 17 0.52
18 11 0.33
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:21359822 original size:16 final size:16
Alignment explanation
Indices: 21359755--21359822 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
21359745 ATATTTCATT
*
21359755 ATGTATCATATTGTAA
1 ATGTATTATATTGTAA
*
21359771 ATGTATT-TA-TG-AC
1 ATGTATTATATTGTAA
*
21359784 ATGTATCATATTGTAA
1 ATGTATTATATTGTAA
21359800 ATGTATTATATTGTAA
1 ATGTATTATATTGTAA
21359816 ATGTATT
1 ATGTATT
21359823 TATGACATGT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
13 7 0.16
14 4 0.09
15 4 0.09
16 29 0.66
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.47
Consensus pattern (16 bp):
ATGTATTATATTGTAA
Found at i:21361616 original size:15 final size:15
Alignment explanation
Indices: 21361596--21361626 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21361586 TTGATTTTGT
*
21361596 AATCTTAAGGGATTG
1 AATCTTAAAGGATTG
21361611 AATCTTAAAGGATTG
1 AATCTTAAAGGATTG
21361626 A
1 A
21361627 GTCAATCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (15 bp):
AATCTTAAAGGATTG
Found at i:21362190 original size:85 final size:85
Alignment explanation
Indices: 21362058--21362227 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
21362048 AACATCTCTT
* *
21362058 TTTTTTTGCATTTTATAGAAAATGGTGAAATTCCAATTTTAGTCCTTATCGTACACTCAAAATTT
1 TTTTTTTGCATTTTATAAAAAATAGTGAAATTCCAATTTTAGTCCTTATCGTACACTCAAAATTT
21362123 ATATTATATAATAATAGTCA
66 ATATTATATAATAATAGTCA
*
21362143 TTTTTTTGCATTTTATAAAAAATAGTGAAATTCCAATTTTAGTCCTTATCGTACACTCTAAATTT
1 TTTTTTTGCATTTTATAAAAAATAGTGAAATTCCAATTTTAGTCCTTATCGTACACTCAAAATTT
21362208 ATATTATATAATAATAGTCA
66 ATATTATATAATAATAGTCA
21362228 AATTTTAATT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (85 bp):
TTTTTTTGCATTTTATAAAAAATAGTGAAATTCCAATTTTAGTCCTTATCGTACACTCAAAATTT
ATATTATATAATAATAGTCA
Found at i:21363235 original size:19 final size:20
Alignment explanation
Indices: 21363187--21363243 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 20
21363177 AGCTAGCCTT
21363187 TATTATGTATAATTATAATATAA
1 TATTAT-TA-AATTA-AATATAA
21363210 TATTTATTAAATTAAATA-AA
1 TA-TTATTAAATTAAATATAA
*
21363230 TATTATGAAATTAA
1 TATTATTAAATTAA
21363244 TCTCAATGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 11 0.34
20 4 0.12
21 4 0.12
22 5 0.16
23 4 0.12
24 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
TATTATTAAATTAAATATAA
Found at i:21369590 original size:15 final size:16
Alignment explanation
Indices: 21369563--21369594 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
21369553 TTTAGTTATG
21369563 TTAATTAATTTTAATT
1 TTAATTAATTTTAATT
21369579 TTAATT-ATTTTAATT
1 TTAATTAATTTTAATT
21369594 T
1 T
21369595 GTACTGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTAATTAATTTTAATT
Found at i:21370461 original size:12 final size:12
Alignment explanation
Indices: 21370444--21370485 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
21370434 ACAGAGTATA
21370444 AAAGAGTAAAAT
1 AAAGAGTAAAAT
**
21370456 AAAGAG-AGTAT
1 AAAGAGTAAAAT
21370467 AAAAGAGTAAAAT
1 -AAAGAGTAAAAT
21370480 AAAGAG
1 AAAGAG
21370486 AGCTTTGACC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 3 0.12
12 18 0.75
13 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.14
Consensus pattern (12 bp):
AAAGAGTAAAAT
Found at i:21370463 original size:24 final size:24
Alignment explanation
Indices: 21370436--21370487 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
21370426 TAAAGGCAAC
21370436 AGAGTATAAAAGAGTAAAATAAAG
1 AGAGTATAAAAGAGTAAAATAAAG
21370460 AGAGTATAAAAGAGTAAAATAAAG
1 AGAGTATAAAAGAGTAAAATAAAG
21370484 AGAG
1 AGAG
21370488 CTTTGACCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (24 bp):
AGAGTATAAAAGAGTAAAATAAAG
Found at i:21370465 original size:14 final size:13
Alignment explanation
Indices: 21370441--21370487 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
21370431 GCAACAGAGT
21370441 ATAAAAGAGTAAA
1 ATAAAAGAGTAAA
21370454 ATAAAGAGAGT---
1 ATAAA-AGAGTAAA
21370465 ATAAAAGAGTAAA
1 ATAAAAGAGTAAA
21370478 ATAAAGAGAG
1 ATAAA-AGAG
21370488 CTTTGACCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
10 5 0.17
11 5 0.17
13 10 0.34
14 9 0.31
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (13 bp):
ATAAAAGAGTAAA
Found at i:21371284 original size:32 final size:33
Alignment explanation
Indices: 21371230--21371293 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
21371220 CATTTTCCCG
* *
21371230 TCGATTTCCTCTTCGTCGAACCCC-CTTCCCCA
1 TCGATTTCCTCATCGTCAAACCCCTCTTCCCCA
* *
21371262 TCGATTTCTTCATCTTCAAACCCCTCTTCCCC
1 TCGATTTCCTCATCGTCAAACCCCTCTTCCCC
21371294 GCCATTTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.14, C:0.45, G:0.06, T:0.34
Consensus pattern (33 bp):
TCGATTTCCTCATCGTCAAACCCCTCTTCCCCA
Found at i:21387618 original size:25 final size:25
Alignment explanation
Indices: 21387590--21387655 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
21387580 ACCAATTTTT
* * * *
21387590 AGCTCATATGAGCTTACTGATTTAC
1 AGCTCGTATGAGCATACCGATTCAC
21387615 AGCTCGTGA-GAGCATACCGATTCAC
1 AGCTCGT-ATGAGCATACCGATTCAC
21387640 AGCTCGTATGAGCATA
1 AGCTCGTATGAGCATA
21387656 TATGTACAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTCAC
Found at i:21388474 original size:25 final size:25
Alignment explanation
Indices: 21388430--21388508 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
21388420 CAGCTTGTGA
* ** *
21388430 GAGCTTACTAATTTTTAGCTCATAT
1 GAGCTTACTGATTTACAGCTCGTAT
21388455 GAGCTTACTGATTTACAGCTCGTGA-
1 GAGCTTACTGATTTACAGCTCGT-AT
* * *
21388480 GAGCATACCGATTCACAGCTCGTAT
1 GAGCTTACTGATTTACAGCTCGTAT
21388505 GAGC
1 GAGC
21388509 ATACATGTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.96
26 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (25 bp):
GAGCTTACTGATTTACAGCTCGTAT
Found at i:21388509 original size:25 final size:25
Alignment explanation
Indices: 21388446--21388512 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
21388436 ACTAATTTTT
* * * *
21388446 AGCTCATATGAGCTTACTGATTTAC
1 AGCTCGTATGAGCATACCGATTCAC
21388471 AGCTCGTGA-GAGCATACCGATTCAC
1 AGCTCGT-ATGAGCATACCGATTCAC
21388496 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
21388513 ATGTACAGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTCAC
Found at i:21391577 original size:27 final size:25
Alignment explanation
Indices: 21391547--21391614 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 25
21391537 TGTAGGATTT
*
21391547 GCCACAGAGGCTATCCCTTCATAATTC
1 GCCACA-AGGCTATCCCTT-AGAATTC
* *
21391574 GCCACTAAGGCTATTCTCTTAGAGTTC
1 GCCAC-AAGGCTA-TCCCTTAGAATTC
21391601 GCCACAAAGGCTAT
1 GCCAC-AAGGCTAT
21391615 TCTTCCAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.03
27 28 0.80
28 6 0.17
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (25 bp):
GCCACAAGGCTATCCCTTAGAATTC
Found at i:21391669 original size:27 final size:26
Alignment explanation
Indices: 21391575--21391698 Score: 104
Period size: 27 Copynumber: 4.6 Consensus size: 26
21391565 TCATAATTCG
* * * **
21391575 CCACTAAGGCTATTCTCTTAGAGTTCG
1 CCACAAAGGCTTTTCTC-CAGAGTTTA
* *
21391602 CCACAAAGGCTATTCTTCCAGAGTTTG
1 CCACAAAGGCTTTTC-TCCAGAGTTTA
*
21391629 CCACAAAAGCTTTTCTCCTAGAGTTTA
1 CCACAAAGGCTTTTCTCC-AGAGTTTA
* **
21391656 CCACAAAGGTTTTTCTTCCAGTCTTTA
1 CCACAAAGGCTTTTC-TCCAGAGTTTA
*
21391683 CCAAAAAGGCTTTTCT
1 CCACAAAGGCTTTTCT
21391699 TTCCTGAGGT
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.05
27 73 0.89
28 5 0.06
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (26 bp):
CCACAAAGGCTTTTCTCCAGAGTTTA
Found at i:21391695 original size:54 final size:55
Alignment explanation
Indices: 21391580--21391698 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 55
21391570 ATTCGCCACT
* * * * *
21391580 AAGGCTATTCTCTTAGAGTTCGCCACAAAGGCTATTCTTCCAGAGTTTGCCACAA
1 AAGGCTTTTCTCCTAGAGTTCACCACAAAGGCTATTCTTCCAGACTTTACCACAA
* * * *
21391635 AA-GCTTTTCTCCTAGAGTTTACCACAAAGGTTTTTCTTCCAGTCTTTACCA-AA
1 AAGGCTTTTCTCCTAGAGTTCACCACAAAGGCTATTCTTCCAGACTTTACCACAA
21391688 AAGGCTTTTCT
1 AAGGCTTTTCT
21391699 TTCCTGAGGT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
53 4 0.07
54 48 0.89
55 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (55 bp):
AAGGCTTTTCTCCTAGAGTTCACCACAAAGGCTATTCTTCCAGACTTTACCACAA
Found at i:21394335 original size:27 final size:27
Alignment explanation
Indices: 21394305--21394482 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
21394295 ATATTGAGCC
* * *
21394305 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
21394332 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
21394359 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
21394387 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
21394414 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
21394441 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
21394468 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21394483 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:21394398 original size:55 final size:55
Alignment explanation
Indices: 21394305--21394482 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
21394295 ATATTGAGCC
* * *
21394305 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
21394359 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
21394414 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
21394468 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21394483 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:21394444 original size:82 final size:81
Alignment explanation
Indices: 21394326--21394481 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
21394316 TGCTATACAA
* * *
21394326 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
21394391 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
21394408 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
21394472 CACTTAGTGC
65 CACTTAGTGC
21394482 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21402411 original size:27 final size:27
Alignment explanation
Indices: 21402381--21402558 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
21402371 ATATTGAGCC
* * *
21402381 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
21402408 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
21402435 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
21402463 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
21402490 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
21402517 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
21402544 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21402559 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:21402474 original size:55 final size:55
Alignment explanation
Indices: 21402381--21402558 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
21402371 ATATTGAGCC
* * *
21402381 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
21402435 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
21402490 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
21402544 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21402559 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:21402520 original size:82 final size:81
Alignment explanation
Indices: 21402402--21402557 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
21402392 TGCTATACAA
* * *
21402402 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
21402467 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
21402484 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
21402548 CACTTAGTGC
65 CACTTAGTGC
21402558 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21406027 original size:42 final size:42
Alignment explanation
Indices: 21405981--21406062 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
21405971 TCAAAATTGG
*
21405981 GACACACAGCCGTGTCCCAGC-CTGTGTAACTCATTGACTTGA
1 GACACACAGCCGTGTCCCAGCTC-GTGTAACTCATTAACTTGA
* * *
21406023 GACACACGGCTGTGTCTCAGCTCGTGTAACTCATTAACTT
1 GACACACAGCCGTGTCCCAGCTCGTGTAACTCATTAACTT
21406063 AGGTCACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (42 bp):
GACACACAGCCGTGTCCCAGCTCGTGTAACTCATTAACTTGA
Found at i:21406882 original size:22 final size:22
Alignment explanation
Indices: 21406840--21406887 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
21406830 TATTCAATTA
**
21406840 CATGATATTACCATTTCTATTT
1 CATGATATTACCACATCTATTT
21406862 CATGCATATTACCACAT-TATTT
1 CATG-ATATTACCACATCTATTT
21406884 CATG
1 CATG
21406888 TTATGTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (22 bp):
CATGATATTACCACATCTATTT
Found at i:21414291 original size:14 final size:13
Alignment explanation
Indices: 21414268--21414299 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
21414258 TTTTAAATGA
21414268 TATTTTATTATTT
1 TATTTTATTATTT
21414281 TATTATTATTATTT
1 TATT-TTATTATTT
21414295 TATTT
1 TATTT
21414300 AGTATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTTATTATTT
Found at i:21420492 original size:25 final size:24
Alignment explanation
Indices: 21420391--21420516 Score: 136
Period size: 22 Copynumber: 5.3 Consensus size: 24
21420381 CACTAATGAA
*
21420391 CAGAGAGCACTAAAGTGCTAT-A-
1 CAGAGAGCACTAACGTGCTATAAT
*
21420413 CAGAGAGCAC-AGATGTGCTA-AA-
1 CAGAGAGCACTA-ACGTGCTATAAT
* *
21420435 CAGAGAGCACTAATGTGCTAAAAT
1 CAGAGAGCACTAACGTGCTATAAT
* *
21420459 CAGAGAGCACCAACGTGCTAGTAGT
1 CAGAGAGCACTAACGTGCTA-TAAT
21420484 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCT-ATAAT
21420509 CAGAGAGC
1 CAGAGAGC
21420517 GCGCTAAAGT
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
21 1 0.01
22 36 0.40
23 3 0.03
24 18 0.20
25 31 0.34
26 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.17
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTATAAT
Found at i:21427673 original size:44 final size:46
Alignment explanation
Indices: 21427608--21427736 Score: 147
Period size: 49 Copynumber: 2.7 Consensus size: 46
21427598 ATGCACTAAT
* * *
21427608 GAACAGAGAGCACTAAAGTGCTATA-CAGAGAGCA-CAGATGTGCTA
1 GAACAGAGAGCACTAACGTGCTAAATCAGAGAGCACCA-ACGTGCTA
21427653 -AACAGAGAGCACTAACGTGCTAAAATCAGAGAGCACCAACGTGCTA
1 GAACAGAGAGCACTAACGTGCT-AAATCAGAGAGCACCAACGTGCTA
*
21427699 GTAGTCAGAGAGCACTAACGTGCTAATAATCAGAGAGC
1 G-A-ACAGAGAGCACTAACGTGCT-A-AATCAGAGAGC
21427737 GCGCTAAAGT
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
44 20 0.27
45 2 0.03
46 16 0.22
47 2 0.03
48 1 0.01
49 21 0.29
50 11 0.15
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.16
Consensus pattern (46 bp):
GAACAGAGAGCACTAACGTGCTAAATCAGAGAGCACCAACGTGCTA
Found at i:21427712 original size:25 final size:24
Alignment explanation
Indices: 21427611--21427736 Score: 145
Period size: 22 Copynumber: 5.3 Consensus size: 24
21427601 CACTAATGAA
*
21427611 CAGAGAGCACTAAAGTGCTAT-A-
1 CAGAGAGCACTAACGTGCTATAAT
*
21427633 CAGAGAGCAC-AGATGTGCTA-AA-
1 CAGAGAGCACTA-ACGTGCTATAAT
*
21427655 CAGAGAGCACTAACGTGCTAAAAT
1 CAGAGAGCACTAACGTGCTATAAT
* *
21427679 CAGAGAGCACCAACGTGCTAGTAGT
1 CAGAGAGCACTAACGTGCTA-TAAT
21427704 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCT-ATAAT
21427729 CAGAGAGC
1 CAGAGAGC
21427737 GCGCTAAAGT
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
21 1 0.01
22 35 0.39
23 3 0.03
24 19 0.21
25 31 0.34
26 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.16
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTATAAT
Found at i:21428823 original size:16 final size:16
Alignment explanation
Indices: 21428802--21428838 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
21428792 GTTTTATGTA
21428802 TATAATAATATAATAT
1 TATAATAATATAATAT
21428818 TATAATAATATAATAT
1 TATAATAATATAATAT
*
21428834 AATAA
1 TATAA
21428839 CTTACTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAATAATATAATAT
Found at i:21428838 original size:8 final size:8
Alignment explanation
Indices: 21428801--21428832 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
21428791 TGTTTTATGT
21428801 ATATAATA
1 ATATAATA
21428809 ATATAATA
1 ATATAATA
*
21428817 TTATAATA
1 ATATAATA
21428825 ATATAATA
1 ATATAATA
21428833 TAATAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAATA
Found at i:21432282 original size:23 final size:24
Alignment explanation
Indices: 21432239--21432283 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
21432229 AAGAAATTGA
*
21432239 TAATTTTTCTTCTTTTCTTGTATT
1 TAATTTTTCTACTTTTCTTGTATT
21432263 TAATTTTT-TACTTCTT-TTGTA
1 TAATTTTTCTACTT-TTCTTGTA
21432284 CAAACTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.69
Consensus pattern (24 bp):
TAATTTTTCTACTTTTCTTGTATT
Found at i:21435226 original size:25 final size:26
Alignment explanation
Indices: 21435197--21435417 Score: 147
Period size: 25 Copynumber: 8.6 Consensus size: 26
21435187 TAGATAACAC
*
21435197 GCCACAAAGGCTTTTCAGAAGATCA-
1 GCCACAAAGGCTTTTCACAAGATCAT
* * *
21435222 GCCACAAAAAAGCTTTT-A-TAGATAACAC
1 GCCAC--AAAGGCTTTTCACAAGAT--CAT
* *
21435250 ACCACAAAGGCTTTTCACAAGATTA-
1 GCCACAAAGGCTTTTCACAAGATCAT
* *
21435275 GCCACAAAGGCTTTTC-CAAAAAACAT
1 GCCACAAAGGCTTTTCAC-AAGATCAT
*
21435301 GCCACAAAGGC-TTTCACAAGATTA-
1 GCCACAAAGGCTTTTCACAAGATCAT
* * * *
21435325 GCCATAAAGGTTTTTC-CATATAACAT
1 GCCACAAAGGCTTTTCACA-AGATCAT
21435351 GCCACAAAGGC-TTTCACAAGATAACAT
1 GCCACAAAGGCTTTTCACAAGAT--CAT
* * *
21435378 ACCACAAAGTCTTTTCACAAGATTA-
1 GCCACAAAGGCTTTTCACAAGATCAT
*
21435403 GCTACAAAGGCTTTT
1 GCCACAAAGGCTTTT
21435418 TCACGTAAGC
Statistics
Matches: 151, Mismatches: 28, Indels: 34
0.71 0.13 0.16
Matches are distributed among these distances:
24 12 0.08
25 61 0.40
26 35 0.23
27 24 0.16
28 19 0.13
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (26 bp):
GCCACAAAGGCTTTTCACAAGATCAT
Found at i:21435272 original size:53 final size:53
Alignment explanation
Indices: 21435182--21435282 Score: 166
Period size: 53 Copynumber: 1.9 Consensus size: 53
21435172 ACTCTATAGA
* * *
21435182 TTTTCTAGATAACACGCCACAAAGGCTTTTCAGAAGATCAGCCACAAAAAAGC
1 TTTTATAGATAACACACCACAAAGGCTTTTCACAAGATCAGCCACAAAAAAGC
*
21435235 TTTTATAGATAACACACCACAAAGGCTTTTCACAAGATTAGCCACAAA
1 TTTTATAGATAACACACCACAAAGGCTTTTCACAAGATCAGCCACAAA
21435283 GGCTTTTCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.23
Consensus pattern (53 bp):
TTTTATAGATAACACACCACAAAGGCTTTTCACAAGATCAGCCACAAAAAAGC
Found at i:21435311 original size:26 final size:26
Alignment explanation
Indices: 21435275--21435393 Score: 93
Period size: 26 Copynumber: 4.6 Consensus size: 26
21435265 CACAAGATTA
21435275 GCCACAAAGGCTTTTCCAAAAAACAT
1 GCCACAAAGGCTTTTCCAAAAAACAT
* * *
21435301 GCCACAAAGGC-TTT-CACAAGA-TT
1 GCCACAAAGGCTTTTCCAAAAAACAT
* * * *
21435324 AGCCATAAAGGTTTTTCCATATAACAT
1 -GCCACAAAGGCTTTTCCAAAAAACAT
*
21435351 GCCACAAAGGC-TTTCACAAGATAACAT
1 GCCACAAAGGCTTTTC-CAA-AAAACAT
* *
21435378 ACCACAAAGTCTTTTC
1 GCCACAAAGGCTTTTC
21435394 ACAAGATTAG
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
23 1 0.01
24 14 0.19
25 10 0.14
26 26 0.36
27 17 0.24
28 4 0.06
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (26 bp):
GCCACAAAGGCTTTTCCAAAAAACAT
Found at i:21435334 original size:50 final size:50
Alignment explanation
Indices: 21435192--21435372 Score: 200
Period size: 50 Copynumber: 3.5 Consensus size: 50
21435182 TTTTCTAGAT
* * * * ** * *
21435192 AACACGCCACAAAGGCTTTTCAGAAGATCAGCCACAAAAAAGCTTTTATAGAT
1 AACATGCCACAAAGGC-TTTCACAAGATTAGCCAC--AAAGGCTTTTCCAAAA
**
21435245 AACACACCACAAAGGCTTTTCACAAGATTAGCCACAAAGGCTTTTCCAAAA
1 AACATGCCACAAAGGC-TTTCACAAGATTAGCCACAAAGGCTTTTCCAAAA
* * * *
21435296 AACATGCCACAAAGGCTTTCACAAGATTAGCCATAAAGGTTTTTCCATAT
1 AACATGCCACAAAGGCTTTCACAAGATTAGCCACAAAGGCTTTTCCAAAA
21435346 AACATGCCACAAAGGCTTTCACAAGAT
1 AACATGCCACAAAGGCTTTCACAAGAT
21435373 AACATACCAC
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 57 0.50
51 25 0.22
53 32 0.28
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (50 bp):
AACATGCCACAAAGGCTTTCACAAGATTAGCCACAAAGGCTTTTCCAAAA
Found at i:21435403 original size:78 final size:77
Alignment explanation
Indices: 21435275--21435419 Score: 204
Period size: 78 Copynumber: 1.9 Consensus size: 77
21435265 CACAAGATTA
* *
21435275 GCCACAAAGGCTTTTCCAAAAAACATGCCACAAAGGCTTTCACAAGATTAGCCATAAAGG-TTTT
1 GCCACAAAGGCTTTTCCAAAAAACATACCACAAAGGCTTTCACAAGATTAGCCACAAAGGCTTTT
21435339 TCCATATAACAT
66 TCCATATAACAT
* * *
21435351 GCCACAAAGGC-TTTCACAAGATAACATACCACAAAGTCTTTTCACAAGATTAGCTACAAAGGCT
1 GCCACAAAGGCTTTTC-CAA-AAAACATACCACAAAGGC-TTTCACAAGATTAGCCACAAAGGCT
21435415 TTTTC
63 TTTTC
21435420 ACGTAAGCTG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
75 4 0.07
76 14 0.23
77 15 0.25
78 21 0.35
79 6 0.10
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (77 bp):
GCCACAAAGGCTTTTCCAAAAAACATACCACAAAGGCTTTCACAAGATTAGCCACAAAGGCTTTT
TCCATATAACAT
Found at i:21441083 original size:37 final size:37
Alignment explanation
Indices: 21441033--21441107 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
21441023 ACACAACTTA
21441033 ACTATTTATAGGGTAGTTTAGCGTTCCTAATTAAGGT
1 ACTATTTATAGGGTAGTTTAGCGTTCCTAATTAAGGT
21441070 ACTATTTATAGGGTAGTTTAGCGTTCCTAATTAAGGT
1 ACTATTTATAGGGTAGTTTAGCGTTCCTAATTAAGGT
21441107 A
1 A
21441108 AACACAACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (37 bp):
ACTATTTATAGGGTAGTTTAGCGTTCCTAATTAAGGT
Found at i:21444077 original size:21 final size:21
Alignment explanation
Indices: 21444051--21444097 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
21444041 ATAAAATCTC
*
21444051 CTAATACTTATCCTAATAAAA
1 CTAATACATATCCTAATAAAA
* *
21444072 CTAATACATCTTCTAATAAAA
1 CTAATACATATCCTAATAAAA
21444093 -TAATA
1 CTAATA
21444098 ACTAATGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (21 bp):
CTAATACATATCCTAATAAAA
Found at i:21445779 original size:42 final size:42
Alignment explanation
Indices: 21445661--21445760 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
21445651 CGATATATTT
* * * *
21445661 TTAATCATGCC-ACTGTTAT-TAATTGATATTTGCTTTGCATG
1 TTAAGCATGCCGACTATTATAT-ATTGAGATTTGATTTGCATG
*
21445702 TTAAGCATGCCGACTATTATATATTGAGATCTGATTTGCATG
1 TTAAGCATGCCGACTATTATATATTGAGATTTGATTTGCATG
21445744 TTAAGCATGCCGACTAT
1 TTAAGCATGCCGACTAT
21445761 GTTGATCTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 10 0.19
42 41 0.79
43 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (42 bp):
TTAAGCATGCCGACTATTATATATTGAGATTTGATTTGCATG
Found at i:21445946 original size:23 final size:24
Alignment explanation
Indices: 21445901--21445946 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
21445891 GTTGTCTGTA
21445901 CACAACGCTATTGAGTGGATTTGC
1 CACAACGCTATTGAGTGGATTTGC
21445925 CACAACG-TATTTGAGTGG-TTTG
1 CACAACGCTA-TTGAGTGGATTTG
21445947 ACCATAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (24 bp):
CACAACGCTATTGAGTGGATTTGC
Found at i:21448917 original size:39 final size:39
Alignment explanation
Indices: 21448890--21448987 Score: 169
Period size: 39 Copynumber: 2.5 Consensus size: 39
21448880 TGTTTGTACA
* *
21448890 TACGTGCCCCTGTTATACTTCGGTACCCCTGATCGCACT
1 TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
21448929 TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
1 TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
*
21448968 TACGTGCCCTTGTTGTACTT
1 TACGTGCCCCTGTTGTACTT
21448988 TTATACCCCT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.14, C:0.34, G:0.18, T:0.34
Consensus pattern (39 bp):
TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
Found at i:21448938 original size:20 final size:20
Alignment explanation
Indices: 21448915--21448976 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
21448905 TACTTCGGTA
21448915 CCCCTGATCGCACTTACGTG
1 CCCCTGATCGCACTTACGTG
* * *
21448935 CCCCTG-TTGTACTT-CAGTA
1 CCCCTGATCGCACTTAC-GTG
21448954 CCCCTGATCGCACTTACGTG
1 CCCCTGATCGCACTTACGTG
21448974 CCC
1 CCC
21448977 TTGTTGTACT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 1 0.03
19 14 0.42
20 17 0.52
21 1 0.03
ACGTcount: A:0.15, C:0.40, G:0.18, T:0.27
Consensus pattern (20 bp):
CCCCTGATCGCACTTACGTG
Found at i:21448957 original size:19 final size:20
Alignment explanation
Indices: 21448873--21448987 Score: 78
Period size: 19 Copynumber: 5.9 Consensus size: 20
21448863 GTTTATAATT
* *
21448873 GTACCCCTGTTTGTACATAC
1 GTACCCCTGATTGTACTTAC
* *
21448893 GTGCCCCTG-TTATACTT-C
1 GTACCCCTGATTGTACTTAC
* *
21448911 GGTACCCCTGATCGCACTTAC
1 -GTACCCCTGATTGTACTTAC
*
21448932 GTGCCCCTG-TTGTACTT-C
1 GTACCCCTGATTGTACTTAC
* *
21448950 AGTACCCCTGATCGCACTTAC
1 -GTACCCCTGATTGTACTTAC
* *
21448971 GTGCCCTTG-TTGTACTT
1 GTACCCCTGATTGTACTT
21448988 TTATACCCCT
Statistics
Matches: 72, Mismatches: 17, Indels: 13
0.71 0.17 0.13
Matches are distributed among these distances:
18 2 0.03
19 34 0.47
20 34 0.47
21 2 0.03
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.34
Consensus pattern (20 bp):
GTACCCCTGATTGTACTTAC
Found at i:21448995 original size:39 final size:39
Alignment explanation
Indices: 21448890--21449007 Score: 150
Period size: 39 Copynumber: 3.0 Consensus size: 39
21448880 TGTTTGTACA
* *
21448890 TACGTGCCCCTGTTATAC-TTCGGTACCCCTGATCGCACT
1 TACGTGCCCCTGTTGTACTTTC-ATACCCCTGATCGCACT
21448929 TACGTGCCCCTGTTGTAC-TTCAGTACCCCTGATCGCACT
1 TACGTGCCCCTGTTGTACTTTCA-TACCCCTGATCGCACT
* * * *
21448968 TACGTGCCCTTGTTGTACTTTTATACCCCTAATAGCACT
1 TACGTGCCCCTGTTGTACTTTCATACCCCTGATCGCACT
21449007 T
1 T
21449008 TCATCTCGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 68 0.96
40 3 0.04
ACGTcount: A:0.17, C:0.33, G:0.16, T:0.34
Consensus pattern (39 bp):
TACGTGCCCCTGTTGTACTTTCATACCCCTGATCGCACT
Found at i:21450261 original size:12 final size:12
Alignment explanation
Indices: 21450244--21450275 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
21450234 ATTGGTTTTA
21450244 ATATGATTATCG
1 ATATGATTATCG
21450256 ATATGATTATCG
1 ATATGATTATCG
21450268 ATATGATT
1 ATATGATT
21450276 TGAAATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (12 bp):
ATATGATTATCG
Found at i:21451060 original size:10 final size:10
Alignment explanation
Indices: 21451045--21451093 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
21451035 ATTAACATAT
21451045 TTAATTTTAA
1 TTAATTTTAA
21451055 TTAATTTTATAA
1 TTAA-TTT-TAA
*
21451067 TTAATTTTGA
1 TTAATTTTAA
*
21451077 TTAATTTTGA
1 TTAATTTTAA
21451087 TT-ATTTT
1 TTAATTTT
21451094 CGACAGATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 5 0.14
10 18 0.50
11 6 0.17
12 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:21453965 original size:8 final size:8
Alignment explanation
Indices: 21453952--21453989 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
21453942 AATTTTAATT
21453952 TTATTTAA
1 TTATTTAA
21453960 TTATTTAA
1 TTATTTAA
21453968 TTATTTAA
1 TTATTTAA
*
21453976 TTTATTAAA
1 -TTATTTAA
21453985 TTATT
1 TTATT
21453990 AAAAATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTATTTAA
Found at i:21453971 original size:16 final size:17
Alignment explanation
Indices: 21453952--21453989 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
21453942 AATTTTAATT
*
21453952 TTATTTAA-TTATTTAA
1 TTATTTAATTTATTAAA
21453968 TTATTTAATTTATTAAA
1 TTATTTAATTTATTAAA
21453985 TTATT
1 TTATT
21453990 AAAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATTTAATTTATTAAA
Found at i:21453999 original size:25 final size:25
Alignment explanation
Indices: 21453941--21453999 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
21453931 TTTTTCTCCT
* *
21453941 AAATTTTAATTTTATTTAATTATTT
1 AAATTTTAATTTTATTAAATTATTA
*
21453966 AATTATTTAA-TTTATTAAATTATTAA
1 AAAT-TTTAATTTTATTAAATTATT-A
21453992 AAATTTTA
1 AAATTTTA
21454000 TACTAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
AAATTTTAATTTTATTAAATTATTA
Found at i:21459314 original size:17 final size:18
Alignment explanation
Indices: 21459292--21459325 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21459282 AATATGTGCA
21459292 ACAAAA-TAAAAAAAATC
1 ACAAAAGTAAAAAAAATC
*
21459309 ACAAAAGTAAGAAAAAT
1 ACAAAAGTAAAAAAAAT
21459326 GAGTAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.12
Consensus pattern (18 bp):
ACAAAAGTAAAAAAAATC
Found at i:21471910 original size:29 final size:29
Alignment explanation
Indices: 21471817--21471911 Score: 68
Period size: 29 Copynumber: 3.2 Consensus size: 29
21471807 GAAAGGAATG
* * *
21471817 CCTTTATGGGAAAACTCTAGACAGGAAAG
1 CCTTTATGGAAAAACTCTAAACAGGAAAT
* ** *
21471846 CCTTTGTGGAGAGTACTGGATATAA-AGG-AAT
1 CCTTTATGGA-AAAACT--CTA-AACAGGAAAT
21471877 ACCTTTATGGAAAAACTCTAAACAGGAAAT
1 -CCTTTATGGAAAAACTCTAAACAGGAAAT
21471907 CCTTT
1 CCTTT
21471912 GTAGCACAAC
Statistics
Matches: 48, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
28 2 0.04
29 18 0.38
30 7 0.15
31 6 0.12
32 14 0.29
33 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (29 bp):
CCTTTATGGAAAAACTCTAAACAGGAAAT
Found at i:21471965 original size:61 final size:60
Alignment explanation
Indices: 21471900--21472041 Score: 169
Period size: 61 Copynumber: 2.4 Consensus size: 60
21471890 AACTCTAAAC
* * *
21471900 AGGAAATCCTTTGTAGCACAACTCTAGAGAGGAAAGCCTTTGCGATGAGTACTGGATATAA
1 AGGAAATCCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTG-GACGAGTACTGGATATAA
* * * *
21471961 AGG-AATACCTTTGTTGCACAAATCTAGATAGGAAAACCTTTGTACGAGTACTTGATATAA
1 AGGAAAT-CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGGACGAGTACTGGATATAA
** *
21472021 AGGAACGCCTTTGTGGCACAA
1 AGGAAATCCTTTGTAGCACAA
21472042 GGAAAAATCA
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
60 34 0.49
61 35 0.51
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (60 bp):
AGGAAATCCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGGACGAGTACTGGATATAA
Found at i:21471994 original size:90 final size:90
Alignment explanation
Indices: 21471829--21472004 Score: 248
Period size: 90 Copynumber: 2.0 Consensus size: 90
21471819 TTTATGGGAA
* *
21471829 AACTCTAGACAGGAAAGCCTTTGTGGAGAGTACTGGATATAAAGGAATACCTTTATGGAAAAACT
1 AACTCTAGACAGGAAAGCCTTTGTCGAGAGTACTGGATATAAAGGAATACCTTTATGCAAAAACT
*
21471894 CTAAACAGGAAATCCTTTGTAGCAC
66 CTAAACAGGAAAACCTTTGTAGCAC
* * *
21471919 AACTCTAGAGAGGAAAGCCTTTG-CGATGAGTACTGGATATAAAGGAATACCTTTGTTGCACAAA
1 AACTCTAGACAGGAAAGCCTTTGTCGA-GAGTACTGGATATAAAGGAATACCTTT-ATGCAAAAA
* *
21471983 -TCTAGATAGGAAAACCTTTGTA
64 CTCTAAACAGGAAAACCTTTGTA
21472005 CGAGTACTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
89 2 0.03
90 68 0.89
91 6 0.08
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (90 bp):
AACTCTAGACAGGAAAGCCTTTGTCGAGAGTACTGGATATAAAGGAATACCTTTATGCAAAAACT
CTAAACAGGAAAACCTTTGTAGCAC
Found at i:21472040 original size:60 final size:61
Alignment explanation
Indices: 21471907--21472041 Score: 173
Period size: 60 Copynumber: 2.2 Consensus size: 61
21471897 AACAGGAAAT
* * * *
21471907 CCTTTGTAGCACAACTCTAGAGAGGAAAGCCTTTGCGATGAGTACTGGATATAAAGGAATA
1 CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGCGACGAGTACTGGATATAAAGGAACA
* * * * *
21471968 CCTTTGTTGCACAAATCTAGATAGGAAAACCTTTG-TACGAGTACTTGATATAAAGGAACG
1 CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGCGACGAGTACTGGATATAAAGGAACA
*
21472028 CCTTTGTGGCACAA
1 CCTTTGTAGCACAA
21472042 GGAAAAATCA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
60 33 0.52
61 31 0.48
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (61 bp):
CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGCGACGAGTACTGGATATAAAGGAACA
Found at i:21481424 original size:12 final size:12
Alignment explanation
Indices: 21481409--21481438 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21481399 AGCCACAAGC
21481409 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
21481421 CCGTGTGCTAGG
1 CCGTGTGCCAGG
21481433 CCGTGT
1 CCGTGT
21481439 AACTGCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:21484405 original size:23 final size:23
Alignment explanation
Indices: 21484377--21484424 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
21484367 TTCCCCTTGT
21484377 TAAGGTAAGATCTACATCTTACA
1 TAAGGTAAGATCTACATCTTACA
*
21484400 TAAGGTAAGATTTACATCTTACA
1 TAAGGTAAGATCTACATCTTACA
21484423 TA
1 TA
21484425 CTAAGCTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAGGTAAGATCTACATCTTACA
Found at i:21487006 original size:50 final size:49
Alignment explanation
Indices: 21486904--21487094 Score: 193
Period size: 50 Copynumber: 3.7 Consensus size: 49
21486894 TGATGAGATC
* * *
21486904 CCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGACTACGAGAGGT
1 CCATGTAAGACCATGTCTAGGACATGGCATTGGCA-C--CGAGA-T--GAGAGGT
* *
21486959 CTCATGTAAGGCCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGT
1 C-CATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGGT
* * * * **
21487009 CCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCAT-GTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGGT
*
21487059 CCCATGTAAGACCATGTCTAGGATATGGCATTGGCA
1 -CCATGTAAGACCATGTCTAGGACATGGCATTGGCA
21487095 GTACAGGAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
49 2 0.02
50 74 0.64
51 3 0.03
52 1 0.01
53 4 0.03
55 2 0.02
56 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (49 bp):
CCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGGT
Found at i:21487395 original size:20 final size:20
Alignment explanation
Indices: 21487357--21487395 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21487347 TAAGCAAGCA
*
21487357 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
21487377 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
21487396 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:21493247 original size:15 final size:15
Alignment explanation
Indices: 21493227--21493255 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21493217 ATTAAATAAG
21493227 CTAAATTTTCTATTT
1 CTAAATTTTCTATTT
21493242 CTAAATTTTCTATT
1 CTAAATTTTCTATT
21493256 ATAGATCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (15 bp):
CTAAATTTTCTATTT
Found at i:21493645 original size:50 final size:50
Alignment explanation
Indices: 21493536--21493733 Score: 204
Period size: 50 Copynumber: 3.9 Consensus size: 50
21493526 ACATTTGGGT
*
21493536 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
* *
21493587 GACTATGAGAGGTCTCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
** *
21493640 GATGAG-GGCTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 GATGAGAGG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * * *
21493690 TATGAGAACTCCCATGTAAGACCATATCTGGGATAAGGCATTGG
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
21493734 AAGTACAGGA
Statistics
Matches: 123, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
49 2 0.02
50 75 0.61
51 1 0.01
53 3 0.02
54 6 0.05
55 1 0.01
56 35 0.28
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:21494036 original size:20 final size:20
Alignment explanation
Indices: 21493998--21494036 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21493988 TAAGCAAGCA
*
21493998 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
21494018 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
21494037 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:21503328 original size:58 final size:58
Alignment explanation
Indices: 21503228--21503346 Score: 202
Period size: 58 Copynumber: 2.1 Consensus size: 58
21503218 AAGTGTGGCG
* **
21503228 TTCGTTATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGTTGAT
1 TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTAAGTCAAGGTTTATTTGTTGAT
*
21503286 TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTAAGTCAAGTTTTATTTGTTGAT
1 TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTAAGTCAAGGTTTATTTGTTGAT
21503344 TTC
1 TTC
21503347 ATTTTTCATT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.18, C:0.15, G:0.19, T:0.47
Consensus pattern (58 bp):
TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTAAGTCAAGGTTTATTTGTTGAT
Found at i:21508943 original size:105 final size:108
Alignment explanation
Indices: 21508815--21509147 Score: 449
Period size: 105 Copynumber: 3.0 Consensus size: 108
21508805 CAACATGAAG
21508815 AAAATGGCGCTATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTATATAAAAACGCCGCAAA
1 AAAATGGCGCTATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTATATAAAAACGCCGCAAA
*
21508880 AAATTATTTCATTTGG-A-ACAA-GACATTGTTTTGCTATGCT
66 AAATTATTTCATTTGGAATAAAACGACATTGTTTTGCTATGCT
* * *
21508920 AAAAGGGCGCTATTTTTTTAAAGTAAAATTATTTTTTGTGCCGTTTTTTATAAAAACGCCGCAAA
1 AAAATGGCGCTATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTATATAAAAACGCCGCAAA
* * *
21508985 AAATTATTTCATTTGGAATAAAATGACACTGTTTTGCTAT-AT
66 AAATTATTTCATTTGGAATAAAACGACATTGTTTTGCTATGCT
* * * *
21509027 AAAATGACGCTATTTTTTTAAATTAAAATTATTTTGTGTGGCGTTTTTATAGAAACGCCGCTAAA
1 AAAATGGCGCTATTTTTTTAAAGTAAAATTATTTTTTGTGGCG-TTTTATA-TAA-------AAA
*
21509092 CGCCGCAAAAAATTATTTCATTTGGAATAAAACAACATTGTTTTGCTATGCT
57 CGCCGCAAAAAATTATTTCATTTGGAATAAAACGACATTGTTTTGCTATGCT
21509144 AAAA
1 AAAA
21509148 ATCTTTTATT
Statistics
Matches: 198, Mismatches: 17, Indels: 14
0.86 0.07 0.06
Matches are distributed among these distances:
105 78 0.39
106 1 0.01
107 42 0.21
108 21 0.11
109 2 0.01
116 49 0.25
117 5 0.03
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (108 bp):
AAAATGGCGCTATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTATATAAAAACGCCGCAAA
AAATTATTTCATTTGGAATAAAACGACATTGTTTTGCTATGCT
Found at i:21509848 original size:21 final size:21
Alignment explanation
Indices: 21509824--21509877 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
21509814 CGAATCCATA
* * *
21509824 AACCCTAAATCCCTAACTCTT
1 AACCCTAAACCCCTAACCCCT
21509845 AACCTCT-AACCCCTAACCCCT
1 AACC-CTAAACCCCTAACCCCT
21509866 AACCCATAAACC
1 AACCC-TAAACC
21509878 TTAAATCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 6 0.22
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCTAAACCCCTAACCCCT
Found at i:21509918 original size:14 final size:15
Alignment explanation
Indices: 21509869--21509933 Score: 64
Period size: 14 Copynumber: 4.5 Consensus size: 15
21509859 AACCCCTAAC
*
21509869 CCATAAACCTTAAAT
1 CCATAATCCTTAAAT
*
21509884 -CACAATCCTTAAAT
1 CCATAATCCTTAAAT
*
21509898 -CAGAATCCTT-AAT
1 CCATAATCCTTAAAT
* *
21509911 CCATAATCCCTAATT
1 CCATAATCCTTAAAT
21509926 CCATAATC
1 CCATAATC
21509934 TATAAACCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
13 3 0.07
14 29 0.69
15 10 0.24
ACGTcount: A:0.40, C:0.29, G:0.02, T:0.29
Consensus pattern (15 bp):
CCATAATCCTTAAAT
Found at i:21510469 original size:41 final size:41
Alignment explanation
Indices: 21510343--21510619 Score: 252
Period size: 41 Copynumber: 6.7 Consensus size: 41
21510333 TGTTTTTGCG
* *
21510343 GGCGCTTTTTCAAAAACGTCGCTAAAGCCCTGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* * ** * * * *
21510384 GGCACTCCTTGGAAAATGCCACTAAAGCCCCGCGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* * *
21510425 GGCGCTTCTTAAAAAATGCCGCTAAAGCCCAGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* ***
21510466 GGCGCTT-TTCCAAAAACGCCGCTAATGATTTGAGCATTAGC
1 GGCGCTTCTT-CAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* *** *
21510507 GACGCTTCTTCAAAAACGCCGCTAAAGATTTTAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* * * *
21510548 TGCGCTTTTTCAAAAATGCCGCTAAA-CATCTGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAGC-CCTGAGCATTAGC
* * *
21510589 TGCGCTTTTTTAAAAAACGCCGCTAAAGCCC
1 GGCGC-TTCTTCAAAAACGCCGCTAAAGCCC
21510620 CGAAAGGTAG
Statistics
Matches: 194, Mismatches: 37, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
40 2 0.01
41 169 0.87
42 22 0.11
43 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (41 bp):
GGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
Found at i:21510708 original size:16 final size:16
Alignment explanation
Indices: 21510687--21510718 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21510677 ACGCCACTAA
21510687 TGCTCATTTTCAGCGG
1 TGCTCATTTTCAGCGG
21510703 TGCTCATTTTCAGCGG
1 TGCTCATTTTCAGCGG
21510719 CGCTTTCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.25, T:0.38
Consensus pattern (16 bp):
TGCTCATTTTCAGCGG
Found at i:21510979 original size:21 final size:21
Alignment explanation
Indices: 21510955--21511008 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
21510945 CGAATCCATA
* * *
21510955 AACCCTAAATCCCTAACTCTT
1 AACCCTAAACCCCTAACCCCT
21510976 AACCTCT-AACCCCTAACCCCT
1 AACC-CTAAACCCCTAACCCCT
21510997 AACCCATAAACC
1 AACCC-TAAACC
21511009 TTAAATCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 6 0.22
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCTAAACCCCTAACCCCT
Found at i:21511028 original size:7 final size:7
Alignment explanation
Indices: 21511018--21511055 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
21511008 CTTAAATCAC
21511018 AATCCCT
1 AATCCCT
*
21511025 AATCCAT
1 AATCCCT
21511032 AATCCCT
1 AATCCCT
*
21511039 AATCCAT
1 AATCCCT
21511046 AATCCCT
1 AATCCCT
21511053 AAT
1 AAT
21511056 TCCATAATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (7 bp):
AATCCCT
Found at i:21511037 original size:14 final size:14
Alignment explanation
Indices: 21511018--21511064 Score: 85
Period size: 14 Copynumber: 3.3 Consensus size: 14
21511008 CTTAAATCAC
21511018 AATCCCTAATCCAT
1 AATCCCTAATCCAT
21511032 AATCCCTAATCCAT
1 AATCCCTAATCCAT
21511046 AATCCCTAATTCCAT
1 AATCCCTAA-TCCAT
21511061 AATC
1 AATC
21511065 TATAAACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 23 0.72
15 9 0.28
ACGTcount: A:0.36, C:0.34, G:0.00, T:0.30
Consensus pattern (14 bp):
AATCCCTAATCCAT
Found at i:21511611 original size:41 final size:40
Alignment explanation
Indices: 21511479--21511746 Score: 182
Period size: 41 Copynumber: 6.5 Consensus size: 40
21511469 TGCAGGCGCT
*
21511479 TTTTCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCA-C
1 TTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG-AGC
* ** * * * *
21511519 TCCTTGGAAAATGCCACTAAAGCCCCGCGCATTAGCGGCA-C
1 T-TTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG-AGC
* * *
21511560 TTCTTAAAAAATGCCGCTAAAGCCCAGAGCATTAGCGGAGC
1 TT-TTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGAGC
***
21511601 TTTTCCAAAAACGCCGCTAAAGATTTGAGCATTAGC-GACGC
1 TTTT-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGA-GC
*** * * *
21511642 TTCTTCAAAAACGCCGCTAAAGATTTTAGCATTAGCTGCGC
1 TT-TTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGAGC
* *** * *
21511683 TTTTTCAAAAATGCCGCTAAAAATCTGAGCATTAGCTGCGC
1 -TTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGAGC
*
21511724 TTTTTTAAAAAACGCCGCTAAAG
1 --TTTTCAAAAACGCCGCTAAAG
21511747 ACCCGAAAGG
Statistics
Matches: 190, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
40 6 0.03
41 160 0.84
42 24 0.13
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (40 bp):
TTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGAGC
Found at i:21511673 original size:82 final size:83
Alignment explanation
Indices: 21511547--21511747 Score: 228
Period size: 82 Copynumber: 2.4 Consensus size: 83
21511537 AAAGCCCCGC
* * * *****
21511547 GCATTAGCGGCAC-TTCTTAAAAAATGCCGCTAAAGCCCAGAGCATTAGCGGAGCTTTTCCAAAA
1 GCATTAGCTGCGCTTTCTTAAAAAACGCCGCTAAAGATTTTAGCATTAGCGGAGCTTTTCCAAAA
* *
21511611 ACGCCGCTAAAGATTTGA
66 ACGCCGCTAAAAATCTGA
* * * *
21511629 GCATTAGC-GACGC-TTCTTCAAAAACGCCGCTAAAGATTTTAGCATTAGCTGCGCTTTTTCAAA
1 GCATTAGCTG-CGCTTTCTTAAAAAACGCCGCTAAAGATTTTAGCATTAGCGGAGCTTTTCCAAA
*
21511692 AATGCCGCTAAAAATCTGA
65 AACGCCGCTAAAAATCTGA
*
21511711 GCATTAGCTGCGCTTTTTTAAAAAACGCCGCTAAAGA
1 GCATTAGCTGCGCTTTCTTAAAAAACGCCGCTAAAGA
21511748 CCCGAAAGGT
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
81 1 0.01
82 77 0.77
83 22 0.22
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (83 bp):
GCATTAGCTGCGCTTTCTTAAAAAACGCCGCTAAAGATTTTAGCATTAGCGGAGCTTTTCCAAAA
ACGCCGCTAAAAATCTGA
Found at i:21512003 original size:7 final size:7
Alignment explanation
Indices: 21511966--21512010 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
21511956 AAATCATAAA
21511966 CCCTAA-
1 CCCTAAC
21511972 CCCTAA-
1 CCCTAAC
21511978 -CCTAAC
1 CCCTAAC
* *
21511984 CCCGAAT
1 CCCTAAC
21511991 CCCTAAC
1 CCCTAAC
21511998 CCCTAAC
1 CCCTAAC
21512005 CCCTAA
1 CCCTAA
21512011 ACATTATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
5 5 0.15
6 6 0.18
7 22 0.67
ACGTcount: A:0.31, C:0.51, G:0.02, T:0.16
Consensus pattern (7 bp):
CCCTAAC
Found at i:21512120 original size:14 final size:14
Alignment explanation
Indices: 21512085--21512131 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
21512075 CGAATCCATA
* *
21512085 AACCCTAAATCCCT
1 AACCCTTAACCCCT
* *
21512099 AACTCTTAACCTCT
1 AACCCTTAACCCCT
21512113 AACCCTTAACCCCT
1 AACCCTTAACCCCT
21512127 AACCC
1 AACCC
21512132 ATAAACCTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:21512167 original size:14 final size:14
Alignment explanation
Indices: 21512148--21512194 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
21512138 CTTAAATCAC
*
21512148 AATCCCTAATCCCT
1 AATCCCTAATCCAT
21512162 AATCCCTAATCCAT
1 AATCCCTAATCCAT
21512176 AATCCCTAATTCCAT
1 AATCCCTAA-TCCAT
21512191 AATC
1 AATC
21512195 TATAAACCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 22 0.71
15 9 0.29
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (14 bp):
AATCCCTAATCCAT
Found at i:21512172 original size:21 final size:22
Alignment explanation
Indices: 21512148--21512199 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
21512138 CTTAAATCAC
* *
21512148 AATCCCTAATCCCTAA-TCCCT
1 AATCCATAATCCCTAATTCCAT
21512169 AATCCATAATCCCTAATTCCAT
1 AATCCATAATCCCTAATTCCAT
*
21512191 AATCTATAA
1 AATCCATAA
21512200 ACCTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.31
Consensus pattern (22 bp):
AATCCATAATCCCTAATTCCAT
Found at i:21512185 original size:7 final size:7
Alignment explanation
Indices: 21512148--21512185 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
21512138 CTTAAATCAC
21512148 AATCCCT
1 AATCCCT
21512155 AATCCCT
1 AATCCCT
21512162 AATCCCT
1 AATCCCT
*
21512169 AATCCAT
1 AATCCCT
21512176 AATCCCT
1 AATCCCT
21512183 AAT
1 AAT
21512186 TCCATAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (7 bp):
AATCCCT
Found at i:21512823 original size:123 final size:123
Alignment explanation
Indices: 21512601--21512840 Score: 320
Period size: 123 Copynumber: 2.0 Consensus size: 123
21512591 AAATGTTTTT
* * * ** *
21512601 GCGGCGCTTTTTCAAAAACGTCGCTAAAGTCCTGAGCATTAGCGGCGCTCCTTGGAAAATGCCAC
1 GCGGCGCTTTTCCAAAAACGCCACTAAAGTCCTGAGCATTAGCGGCGCTCCTTCAAAAACGCCAC
* *
21512666 TAAAGCTCCGAGCATTAGCGGCGCTTCTTAAAAAATGCCGCTAAAGCCCCGAGCATTA
66 TAAAGATCCGAGCATTAGCGGCGCTTCTTAAAAAATACCGCTAAAGCCCCGAGCATTA
* * *
21512724 GCGGCGCTTTTCCAAAAACGCCACTAAAGAT-CTGAGCATTAGCGGTGCTTCTTCAAAAACGCCG
1 GCGGCGCTTTTCCAAAAACGCCACTAAAG-TCCTGAGCATTAGCGGCGCTCCTTCAAAAACGCCA
** * * *
21512788 CTAAAGATTTGAGCATTAGCTGCGCTTTTTCAAAAATACCGCTAAAGCCCCGA
65 CTAAAGATCCGAGCATTAGCGGCGCTTCTTAAAAAATACCGCTAAAGCCCCGA
21512841 AAGGTAGAAA
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
123 99 0.99
124 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (123 bp):
GCGGCGCTTTTCCAAAAACGCCACTAAAGTCCTGAGCATTAGCGGCGCTCCTTCAAAAACGCCAC
TAAAGATCCGAGCATTAGCGGCGCTTCTTAAAAAATACCGCTAAAGCCCCGAGCATTA
Found at i:21512830 original size:41 final size:41
Alignment explanation
Indices: 21512601--21512834 Score: 247
Period size: 41 Copynumber: 5.7 Consensus size: 41
21512591 AAATGTTTTT
* *
21512601 GCGGCGCTTTTTCAAAAACGTCGCTAAAG-TCCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGAT-CTGAGCATTA
* ** * * * *
21512642 GCGGCGCTCCTTGGAAAATGCCACTAAAGCTCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * ** *
21512683 GCGGCGCTTCTTAAAAAATGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
21512724 GCGGCGCTT-TTCCAAAAACGCCACTAAAGATCTGAGCATTA
1 GCGGCGCTTCTT-CAAAAACGCCGCTAAAGATCTGAGCATTA
* *
21512765 GCGGTGCTTCTTCAAAAACGCCGCTAAAGATTTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * **
21512806 GCTGCGCTTTTTCAAAAATACCGCTAAAG
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAG
21512835 CCCCGAAAGG
Statistics
Matches: 163, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
40 2 0.01
41 158 0.97
42 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:21513036 original size:54 final size:54
Alignment explanation
Indices: 21512954--21513057 Score: 190
Period size: 54 Copynumber: 1.9 Consensus size: 54
21512944 GAAGCGCCGC
*
21512954 TAATGCTCAGATCTTTAGCGGCGCTTTTTATCCAAATGCCGCTAAAAATGGCTT
1 TAATGCTCAGACCTTTAGCGGCGCTTTTTATCCAAATGCCGCTAAAAATGGCTT
*
21513008 TAATGCTCAGACCTTTAGCGGCGTTTTTTATCCAAATGCCGCTAAAAATG
1 TAATGCTCAGACCTTTAGCGGCGCTTTTTATCCAAATGCCGCTAAAAATG
21513058 CCTGTAAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (54 bp):
TAATGCTCAGACCTTTAGCGGCGCTTTTTATCCAAATGCCGCTAAAAATGGCTT
Found at i:21514831 original size:12 final size:12
Alignment explanation
Indices: 21514814--21514840 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21514804 ATTATCATCG
21514814 CTCTAATCCAAT
1 CTCTAATCCAAT
21514826 CTCTAATCCAAT
1 CTCTAATCCAAT
21514838 CTC
1 CTC
21514841 GTGTACTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (12 bp):
CTCTAATCCAAT
Found at i:21517547 original size:27 final size:27
Alignment explanation
Indices: 21517457--21517547 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
21517447 CTAAGAAATA
* *
21517457 CCTTTGTAGTGTACTCTGAAATA-AATG
1 CCTTTGTGGTGCACTCTGAAA-AGAATG
* *
21517484 CCTTTGTGGCGCACTTTGAAAAGAATG
1 CCTTTGTGGTGCACTCTGAAAAGAATG
* *
21517511 TCTTTGTGGTGCACTCTGAAAGGAATG
1 CCTTTGTGGTGCACTCTGAAAAGAATG
21517538 CCTTTGTGGT
1 CCTTTGTGGT
21517548 AAATTTTGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.35
Consensus pattern (27 bp):
CCTTTGTGGTGCACTCTGAAAAGAATG
Found at i:21517556 original size:54 final size:54
Alignment explanation
Indices: 21517458--21517562 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
21517448 TAAGAAATAC
* * **
21517458 CTTTGTAGTGTACTCTGAAATAAATGCCTTTGTGGCGCACTTTGAAAAGAATGT
1 CTTTGTAGTGCACTCTGAAAGAAATGCCTTTGTGGCAAACTTTGAAAAGAATGT
* * * * *
21517512 CTTTGTGGTGCACTCTGAAAGGAATGCCTTTGTGGTAAATTTTGAATAGAA
1 CTTTGTAGTGCACTCTGAAAGAAATGCCTTTGTGGCAAACTTTGAAAAGAA
21517563 CGCCTTGGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (54 bp):
CTTTGTAGTGCACTCTGAAAGAAATGCCTTTGTGGCAAACTTTGAAAAGAATGT
Done.