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 29 of 196
Found at i:8160695 original size:23 final size:23
Alignment explanation
Indices: 8160665--8160717 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
8160655 TATCGGATTC
8160665 TTTGGATTTCGGTTGAATTTGCA
1 TTTGGATTTCGGTTGAATTTGCA
8160688 TTTGGATTTCGGTTGAATTTGCA
1 TTTGGATTTCGGTTGAATTTGCA
*
8160711 TTCGGAT
1 TTTGGAT
8160718 CGAGCATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.17, C:0.09, G:0.26, T:0.47
Consensus pattern (23 bp):
TTTGGATTTCGGTTGAATTTGCA
Found at i:8165358 original size:31 final size:31
Alignment explanation
Indices: 8165316--8165921 Score: 411
Period size: 31 Copynumber: 19.8 Consensus size: 31
8165306 ATCCAATGCT
* * **
8165316 CAAATC-AATTCAACAATATATATTCATATA
1 CAAATCAAATTCAGCAATGTATAACCATATA
* *
8165346 CGAATCAAATTCAGCAATGTATAATCATATA
1 CAAATCAAATTCAGCAATGTATAACCATATA
**
8165377 CAAATC-AATTTGGCAATGTATAACCATATA
1 CAAATCAAATTCAGCAATGTATAACCATATA
** * * * *
8165407 TGAATCAAGTTCGGCAATTTTATAATCATATA
1 CAAATCAAATTCAGCAA-TGTATAACCATATA
* * *
8165439 CAAAT-TAATTCGGCAACT-TATATCCATATA
1 CAAATCAAATTCAGCAA-TGTATAACCATATA
* * *
8165469 CAATTCAATTTCAACAATGTATAACCATATA
1 CAAATCAAATTCAGCAATGTATAACCATATA
* * * *
8165500 CAAATTAATTTCAGCAAAGTATAATCATATA
1 CAAATCAAATTCAGCAATGTATAACCATATA
** **
8165531 TGAATC-AATTC-GTCAACT-TATATTCATATA
1 CAAATCAAATTCAG-CAA-TGTATAACCATATA
* *
8165561 CAAATCAATTTC-GATAATGTATAACCATATA
1 CAAATCAAATTCAG-CAATGTATAACCATATA
* *
8165592 CAAAT-AAATTTCAGTAATGTACAACCATATA
1 CAAATCAAA-TTCAGCAATGTATAACCATATA
* * *
8165623 CGAAT-TAATTCAGCAACT-TATATCCATATA
1 CAAATCAAATTCAGCAA-TGTATAACCATATA
* * *
8165653 CAATTCAATTTCAACAATGTATAACCATATA
1 CAAATCAAATTCAGCAATGTATAACCATATA
* * **
8165684 CAAATTAATTTCAGCAATGTATAATTATATA
1 CAAATCAAATTCAGCAATGTATAACCATATA
* * * ***
8165715 CGAAT-TAATTCGGCAACT-TATCTTCATATA
1 CAAATCAAATTCAGCAA-TGTATAACCATATA
* *
8165745 CAAATCAATTTC-GATAATGTATAACCATATA
1 CAAATCAAATTCAG-CAATGTATAACCATATA
*
8165776 CAAAT-AAATTTCAGCAATGTACAACCATATA
1 CAAATCAAA-TTCAGCAATGTATAACCATATA
* * *
8165807 CGAAT-TAATTCAGCAACT-TATATCCATATA
1 CAAATCAAATTCAGCAA-TGTATAACCATATA
* * *
8165837 CAATTCAATTTCAACAATGTATAACCATATA
1 CAAATCAAATTCAGCAATGTATAACCATATA
* * **
8165868 CAAATTAATTTCAGCAATGTATAATTATATA
1 CAAATCAAATTCAGCAATGTATAACCATATA
* * *
8165899 CAAAT-TAATTCGGCAATATATAA
1 CAAATCAAATTCAGCAATGTATAA
8165922 AACAATCAAA
Statistics
Matches: 454, Mismatches: 99, Indels: 46
0.76 0.17 0.08
Matches are distributed among these distances:
29 1 0.00
30 152 0.33
31 284 0.63
32 17 0.04
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
CAAATCAAATTCAGCAATGTATAACCATATA
Found at i:8165911 original size:184 final size:184
Alignment explanation
Indices: 8165332--8165914 Score: 900
Period size: 184 Copynumber: 3.2 Consensus size: 184
8165322 AATTCAACAA
* * * **
8165332 TATATATTCATATACGAATCAAATTCAGCAA-TGTATAATCATATACAAATCAATTT-GGCAATG
1 TATA-ATT-ATATACGAAT-TAATTCGGCAACT-TATATTCATATACAAATCAATTTCGATAATG
** * * * * * * * *
8165395 TATAACCATATATGAATCAAGTTCGGCAATTTTATAATCATATACAAATTAATTCGGCAACTTAT
62 TATAACCATATACAAATAAATTTCAGCAA-TGTACAACCATATACGAATTAATTCAGCAACTTAT
*
8165460 ATCCATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAAAG
126 ATCCATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAATG
* * * *
8165519 TATAATCATATATGAATCAATTCGTCAACTTATATTCATATACAAATCAATTTCGATAATGTATA
1 TATAATTATATACGAATTAATTCGGCAACTTATATTCATATACAAATCAATTTCGATAATGTATA
*
8165584 ACCATATACAAATAAATTTCAGTAATGTACAACCATATACGAATTAATTCAGCAACTTATATCCA
66 ACCATATACAAATAAATTTCAGCAATGTACAACCATATACGAATTAATTCAGCAACTTATATCCA
8165649 TATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAATG
131 TATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAATG
*
8165703 TATAATTATATACGAATTAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
1 TATAATTATATACGAATTAATTCGGCAACTTATATTCATATACAAATCAATTTCGATAATGTATA
8165768 ACCATATACAAATAAATTTCAGCAATGTACAACCATATACGAATTAATTCAGCAACTTATATCCA
66 ACCATATACAAATAAATTTCAGCAATGTACAACCATATACGAATTAATTCAGCAACTTATATCCA
8165833 TATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAATG
131 TATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAATG
*
8165887 TATAATTATATACAAATTAATTCGGCAA
1 TATAATTATATACGAATTAATTCGGCAA
8165915 TATATAAAAC
Statistics
Matches: 367, Mismatches: 27, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
184 323 0.88
185 38 0.10
186 2 0.01
187 4 0.01
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.33
Consensus pattern (184 bp):
TATAATTATATACGAATTAATTCGGCAACTTATATTCATATACAAATCAATTTCGATAATGTATA
ACCATATACAAATAAATTTCAGCAATGTACAACCATATACGAATTAATTCAGCAACTTATATCCA
TATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAATG
Found at i:8165934 original size:92 final size:92
Alignment explanation
Indices: 8165316--8165914 Score: 765
Period size: 92 Copynumber: 6.5 Consensus size: 92
8165306 ATCCAATGCT
* * * * * *
8165316 CAAATCAA-TTCAACAATATATATTCATATACGAATCAAATTCAGCAA-TGTATAAT-CATATAC
1 CAAATTAATTTCAGCAATGTATAATCATATACGAAT-TAATTCGGCAACT-TAT-ATCCATATAC
* **
8165378 AAATCAATTT-GGCAATGTATAACCATATA
63 AATTCAATTTCAACAATGTATAACCATATA
** * * * * *
8165407 TGAATCAAGTTCGGCAATTTTATAATCATATACAAATTAATTCGGCAACTTATATCCATATACAA
1 CAAATTAATTTCAGCAA-TGTATAATCATATACGAATTAATTCGGCAACTTATATCCATATACAA
8165472 TTCAATTTCAACAATGTATAACCATATA
65 TTCAATTTCAACAATGTATAACCATATA
* * * * * *
8165500 CAAATTAATTTCAGCAAAGTATAATCATATATGAATCAATTCGTCAACTTATATTCATATACAAA
1 CAAATTAATTTCAGCAATGTATAATCATATACGAATTAATTCGGCAACTTATATCCATATACAAT
* *
8165565 TCAATTTCGATAATGTATAACCATATA
66 TCAATTTCAACAATGTATAACCATATA
* * * * *
8165592 CAAATAAATTTCAGTAATGTACAACCATATACGAATTAATTCAGCAACTTATATCCATATACAAT
1 CAAATTAATTTCAGCAATGTATAATCATATACGAATTAATTCGGCAACTTATATCCATATACAAT
8165657 TCAATTTCAACAATGTATAACCATATA
66 TCAATTTCAACAATGTATAACCATATA
* * * *
8165684 CAAATTAATTTCAGCAATGTATAATTATATACGAATTAATTCGGCAACTTATCTTCATATACAAA
1 CAAATTAATTTCAGCAATGTATAATCATATACGAATTAATTCGGCAACTTATATCCATATACAAT
* *
8165749 TCAATTTCGATAATGTATAACCATATA
66 TCAATTTCAACAATGTATAACCATATA
* * * *
8165776 CAAATAAATTTCAGCAATGTACAACCATATACGAATTAATTCAGCAACTTATATCCATATACAAT
1 CAAATTAATTTCAGCAATGTATAATCATATACGAATTAATTCGGCAACTTATATCCATATACAAT
8165841 TCAATTTCAACAATGTATAACCATATA
66 TCAATTTCAACAATGTATAACCATATA
* *
8165868 CAAATTAATTTCAGCAATGTATAATTATATACAAATTAATTCGGCAA
1 CAAATTAATTTCAGCAATGTATAATCATATACGAATTAATTCGGCAA
8165915 TATATAAAAC
Statistics
Matches: 436, Mismatches: 67, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
91 8 0.02
92 382 0.88
93 46 0.11
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.33
Consensus pattern (92 bp):
CAAATTAATTTCAGCAATGTATAATCATATACGAATTAATTCGGCAACTTATATCCATATACAAT
TCAATTTCAACAATGTATAACCATATA
Found at i:8172292 original size:13 final size:12
Alignment explanation
Indices: 8172261--8172294 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
8172251 AAAGAATTAC
8172261 TATAGAAATTCT
1 TATAGAAATTCT
8172273 T-TAGAAATTCTT
1 TATAGAAATTC-T
8172285 TATAGAAATT
1 TATAGAAATT
8172295 GATATCCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 3 0.15
13 8 0.40
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (12 bp):
TATAGAAATTCT
Found at i:8172763 original size:10 final size:10
Alignment explanation
Indices: 8172709--8172763 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
8172699 CCTTTCAAAT
*
8172709 AATTTTAAAA
1 AATTTTTAAA
*
8172719 AAGTTTTAAA
1 AATTTTTAAA
*
8172729 ATTTTTTAAA
1 AATTTTTAAA
8172739 TATATTTGTTAAA
1 -A-ATTT-TTAAA
8172752 AATTTTTAAA
1 AATTTTTAAA
8172762 AA
1 AA
8172764 ATTCTATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
10 23 0.62
11 5 0.14
12 4 0.11
13 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:8172763 original size:11 final size:11
Alignment explanation
Indices: 8172711--8172766 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
8172701 TTTCAAATAA
*
8172711 TTTTAAAAAAG
1 TTTTAAAAAAT
*
8172722 TTTT-AAAATT
1 TTTTAAAAAAT
*
8172732 TTTTAAATATAT
1 TTTTAAA-AAAT
8172744 TTGTT-AAAAAT
1 TT-TTAAAAAAT
8172755 TTTTAAAAAAT
1 TTTTAAAAAAT
8172766 T
1 T
8172767 CTATATGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
10 10 0.28
11 18 0.50
12 6 0.17
13 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (11 bp):
TTTTAAAAAAT
Found at i:8178326 original size:22 final size:24
Alignment explanation
Indices: 8178298--8178341 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
8178288 ATTTTGTTCA
8178298 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
8178320 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
8178342 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:8181723 original size:25 final size:25
Alignment explanation
Indices: 8181663--8181733 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
8181653 AATTGGATCG
*
8181663 CAAGAGCTTCCCGTTATATGGCTCA
1 CAAGAGCTTCCCGTTACATGGCTCA
* * *
8181688 CATGAGGTTCCCGTTACATGGGTCGA
1 CAAGAGCTTCCCGTTACATGGCTC-A
*
8181714 -AAGAGCTTCCTGATTACATG
1 CAAGAGCTTCCCG-TTACATG
8181734 CTCGTATGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 29 0.78
26 8 0.22
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (25 bp):
CAAGAGCTTCCCGTTACATGGCTCA
Found at i:8191959 original size:31 final size:31
Alignment explanation
Indices: 8191916--8191987 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
8191906 TCATTGTATG
*
8191916 ATTTGTCTTTTTTTTTCTTTTTGACAGTT-A
1 ATTTTTCTTTTTTTTTCTTTTTGACAGTTCA
*
8191946 AGTTTTTCTTTTTTTTTCTTTTTGGCAGTTCA
1 A-TTTTTCTTTTTTTTTCTTTTTGACAGTTCA
8191978 ATTTTT-TTTT
1 ATTTTTCTTTT
8191988 ATAAATCAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 5 0.13
31 31 0.82
32 2 0.05
ACGTcount: A:0.11, C:0.10, G:0.10, T:0.69
Consensus pattern (31 bp):
ATTTTTCTTTTTTTTTCTTTTTGACAGTTCA
Found at i:8192992 original size:16 final size:16
Alignment explanation
Indices: 8192948--8193004 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
8192938 AAAACATATT
8192948 TAAAAAT-TCAAAAAAA
1 TAAAAATAT-AAAAAAA
8192964 TAATAACAGTATAAAAAAA
1 TAA-AA-A-TATAAAAAAA
* *
8192983 TAAAAATATATAAAAC
1 TAAAAATATAAAAAAA
8192999 TAAAAA
1 TAAAAA
8193005 AATCTTTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 17 0.49
17 3 0.09
18 3 0.09
19 11 0.31
20 1 0.03
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (16 bp):
TAAAAATATAAAAAAA
Found at i:8201388 original size:21 final size:21
Alignment explanation
Indices: 8201362--8201402 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8201352 TTTAAGAAAA
*
8201362 CTGAAAAACTATTCTAATTGC
1 CTGAAAAACTAGTCTAATTGC
8201383 CTGAAAAACTAGTCTAATTG
1 CTGAAAAACTAGTCTAATTG
8201403 TTGATAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (21 bp):
CTGAAAAACTAGTCTAATTGC
Found at i:8203970 original size:83 final size:84
Alignment explanation
Indices: 8203863--8204030 Score: 266
Period size: 84 Copynumber: 2.0 Consensus size: 84
8203853 GAAAAATAAT
* *
8203863 TCCTTCAAACTAGGAAAAAACAAACTCATCATCTTTTCCA-CCCAAGGTACCATCAAACATGTCA
1 TCCTTCAAACTAGGAAAAAACAAACTCATCATATTCTCCACCCCAAGGTACCATCAAACATGTCA
* *
8203927 TATTTTCTCATACTAAACC
66 TACTGTCTCATACTAAACC
* *
8203946 TCCTTCAAACTAGGAAAAAACAAACTCATCATATTCTCCACCCCAAGGTACCGTCAAATATGTCA
1 TCCTTCAAACTAGGAAAAAACAAACTCATCATATTCTCCACCCCAAGGTACCATCAAACATGTCA
*
8204011 TACTGTCTCATACTGAACC
66 TACTGTCTCATACTAAACC
8204030 T
1 T
8204031 ATTTCAATCC
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 38 0.49
84 39 0.51
ACGTcount: A:0.36, C:0.29, G:0.08, T:0.27
Consensus pattern (84 bp):
TCCTTCAAACTAGGAAAAAACAAACTCATCATATTCTCCACCCCAAGGTACCATCAAACATGTCA
TACTGTCTCATACTAAACC
Found at i:8205896 original size:2 final size:2
Alignment explanation
Indices: 8205889--8205927 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8205879 TCTTAACCAG
8205889 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
8205928 TTACCATCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8209119 original size:31 final size:30
Alignment explanation
Indices: 8209084--8209163 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 30
8209074 ATAATCCCTG
8209084 AAATTAATTAAATCCTTC-TAAAATAATTAAA
1 AAATTAATTAAATCCTTCATAAAATAA--AAA
8209115 AAATTAATTAAAT-CTTCATAAAATAAAAA
1 AAATTAATTAAATCCTTCATAAAATAAAAA
8209144 ATAA-TAATTAAATCCTTCAT
1 A-AATTAATTAAATCCTTCAT
8209164 TAACATTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
29 13 0.28
30 12 0.26
31 21 0.46
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (30 bp):
AAATTAATTAAATCCTTCATAAAATAAAAA
Found at i:8213875 original size:112 final size:115
Alignment explanation
Indices: 8213754--8214088 Score: 295
Period size: 114 Copynumber: 2.9 Consensus size: 115
8213744 CGCTTTCTCC
* **
8213754 AAAGCGCCAC-AAAAGTTTT-ATCAAACGACGTCG-TTTCCATGTTGAGGTTTAGACACATTAGT
1 AAAGCGCCACAAAAAGTTTTAAGCAAACGACGTCGTTTTCC-TGTTGAGCATTAGACACATTAGT
* * **
8213816 GGCGCTTTACATAAAACGCTGCGTAAGTCAAA-CATTAGCGGCGATTAAGG
65 GGCGCTTTACAAAAAACGCCGCAAAAGTCAAAGCATTAGCGGCGATTAAGG
* * *
8213866 AAAGCGCCACAAAAAGTTTTAAGCAAACGCCGTCGTTTTTCTGTTGAGCATTAGAGACATTAGTG
1 AAAGCGCCACAAAAAGTTTTAAGCAAACGACGTCGTTTTCCTGTTGAGCATTAGACACATTAGTG
* * * * ***
8213931 GCGCTTTGCAAAAAATGCCGCAAAAGTCAAAGCATTAGCAGCGCTTTCTCG
66 GCGCTTTACAAAAAACGCCGCAAAAGTCAAAGCATTAGCGGCG-ATTAAGG
* * * * ** * * ** *
8213982 AAAGTGCCAC-AATAGTTTTAGGCAAACGACGACGTTTTTTTTTTTAAAATTTAGAGACATTAGT
1 AAAGCGCCACAAAAAGTTTTAAGCAAACGACGTCGTTTTCCTGTTGAGCA-TTAGACACATTAGT
* * * ** *
8214046 GGAGCATTCCTCAAAACGCCGCAAAAGTC-AAGAATTAGCGGCG
65 GGCGCTTTACAAAAAACGCCGCAAAAGTCAAAGCATTAGCGGCG
8214089 CTTTCGCAAA
Statistics
Matches: 182, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
112 10 0.05
113 9 0.05
114 58 0.32
115 56 0.31
116 49 0.27
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (115 bp):
AAAGCGCCACAAAAAGTTTTAAGCAAACGACGTCGTTTTCCTGTTGAGCATTAGACACATTAGTG
GCGCTTTACAAAAAACGCCGCAAAAGTCAAAGCATTAGCGGCGATTAAGG
Found at i:8213893 original size:114 final size:114
Alignment explanation
Indices: 8213582--8214018 Score: 314
Period size: 114 Copynumber: 3.9 Consensus size: 114
8213572 AGCTTCAAAG
* * * * * * *
8213582 ACATTAGTGGCGCTTCA-AACAAAACACCGCAAAAGTCAAA-CATTAGCGGTGCTTTTACAAAAG
1 ACATTAGTGGCGCTTTACAA-AAAACGCCGCAAAAGTCAAAGCATTAGCAGCGCATTAACGAAAG
* * * * * * ** * ** *
8213645 CGCCGCAAAACTGTTAAACAGACGATGTCGTTTTAT-TTTAGGTTTAGAG
65 CGCCACAAAAGTTTTAAGCAAACGACGTCGTTTCCTGTTGAGCATTAGAC
* * * * * * * ** *
8213694 ACATTAGCGGCG-TTTATAAGGAAACGCCGCAAAAGATCATA-TATTAGCGGCGCTTTCTCCAAA
1 ACATTAGTGGCGCTTTACAA-AAAACGCCGCAAAAG-TCAAAGCATTAGCAGCGCATTAACGAAA
* **
8213757 GCGCCACAAAAGTTTT-ATCAAACGACGTCGTTTCCATGTTGAGGTTTAGAC
64 GCGCCACAAAAGTTTTAAGCAAACGACGTCGTTTCC-TGTTGAGCATTAGAC
* * ** * *
8213808 ACATTAGTGGCGCTTTACATAAAACGCTGCGTAAGTCAAA-CATTAGCGGCG-ATTAAGGAAAGC
1 ACATTAGTGGCGCTTTACAAAAAACGCCGCAAAAGTCAAAGCATTAGCAGCGCATTAACGAAAGC
* * *
8213871 GCCACAAAAAGTTTTAAGCAAACGCCGTCGTTTTTCTGTTGAGCATTAGAG
66 GCCAC-AAAAGTTTTAAGCAAACGACGTCG-TTTCCTGTTGAGCATTAGAC
* * * ** *
8213922 ACATTAGTGGCGCTTTGCAAAAAATGCCGCAAAAGTCAAAGCATTAGCAGCGCTTTCTCGAAAGT
1 ACATTAGTGGCGCTTTACAAAAAACGCCGCAAAAGTCAAAGCATTAGCAGCGCATTAACGAAAGC
* * *
8213987 GCCACAATAGTTTTAGGCAAACGACGACGTTT
66 GCCACAAAAGTTTTAAGCAAACGACGTCGTTT
8214019 TTTTTTTTAA
Statistics
Matches: 258, Mismatches: 57, Indels: 18
0.77 0.17 0.05
Matches are distributed among these distances:
111 3 0.01
112 52 0.20
113 58 0.22
114 94 0.36
115 39 0.15
116 12 0.05
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (114 bp):
ACATTAGTGGCGCTTTACAAAAAACGCCGCAAAAGTCAAAGCATTAGCAGCGCATTAACGAAAGC
GCCACAAAAGTTTTAAGCAAACGACGTCGTTTCCTGTTGAGCATTAGAC
Found at i:8214037 original size:116 final size:114
Alignment explanation
Indices: 8213580--8214302 Score: 405
Period size: 115 Copynumber: 6.3 Consensus size: 114
8213570 TGAGCTTCAA
* * * *
8213580 AGACATTAGTGGCGCTTCA-AACAAAACACCGCAAAAGTCAAACATTAGCGGTGCTTT-TACAAA
1 AGACATTAGTGGCGCTTTACAA-AAAACGCCGCAAAAGTCAAACATTAGCGGCGCTTTCT-CGAA
* * * * * * * **
8213643 AGCGCCGCAAAACTGTTAAACAGACGATGTCG-TTTT-ATTTT-AGGTTTAG
64 AGCGCCACAAAAGT-TTTAGCAAACGACGTCGTTTTTCTTTTTAAAATTTAG
* * * * * *
8213692 AGACATTAGCGGCG-TTTATAAGGAAACGCCGCAAAAGATCATATATTAGCGGCGCTTTCTCCAA
1 AGACATTAGTGGCGCTTTACAA-AAAACGCCGCAAAAG-TCAAACATTAGCGGCGCTTTCTCGAA
* * * * * **
8213756 AGCGCCACAAAAGTTTTATCAAACGACGTCG-TTTCCATGTTGAGGTTTAG
64 AGCGCCACAAAAGTTTTAGCAAACGACGTCGTTTTTCTTTTTAAAATTTAG
* * * ** * ***
8213806 ACACATTAGTGGCGCTTTACATAAAACGCTGCGTAAGTCAAACATTAGCGGCG-ATTAAGGAAAG
1 AGACATTAGTGGCGCTTTACAAAAAACGCCGCAAAAGTCAAACATTAGCGGCGCTTTCTCGAAAG
* * * **
8213870 CGCCACAAAAAGTTTTAAGCAAACGCCGTCGTTTTTCTGTTGAGCA-TTAG
66 CGCCAC-AAAAGTTTT-AGCAAACGACGTCGTTTTTCTTTTTAAAATTTAG
* * *
8213920 AGACATTAGTGGCGCTTTGCAAAAAATGCCGCAAAAGTCAAAGCATTAGCAGCGCTTTCTCGAAA
1 AGACATTAGTGGCGCTTTACAAAAAACGCCGCAAAAGTCAAA-CATTAGCGGCGCTTTCTCGAAA
* * * *
8213985 GTGCCACAATAGTTTTAGGCAAACGACGACGTTTTTTTTTTTAAAATTTAG
65 GCGCCACAAAAGTTTTA-GCAAACGACGTCGTTTTTCTTTTTAAAATTTAG
* * * ** * *
8214036 AGACATTAGTGGAGCATTCCTCAAAACGCCGCAAAAGTCAAGA-ATTAGCGGCGCTTTCGCAAAA
1 AGACATTAGTGGCGCTTTACAAAAAACGCCGCAAAAGTCAA-ACATTAGCGGCGCTTTCTCGAAA
* ** ** * * **
8214100 GCACCGTAAAAGTTTTTAAGCAAACGACAACG-TTTTGTTGTTAAGGTTTAG
65 GCGCCACAAAAG-TTTT-AGCAAACGACGTCGTTTTTCTTTTTAAAATTTAG
** * * ** * ** * *
8214151 -GCACATTAGCAGCGCAATTA-TAAAAACGCCGCAGGAGTCAAGCAGCAGTGGCGCTTTC-CCAG
1 AG-ACATTAGTGGCGC-TTTACAAAAAACGCCGCAAAAGTCAAACATTAGCGGCGCTTTCTCGA-
* * * **** ** **
8214213 AAGCGCCGCAAAAAGATTTAAGCAAACGGCGTCG-TTTTGGAGTGGATGTTTAG
63 AAGCGCCAC-AAAAG-TTTTAGCAAACGACGTCGTTTTTCTTTTTAAAATTTAG
*
8214266 AGACATTAGTGGCGCTTTACAAAAAAATGCCGCAAAA
1 AGACATTAGTGGCGCTTTAC-AAAAAACGCCGCAAAA
8214303 AGTTAAGCAA
Statistics
Matches: 473, Mismatches: 114, Indels: 44
0.75 0.18 0.07
Matches are distributed among these distances:
111 3 0.01
112 56 0.12
113 59 0.12
114 90 0.19
115 172 0.36
116 91 0.19
117 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (114 bp):
AGACATTAGTGGCGCTTTACAAAAAACGCCGCAAAAGTCAAACATTAGCGGCGCTTTCTCGAAAG
CGCCACAAAAGTTTTAGCAAACGACGTCGTTTTTCTTTTTAAAATTTAG
Found at i:8214114 original size:115 final size:117
Alignment explanation
Indices: 8213916--8214135 Score: 273
Period size: 116 Copynumber: 1.9 Consensus size: 117
8213906 CTGTTGAGCA
* * * * * *
8213916 TTAGAGACATTAGTGGCGCTTTGCAAAAAATGCCGCAAAAGTCAAAGCATTAGCAGCGCTTTCTC
1 TTAGAGACATTAGTGGAGCATTCCAAAAAACGCCGCAAAAGTCAAAGAATTAGCAGCGCTTTCGC
* ** * * *
8213981 GAAAGTGCCACAATAG-TTTTAGGCAAACGACGACGTTTTTTTTTTTAAAAT
66 AAAAGCACCACAAAAGTTTTTAAGCAAACGACAACGTTTTTTTTTTTAAAAT
** *
8214032 TTAGAGACATTAGTGGAGCATTCCTCAAAACGCCGCAAAAGTC-AAGAATTAGCGGCGCTTTCGC
1 TTAGAGACATTAGTGGAGCATTCCAAAAAACGCCGCAAAAGTCAAAGAATTAGCAGCGCTTTCGC
**
8214096 AAAAGCACCGTAAAAGTTTTTAAGCAAACGACAACGTTTT
66 AAAAGCACCACAAAAGTTTTTAAGCAAACGACAACGTTTT
8214136 GTTGTTAAGG
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
115 28 0.33
116 58 0.67
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (117 bp):
TTAGAGACATTAGTGGAGCATTCCAAAAAACGCCGCAAAAGTCAAAGAATTAGCAGCGCTTTCGC
AAAAGCACCACAAAAGTTTTTAAGCAAACGACAACGTTTTTTTTTTTAAAAT
Found at i:8214412 original size:7 final size:7
Alignment explanation
Indices: 8214393--8214425 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
8214383 ATTGTTTATT
8214393 GTTTAA-
1 GTTTAAG
8214399 GTGTTAAG
1 GT-TTAAG
8214407 GTTTAAG
1 GTTTAAG
8214414 GTTTAAG
1 GTTTAAG
8214421 GTTTA
1 GTTTA
8214426 TAGTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 2 0.08
7 21 0.84
8 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (7 bp):
GTTTAAG
Found at i:8214431 original size:14 final size:13
Alignment explanation
Indices: 8214393--8214432 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
8214383 ATTGTTTATT
8214393 GTTTAAGTGTTAAG
1 GTTTAAGT-TTAAG
8214407 GTTTAAGGTTTAAG
1 GTTTAA-GTTTAAG
8214421 GTTTATAGTTTA
1 GTTTA-AGTTTA
8214433 TATATGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (13 bp):
GTTTAAGTTTAAG
Found at i:8214463 original size:39 final size:39
Alignment explanation
Indices: 8214411--8214498 Score: 140
Period size: 39 Copynumber: 2.3 Consensus size: 39
8214401 GTTAAGGTTT
*
8214411 AAGGTTTAAGGTTTATAGTTTATATATGTTTTATGATTC
1 AAGGTTTAAGGTTTATAGTTTATATATGTTCTATGATTC
*
8214450 AAGGTTTAGGGTTTATAGTTTATATATGTTCTATGATTC
1 AAGGTTTAAGGTTTATAGTTTATATATGTTCTATGATTC
**
8214489 GGGGTTTAAG
1 AAGGTTTAAG
8214499 AAATATGGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.48
Consensus pattern (39 bp):
AAGGTTTAAGGTTTATAGTTTATATATGTTCTATGATTC
Found at i:8215865 original size:29 final size:29
Alignment explanation
Indices: 8215822--8215896 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
8215812 CCTTAAATCC
* **
8215822 AGTTATTCAAATCTTCATCTCGTCGGTTT
1 AGTTATTCAATTCTTCATCTCACCGGTTT
*
8215851 AGTTATTCATTTCTTCATCTCACCGGTTT
1 AGTTATTCAATTCTTCATCTCACCGGTTT
8215880 AGTTATTCAATTCTTCA
1 AGTTATTCAATTCTTCA
8215897 CAGCATTTAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (29 bp):
AGTTATTCAATTCTTCATCTCACCGGTTT
Found at i:8217311 original size:21 final size:22
Alignment explanation
Indices: 8217282--8217325 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
8217272 ATAAAGGATT
*
8217282 TTAATTGGT-TTTTGCAGCTAA
1 TTAAATGGTATTTTGCAGCTAA
*
8217303 TTAAATGGTACTTTTGCTGCTAA
1 TTAAATGGTA-TTTTGCAGCTAA
8217326 GATGGTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.45
Consensus pattern (22 bp):
TTAAATGGTATTTTGCAGCTAA
Found at i:8217699 original size:67 final size:67
Alignment explanation
Indices: 8217557--8217689 Score: 180
Period size: 67 Copynumber: 2.0 Consensus size: 67
8217547 TATATAACAT
* * *
8217557 ATATTAATATGGATATATAACCTATATTTCAATTTTATTAATAATAAATTTTATAATTTTAAAAA
1 ATATAAAT-TGGATATATAACCTATATTCCAAATTTATTAATAATAAATTTTATAATTTTAAAAA
8217622 TAA
65 TAA
* *
8217625 ATGTAAATTGGATATATAACCTATATTCCAAATTTATTAGTAA-ACAATTTT-TAATTTTTAAAA
1 ATATAAATTGGATATATAACCTATATTCCAAATTTATTAATAATA-AATTTTATAA-TTTTAAAA
8217688 AT
64 AT
8217690 GGTTATAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
66 4 0.07
67 48 0.83
68 6 0.10
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (67 bp):
ATATAAATTGGATATATAACCTATATTCCAAATTTATTAATAATAAATTTTATAATTTTAAAAAT
AA
Found at i:8217710 original size:67 final size:67
Alignment explanation
Indices: 8217568--8217703 Score: 159
Period size: 67 Copynumber: 2.0 Consensus size: 67
8217558 TATTAATATG
* * *
8217568 GATATATAACCTATATTTCAATTTTATTAATAATAAATTTTATAATTTTAAAAATAAATGTAAAT
1 GATATATAACCTATATTCCAAATTTATTAATAATAAATTTTATAATTTTAAAAATAAATATAAAT
**
8217633 TG
66 AA
* ***
8217635 GATATATAACCTATATTCCAAATTTATTAGTAA-ACAATTTT-TAATTTTTAAAAATGGTTATAA
1 GATATATAACCTATATTCCAAATTTATTAATAATA-AATTTTATAA-TTTTAAAAATAAATATAA
8217698 ATAA
64 ATAA
8217702 GA
1 GA
8217704 AGTATAAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
66 4 0.07
67 54 0.93
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (67 bp):
GATATATAACCTATATTCCAAATTTATTAATAATAAATTTTATAATTTTAAAAATAAATATAAAT
AA
Found at i:8217792 original size:7 final size:7
Alignment explanation
Indices: 8217720--8217744 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8217710 AAAGTGATAT
8217720 ATAATAC
1 ATAATAC
8217727 ATAATAC
1 ATAATAC
8217734 ATAATAC
1 ATAATAC
8217741 ATAA
1 ATAA
8217745 ATTTATCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:8217888 original size:9 final size:9
Alignment explanation
Indices: 8217876--8217908 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
8217866 AAACATAGCC
8217876 TACATAACT
1 TACATAACT
8217885 TACATAACT
1 TACATAACT
8217894 TACATAACT
1 TACATAACT
8217903 TACATA
1 TACATA
8217909 CATAATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:8217998 original size:25 final size:25
Alignment explanation
Indices: 8217970--8218023 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
8217960 ATTAATATTA
*
8217970 TACACAACTTACATAATACATTACT
1 TACACAACTTACATAATACATAACT
**
8217995 TACAGTACTTACATAATACATAACT
1 TACACAACTTACATAATACATAACT
8218020 TACA
1 TACA
8218024 TAATTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.31
Consensus pattern (25 bp):
TACACAACTTACATAATACATAACT
Found at i:8218023 original size:9 final size:9
Alignment explanation
Indices: 8217970--8218026 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
8217960 ATTAATATTA
*
8217970 TACACAACT
1 TACATAACT
8217979 TACATAA--
1 TACATAACT
*
8217986 TACATTACT
1 TACATAACT
8217995 TACAGT-ACT
1 TACA-TAACT
8218004 TACATAA--
1 TACATAACT
8218011 TACATAACT
1 TACATAACT
8218020 TACATAA
1 TACATAA
8218027 TTTTATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 13 0.32
8 1 0.03
9 25 0.62
10 1 0.03
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:8218184 original size:43 final size:43
Alignment explanation
Indices: 8218098--8218193 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 43
8218088 ACCAAACAAC
** **
8218098 AGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGTCATGTTCTTT
1 AGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGAACATGACCTTT
8218141 AGCGGCGTTTGTGG-GAAAAGCGCCGCTAAAGAACATGACCTTT
1 AGCGGCGTTTGTGGAG-AAAGCGCCGCTAAAGAACATGACCTTT
*
8218184 AGCAGCGTTT
1 AGCGGCGTTT
8218194 CTGACCCTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.02
43 46 0.98
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (43 bp):
AGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGAACATGACCTTT
Found at i:8230593 original size:21 final size:21
Alignment explanation
Indices: 8230554--8230598 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
8230544 GGAAACAGCG
8230554 CTCTCTATAATAGTCTCATTTGC
1 CTCTCTATAATAG-CTCA-TTGC
*
8230577 CTCTCTATGATAG-TCATTGC
1 CTCTCTATAATAGCTCATTGC
8230597 CT
1 CT
8230599 GTCAAGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
23 12 0.57
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCTATAATAGCTCATTGC
Found at i:8232283 original size:13 final size:13
Alignment explanation
Indices: 8232267--8232297 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8232257 TAAACCAAAA
8232267 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
8232280 TTTTAAAAAGCAC
1 TTTTCAAAAGCAC
8232293 TTTTC
1 TTTTC
8232298 CACAGTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:8234966 original size:24 final size:24
Alignment explanation
Indices: 8234939--8235001 Score: 90
Period size: 25 Copynumber: 2.6 Consensus size: 24
8234929 AATTATATAT
8234939 CAAATATATATTTTTATTTTAAAG
1 CAAATATATATTTTTATTTTAAAG
* *
8234963 CAAATATATATATTTTATTTTTAAT
1 CAAATATATAT-TTTTATTTTAAAG
*
8234988 AAAATATATATTTT
1 CAAATATATATTTT
8235002 ATATATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 14 0.40
25 21 0.60
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (24 bp):
CAAATATATATTTTTATTTTAAAG
Found at i:8234992 original size:25 final size:24
Alignment explanation
Indices: 8234940--8235015 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 24
8234930 ATTATATATC
* **
8234940 AAATATATATTTTTATTTTAAAGC
1 AAATATATATTTTTATTTTTAATA
8234964 AAATATATATATTTTATTTTTAATA
1 AAATATATAT-TTTTATTTTTAATA
8234989 AAATATATATTTTATATATATTTAATA
1 AAATATATATTTT-TAT-T-TTTAATA
8235016 TGGGCCAGGC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
24 13 0.29
25 24 0.53
26 1 0.02
27 7 0.16
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (24 bp):
AAATATATATTTTTATTTTTAATA
Found at i:8235650 original size:16 final size:16
Alignment explanation
Indices: 8235629--8235660 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8235619 ATTTCTAACT
8235629 TAGCATAACTAGACAA
1 TAGCATAACTAGACAA
8235645 TAGCATAACTAGACAA
1 TAGCATAACTAGACAA
8235661 AAACCATTAG
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:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (16 bp):
TAGCATAACTAGACAA
Found at i:8241165 original size:56 final size:56
Alignment explanation
Indices: 8241079--8241191 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
8241069 TAATTACGAG
* * *
8241079 ATTGAATTATATCTGTCATTGGGTGTGAAATTTTACAGAAGCATTTCAAGTATATT
1 ATTGAATGATATCTGTCATTGGGTATGAAATTGTACAGAAGCATTTCAAGTATATT
* **
8241135 ATTGAATGATATTTGTCATTGGGTATGAAATTGTACAGAAGCATTTTGAGTATATT
1 ATTGAATGATATCTGTCATTGGGTATGAAATTGTACAGAAGCATTTCAAGTATATT
8241191 A
1 A
8241192 GTCGAGATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (56 bp):
ATTGAATGATATCTGTCATTGGGTATGAAATTGTACAGAAGCATTTCAAGTATATT
Found at i:8246587 original size:44 final size:44
Alignment explanation
Indices: 8246499--8246699 Score: 119
Period size: 44 Copynumber: 4.7 Consensus size: 44
8246489 CTTCGATCCA
* *
8246499 CTCCACTACAACTTCAGGGAGATAGGATTATCGAATTCAATCTG
1 CTCCACTATAACTTCAGGGAGATAAGATTATCGAATTCAATCTG
* *** *
8246543 CTCCACTATAACCTCAGGGAGATAAGATT-TGCTTTTTCAGTCTG
1 CTCCACTATAACTTCAGGGAGATAAGATTAT-CGAATTCAATCTG
* * * * ** * * *
8246587 CCCCACTGTGACTTCAGGGGGATAAGA--CCCG-ATACGATTTG
1 CTCCACTATAACTTCAGGGAGATAAGATTATCGAATTCAATCTG
* * * * *
8246628 CTCCTCTACT-GCCT-AGGGAGATAAGATCTATTG-TTTCAATCTG
1 CTCCACTA-TAACTTCAGGGAGATAAGAT-TATCGAATTCAATCTG
* *
8246671 CTCCACTACAACTTCAGGGAGATAGGATT
1 CTCCACTATAACTTCAGGGAGATAAGATT
8246700 GATTTCTTCT
Statistics
Matches: 112, Mismatches: 37, Indels: 17
0.67 0.22 0.10
Matches are distributed among these distances:
40 11 0.10
41 12 0.11
42 2 0.02
43 18 0.16
44 69 0.62
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTATAACTTCAGGGAGATAAGATTATCGAATTCAATCTG
Found at i:8247202 original size:86 final size:86
Alignment explanation
Indices: 8246925--8247362 Score: 617
Period size: 86 Copynumber: 5.1 Consensus size: 86
8246915 ACTTGTAATC
* * * * *
8246925 TTCGACCTGCTTCACTGTTGACGCA-GAAGGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAA-GGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCA
* *
8246989 ACCGATGAAGACAAGGCTTTGTT
64 ACCGATGGAGGCAAGGCTTTGTT
* * *
8247012 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTTCTATCTTCAACCAGCTCCATTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAA
8247077 CCGATGGAGGCAAGGCTTTGTT
65 CCGATGGAGGCAAGGCTTTGTT
* * *
8247099 TTCGATCTGCTTTGCTGTTAATGCAGGAAGGTAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
* * *
8247164 TGATGGAGGCAAGACTTTATT
66 CGATGGAGGCAAGGCTTTGTT
* * * *
8247185 TTCGATCTGCTTCGCTGTTAACGTAGGAAGACAAGATCTGCTTTTTTAACTAGCTCCACTGCAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
* *
8247250 TGATGGAGGCAAGACTTTGTT
66 CGATGGAGGCAAGGCTTTGTT
* *
8247271 TTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
*
8247336 CGATGGAGGCAAGGCTTTATT
66 CGATGGAGGCAAGGCTTTGTT
8247357 TTCGAT
1 TTCGAT
8247363 TTTCACTGAC
Statistics
Matches: 314, Mismatches: 36, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
86 200 0.64
87 111 0.35
88 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (86 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
CGATGGAGGCAAGGCTTTGTT
Found at i:8253799 original size:26 final size:23
Alignment explanation
Indices: 8253756--8253806 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 23
8253746 ATTAAAATCT
*
8253756 AACCTAAAAAAAAGAAAAGAGAA
1 AACCTAAAAAAAAGAAAAGAAAA
8253779 AACCTAAACTAAAAATGAAAAGAAAA
1 AACCTAAA--AAAAA-GAAAAGAAAA
8253805 AA
1 AA
8253807 AAGAAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 8 0.33
25 5 0.21
26 11 0.46
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.08
Consensus pattern (23 bp):
AACCTAAAAAAAAGAAAAGAAAA
Found at i:8255254 original size:18 final size:17
Alignment explanation
Indices: 8255231--8255278 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
8255221 ATGGGGCGGG
*
8255231 CGGCCCGACCCGACTCGA
1 CGGCCCG-CCCGACCCGA
8255249 CGGCCCGGCCCGACCCGA
1 CGGCCC-GCCCGACCCGA
8255267 CGGCCCGCCCGA
1 CGGCCCGCCCGA
8255279 AATATGGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 6 0.21
18 21 0.75
19 1 0.04
ACGTcount: A:0.12, C:0.54, G:0.31, T:0.02
Consensus pattern (17 bp):
CGGCCCGCCCGACCCGA
Found at i:8255343 original size:33 final size:34
Alignment explanation
Indices: 8255273--8255345 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 34
8255263 CCGACGGCCC
* * *
8255273 GCCCGAAATATGGGAGGGTTTGGGTAAAAATATAG
1 GCCCGAAATAT-GGAGGCTTTGGGTAAAAAAAGAG
8255308 GCCCGAAATAT-G-GGCTTTGGGTAAAAAAACGAG
1 GCCCGAAATATGGAGGCTTTGGGTAAAAAAA-GAG
8255341 GCCCG
1 GCCCG
8255346 TTTAGAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 15 0.44
33 8 0.24
35 11 0.32
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.19
Consensus pattern (34 bp):
GCCCGAAATATGGAGGCTTTGGGTAAAAAAAGAG
Found at i:8255453 original size:17 final size:17
Alignment explanation
Indices: 8255417--8255543 Score: 62
Period size: 17 Copynumber: 7.7 Consensus size: 17
8255407 CTGATATAAT
* *
8255417 AAATATATTT-ATTTTT
1 AAATATTTTTAATTTTA
*
8255433 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
8255450 AAATA----T--TTTTA
1 AAATATTTTTAATTTTA
8255461 AAATACTTTTT-ATTTT-
1 AAATA-TTTTTAATTTTA
8255477 --AT-TTTTTAATTTTA
1 AAATATTTTTAATTTTA
8255491 AAATATTTTTAAAATACTTTTTAA
1 AAATATTTTT---A-A--TTTT-A
*
8255515 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
8255532 AAATATTTTTAA
1 AAATATTTTTAA
8255544 AATACTTTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 37
0.67 0.05 0.29
Matches are distributed among these distances:
11 10 0.12
12 5 0.06
13 6 0.07
14 2 0.02
16 11 0.13
17 30 0.35
18 4 0.05
20 2 0.02
21 2 0.02
23 4 0.05
24 10 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:8255459 original size:11 final size:11
Alignment explanation
Indices: 8255445--8255553 Score: 81
Period size: 11 Copynumber: 10.4 Consensus size: 11
8255435 ATTTTTTTAA
8255445 TTTTAAAATAT
1 TTTTAAAATAT
8255456 TTTTAAAATACT
1 TTTTAAAATA-T
***
8255468 TTTTATTTTAT
1 TTTTAAAATAT
*
8255479 TTTT----TAA
1 TTTTAAAATAT
8255486 TTTTAAAATAT
1 TTTTAAAATAT
8255497 TTTTAAAATACT
1 TTTTAAAATA-T
8255509 TTTTAAAA-AT
1 TTTTAAAATAT
* *
8255519 TTTT---TTAA
1 TTTTAAAATAT
8255527 TTTTAAAATAT
1 TTTTAAAATAT
8255538 TTTTAAAATACT
1 TTTTAAAATA-T
8255550 TTTT
1 TTTT
8255554 TTTAATTTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
7 6 0.08
8 5 0.06
10 5 0.06
11 40 0.51
12 22 0.28
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:8255487 original size:41 final size:41
Alignment explanation
Indices: 8255437--8255563 Score: 204
Period size: 41 Copynumber: 3.1 Consensus size: 41
8255427 ATTTTTAAAT
*
8255437 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTATTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTATTTAA
**
8255478 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTA-AAAA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTATTTAA
8255518 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT-TTTAA
1 -TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTATTTAA
8255559 TTTTT
1 TTTTT
8255564 AAAATAAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
40 6 0.08
41 73 0.92
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (41 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTATTTAA
Found at i:8255512 original size:30 final size:30
Alignment explanation
Indices: 8255456--8255514 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
8255446 TTTAAAATAT
***
8255456 TTTTAAAATACTTTTTATTTTATTTTTTAA
1 TTTTAAAATACTTTTTAAAATATTTTTTAA
*
8255486 TTTTAAAATA-TTTTTAAAATACTTTTTAA
1 TTTTAAAATACTTTTTAAAATATTTTTTAA
8255515 AAATTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTAAAATACTTTTTAAAATATTTTTTAA
Found at i:8264044 original size:45 final size:43
Alignment explanation
Indices: 8263978--8264107 Score: 143
Period size: 45 Copynumber: 2.9 Consensus size: 43
8263968 GCTATATGCC
**
8263978 TAAAATGATGAAGACCATAGCTGAAAGATGATATTTCATCATGA
1 TAAAATGAT-AAGACCATAGCTGAAAGATGATATGGCATCATGA
* * *
8264022 TATAAATGAGTAAGACCATAGCTGAAAGTTGCTATGGCATCATGG
1 TA-AAATGA-TAAGACCATAGCTGAAAGATGATATGGCATCATGA
* * *
8264067 TAAATATGACTACGACCATAGCTAAAAGACGATATGGCATC
1 TAAA-ATGA-TAAGACCATAGCTGAAAGATGATATGGCATC
8264108 CTAATAGTCC
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
44 4 0.06
45 67 0.93
46 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (43 bp):
TAAAATGATAAGACCATAGCTGAAAGATGATATGGCATCATGA
Found at i:8268104 original size:45 final size:45
Alignment explanation
Indices: 8268025--8268110 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
8268015 TCCTTGACCA
* * * * *
8268025 AGTATAAATAATTAATAGTAAATATTATGTAATTTAGTTAAATTT
1 AGTACAAACAATTAATAATAAATACTATGCAATTTAGTTAAATTT
*
8268070 AGTACAAACAATTTATAATAAATACTATGCAATTTAGTTAA
1 AGTACAAACAATTAATAATAAATACTATGCAATTTAGTTAA
8268111 TTATTTAGCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (45 bp):
AGTACAAACAATTAATAATAAATACTATGCAATTTAGTTAAATTT
Found at i:8269940 original size:23 final size:23
Alignment explanation
Indices: 8269909--8269961 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
8269899 AGTGTTGTTG
8269909 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
* *
8269932 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
8269955 ATCAGTG
1 ATCAGTG
8269962 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCAGCTACAT
Found at i:8282704 original size:15 final size:16
Alignment explanation
Indices: 8282674--8282706 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8282664 AGAAAAAGGG
*
8282674 TAAAATCTGGGCAAGT
1 TAAAATCTGCGCAAGT
8282690 TAAAATCT-CGCAAGT
1 TAAAATCTGCGCAAGT
8282705 TA
1 TA
8282707 GGACTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (16 bp):
TAAAATCTGCGCAAGT
Found at i:8284779 original size:38 final size:38
Alignment explanation
Indices: 8284728--8284804 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
8284718 ACAAGCATGC
8284728 TGCGTGCAAATCCACTCACTCCAATTAAAGTAAAAGAA
1 TGCGTGCAAATCCACTCACTCCAATTAAAGTAAAAGAA
*
8284766 TGCGTGCAAATCCATTCACTCCAATTAAAGTAAAAGAA
1 TGCGTGCAAATCCACTCACTCCAATTAAAGTAAAAGAA
8284804 T
1 T
8284805 TTTCACTCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.23
Consensus pattern (38 bp):
TGCGTGCAAATCCACTCACTCCAATTAAAGTAAAAGAA
Found at i:8287219 original size:11 final size:11
Alignment explanation
Indices: 8287203--8287245 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
8287193 AATCAGTCAT
8287203 ACAAATCACAG
1 ACAAATCACAG
*
8287214 ACAAATCAGTCAT
1 ACAAATCA--CAG
*
8287227 ACCAATCACAG
1 ACAAATCACAG
8287238 ACAAATCA
1 ACAAATCA
8287246 GTCATTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 17 0.65
13 9 0.35
ACGTcount: A:0.51, C:0.28, G:0.07, T:0.14
Consensus pattern (11 bp):
ACAAATCACAG
Found at i:8287220 original size:24 final size:24
Alignment explanation
Indices: 8287193--8287274 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
8287183 TCATGCTCAG
8287193 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
8287217 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
** * *
8287241 AATCAGTCATTTACATCACAGATA
1 AATCAGTCATACAAATCACAGACA
*
8287265 AATCAATCAT
1 AATCAGTCAT
8287275 TTACATCACG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:8287275 original size:24 final size:24
Alignment explanation
Indices: 8287207--8287303 Score: 117
Period size: 24 Copynumber: 4.0 Consensus size: 24
8287197 AGTCATACAA
*
8287207 ATCACAGACAAATCAGTCA--TACC
1 ATCACAGACAAATCAATCATTTA-C
*
8287230 AATCACAGACAAATCAGTCATTTAC
1 -ATCACAGACAAATCAATCATTTAC
*
8287255 ATCACAGATAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
* *
8287279 ATCACGGACCAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
8287303 A
1 A
8287304 CTCGATGGGC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
24 63 0.95
25 1 0.02
26 2 0.03
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:8287406 original size:27 final size:27
Alignment explanation
Indices: 8287344--8287499 Score: 127
Period size: 27 Copynumber: 5.7 Consensus size: 27
8287334 AGAGGCTTTA
* * * *
8287344 GGGTCATTACGGTCATTTTATCTTACAG
1 GGGT-ATTATGGTCATTTTACCCTATAG
* * *
8287372 AGGCATTATGGTCATTTTACCCT-TCG
1 GGGTATTATGGTCATTTTACCCTATAG
*
8287398 GCGGTATTATGATCATTTTACCCTATAG
1 G-GGTATTATGGTCATTTTACCCTATAG
* * * *
8287426 GGGT-TTTTCGATCATTTTACCCTACAT
1 GGGTATTAT-GGTCATTTTACCCTATAG
* *
8287453 GGGTATTACGGTCATTTTACCTTATAG
1 GGGTATTATGGTCATTTTACCCTATAG
* *
8287480 GGGTATTACGGTTATTTTAC
1 GGGTATTATGGTCATTTTAC
8287500 AAATATTGGG
Statistics
Matches: 103, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
26 4 0.04
27 92 0.89
28 7 0.07
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTATGGTCATTTTACCCTATAG
Found at i:8287497 original size:54 final size:53
Alignment explanation
Indices: 8287344--8287499 Score: 159
Period size: 54 Copynumber: 2.9 Consensus size: 53
8287334 AGAGGCTTTA
* * * * * *
8287344 GGGTCATTACGGTCATTTTATCTTACAGAGGCATTATGGTCATTTTACCCTTCG
1 GGGT-ATTACGGTCATTTTACCTTATAGGGGTATTACGGTCATTTTACCCTACG
* * * * * * *
8287398 GCGGTATTATGATCATTTTACCCTATAGGGGTTTTTCGATCATTTTACCCTACAT
1 G-GGTATTACGGTCATTTTACCTTATAGGGGTATTACGGTCATTTTACCCTAC-G
*
8287453 GGGTATTACGGTCATTTTACCTTATAGGGGTATTACGGTTATTTTAC
1 GGGTATTACGGTCATTTTACCTTATAGGGGTATTACGGTCATTTTAC
8287500 AAATATTGGG
Statistics
Matches: 80, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
54 76 0.95
55 4 0.05
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (53 bp):
GGGTATTACGGTCATTTTACCTTATAGGGGTATTACGGTCATTTTACCCTACG
Found at i:8294225 original size:21 final size:21
Alignment explanation
Indices: 8294187--8294226 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8294177 CTAGAAATTA
**
8294187 ATTTAATTTCTTCAAATTATT
1 ATTTAATTAATTCAAATTATT
*
8294208 ATTTAATTAATTCTAATTA
1 ATTTAATTAATTCAAATTA
8294227 AATAATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTAATTAATTCAAATTATT
Found at i:8294380 original size:17 final size:17
Alignment explanation
Indices: 8294360--8294392 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8294350 CAAAATTGGG
8294360 TTGAGAAAATAATTTAA
1 TTGAGAAAATAATTTAA
*
8294377 TTGAGAAATTAATTTA
1 TTGAGAAAATAATTTA
8294393 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:8294399 original size:9 final size:9
Alignment explanation
Indices: 8294383--8294415 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
8294373 TTAATTGAGA
8294383 AATTAATTT
1 AATTAATTT
*
8294392 AGTTAATTT
1 AATTAATTT
8294401 AATTAA-TT
1 AATTAATTT
8294409 AATTAAT
1 AATTAAT
8294416 ATTTTTGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (9 bp):
AATTAATTT
Found at i:8296724 original size:25 final size:25
Alignment explanation
Indices: 8296679--8296726 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
8296669 ATAAGTTTCC
*
8296679 CGTTACATGGCTCACATGAGCTTAT
1 CGTTACATGGCTCACAAGAGCTTAT
*
8296704 CGTTATATGGCTCGA-AAGAGCTT
1 CGTTACATGGCTC-ACAAGAGCTT
8296727 CCCATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (25 bp):
CGTTACATGGCTCACAAGAGCTTAT
Found at i:8300727 original size:25 final size:25
Alignment explanation
Indices: 8300699--8300750 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
8300689 AGCATCCTGA
*
8300699 TATATGGTCCTCT-CGAGCTTTCCGT
1 TATATGGTCCT-TGCGAGCTTCCCGT
*
8300724 TATATGGTTCTTGCGAGCTTCCCGT
1 TATATGGTCCTTGCGAGCTTCCCGT
8300749 TA
1 TA
8300751 ATAGCTCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.40
Consensus pattern (25 bp):
TATATGGTCCTTGCGAGCTTCCCGT
Found at i:8300759 original size:24 final size:25
Alignment explanation
Indices: 8300712--8300759 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8300702 ATGGTCCTCT
* * *
8300712 CGAGCTTTCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
8300737 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
8300760 CGGAGCATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.40
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:8300951 original size:24 final size:24
Alignment explanation
Indices: 8300896--8300953 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
8300886 TGGCTCTTCG
* *
8300896 GAGCTTGCCGATATTGGCTCGCTT
1 GAGCTTCCCAATATTGGCTCGCTT
** *
8300920 GAAATTCCCAATATTGGCTCGTTT
1 GAGCTTCCCAATATTGGCTCGCTT
8300944 GAGCTTCCCA
1 GAGCTTCCCA
8300954 TTATATAGCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCAATATTGGCTCGCTT
Found at i:8306513 original size:17 final size:19
Alignment explanation
Indices: 8306493--8306533 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
8306483 ATATTATTTT
*
8306493 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
8306510 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
8306528 AAAATA
1 AAAATA
8306534 AATATTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:8306657 original size:29 final size:30
Alignment explanation
Indices: 8306615--8306675 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
8306605 CTTAACAAGA
8306615 AAATGCCTCTAAAATAATAA-AAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
* *
8306644 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
8306674 AA
1 AA
8306676 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:8308193 original size:27 final size:28
Alignment explanation
Indices: 8308142--8308199 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
8308132 AAGCAGCGGA
8308142 AAACATTATTAAAAATAATAGTTTT-CT
1 AAACATTATTAAAAATAATAGTTTTGCT
* *
8308169 AAACATTATTGAAAAA-ATTATTTTTGCT
1 AAACATTATT-AAAAATAATAGTTTTGCT
8308197 AAA
1 AAA
8308200 AGGCACACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (28 bp):
AAACATTATTAAAAATAATAGTTTTGCT
Found at i:8308395 original size:41 final size:41
Alignment explanation
Indices: 8308333--8308481 Score: 151
Period size: 41 Copynumber: 3.7 Consensus size: 41
8308323 AAACTGCAAT
* * *
8308333 AGGTAAAGAAGTAGCGACGTTTATGAGAAAAACGCCATAAA
1 AGGTCAAGCAGTAGCGACGTTTATGAGAAAAACGCCACAAA
* * * * *
8308374 AGGTCAAGTAGTAGCGGCGTTTATAAGGAAAACACCACAAA
1 AGGTCAAGCAGTAGCGACGTTTATGAGAAAAACGCCACAAA
* * * *
8308415 AGGTCAAACAGTAAC-AGCATTTATGAG-AAAACGCCGCAAA
1 AGGTCAAGCAGTAGCGA-CGTTTATGAGAAAAACGCCACAAA
*
8308455 AGGT-AAGCAGTAGCTACGTTTATGAGA
1 AGGTCAAGCAGTAGCGACGTTTATGAGA
8308482 TAAATACCGC
Statistics
Matches: 87, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 17 0.20
40 16 0.18
41 54 0.62
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.18
Consensus pattern (41 bp):
AGGTCAAGCAGTAGCGACGTTTATGAGAAAAACGCCACAAA
Found at i:8313758 original size:99 final size:99
Alignment explanation
Indices: 8313636--8313824 Score: 274
Period size: 99 Copynumber: 1.9 Consensus size: 99
8313626 ATTTGATATT
* * * *
8313636 AAGTAAAAACGTTTGTTCAATTATGAA-TT-TTTAAAAAGGTTAATTTAGTTCAATTTATTGAGT
1 AAGTAAAAACGCTTGTTAAATTAT-AAGTTCTTGAAAAA-GTTAATTTAGTTCAATTTATTGAAT
*
8313699 TTTGATATTAAGTGGAACCATTTATTCTGTTATACA
64 TTTGATATTAAGTAGAACCATTTATTCTGTTATACA
*
8313735 AAGTAAAACCGCTTGTTAAATTATAAGTTCTTGAAAAAGTTAATTTAGTTCAATTTATTGAATTT
1 AAGTAAAAACGCTTGTTAAATTATAAGTTCTTGAAAAAGTTAATTTAGTTCAATTTATTGAATTT
* *
8313800 TGATATTAAGTAGAATCGTTTATTC
66 TGATATTAAGTAGAACCATTTATTC
8313825 AATTAGATGT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 2 0.03
99 71 0.89
100 7 0.09
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (99 bp):
AAGTAAAAACGCTTGTTAAATTATAAGTTCTTGAAAAAGTTAATTTAGTTCAATTTATTGAATTT
TGATATTAAGTAGAACCATTTATTCTGTTATACA
Found at i:8314198 original size:24 final size:23
Alignment explanation
Indices: 8314171--8314215 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
8314161 TTTCATAAAT
8314171 ATTATCATAAAAATAATATATTTA
1 ATTATCATAAAAATAAT-TATTTA
*
8314195 ATTATCATAAAGATAATTATT
1 ATTATCATAAAAATAATTATT
8314216 GTTTATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTATCATAAAAATAATTATTTA
Found at i:8320248 original size:66 final size:66
Alignment explanation
Indices: 8320133--8320270 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 66
8320123 GCAAATTGCT
* * *
8320133 CAACTTAAAGCAGAGGCAGCATCGAGAGAAGCAAAGGCTCAAAGAAAATATGATGAACTCCAGCT
1 CAACTTAAAGCAGAGGCAGCAGCGAGAGAAGCAAAGGCACAAAGAAAATATGACGAACTCCAGCT
8320198 A
66 A
* * * ** * *
8320199 CAACTTAAAGCGGAGGTAGCAGCGAGGGAAGCAGGGGCA-ACAAGGAAATATGACGAACTCCTGC
1 CAACTTAAAGCAGAGGCAGCAGCGAGAGAAGCAAAGGCACA-AAGAAAATATGACGAACTCCAGC
8320263 TA
65 TA
8320265 CAACTT
1 CAACTT
8320271 CAAAATATGA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
65 1 0.02
66 60 0.98
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (66 bp):
CAACTTAAAGCAGAGGCAGCAGCGAGAGAAGCAAAGGCACAAAGAAAATATGACGAACTCCAGCT
A
Found at i:8320620 original size:43 final size:43
Alignment explanation
Indices: 8320573--8320672 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
8320563 AGAACATGCC
* * *
8320573 CTTTAGCGGCGTTTGAGGGAAAAGCGCAACTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGAGGAAAAAGCCCAACTAAAGGTCACGTT
* * * **
8320616 CTTTAGCAGCATTTGTGGAAAAAGCCCCGCTAAAGGTCACGTT
1 CTTTAGCGGCGTTTGAGGAAAAAGCCCAACTAAAGGTCACGTT
*
8320659 CTATAGCGGCGTTT
1 CTTTAGCGGCGTTT
8320673 TTCCACATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGAGGAAAAAGCCCAACTAAAGGTCACGTT
Found at i:8325442 original size:23 final size:25
Alignment explanation
Indices: 8325414--8325476 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 25
8325404 ATATTTTTCC
*
8325414 ATAAAAATATTTAAAAATTAGAA-A
1 ATAAAAATATTTAAAAATCAGAACA
*
8325438 A-AAAAATA--TAAAAATCATAACA
1 ATAAAAATATTTAAAAATCAGAACA
8325460 ATAAAAATATTTAAAAA
1 ATAAAAATATTTAAAAA
8325477 ATCTGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 10 0.30
22 2 0.06
23 14 0.42
24 1 0.03
25 6 0.18
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (25 bp):
ATAAAAATATTTAAAAATCAGAACA
Found at i:8325450 original size:9 final size:9
Alignment explanation
Indices: 8325438--8325619 Score: 58
Period size: 9 Copynumber: 20.2 Consensus size: 9
8325428 AAATTAGAAA
8325438 AAAAAATAT
1 AAAAAATAT
8325447 -AAAAATCAT
1 AAAAAAT-AT
*
8325456 -AACAATA-
1 AAAAAATAT
* *
8325463 AAAATATTT
1 AAAAAATAT
*
8325472 AAAAAATCT
1 AAAAAATAT
8325481 GAAAAAATCAT
1 -AAAAAAT-AT
*
8325492 -ATAAATCAT
1 AAAAAAT-AT
*
8325501 AAAAATTAT
1 AAAAAATAT
*
8325510 -AAAAATAG
1 AAAAAATAT
*
8325518 AAAAAACCAT
1 AAAAAA-TAT
*
8325528 CAAAAAT-T
1 AAAAAATAT
8325536 ATAAAAAT-T
1 A-AAAAATAT
**
8325545 ATTAAATAT
1 AAAAAATAT
*
8325554 TAAAAATAT
1 AAAAAATAT
* *
8325563 GAAAATTGAT
1 AAAAAAT-AT
*
8325573 AAAAACT-T
1 AAAAAATAT
*
8325581 TAAAAATAT
1 AAAAAATAT
8325590 AAAAAAATTAT
1 -AAAAAA-TAT
* *
8325601 ACAAATTAT
1 AAAAAATAT
8325610 -AAAAATAT
1 AAAAAATAT
8325618 AA
1 AA
8325620 TAATTTATAA
Statistics
Matches: 125, Mismatches: 33, Indels: 30
0.66 0.18 0.16
Matches are distributed among these distances:
8 34 0.27
9 54 0.43
10 33 0.26
11 4 0.03
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAAATAT
Found at i:8325501 original size:45 final size:45
Alignment explanation
Indices: 8325414--8325502 Score: 119
Period size: 47 Copynumber: 2.0 Consensus size: 45
8325404 ATATTTTTCC
8325414 ATAAAAATATTTAAAAATTAGAAAAAAAAATATAAAAATCATAACA
1 ATAAAAATATTTAAAAATTAGAAAAAAAAATAT-AAAATCATAACA
**
8325460 ATAAAAATATTTAAAAAATCT-GAAAAAATCATAT-AAATCATAA
1 ATAAAAATATTT-AAAAAT-TAGAAAAAAAAATATAAAATCATAA
8325503 AAATTATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 9 0.23
46 12 0.31
47 17 0.44
48 1 0.03
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (45 bp):
ATAAAAATATTTAAAAATTAGAAAAAAAAATATAAAATCATAACA
Found at i:8325555 original size:19 final size:18
Alignment explanation
Indices: 8325530--8325755 Score: 94
Period size: 20 Copynumber: 11.7 Consensus size: 18
8325520 AAAACCATCA
8325530 AAAATTATAAAAATTATT
1 AAAATTATAAAAATTATT
*
8325548 -AAA-TATTAAAAA-TATG
1 AAAATTA-TAAAAATTATT
*
8325564 AAAATTGATAAAAACTT-TA
1 AAAATT-ATAAAAA-TTATT
*
8325583 AAAATATAAAAAAATTA-T
1 AAAAT-TATAAAAATTATT
8325601 ACAAATTATAAAAA-TA-T
1 A-AAATTATAAAAATTATT
8325618 AATAATTTATAAAATCAAATT-TAT
1 AA-AA-TTAT--AA--AAATTAT-T
*
8325642 AAAATTAATAAAACATTTTT
1 AAAATT-ATAAAA-ATTATT
8325662 AAAATTTTATAAAAGCA-TATT
1 AAAA--TTATAAAA--ATTATT
8325683 AAAATTCTATAAAAATTCA-T
1 AAAA-T-TATAAAAATT-ATT
*
8325703 ACACAATTATAAAAAATATT
1 A-A-AATTATAAAAATTATT
* *
8325723 AAAATTAATATAAACTTATA
1 AAAATT-ATA-AAAATTATT
8325743 AAAATTATAAAAA
1 AAAATTATAAAAA
8325756 ATCATAAAAA
Statistics
Matches: 165, Mismatches: 11, Indels: 64
0.69 0.05 0.27
Matches are distributed among these distances:
16 6 0.04
17 18 0.11
18 28 0.17
19 28 0.17
20 40 0.24
21 26 0.16
22 11 0.07
23 5 0.03
24 3 0.02
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (18 bp):
AAAATTATAAAAATTATT
Found at i:8325558 original size:54 final size:55
Alignment explanation
Indices: 8325473--8325619 Score: 149
Period size: 54 Copynumber: 2.7 Consensus size: 55
8325463 AAAATATTTA
* * *
8325473 AAAAATCTGAAAAAATCATATAAATCATAAAAATTATAAAAATAGA-AAAAACCATC
1 AAAAATATAAAAAAATTATATAAATCATAAAAA-TATAAAAATAGATAAAAA-CATC
* * * * *
8325529 AAAAAT-TATAAAAATTAT-TAAAT-ATTAAAAATATGAAAATTGATAAAAACTTT
1 AAAAATATAAAAAAATTATATAAATCA-TAAAAATATAAAAATAGATAAAAACATC
* *
8325582 AAAAATATAAAAAAATTATACAAATTATAAAAATATAA
1 AAAAATATAAAAAAATTATATAAATCATAAAAATATAA
8325620 TAATTTATAA
Statistics
Matches: 76, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
53 19 0.25
54 27 0.36
55 23 0.30
56 7 0.09
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (55 bp):
AAAAATATAAAAAAATTATATAAATCATAAAAATATAAAAATAGATAAAAACATC
Found at i:8325675 original size:21 final size:22
Alignment explanation
Indices: 8325636--8325696 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
8325626 ATAAAATCAA
* *
8325636 ATTTATAAAA-TTAATAAAA-C
1 ATTTTTAAAATTTTATAAAAGC
8325656 ATTTTTAAAATTTTATAAAAGC
1 ATTTTTAAAATTTTATAAAAGC
* *
8325678 A-TATTAAAATTCTATAAAA
1 ATTTTTAAAATTTTATAAAA
8325697 ATTCATACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.26
21 24 0.69
22 2 0.06
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTTTTAAAATTTTATAAAAGC
Found at i:8325752 original size:9 final size:9
Alignment explanation
Indices: 8325483--8325765 Score: 120
Period size: 9 Copynumber: 30.6 Consensus size: 9
8325473 AAAAATCTGA
*
8325483 AAAAATCAT
1 AAAAATTAT
* *
8325492 ATAAATCAT
1 AAAAATTAT
8325501 AAAAATTAT
1 AAAAATTAT
*
8325510 AAAAA-TAGA
1 AAAAATTA-T
**
8325519 AAAAACCAT
1 AAAAATTAT
8325528 CAAAAATTAT
1 -AAAAATTAT
8325538 AAAAATTAT
1 AAAAATTAT
*
8325547 -TAAA-TATT
1 AAAAATTA-T
8325555 AAAAA-TAT
1 AAAAATTAT
*
8325563 GAAAATTGAT
1 AAAAATT-AT
8325573 AAAAACTT-T
1 AAAAA-TTAT
*
8325582 AAAAATATAA
1 AAAAAT-TAT
8325592 AAAAATTAT
1 AAAAATTAT
*
8325601 ACAAATTAT
1 AAAAATTAT
8325610 AAAAA-TAT
1 AAAAATTAT
*
8325618 AATAATT-T
1 AAAAATTAT
*
8325626 ATAAA--AT
1 AAAAATTAT
* *
8325633 CAAATTTAT
1 AAAAATTAT
8325642 -AAAATTAAT
1 AAAAATT-AT
*
8325651 AAAACATTTTT
1 AAAA-A-TTAT
*
8325662 AAAATTTTAT
1 AAAA-ATTAT
8325672 AAAAGCA-TATT
1 AAAA--ATTA-T
*
8325683 AAAATTCTAT
1 AAAAAT-TAT
8325693 AAAAATTCAT
1 AAAAATT-AT
*
8325703 ACACAATTAT
1 A-AAAATTAT
*
8325713 AAAAAATAT
1 AAAAATTAT
*
8325722 TAAAATTAAT
1 AAAAATT-AT
*
8325732 ATAAACTTAT
1 A-AAAATTAT
8325742 AAAAATTAT
1 AAAAATTAT
*
8325751 AAAAAATCAT
1 -AAAAATTAT
8325761 AAAAA
1 AAAAA
8325766 CTTGAACTGG
Statistics
Matches: 207, Mismatches: 40, Indels: 54
0.69 0.13 0.18
Matches are distributed among these distances:
7 5 0.02
8 28 0.14
9 90 0.43
10 57 0.28
11 25 0.12
12 2 0.01
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:8325765 original size:20 final size:19
Alignment explanation
Indices: 8325482--8325765 Score: 97
Period size: 19 Copynumber: 14.8 Consensus size: 19
8325472 AAAAAATCTG
* *
8325482 AAAAAATCATATAAATCAT
1 AAAAAATCATAAAAATTAT
* *
8325501 -AAAAATTATAAAAA-TAG
1 AAAAAATCATAAAAATTAT
*
8325518 AAAAAACCATCAAAAATTAT
1 AAAAAATCAT-AAAAATTAT
* *
8325538 -AAAAATTAT-TAAA-TAT
1 AAAAAATCATAAAAATTAT
* *
8325554 TAAAAAT-ATGAAAATTGAT
1 AAAAAATCATAAAAATT-AT
* *
8325573 AAAAACT-TTAAAAA-TAT
1 AAAAAATCATAAAAATTAT
* *
8325590 AAAAAAATTATACAAATTAT
1 -AAAAAATCATAAAAATTAT
*
8325610 -AAAAAT-ATAATAATTTAT
1 AAAAAATCATAA-AAATTAT
*
8325628 AAAATCAAAT-TTATAAAATTAAT
1 -AAA--AAATCATA-AAAATT-AT
* ** * *
8325651 AAAACATTTTTAAAATTTT
1 AAAAAATCATAAAAATTAT
* *
8325670 ATAAAAGCATATTAAAATTCTAT
1 AAAAAATCATA--AAAA-T-TAT
* *
8325693 AAAAATTCATACACAATTAT
1 AAAAAATCATA-AAAATTAT
*
8325713 AAAAAAT-ATTAAAATTAAT
1 AAAAAATCATAAAAATT-AT
* * *
8325732 ATAAACTTATAAAAATTAT
1 AAAAAATCATAAAAATTAT
8325751 AAAAAATCATAAAAA
1 AAAAAATCATAAAAA
8325766 CTTGAACTGG
Statistics
Matches: 195, Mismatches: 46, Indels: 48
0.67 0.16 0.17
Matches are distributed among these distances:
16 5 0.03
17 18 0.09
18 44 0.23
19 58 0.30
20 33 0.17
21 7 0.04
22 17 0.09
23 13 0.07
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (19 bp):
AAAAAATCATAAAAATTAT
Found at i:8326277 original size:9 final size:9
Alignment explanation
Indices: 8326265--8326347 Score: 79
Period size: 9 Copynumber: 9.6 Consensus size: 9
8326255 TTTATGTAAA
8326265 TTTTAATAT
1 TTTTAATAT
8326274 TTTT-AT-T
1 TTTTAATAT
8326281 TTTT-AT-T
1 TTTTAATAT
8326288 TTTT-ATAT
1 TTTTAATAT
*
8326296 TTTTAAAAT
1 TTTTAATAT
*
8326305 TTTTAAAAT
1 TTTTAATAT
8326314 TTTTAATGA-
1 TTTTAAT-AT
8326323 TTTTAATGAT
1 TTTTAAT-AT
8326333 TTTTAATTAT
1 TTTTAA-TAT
8326343 TTTTA
1 TTTTA
8326348 TGAGAAAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
7 14 0.21
8 7 0.10
9 31 0.46
10 14 0.21
11 1 0.01
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTAATAT
Found at i:8340709 original size:5 final size:5
Alignment explanation
Indices: 8340694--8340734 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
8340684 CTCACCCTTA
* * *
8340694 ACTTT ATTTT ACTTT ACTTT ACTTT ACTTT AATTT AATTT A
1 ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT A
8340735 AGGCTATGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (5 bp):
ACTTT
Found at i:8341187 original size:15 final size:15
Alignment explanation
Indices: 8341163--8341192 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8341153 CTCCAACTCT
8341163 TTGGTCTTAAGAATG
1 TTGGTCTTAAGAATG
*
8341178 TTGGTTTTAAGAATG
1 TTGGTCTTAAGAATG
8341193 ATTGATTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.43
Consensus pattern (15 bp):
TTGGTCTTAAGAATG
Found at i:8342813 original size:3 final size:3
Alignment explanation
Indices: 8342795--8342845 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
8342785 TTAAATACTC
* *
8342795 TTA TTA TTT TTA -TA TTA TTAA TT- TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
8342839 TGTA TTA
1 T-TA TTA
8342846 GTTTATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 30 0.75
4 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8342825 original size:15 final size:15
Alignment explanation
Indices: 8342795--8342845 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
8342785 TTAAATACTC
*
8342795 TTATTATTTTTA-TA
1 TTATTAATTTTATTA
8342809 TTATTAATTTTATTA
1 TTATTAATTTTATTA
*
8342824 TTATTAATATTATTA
1 TTATTAATTTTATTA
8342839 TGTATTA
1 T-TATTA
8342846 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.33
15 17 0.52
16 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:8349192 original size:22 final size:22
Alignment explanation
Indices: 8349164--8349213 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
8349154 TCTGATAGAA
8349164 TTTTTGGAGAAGAAGGTCAAAG
1 TTTTTGGAGAAGAAGGTCAAAG
8349186 TTTTTGGAGAAGAAGGTCAAAG
1 TTTTTGGAGAAGAAGGTCAAAG
8349208 TTTTTG
1 TTTTTG
8349214 CAATTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (22 bp):
TTTTTGGAGAAGAAGGTCAAAG
Found at i:8355730 original size:73 final size:73
Alignment explanation
Indices: 8355611--8356098 Score: 632
Period size: 73 Copynumber: 6.9 Consensus size: 73
8355601 AAGGAAAATT
*
8355611 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC
8355676 CAAATTTC
66 CAAATTTC
*
8355684 AACTCATATTGCGAGAAATGAGTTGGGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG---T-
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC
*
8355745 ----TGTC
66 CAAATTTC
8355749 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG-----T---TTT-TGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC
8355805 CAAATTTC
66 CAAATTTC
*
8355813 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC
8355878 CAAATTTC
66 CAAATTTC
* *
8355886 AACTCATATTGCGAGAAATGAGCTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC
* **
8355951 AAAAAAATC
66 -CAAATTTC
* ** *
8355960 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTTT
* **
8356025 CAAGAAAATC
65 CCA-AATTTC
** * * * *
8356035 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCCATTTCTGTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTT
8356099 TCAATTTTTG
Statistics
Matches: 372, Mismatches: 23, Indels: 39
0.86 0.05 0.09
Matches are distributed among these distances:
56 2 0.01
57 3 0.01
59 1 0.00
60 1 0.00
64 48 0.13
65 47 0.13
69 1 0.00
70 1 0.00
72 3 0.01
73 135 0.36
74 66 0.18
75 64 0.17
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (73 bp):
AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC
CAAATTTC
Found at i:8356063 original size:75 final size:74
Alignment explanation
Indices: 8355811--8356534 Score: 540
Period size: 74 Copynumber: 9.5 Consensus size: 74
8355801 TTTCCAAATT
*
8355811 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
* **
8355876 TC-CAAATT
66 TCAAAAAAA
* *
8355884 TCAACTCATATTGCGAGAAATGAGCTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
8355949 TCAAAAAAA
66 TCAAAAAAA
* ** *
8355958 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TT
*
8356023 TTCAAGAAAA
65 TTCAAAAAAA
** * * * *
8356033 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCCATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TT
*
8356098 TTCAATTTTTGTTTTTCAAAA
65 TTCAA-----------AAAAA
* *
8356119 TCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
8356184 TCAAAAAAA
66 TCAAAAAAA
** * * * * *
8356193 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCTATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
***
8356258 TC---GTCA
66 TCAAAAAAA
* ** * ** * * ** * ** **
8356264 T-TA-TGTTTTTGAAAGAATCAACTCATATTGCGAGAAATAAGTTGAGC-C-CCAAGACACATTG
1 TCAACTCATATTGCGAG-A--AA-TGA-GTT--GAG-CCTCAG--GA-CACGCTGAGGTA-ATT-
*
8356325 AGGT-AATTTCAATTTCTGTTTTC--AAAAT
53 ---TCAA-TT-----TCTGTTTTCAAAAAAA
* * *
8356353 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TT
*
8356418 TTC--AAAAT
65 TTCAAAAAAA
* *
8356426 TCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
8356491 TCAAAAAAA
66 TCAAAAAAA
*
8356500 TCAACTCGTATTGCGA-AAAGTGAGTTGAGCCTCAG
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCAG
8356535 TTCACATGTT
Statistics
Matches: 515, Mismatches: 91, Indels: 89
0.74 0.13 0.13
Matches are distributed among these distances:
69 7 0.01
70 2 0.00
71 2 0.00
72 8 0.02
73 137 0.27
74 157 0.30
75 73 0.14
76 3 0.01
77 6 0.01
78 7 0.01
79 4 0.01
80 2 0.00
81 5 0.01
82 4 0.01
83 5 0.01
84 3 0.01
85 6 0.01
86 61 0.12
87 2 0.00
88 11 0.02
89 1 0.00
90 2 0.00
91 7 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (74 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
TCAAAAAAA
Found at i:8356105 original size:14 final size:14
Alignment explanation
Indices: 8356082--8356116 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8356072 CGCTGAGGTA
*
8356082 TTTTCCATTTCTGT
1 TTTTCAATTTCTGT
*
8356096 TTTTCAATTTTTGT
1 TTTTCAATTTCTGT
8356110 TTTTCAA
1 TTTTCAA
8356117 AATCAACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:8356160 original size:86 final size:84
Alignment explanation
Indices: 8356029--8356489 Score: 351
Period size: 73 Copynumber: 5.8 Consensus size: 84
8356019 GCTTTTCAAG
** * * * *
8356029 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCCATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCT
*
8356094 GTTTTTCAATTTTTGTTTTTC
66 GTTTTTCAA--TTTGTTTTTA
* * *
8356115 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCT
*
8356180 G-TTGTCAA---------A
66 GTTTTTCAATTTGTTTTTA
** * * * * *
8356189 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCTATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCT
8356254 GTTTTCGTC-ATTATGTTTTTGA
66 GTTTT--TCAATT-TGTTTTT-A
* * *
8356276 AAGAATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACATTGAGGTAATTTCAATTTC
1 AA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
8356341 TG-TTTTC-----------A
65 TGTTTTTCAATTTGTTTTTA
* ** *
8356349 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCT
*
8356414 G-----C------TTTTCA
66 GTTTTTCAATTTGTTTTTA
* * * *
8356422 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCT
8356487 GTT
66 GTT
8356490 GTCAAAAAAA
Statistics
Matches: 316, Mismatches: 37, Indels: 55
0.77 0.09 0.13
Matches are distributed among these distances:
68 1 0.00
72 59 0.19
73 66 0.21
74 58 0.18
75 2 0.01
76 1 0.00
77 2 0.01
85 8 0.03
86 59 0.19
87 6 0.02
88 54 0.17
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (84 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCT
GTTTTTCAATTTGTTTTTA
Found at i:8356254 original size:160 final size:157
Alignment explanation
Indices: 8355954--8356628 Score: 736
Period size: 160 Copynumber: 4.3 Consensus size: 157
8355944 TGTTGTCAAA
* *
8355954 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCT
* * * *
8356019 GCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATT
66 G-TTGTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGTCACACTGAGGTATT
*
8356084 TTCCATTTCTGTTTTTCAATTTTTGTTTTTC
130 TTCTATTTCTGTTTTTC-A--TTTGTTTTTC
* * *
8356115 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCT
* * *
8356180 GTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTT
66 GTTGTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGTCACACTGAGGTATTT
*
8356245 TCTATTTCTGTTTTCGTCATTATGTTTTTGA
131 TCTATTTCTGTTTT--TCATT-TGTTTTT-C
* * *
8356276 AAGAATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACATTGAGGTAATTTCAATTTC
1 AA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
* * * * **
8356341 TGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATT
65 TGTTGTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGTCACACTGAGGTATT
*
8356404 TTCAATTTCTG-----C------TTTTC
130 TTCTATTTCTGTTTTTCATTTGTTTTTC
* * *
8356421 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTC
1 AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
* * * *
8356486 TGTTGTCAAAAAAATCAACTCGTATTGCGAAAAGTGAGTTGAGCCTC-AGTTCACATGTTGAGAT
65 TGTTGTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAG-TCACA--CTGAGGT
* * *
8356550 ATCTT-TAGTTTTTGTTTTTAATGTCTGTTTTT-
127 ATTTTCTA-TTTCTGTTTTTCAT-T-TGTTTTTC
* *
8356582 AAAGAGTCAATTCATATTGCGAGAAATGAGTTG-GGCTCAAGATCACA
1 AAA-A-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA-CACA
8356629 TGACAAGTAA
Statistics
Matches: 434, Mismatches: 53, Indels: 53
0.80 0.10 0.10
Matches are distributed among these distances:
144 2 0.00
145 62 0.14
146 6 0.01
147 37 0.09
148 1 0.00
149 15 0.03
153 1 0.00
159 2 0.00
160 137 0.32
161 73 0.17
162 98 0.23
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (157 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGTCACACTGAGGTATTT
TCTATTTCTGTTTTTCATTTGTTTTTC
Found at i:8356452 original size:73 final size:72
Alignment explanation
Indices: 8356281--8356533 Score: 373
Period size: 73 Copynumber: 3.5 Consensus size: 72
8356271 TTTGAAAGAA
* * *
8356281 TCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
8356346 TCAAAAT
66 TCAAAAT
*
8356353 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
8356418 TTCAAAAT
65 TTCAAAAT
* * * *
8356426 TCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
8356491 TCAAAAAAA
66 TC--AAAAT
*
8356500 TCAACTCGTATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
8356534 GTTCACATGT
Statistics
Matches: 165, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
72 62 0.38
73 71 0.43
74 32 0.19
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:8358241 original size:3 final size:3
Alignment explanation
Indices: 8358224--8358273 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
8358214 TTAAATACTC
*
8358224 TTA TTA TT- TTA -TA TTA TTAA TT- TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
8358267 TGTA TTA
1 T-TA TTA
8358274 GTTTATGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 6 0.15
3 28 0.70
4 6 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8358255 original size:15 final size:15
Alignment explanation
Indices: 8358224--8358273 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
8358214 TTAAATACTC
8358224 TTATT-ATTTTA-TA
1 TTATTAATTTTATTA
8358237 TTATTAATTTTATTA
1 TTATTAATTTTATTA
*
8358252 TTATTAATATTATTA
1 TTATTAATTTTATTA
8358267 TGTATTA
1 T-TATTA
8358274 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
15 17 0.52
16 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:8362058 original size:60 final size:59
Alignment explanation
Indices: 8361942--8362063 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 59
8361932 TTTTTAAATT
* *
8361942 TTAAATTTTTAAGAATTAAGACTAAATTGATAGAATGTGTAAAGTTGAGAGCTAAATTTG
1 TTAAATTTTTAAGAATTAAGACTAAATTGATAAAATCTGTAAAGTTGAGA-CTAAATTTG
* * * *
8362002 TTAAATTTTTTAGATTTAAGACTAAGTTGATAAAATCTGTAAATATTTGAGA-TAAATTTG
1 TTAAATTTTTAAGAATTAAGACTAAATTGATAAAATCTGT-AA-AGTTGAGACTAAATTTG
8362062 TT
1 TT
8362064 CTTAAGAGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
60 45 0.83
61 2 0.04
62 7 0.13
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.41
Consensus pattern (59 bp):
TTAAATTTTTAAGAATTAAGACTAAATTGATAAAATCTGTAAAGTTGAGACTAAATTTG
Found at i:8362814 original size:11 final size:11
Alignment explanation
Indices: 8362800--8362879 Score: 62
Period size: 11 Copynumber: 7.5 Consensus size: 11
8362790 TTTTTTTAAA
8362800 TTTTAAAATAC
1 TTTTAAAATAC
8362811 TTTTAAAATAC
1 TTTTAAAATAC
*
8362822 TTTTTTTAAAT--
1 --TTTTAAAATAC
* *
8362833 TTTT---TTAA
1 TTTTAAAATAC
*
8362841 TTTTAAAATAT
1 TTTTAAAATAC
*
8362852 TTTTAAAATAT
1 TTTTAAAATAC
8362863 TTTTAAAATAC
1 TTTTAAAATAC
8362874 TTTTAA
1 TTTTAA
8362880 TTTTTTTTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
6 1 0.02
8 4 0.07
9 4 0.07
11 40 0.70
13 8 0.14
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:8362826 original size:41 final size:42
Alignment explanation
Indices: 8362776--8362943 Score: 162
Period size: 49 Copynumber: 3.8 Consensus size: 42
8362766 GCCCGAATAC
*
8362776 AATA-ATTTTTTT-ATTTTTTTTAAATTTTAAAATACTTTTAA
1 AATATATTTTTTTAATTTTTTTT-AATTTTAAAATATTTTTAA
* *
8362817 AATA-CTTTTTTTAAATTTTTTTAATTTTAAAATATTTTTAA
1 AATATATTTTTTTAATTTTTTTTAATTTTAAAATATTTTTAA
*
8362858 AATATTTTTAAAATACTTTTAATTTTTTTTAATTTTAAAATATTTTTAA
1 AATA-TATT----T--TTTTAATTTTTTTTAATTTTAAAATATTTTTAA
* * *
8362907 AATAGAATTTTTTATTTTTGTTTTAATTTTTAAAATA
1 AATATATTTTTTTAATTTT-TTTTAA-TTTTAAAATA
8362944 AATTTTTGGT
Statistics
Matches: 107, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
41 33 0.31
42 17 0.16
43 8 0.07
44 11 0.10
47 1 0.01
48 1 0.01
49 36 0.34
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (42 bp):
AATATATTTTTTTAATTTTTTTTAATTTTAAAATATTTTTAA
Found at i:8362845 original size:30 final size:28
Alignment explanation
Indices: 8362811--8362910 Score: 88
Period size: 22 Copynumber: 3.8 Consensus size: 28
8362801 TTTAAAATAC
* *
8362811 TTTTAAAATACTTTTTTTAAATTTTTTTAA
1 TTTTAAAATA--TTTTTAAAATATTTTTAA
8362841 TTTTAAAATATTTTTAAAATA----T--
1 TTTTAAAATATTTTTAAAATATTTTTAA
* * *
8362863 TTTTAAAATACTTTT-AATTTTTTTTAA
1 TTTTAAAATATTTTTAAAATATTTTTAA
8362890 TTTTAAAATATTTTTAAAATA
1 TTTTAAAATATTTTTAAAATA
8362911 GAATTTTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
21 3 0.05
22 14 0.25
24 1 0.02
25 1 0.02
27 14 0.25
28 12 0.22
30 10 0.18
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTTAAAATATTTTTAAAATATTTTTAA
Found at i:8362849 original size:17 final size:17
Alignment explanation
Indices: 8362824--8362857 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8362814 TAAAATACTT
* *
8362824 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
8362841 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
8362858 AATATTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:8362897 original size:49 final size:50
Alignment explanation
Indices: 8362800--8362910 Score: 179
Period size: 49 Copynumber: 2.2 Consensus size: 50
8362790 TTTTTTTAAA
8362800 TTTTAAAATACTTTTAAAATACTTTTTTTAAATTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTAAAATAC--TTTTTAAATTTTTTTAATTTTAAAATAT
* *
8362852 TTTTAAAATATTTTTAAAATAC-TTTTAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTAAAATACTTTTTAAATTTTTTTAATTTTAAAATAT
8362901 TTTTAAAATA
1 TTTTAAAATA
8362911 GAATTTTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
49 36 0.63
52 21 0.37
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (50 bp):
TTTTAAAATACTTTTAAAATACTTTTTAAATTTTTTTAATTTTAAAATAT
Found at i:8362925 original size:38 final size:37
Alignment explanation
Indices: 8362852--8362925 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 37
8362842 TTTAAAATAT
* *
8362852 TTTTAAAATATTTTTAAAATACTTTTAATTTTTTTTAA
1 TTTTAAAATATTTTTAAAATAATTTT-ATTATTTTTAA
8362890 TTTTAAAATATTTTTAAAATAGAATTTT-TTATTTTT
1 TTTTAAAATATTTTTAAAAT--AATTTTATTATTTTT
8362926 GTTTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 27 0.84
40 5 0.16
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (37 bp):
TTTTAAAATATTTTTAAAATAATTTTATTATTTTTAA
Found at i:8364101 original size:8 final size:8
Alignment explanation
Indices: 8364090--8364140 Score: 84
Period size: 8 Copynumber: 6.2 Consensus size: 8
8364080 TTTTTTTATT
*
8364090 TTTTAAAG
1 TTTTAAAA
8364098 TTTTAAAA
1 TTTTAAAA
8364106 TTTTAAAA
1 TTTTAAAA
8364114 TTTTAAAA
1 TTTTAAAA
8364122 TTTTAAAA
1 TTTTAAAA
8364130 TTTTAAGAA
1 TTTTAA-AA
8364139 TT
1 TT
8364141 AAGACTAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
8 37 0.90
9 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (8 bp):
TTTTAAAA
Found at i:8365657 original size:14 final size:14
Alignment explanation
Indices: 8365638--8365665 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8365628 CTATAAAAAT
8365638 AAAATTAAAAATAA
1 AAAATTAAAAATAA
8365652 AAAATTAAAAATAA
1 AAAATTAAAAATAA
8365666 TTCATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATTAAAAATAA
Found at i:8366208 original size:18 final size:19
Alignment explanation
Indices: 8366179--8366223 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8366169 AAGGAAAATG
* *
8366179 ATTTTTAAAAAATATTTAAT
1 ATTTTTTAAAAA-AGTTAAT
8366199 -TTTTTTAAAAAAGTTAAT
1 ATTTTTTAAAAAAGTTAAT
8366217 ATTTTTT
1 ATTTTTT
8366224 TGTGTTTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTTTTAAAAAAGTTAAT
Found at i:8369076 original size:42 final size:42
Alignment explanation
Indices: 8369029--8369227 Score: 251
Period size: 42 Copynumber: 4.7 Consensus size: 42
8369019 AAAAACGTCG
* * * *
8369029 CTAAAGATCATATTCTTTAGCGGCGTTTTTCCT-TAAGCGCCA
1 CTAAAGAACATGTTCTTTAGCGGCGTTTTT-TTATAAGCGCCT
*
8369071 CTAAAGAACATGTT-TTTCAGCAGCGTTTTTTT-TAAGCGCCT
1 CTAAAGAACATGTTCTTT-AGCGGCGTTTTTTTATAAGCGCCT
* *
8369112 CTAAAGAACATGTTCTTTAGCGGCGTTTTTTATATGAGCGCCG
1 CTAAAGAACATGTTCTTTAGCGGCGTTTTTT-TATAAGCGCCT
* * *
8369155 CTAAAGAACATGTTCTTTAGCGGCATTTTTTTCTAAGCACCT
1 CTAAAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCT
*
8369197 CTAAAGAACATGTTCTTTAGCGGCGCTTTTT
1 CTAAAGAACATGTTCTTTAGCGGCGTTTTTT
8369228 CTTTGCTTTT
Statistics
Matches: 138, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
41 38 0.28
42 63 0.46
43 37 0.27
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (42 bp):
CTAAAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCT
Found at i:8369552 original size:5 final size:5
Alignment explanation
Indices: 8369542--8369567 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8369532 CGTCGTACTT
8369542 TCTGC TCTGC TCTGC TCTGC TCTGC T
1 TCTGC TCTGC TCTGC TCTGC TCTGC T
8369568 TCTCTTGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.19, T:0.42
Consensus pattern (5 bp):
TCTGC
Found at i:8369650 original size:21 final size:21
Alignment explanation
Indices: 8369626--8369676 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
8369616 TTCTTTTGAA
*
8369626 CCTCTGCTTCTCTCGTTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
*
8369647 CCTCTGCTTCTCTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
*
8369668 CATCTGCTT
1 CCTCTGCTT
8369677 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:8375170 original size:9 final size:9
Alignment explanation
Indices: 8375156--8375315 Score: 125
Period size: 9 Copynumber: 17.8 Consensus size: 9
8375146 TTTTTATGTA
8375156 TTATGTAAG
1 TTATGTAAG
8375165 TTATGTACTAAG
1 TTATG---TAAG
*
8375177 TTCTGT-A-
1 TTATGTAAG
8375184 TTATGTAAG
1 TTATGTAAG
8375193 TTATGTAAG
1 TTATGTAAG
*
8375202 TTGTGT-A-
1 TTATGTAAG
*
8375209 TTATGTGAG
1 TTATGTAAG
8375218 TTATGTAAG
1 TTATGTAAG
8375227 TTATGTAAG
1 TTATGTAAG
* *
8375236 TTATTTAAT
1 TTATGTAAG
8375245 TTATGTAAG
1 TTATGTAAG
*
8375254 TTTATATATAAG
1 --T-TATGTAAG
*
8375266 TTATGTAGG
1 TTATGTAAG
*
8375275 CTATGT-A-
1 TTATGTAAG
* *
8375282 TTATCTAAA
1 TTATGTAAG
*
8375291 TAATGTAAG
1 TTATGTAAG
8375300 TTATGTAAG
1 TTATGTAAG
8375309 TTATGTA
1 TTATGTA
8375316 GGCCATGTAT
Statistics
Matches: 119, Mismatches: 20, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
7 14 0.12
8 5 0.04
9 83 0.70
10 1 0.01
11 1 0.01
12 15 0.13
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:8375208 original size:25 final size:25
Alignment explanation
Indices: 8375149--8375382 Score: 160
Period size: 25 Copynumber: 9.3 Consensus size: 25
8375139 TGATATATTT
8375149 TTATGTATTATGTAAGTTATGTACTAAG
1 TTATGTATTATGTAAGTTATG---TAAG
*
8375177 TTCTGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
8375202 TTGTGTATTATGTGAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
8375227 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
8375254 -T-T-TA-TATATAAGTTATGTAGG
1 TTATGTATTATGTAAGTTATGTAAG
* * * *
8375275 CTATGTATTATCTAAATAATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* **
8375300 TTATGTAAGTTATGTAGGCCATGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
8375325 TTATGTTATTATATAAGTTATGCAAG
1 TTATG-TATTATGTAAGTTATGTAAG
* * *
8375351 TT-TATA-TATTGTATGTTATTTAAG
1 TTATGTATTA-TGTAAGTTATGTAAG
8375375 TTATGTAT
1 TTATGTAT
8375383 AAGTTATTAT
Statistics
Matches: 161, Mismatches: 31, Indels: 30
0.73 0.14 0.14
Matches are distributed among these distances:
21 14 0.09
22 1 0.01
23 4 0.02
24 28 0.17
25 62 0.39
26 7 0.04
27 25 0.16
28 20 0.12
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:8375227 original size:34 final size:34
Alignment explanation
Indices: 8375184--8375315 Score: 138
Period size: 34 Copynumber: 3.7 Consensus size: 34
8375174 AAGTTCTGTA
* *
8375184 TTATGTAAGTTATGTAAGTTGTGTATTATGTGAG
1 TTATGTAAGTTATGTAAGTTATGTATTATGTAAG
*
8375218 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGT-A-TTATGTAAG
* * * * *
8375254 TTTATATATAAGTTATGTAGGCTATGTATTATCTAAA
1 --T-TATGTAAGTTATGTAAGTTATGTATTATGTAAG
*
8375291 TAATGTAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
8375316 GGCCATGTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
34 42 0.52
35 2 0.03
36 8 0.10
37 7 0.09
38 2 0.03
39 19 0.24
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGTATTATGTAAG
Found at i:8375419 original size:35 final size:35
Alignment explanation
Indices: 8375326--8375431 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 35
8375316 GGCCATGTAT
8375326 TATGTTATTATATAAGT-TATGCAAGTTTATATATTG
1 TATGTTATTATATAAGTATAT--AAGTTTATATATTG
8375362 TATGTTA-T-T-TAAGTTATGTATAAG-TTATTATATTG
1 TATGTTATTATATAAG-TA--TATAAGTTTA-TATATTG
8375397 TATGTTATTATATAAGTATATAAGATTCTATATAT
1 TATGTTATTATATAAGTATATAAG-TT-TATATAT
8375432 GTTTATATAT
Statistics
Matches: 59, Mismatches: 0, Indels: 21
0.74 0.00 0.26
Matches are distributed among these distances:
33 4 0.07
34 5 0.08
35 24 0.41
36 8 0.14
37 12 0.20
38 6 0.10
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (35 bp):
TATGTTATTATATAAGTATATAAGTTTATATATTG
Found at i:8375589 original size:17 final size:16
Alignment explanation
Indices: 8375548--8375591 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
8375538 TAAATTTTGA
* *
8375548 AAAAATTATAGATTTT
1 AAAAATTATATATATT
8375564 AAAAA-TATATATATT
1 AAAAATTATATATATT
8375579 AAAAATGTATATA
1 AAAAAT-TATATA
8375592 AATATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
AAAAATTATATATATT
Found at i:8375838 original size:23 final size:23
Alignment explanation
Indices: 8375794--8375838 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
8375784 ATAAAATTGG
* *
8375794 AATATAGGTTATATGTCCATATT
1 AATATAGGTTATATATCAATATT
* *
8375817 AATATATGTTATATATTAATAT
1 AATATAGGTTATATATCAATAT
8375839 ATGTCCCAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (23 bp):
AATATAGGTTATATATCAATATT
Found at i:8378960 original size:14 final size:15
Alignment explanation
Indices: 8378942--8378980 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
8378932 TTCTAAACAT
8378942 TAAACCCCAAAAACC
1 TAAACCCCAAAAACC
*
8378957 -AAACCCC-AAACCC
1 TAAACCCCAAAAACC
8378970 TAAACCCCAAA
1 TAAACCCCAAA
8378981 TCTCAAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 5 0.24
14 14 0.67
15 2 0.10
ACGTcount: A:0.51, C:0.44, G:0.00, T:0.05
Consensus pattern (15 bp):
TAAACCCCAAAAACC
Found at i:8378979 original size:21 final size:21
Alignment explanation
Indices: 8378955--8378994 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8378945 ACCCCAAAAA
*
8378955 CCAAACCCCAAACCCTAAACC
1 CCAAACCCCAAACCATAAACC
* *
8378976 CCAAATCTCAAACCATAAA
1 CCAAACCCCAAACCATAAA
8378995 AGTCAAAACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.42, G:0.00, T:0.10
Consensus pattern (21 bp):
CCAAACCCCAAACCATAAACC
Found at i:8379385 original size:35 final size:35
Alignment explanation
Indices: 8379346--8379417 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
8379336 TGAATCTCTA
* * * * *
8379346 AACCCCAAATCACTAACTCTTAACTTCTAATCCTT
1 AACCCCAAACCACTAACCCCTAACTACTAACCCTT
8379381 AACCCCAAACCACTAACCCCTAACTACTAACCCTT
1 AACCCCAAACCACTAACCCCTAACTACTAACCCTT
8379416 AA
1 AA
8379418 ATTACCTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.24
Consensus pattern (35 bp):
AACCCCAAACCACTAACCCCTAACTACTAACCCTT
Found at i:8379397 original size:14 final size:14
Alignment explanation
Indices: 8379380--8379413 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8379370 TTCTAATCCT
8379380 TAACCCCAAACCAC
1 TAACCCCAAACCAC
* *
8379394 TAACCCCTAACTAC
1 TAACCCCAAACCAC
8379408 TAACCC
1 TAACCC
8379414 TTAAATTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (14 bp):
TAACCCCAAACCAC
Found at i:8379486 original size:20 final size:20
Alignment explanation
Indices: 8379458--8379512 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
8379448 ATTAATTAAT
*
8379458 CAAAACCCTAAATCCTAACC
1 CAAAACCCTAAACCCTAACC
* *
8379478 CAAATCCCTAACCCCTAACC
1 CAAAACCCTAAACCCTAACC
**
8379498 CTTAACCCTTAAACC
1 CAAAACCC-TAAACC
8379513 TTATTTCATA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (20 bp):
CAAAACCCTAAACCCTAACC
Found at i:8379544 original size:92 final size:93
Alignment explanation
Indices: 8379374--8379563 Score: 218
Period size: 88 Copynumber: 2.1 Consensus size: 93
8379364 CTTAACTTCT
8379374 AATCCTTAACCCCAAACCACTAACCCCTAACTACTAACCCTTAAATTACCTTATTTAATATATAA
1 AATCCTTAACCCCAAACCACTAACCCCTAACTACTAACCCTTAAA-TACCTTATTTAATATATAA
8379439 ATTAAAAATATTAATTAATCAAAACCCTA
65 ATTAAAAATATTAATTAATCAAAACCCTA
* *
8379468 AATCC-TAA-CCCAAATCC-CTAACCCCTAAC-CCTTAACCCTT-AA-ACCTTATTTCATA-A-A
1 AATCCTTAACCCCAAA-CCACTAACCCCTAACTAC-TAACCCTTAAATACCTTATTTAATATATA
* * * **
8379525 AATTATAACACACTAATTAATTTAAACCCTA
64 AATTA-AAAATATTAATTAATCAAAACCCTA
8379556 AAT-CTTAA
1 AATCCTTAA
8379564 ATTGACAGTA
Statistics
Matches: 85, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
87 7 0.08
88 27 0.32
89 12 0.14
91 3 0.04
92 26 0.31
93 5 0.06
94 5 0.06
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.29
Consensus pattern (93 bp):
AATCCTTAACCCCAAACCACTAACCCCTAACTACTAACCCTTAAATACCTTATTTAATATATAAA
TTAAAAATATTAATTAATCAAAACCCTA
Found at i:8379657 original size:14 final size:15
Alignment explanation
Indices: 8379638--8379670 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
8379628 CTTAAACCAG
8379638 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
8379652 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
8379667 AATC
1 AATC
8379671 TATAAACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:8380421 original size:114 final size:113
Alignment explanation
Indices: 8380211--8380618 Score: 491
Period size: 114 Copynumber: 3.6 Consensus size: 113
8380201 TTTTTCCTAG
* * * * * *
8380211 CGCCACTAATTCTAATCTACCTCAAGACTAAACGCTGCATTTTAGATAAGATATTTTGCAGCGCG
1 CGCCACTAACTCTAATCTACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGC-
* * *
8380276 TTC-AG--ACATGCGCAGCTAATACTATGCTTTAGCGGCGTGTTCTCCCAAA
65 TTCTTGTAAAATGC-C-GCTAATACTGTGCTTTAGCGGCGT-TTCTCCCAAA
* * * *
8380325 CGCCGCTAACTCTAATCTACCTCAAGACCAAACGGTGCGTTTTGGTTAAGATCTTTTGCGGCACT
1 CGCCACTAACTCTAATCTACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCT
* *
8380390 TCTTGTAAAATGCCGCTAATACCGTGCTTTAGCGGCGTATTCTCCCAAG
66 TCTTGTAAAATGCCGCTAATACTGTGCTTTAGCGGCGT-TTCTCCCAAA
* *
8380439 CGCCACTAACTCTAATCTACCTCAAGACCAAACGGTGCGTTTTGGTTAAGATCTTTTGCGGCGCT
1 CGCCACTAACTCTAATCTACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCT
* * *
8380504 TTTTGTAAAATGTCGCTAATACTGTTCTTTAGCGGCGTTT-TCCCGTAAA
66 TCTTGTAAAATGCCGCTAATACTGTGCTTTAGCGGCGTTTCTCCC--AAA
* * * * * *
8380553 TGCCACTAATTCTAATATACCTCAAAACCAAACTCTGCGTTTTGGTTAAGGTATTTTGCGGCGCT
1 CGCCACTAACTCTAATCTACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCT
8380618 T
66 T
8380619 ACAAATAAAC
Statistics
Matches: 258, Mismatches: 31, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
112 4 0.02
113 5 0.02
114 243 0.94
115 1 0.00
116 5 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (113 bp):
CGCCACTAACTCTAATCTACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCT
TCTTGTAAAATGCCGCTAATACTGTGCTTTAGCGGCGTTTCTCCCAAA
Done.