Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 67 of 427
Found at i:16582898 original size:13 final size:13
Alignment explanation
Indices: 16582882--16582911 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16582872 TATTAAATTT
16582882 AAATTAAAATATA
1 AAATTAAAATATA
*
16582895 AAATTAAAATATT
1 AAATTAAAATATA
16582908 AAAT
1 AAAT
16582912 ATTTGAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATTAAAATATA
Found at i:16583201 original size:20 final size:19
Alignment explanation
Indices: 16583164--16583225 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
16583154 TATAATTATA
* * *
16583164 AATTTTAAAAAGTCAAAAT
1 AATTATAAAAATTAAAAAT
16583183 AATATATAAAAATTAAAAAT
1 AAT-TATAAAAATTAAAAAT
**
16583203 TGTTATAAAAATTAAAAA-
1 AATTATAAAAATTAAAAAT
16583221 AATTA
1 AATTA
16583226 ATTTTCAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
18 3 0.09
19 18 0.51
20 14 0.40
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (19 bp):
AATTATAAAAATTAAAAAT
Found at i:16583321 original size:24 final size:24
Alignment explanation
Indices: 16583278--16583332 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
16583268 CTTTTTAGAA
16583278 TTTTATAAAAAAAATCTTTA-AACT
1 TTTTATAAAAAAAATCTTTATAA-T
* * *
16583302 TTTTTTAAAAAATATTTTTATAAT
1 TTTTATAAAAAAAATCTTTATAAT
16583326 TTTTATA
1 TTTTATA
16583333 TTTTTTTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTTATAAAAAAAATCTTTATAAT
Found at i:16583329 original size:23 final size:22
Alignment explanation
Indices: 16583263--16583329 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 22
16583253 TTAGAAATTT
*
16583263 AAATACTTTTTAGAATTTTATAAA
1 AAATA-TTTTTA-AATTTTTTAAA
* *
16583287 AAAAATCTTTAAACTTTTTTTAAA
1 AAATATTTTTAAA--TTTTTTAAA
16583311 AAATATTTTTATAATTTTT
1 AAATATTTTTA-AATTTTT
16583330 ATATTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 2 0.06
23 10 0.29
24 21 0.60
25 2 0.06
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (22 bp):
AAATATTTTTAAATTTTTTAAA
Found at i:16583430 original size:20 final size:20
Alignment explanation
Indices: 16583398--16583449 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
16583388 TGTAAATTTT
16583398 ATTTTTATATATAATTTTCTGA
1 ATTTTTATATAT-ATTTT-TGA
**
16583420 ATTTTTATATATATTTTTTT
1 ATTTTTATATATATTTTTGA
16583440 ATTTTTATAT
1 ATTTTTATAT
16583450 TTTAATGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.39
21 5 0.18
22 12 0.43
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTTTATATATATTTTTGA
Found at i:16596144 original size:15 final size:15
Alignment explanation
Indices: 16596124--16596156 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
16596114 AAAGTAACTT
*
16596124 TAATAATAATGATAA
1 TAATAATAAAGATAA
16596139 TAATAATAAAGATAA
1 TAATAATAAAGATAA
16596154 TAA
1 TAA
16596157 AGTGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (15 bp):
TAATAATAAAGATAA
Found at i:16596172 original size:25 final size:24
Alignment explanation
Indices: 16596141--16596188 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
16596131 AATGATAATA
*
16596141 ATAATAAAGATAATAAAGTGAAAAC
1 ATAATAAAGA-AATAAAGAGAAAAC
*
16596166 ATAATAAAGAAATAGAGAGAAAA
1 ATAATAAAGAAATAAAGAGAAAA
16596189 TGGAGAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.67, C:0.02, G:0.15, T:0.17
Consensus pattern (24 bp):
ATAATAAAGAAATAAAGAGAAAAC
Found at i:16596404 original size:30 final size:31
Alignment explanation
Indices: 16596353--16596414 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
16596343 CTCAGCCATT
*
16596353 TGAGGCACACGGCCAGGCCATAC-ATGCGTG
1 TGAGGCACACGGCCAGACCATACGATGCGTG
16596383 TGAGGCACACGGCCTA-ACCATACGGATGCGTG
1 TGAGGCACACGGCC-AGACCATAC-GATGCGTG
16596415 ACCCTTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 20 0.71
31 1 0.04
32 7 0.25
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.15
Consensus pattern (31 bp):
TGAGGCACACGGCCAGACCATACGATGCGTG
Found at i:16612299 original size:33 final size:31
Alignment explanation
Indices: 16612238--16612302 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
16612228 TGTAATAATG
* *
16612238 ATATATACACAATATGGTATTAAGAATATAT
1 ATATATACACAATATAGTATTAAAAATATAT
16612269 ATATATACACAATATAGTATTTAAAAA-ATAT
1 ATATATACACAATATAGTA-TTAAAAATATAT
16612300 ATA
1 ATA
16612303 CATAGGATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (31 bp):
ATATATACACAATATAGTATTAAAAATATAT
Found at i:16612490 original size:3 final size:3
Alignment explanation
Indices: 16612482--16612590 Score: 173
Period size: 3 Copynumber: 36.0 Consensus size: 3
16612472 ATATATGCAT
16612482 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
16612530 ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA AGA ATA AGA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
16612576 ATA AGA ATA AGA ATA
1 ATA ATA ATA ATA ATA
16612591 TATACAATAA
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
3 94 0.97
4 3 0.03
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:16612707 original size:37 final size:37
Alignment explanation
Indices: 16612636--16612707 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
16612626 AAATATATAC
* *
16612636 ATATAAAATATTTACAATAATGATGTAAATAAACAAT
1 ATATAAAATATTTACAATAATCATATAAATAAACAAT
16612673 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
16612708 TTTAAATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAT
Found at i:16614420 original size:54 final size:54
Alignment explanation
Indices: 16614342--16614644 Score: 561
Period size: 54 Copynumber: 5.6 Consensus size: 54
16614332 GACCCGAGGC
*
16614342 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
*
16614396 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
*
16614450 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
*
16614504 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
*
16614558 TCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
16614612 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
16614645 TTGAAACTTA
Statistics
Matches: 242, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 242 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
Found at i:16614909 original size:75 final size:72
Alignment explanation
Indices: 16614671--16614954 Score: 417
Period size: 72 Copynumber: 3.9 Consensus size: 72
16614661 AAAGTTGATT
* **
16614671 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
16614736 ACAGAAA
66 ACAGAAA
* **
16614743 TTGAAATTACCTCAACGTATCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
16614808 ACAGAAA
66 ACAGAAA
* * *
16614815 TTGAAATTACCTCAACGTGTCGTGAGGCTCATCTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGA
*
16614880 CAAACATAAA
64 -AAACAGAAA
* * *
16614890 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTG-ATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
16614954 A
66 A
16614955 AGTAGAAATT
Statistics
Matches: 195, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
71 3 0.02
72 127 0.65
74 6 0.03
75 59 0.30
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (72 bp):
TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
ACAGAAA
Found at i:16615200 original size:127 final size:126
Alignment explanation
Indices: 16614849--16615206 Score: 635
Period size: 126 Copynumber: 2.8 Consensus size: 126
16614839 AGGCTCATCT
*
16614849 CACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTG
1 CACCTCTCGCAATATGAGTTGA---TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTG
*
16614914 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACC
63 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACC
16614978 CACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
1 CACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
* *
16615043 CTCAACTCATCTCTCGCAATATGAGTTGATTTTGATAAAGTAGAAATTAAAAGGTTCAACC
66 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACC
16615104 CACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAG
1 CACCTCTCGCAATATGAGTTGATT-TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAG
*
16615169 GCTCAACTCACCTTTCGCAATATGAGTTGATTTTGAAA
65 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA
16615207 CATAAACTAA
Statistics
Matches: 221, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
126 124 0.56
127 75 0.34
129 22 0.10
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (126 bp):
CACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACC
Found at i:16615248 original size:71 final size:71
Alignment explanation
Indices: 16615098--16615273 Score: 230
Period size: 71 Copynumber: 2.5 Consensus size: 71
16615088 ATTAAAAGGT
* * ** * *
16615098 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTTTCGCAATATGAGTTGATT-TTGA-AAACAGAAATAAAAAATACCTCAGCGTGC
*
16615163 CCTGAGGC
64 CCCGAGGC
*
16615171 TCAACTCACCTTTCGCAATATGAGTTGATTTTG-AAACATAAACTAAAAAATACCTCAGCGTGCC
1 TCAACTCACCTTTCGCAATATGAGTTGATTTTGAAAACAGAAA-TAAAAAATACCTCAGCGTGCC
16615235 CCGAGGC
65 CCGAGGC
16615242 TCAACTCA-CTTCTCGCAATATGAGTTGATTTT
1 TCAACTCACCTT-TCGCAATATGAGTTGATTTT
16615274 AGGAAAGTAA
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
70 11 0.12
71 51 0.55
72 3 0.03
73 28 0.30
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (71 bp):
TCAACTCACCTTTCGCAATATGAGTTGATTTTGAAAACAGAAATAAAAAATACCTCAGCGTGCCC
CGAGGC
Found at i:16615574 original size:127 final size:128
Alignment explanation
Indices: 16615344--16615578 Score: 348
Period size: 127 Copynumber: 1.8 Consensus size: 128
16615334 GACCCGAGGC
* * * **
16615344 TCAACTCACCTCTCGCAATATGAGTTGATTCTTCCAAAAATAGAAATTGAAAATACCTTGGCGTG
1 TCAACCCACCTCTCGCAATATGAGCTGATTCTTCCAAAAACAGAAATTGAAAATACCTCAGCGTG
16615409 ATCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
66 ATCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
* * *
16615472 TCAACCCACCTCTCGCAATATGAGCTGATTCTT-GACAAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACCCACCTCTCGCAATATGAGCTGATTCTTCCAAAAACAGAAATTGAAAATACCTCAGCGTG
* * *
16615536 -TCCTGGGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTGA
66 AT-CTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGA
16615579 CAAACAGAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
126 1 0.01
127 63 0.66
128 31 0.33
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (128 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTCTTCCAAAAACAGAAATTGAAAATACCTCAGCGTG
ATCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
Found at i:16615604 original size:72 final size:72
Alignment explanation
Indices: 16615472--16615663 Score: 294
Period size: 72 Copynumber: 2.6 Consensus size: 72
16615462 ATTAAAAGGT
* * **
16615472 TCAACCCACCTCTCGCAATATGAGCTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGACAAACAGAAATTGAAATTAAATCAGCGTGT
*
16615537 CCTGGGGC
65 CCTGAGGC
*
16615545 TCAACTCACCTCTCGTAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATCAGCGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATCAGCGTGTC
16615610 CTGAGGC
66 CTGAGGC
* *
16615617 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAGAAATT
16615664 AAAAGGCTTA
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
72 66 0.61
73 43 0.39
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATCAGCGTGTC
CTGAGGC
Found at i:16615836 original size:76 final size:77
Alignment explanation
Indices: 16615703--16615927 Score: 303
Period size: 81 Copynumber: 2.9 Consensus size: 77
16615693 AGTCAATTTA
* * * * *
16615703 AAACATAAACTAAAAATACCTCAGCGTGCCCGAGGTTCAACTCACCTCTTGCAATATGAGTTGAT
1 AAACATAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
16615768 TTTTTTTG-A-C
66 TTTTTTTGAAGC
*
16615778 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
16615843 -TTTTTTTGAAAAGC
65 TTTTTTTTG--AAGC
* *
16615857 AGAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCT
1 A-AA-CATAAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
16615922 GATTTT
63 GATTTT
16615928 CGAAAAACAT
Statistics
Matches: 132, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
75 33 0.25
76 33 0.25
78 1 0.01
79 2 0.02
80 2 0.02
81 58 0.44
82 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (77 bp):
AAACATAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTGAAGC
Found at i:16615839 original size:198 final size:202
Alignment explanation
Indices: 16615336--16615847 Score: 677
Period size: 199 Copynumber: 2.6 Consensus size: 202
16615326 CGACATGTGA
* ** * * *
16615336 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTCCAAAAATAGAAATTGAAAATACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACC
** * * *
16615401 TTGGCGTGAT-CTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTGAAAAAGTAGAAAT
66 TCAGCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGCAAAAAT
* * * * *
16615464 TAAAAGGTTCAACCCACCTCTCGCAATATGAGCTGATTCTTGACAAACAGAAATTGAAATTACCT
130 TAAAAGGTTCAACCCACCTCTCGCAATATGAGCTCAATCTTGACAAACAGAAACTAAAAATACCT
16615529 CAGCGTGT
195 CAGCGTGT
* * * **
16615537 CCTGGGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTGACAAACAGAAATTGAAATTAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACC
16615600 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-CAAAAATT
66 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGCAAAAATT
* *
16615664 AAAAGGCTT-AACTCACCTCTCGCAATATGAG-TCAAT-TT-A-AAACATAAACTAAAAATACCT
131 AAAAGG-TTCAACCCACCTCTCGCAATATGAGCTCAATCTTGACAAACAGAAACTAAAAATACCT
16615724 CAGCGTG-
195 CAGCGTGT
* * *
16615731 CCCGAGGTTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTGACAAACATAAATTGAAATTA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGACAAACAGAAATTGAAATTA
16615796 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
64 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
16615848 TTGAAAAGCA
Statistics
Matches: 273, Mismatches: 31, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
194 31 0.11
195 24 0.09
196 1 0.00
197 2 0.01
198 78 0.29
199 92 0.34
200 12 0.04
201 33 0.12
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (202 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACC
TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGCAAAAATT
AAAAGGTTCAACCCACCTCTCGCAATATGAGCTCAATCTTGACAAACAGAAACTAAAAATACCTC
AGCGTGT
Found at i:16615952 original size:16 final size:16
Alignment explanation
Indices: 16615931--16615961 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16615921 TGATTTTCGA
*
16615931 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
16615947 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
16615962 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:16616016 original size:89 final size:88
Alignment explanation
Indices: 16615865--16616125 Score: 425
Period size: 89 Copynumber: 2.9 Consensus size: 88
16615855 GCAGAAGCAA
* *
16615865 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
16615930 AAAAACATAAATTGAAGAAAACAG
66 AAAAGCATAAATTGAA-AAAACAG
* * *
16615954 AAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
16616019 AAAAGCATAAATTG-AAAAACGG
66 AAAAGCATAAATTGAAAAAACAG
16616041 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
16616106 TGAAAAGCATAAATTGAAAA
64 TGAAAAGCATAAATTGAAAA
16616126 TACCTCAACG
Statistics
Matches: 159, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
87 62 0.39
88 1 0.01
89 93 0.58
90 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (88 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAGCATAAATTGAAAAAACAG
Found at i:16616154 original size:75 final size:75
Alignment explanation
Indices: 16616030--16616264 Score: 302
Period size: 72 Copynumber: 3.2 Consensus size: 75
16616020 AAAGCATAAA
* *
16616030 TTGAAAAACGGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
16616095 GTTGATTTTT
66 GTTGATTTTT
* * * * * **
16616105 TTGA-AAAGCATAAATTGAAAATACCTCAACGTGTCTTGAGGCTCGACTCATTTCTCGCAATATG
1 TTGACAAA-CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
*
16616169 AGTTGA--GTT
65 AGTTGATTTTT
* *
16616178 TTGACAAACAGAAATTG-AATTACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
16616242 GTTGA--TTT
66 GTTGATTTTT
*
16616250 TTGAAAAACAGAAAT
1 TTGACAAACAGAAAT
16616265 AAAACATCAA
Statistics
Matches: 138, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
72 60 0.43
73 14 0.10
74 6 0.04
75 58 0.42
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (75 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:16616233 original size:72 final size:73
Alignment explanation
Indices: 16616030--16616264 Score: 328
Period size: 75 Copynumber: 3.2 Consensus size: 73
16616020 AAAGCATAAA
*
16616030 TTGAAAAACGGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
16616095 GTTGATTTTT
66 GTTGA--TTT
* * * * * * **
16616105 TTGAAAAGCATAAATTGAAAATACCTCAACGTGTCTTGAGGCTCGACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
16616170 GTTGAGTT
66 GTTGATTT
* * *
16616178 TTGACAAACAGAAATTG-AATTACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
16616242 GTTGATTT
66 GTTGATTT
16616250 TTGAAAAACAGAAAT
1 TTGAAAAACAGAAAT
16616265 AAAACATCAA
Statistics
Matches: 137, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
72 60 0.44
73 16 0.12
75 61 0.45
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:16618449 original size:1 final size:1
Alignment explanation
Indices: 16618438--16618502 Score: 58
Period size: 1 Copynumber: 65.0 Consensus size: 1
16618428 ATTTGATTTC
* * * * * * * *
16618438 TTTTTTGTTTTTTTCTTGTCTTTTTTTCTTTTTTTCTTTTTGTTTTTTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16618503 CATGACTGTC
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.88
Consensus pattern (1 bp):
T
Found at i:16618464 original size:21 final size:20
Alignment explanation
Indices: 16618434--16618502 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
16618424 TGGCATTTGA
*
16618434 TTTC-TTTTTTGTTTTTTTC
1 TTTCTTTTTTTCTTTTTTTC
16618453 TTGTCTTTTTTTCTTTTTTTC
1 TT-TCTTTTTTTCTTTTTTTC
* * *
16618474 TTTTTGTTTTTTTTTTTTTTT
1 TTTCT-TTTTTTCTTTTTTTC
16618495 TTTCTTTT
1 TTTCTTTT
16618503 CATGACTGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.05
20 7 0.17
21 33 0.79
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.87
Consensus pattern (20 bp):
TTTCTTTTTTTCTTTTTTTC
Found at i:16624373 original size:55 final size:55
Alignment explanation
Indices: 16624311--16624416 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
16624301 GCCCATGCTT
* * **
16624311 GTGTTAATTTAATAGGTT-TGACCACGGGTACTTGGCACGGGCGTGTCGCACCCCC
1 GTGTTAATTTAACAGGTTCAG-CCACGGGTACAAGGCACGGGCGTGTCGCACCCCC
* * *
16624366 GTGTTAATTTGACAGGTTCAGCCACGGGTTCAAGGCACGGGCGTGTTGCAC
1 GTGTTAATTTAACAGGTTCAGCCACGGGTACAAGGCACGGGCGTGTCGCAC
16624417 ACCAGTGCTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 42 0.98
56 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (55 bp):
GTGTTAATTTAACAGGTTCAGCCACGGGTACAAGGCACGGGCGTGTCGCACCCCC
Found at i:16624437 original size:55 final size:55
Alignment explanation
Indices: 16624344--16624448 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
16624334 ACGGGTACTT
* * *
16624344 GGCACGGGCGTGTCGCACCCCCGTGTTAATTTGACAGGTTCAG-CCACGGGTTCAA
1 GGCACGGGCGTGTCGCACACCAGTGCTAATTTGACAGGTTC-GTCCACGGGTTCAA
* * *
16624399 GGCACGGGCGTGTTGCACACCAGTGCTATTTTGGCAGGTTCGTCCACGGG
1 GGCACGGGCGTGTCGCACACCAGTGCTAATTTGACAGGTTCGTCCACGGG
16624449 CATGTCGCAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 1 0.02
55 42 0.98
ACGTcount: A:0.16, C:0.28, G:0.33, T:0.23
Consensus pattern (55 bp):
GGCACGGGCGTGTCGCACACCAGTGCTAATTTGACAGGTTCGTCCACGGGTTCAA
Found at i:16636862 original size:2 final size:2
Alignment explanation
Indices: 16636817--16636846 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16636807 ATCACAAGGC
*
16636817 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16636847 CACACACATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:16637804 original size:43 final size:42
Alignment explanation
Indices: 16637741--16637905 Score: 170
Period size: 42 Copynumber: 3.9 Consensus size: 42
16637731 AAGTCGTACA
* * ** *
16637741 ATGCCATATCCCGGATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATAGCCCAGATATGGTCTTACACATAATCTCATACCG
* * * *
16637783 ATGCCAATAGCCCAGTTATGGTCTTACACAAAATTTCGTACCG
1 ATGCC-ATAGCCCAGATATGGTCTTACACATAATCTCATACCG
* * *
16637826 ATGCCA-AGTCCCAGACATGGGCTTACACATAATATCATACCG
1 ATGCCATAG-CCCAGATATGGTCTTACACATAATCTCATACCG
* * *
16637868 ATGCCATATCCCAGATATGGTCTTACACGTATTCTCAT
1 ATGCCATAGCCCAGATATGGTCTTACACATAATCTCAT
16637906 CTCGGTAACC
Statistics
Matches: 99, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
41 2 0.02
42 63 0.64
43 34 0.34
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACACATAATCTCATACCG
Found at i:16654079 original size:47 final size:47
Alignment explanation
Indices: 16654019--16654148 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 47
16654009 GTGCGAATGA
* *
16654019 TACCTTGATTTGGCTATGAGCCATGGTATAGGTA-TTCGAAGAGGAGT
1 TACCTTGATTTGGCTATGAGCCATGGTATAGGTACTCCG-AGAGAAGT
* *
16654066 TACCTTGATTTGGCTAT-AGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTATGA-GCCATGGTATAGGTACTCCGAGAGAAGT
* * *
16654113 TACCTTGATTTGGTTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTATGAGCCATGGTATAGGTACT
16654149 ATCGATAGAG
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
46 1 0.01
47 69 0.95
48 3 0.04
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGAGCCATGGTATAGGTACTCCGAGAGAAGT
Found at i:16672921 original size:46 final size:46
Alignment explanation
Indices: 16672869--16673004 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
16672859 GCTCTCTGAT
* *
16672869 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCATCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCATCATGAC
* *
16672915 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCATCATGAC
* * *
16672961 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCATCATG
16673005 TCAAAGATAA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 79 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCATCATGAC
Found at i:16675350 original size:21 final size:22
Alignment explanation
Indices: 16675321--16675361 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
16675311 TAACTATAAT
16675321 GTAAAAACAATGAT-ATAAATA
1 GTAAAAACAATGATGATAAATA
*
16675342 GTAACAACAATGATGATAAA
1 GTAAAAACAATGATGATAAA
16675362 ATATAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.22
Consensus pattern (22 bp):
GTAAAAACAATGATGATAAATA
Found at i:16675407 original size:25 final size:23
Alignment explanation
Indices: 16675370--16675422 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
16675360 AAATATAAGA
*
16675370 AATAATAGAATAATGGCAA-TAAT
1 AATAATAGAATAATAG-AATTAAT
16675393 AATAAGTAGTAATAATAGAATTAAT
1 AATAA-TAG-AATAATAGAATTAAT
16675418 AATAA
1 AATAA
16675423 AAATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 5 0.19
25 16 0.62
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.28
Consensus pattern (23 bp):
AATAATAGAATAATAGAATTAAT
Found at i:16678178 original size:16 final size:17
Alignment explanation
Indices: 16678136--16678181 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 17
16678126 TTAATAATTA
16678136 ATATAATAATATATTATT
1 ATATAA-AATATATTATT
16678154 ATATAAAATATATTA-T
1 ATATAAAATATATTATT
16678170 ACT-TAAAATATA
1 A-TATAAAATATA
16678182 AGTAAATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.41
17 10 0.37
18 6 0.22
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAAAATATATTATT
Found at i:16678823 original size:7 final size:7
Alignment explanation
Indices: 16678811--16678855 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
16678801 TTGAACAATA
16678811 AGTTGAG
1 AGTTGAG
16678818 AGTTGAG
1 AGTTGAG
16678825 AGTTGAG
1 AGTTGAG
*
16678832 ACTTGAG
1 AGTTGAG
16678839 AGTTGA-
1 AGTTGAG
16678845 ATGTTGAG
1 A-GTTGAG
16678853 AGT
1 AGT
16678856 GAACTGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 1 0.03
7 32 0.94
8 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.38, T:0.31
Consensus pattern (7 bp):
AGTTGAG
Found at i:16679529 original size:21 final size:21
Alignment explanation
Indices: 16679500--16679548 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
16679490 TATTGACAAC
*
16679500 ATAATTAAATAGAAATGATA-A
1 ATAAATAAATA-AAATGATACA
*
16679521 TTAAATAAATAAAATGATACA
1 ATAAATAAATAAAATGATACA
16679542 ATAAATA
1 ATAAATA
16679549 CTAAAGATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (21 bp):
ATAAATAAATAAAATGATACA
Found at i:16682271 original size:49 final size:49
Alignment explanation
Indices: 16682217--16682316 Score: 148
Period size: 49 Copynumber: 2.0 Consensus size: 49
16682207 ACTCTACTAC
* *
16682217 TTGTCAATTCGTTTTGTCTTATTTTTTATATGAATT-CTTTCATGTTTAA
1 TTGTCAATTCGTTTCGTCTTATTTTATATATGAATTAC-TTCATGTTTAA
* *
16682266 TTGTCATTTCGTTTCGTTTTATTTTATATATGAATTACTTCATGTTTAA
1 TTGTCAATTCGTTTCGTCTTATTTTATATATGAATTACTTCATGTTTAA
16682315 TT
1 TT
16682317 CTCTTCTTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 45 0.98
50 1 0.02
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (49 bp):
TTGTCAATTCGTTTCGTCTTATTTTATATATGAATTACTTCATGTTTAA
Found at i:16692163 original size:15 final size:13
Alignment explanation
Indices: 16692134--16692160 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16692124 GCTCGACAGG
16692134 GACACGCCCGTGT
1 GACACGCCCGTGT
16692147 GACACGCCCGTGT
1 GACACGCCCGTGT
16692160 G
1 G
16692161 TGATTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:16694116 original size:22 final size:22
Alignment explanation
Indices: 16694088--16694162 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
16694078 TTTCACATCC
16694088 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
16694110 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
16694134 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
16694157 ATCACA
1 ATCACA
16694163 CATATATACA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.45
23 5 0.13
24 5 0.13
25 11 0.29
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:16694184 original size:49 final size:49
Alignment explanation
Indices: 16694065--16694629 Score: 599
Period size: 49 Copynumber: 11.2 Consensus size: 49
16694055 CGGGACTTAT
* * *
16694065 CACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTAT--
1 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
*
16694112 CACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
*
16694161 CACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCA
1 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
* *
16694210 CACATATATACACTTCCACATTCATCACGTTGGCCATTTGGCCTTATCA
1 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
* *
16694259 CACATATATACATTTTCACATTCATCACGTTGGCCACTCGGCCTTATCA
1 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
16694308 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
1 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
* ** **
16694357 CACATATATACACTTTCACACATAT-ATACAC-TT-TCACATTCATCACGTTGGCCA
1 CACATATATACACTTT--CACAT-TCAT-CACGTTGGC-CATTCGGC-C-TT-ATCA
* * * *** **
16694411 TTCGGCCT-TATCACACATATAT-ACACTT--TCACATTCATCACGCTGGCCACTCGGCCTTATC
1 --C-ACATATAT-ACAC-T-T-TCACA-TTCATCACGTTGGCCATTC-GG--------CCTTATC
16694472 A
49 A
*
16694473 CACATATATACACTTTCACATTCATCACGTTGGCCATTCAGCCTTATCA
1 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
* *
16694522 CACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCA
1 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
*
16694571 CACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCA
1 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
*
16694620 CATATATATA
1 CACATATATA
16694630 TCTTGTACAT
Statistics
Matches: 441, Mismatches: 44, Indels: 64
0.80 0.08 0.12
Matches are distributed among these distances:
47 45 0.10
49 310 0.70
50 1 0.00
51 15 0.03
52 5 0.01
53 2 0.00
54 2 0.00
55 3 0.01
56 13 0.03
57 15 0.03
58 12 0.03
59 7 0.02
60 5 0.01
62 2 0.00
63 2 0.00
64 1 0.00
65 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (49 bp):
CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
Found at i:16694377 original size:18 final size:18
Alignment explanation
Indices: 16694354--16694394 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
16694344 TTCGGCCTTA
16694354 TCACACATATATACACTT
1 TCACACATATATACACTT
16694372 TCACACATATATACACTT
1 TCACACATATATACACTT
16694390 TCACA
1 TCACA
16694395 TTCATCACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (18 bp):
TCACACATATATACACTT
Found at i:16694377 original size:116 final size:116
Alignment explanation
Indices: 16694256--16694492 Score: 438
Period size: 116 Copynumber: 2.0 Consensus size: 116
16694246 TTTGGCCTTA
*
16694256 TCACACATATATACATTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACAC
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACAC
* *
16694321 TTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACACTT
66 TTTCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTT
*
16694372 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACAC
16694437 TTTCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTT
66 TTTCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTT
16694488 TCACA
1 TCACA
16694493 TTCATCACGT
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (116 bp):
TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACAC
TTTCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTT
Found at i:16694379 original size:67 final size:67
Alignment explanation
Indices: 16694305--16694443 Score: 278
Period size: 67 Copynumber: 2.1 Consensus size: 67
16694295 CTCGGCCTTA
16694305 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
16694370 TT
66 TT
16694372 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
16694437 TT
66 TT
16694439 TCACA
1 TCACA
16694444 TTCATCACGC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 72 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (67 bp):
TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
TT
Found at i:16694479 original size:165 final size:165
Alignment explanation
Indices: 16694207--16694541 Score: 625
Period size: 165 Copynumber: 2.0 Consensus size: 165
16694197 CTCGGCCTTA
* *
16694207 TCACACATATATACACTTCCACATTCATCACGTTGGCCATTTGGCCTTATCACACATATATACAT
1 TCACACATATATACACTTCCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
*
16694272 TTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACACTTTCACATTCATCACG
66 TTTCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTTCACATTCATCACG
*
16694337 TTGGCCATTCGGCCTTATCACACATATATACACTT
131 TTGGCCATTCAGCCTTATCACACATATATACACTT
*
16694372 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
1 TCACACATATATACACTTCCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
16694437 TTTCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTTCACATTCATCACG
66 TTTCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTTCACATTCATCACG
16694502 TTGGCCATTCAGCCTTATCACACATATATACACTT
131 TTGGCCATTCAGCCTTATCACACATATATACACTT
16694537 TCACA
1 TCACA
16694542 TTCATCACAT
Statistics
Matches: 165, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
165 165 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (165 bp):
TCACACATATATACACTTCCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
TTTCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTTCACATTCATCACG
TTGGCCATTCAGCCTTATCACACATATATACACTT
Found at i:16694527 original size:214 final size:214
Alignment explanation
Indices: 16694158--16694590 Score: 776
Period size: 214 Copynumber: 2.0 Consensus size: 214
16694148 TTCGGCCTTA
16694158 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACAC
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACAC
* * * *
16694223 TTCCACATTCATCACGTTGGCCATTTGGCCTTATCACACATATATACATTTTCACATTCATCACG
66 TTCCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTTCACATTCATCACG
* *
16694288 TTGGCCACTCGGCCTTATCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTT
131 TTGGCCACTCAGCCTTATCACACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
16694353 ATCACACATATATACACTT
196 ATCACACATATATACACTT
*
16694372 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACAC
*
16694437 TTTCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTTCACATTCATCACG
66 TTCCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTTCACATTCATCACG
* *
16694502 TTGGCCATTCAGCCTTATCACACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTT
131 TTGGCCACTCAGCCTTATCACACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
16694567 ATCACACATATATACACTT
196 ATCACACATATATACACTT
16694586 TCACA
1 TCACA
16694591 TTCATCACGT
Statistics
Matches: 209, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
214 209 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (214 bp):
TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACAC
TTCCACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTTCACATTCATCACG
TTGGCCACTCAGCCTTATCACACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATATATACACTT
Found at i:16694579 original size:263 final size:263
Alignment explanation
Indices: 16694112--16694629 Score: 937
Period size: 263 Copynumber: 2.0 Consensus size: 263
16694102 TCGGCCTTAT
16694112 CACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATACACTTT
1 CACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATACACTTT
*
16694177 CACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACACTTCCACATTCATCACGTTG
66 CACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTCCACATTCATCACGTTG
** * *
16694242 GCCATTTGGCCTTATCACACATATATACATTTTCACATTCATCACGTTGGCCACTCGGCCTTATC
131 GCCATTCAGCCTTATCACACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCTTATC
*
16694307 ACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACACTT
196 ACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACACTT
16694372 TCA
261 TCA
*
16694375 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACACTTT
1 CACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATACACTTT
*
16694440 CACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTTCACATTCATCACGTTG
66 CACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTCCACATTCATCACGTTG
**
16694505 GCCATTCAGCCTTATCACACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATC
131 GCCATTCAGCCTTATCACACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCTTATC
*
16694570 ACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACATATATATA
196 ACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATA
16694630 TCTTGTACAT
Statistics
Matches: 244, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
263 244 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (263 bp):
CACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATACACTTT
CACATTCATCACGCTGGCCACTCGGCCTTATCACACATATATACACTTCCACATTCATCACGTTG
GCCATTCAGCCTTATCACACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCTTATC
ACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACACTT
TCA
Found at i:16698467 original size:40 final size:40
Alignment explanation
Indices: 16698423--16698769 Score: 568
Period size: 40 Copynumber: 8.7 Consensus size: 40
16698413 CCAGCATGAT
* * *
16698423 TGCTCTTCGGGACCTAGCCCGGATATAACACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*** *
16698463 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*
16698503 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
16698543 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*
16698583 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
16698623 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
16698663 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
16698703 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
16698743 TGCTCTTCGGGACTTAGCCCGGCTATA
1 TGCTCTTCGGAACTTAGCCCGGATATA
16698770 CAACTCTCAA
Statistics
Matches: 286, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 286 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:16701177 original size:22 final size:22
Alignment explanation
Indices: 16701105--16701179 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
16701095 TTTCACATCC
*
16701105 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCAGCCTT
** * *
16701127 ATCACATATATACACTTTCA-CATT
1 ATCACAT-T-GGC-CATTCAGCCTT
16701151 CATCACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCAGCCTT
16701174 ATCACA
1 ATCACA
16701180 CATATATACA
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:16701201 original size:49 final size:49
Alignment explanation
Indices: 16701082--16701295 Score: 360
Period size: 49 Copynumber: 4.4 Consensus size: 49
16701072 CGGGACTTAT
* * *
16701082 CACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTAT--
1 CACATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCA
16701129 CACATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCA
1 CACATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCA
*
16701178 CACATATATACACTTTCACATTCATCACGTTGGCCATTCAGCCTTATCA
1 CACATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCA
* *
16701227 CACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCA
1 CACATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCA
16701276 CACATATATACACTTTCACA
1 CACATATATACACTTTCACA
16701296 CATATATACA
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 44 0.28
49 116 0.73
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (49 bp):
CACATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCA
Found at i:16701296 original size:18 final size:18
Alignment explanation
Indices: 16701273--16701313 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
16701263 TTCGGCCTTA
16701273 TCACACATATATACACTT
1 TCACACATATATACACTT
16701291 TCACACATATATACACTT
1 TCACACATATATACACTT
16701309 TCACA
1 TCACA
16701314 TTCATCACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (18 bp):
TCACACATATATACACTT
Found at i:16701297 original size:67 final size:67
Alignment explanation
Indices: 16701224--16701362 Score: 278
Period size: 67 Copynumber: 2.1 Consensus size: 67
16701214 TTCAGCCTTA
16701224 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
16701289 TT
66 TT
16701291 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
16701356 TT
66 TT
16701358 TCACA
1 TCACA
16701363 TTCATCACGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 72 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (67 bp):
TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
TT
Found at i:16701306 original size:116 final size:116
Alignment explanation
Indices: 16701175--16701411 Score: 456
Period size: 116 Copynumber: 2.0 Consensus size: 116
16701165 TTCAGCCTTA
16701175 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCAGCCTTATCACACATATATACAC
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCAGCCTTATCACACATATATACAC
*
16701240 TTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACACTT
66 TTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACACTT
*
16701291 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATATACAC
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCAGCCTTATCACACATATATACAC
16701356 TTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACACTT
66 TTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACACTT
16701407 TCACA
1 TCACA
16701412 TTCATCACGT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 119 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (116 bp):
TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCAGCCTTATCACACATATATACAC
TTTCACATTCATCACGTTGGCCACTCGGCCTTATCACACATATATACACTT
Found at i:16701349 original size:49 final size:49
Alignment explanation
Indices: 16701291--16701597 Score: 569
Period size: 49 Copynumber: 6.3 Consensus size: 49
16701281 ATATACACTT
*
16701291 TCACACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTA
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTA
16701340 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTA
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTA
16701389 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTA
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTA
16701438 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTA
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTA
* **
16701487 TCACACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTA
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTA
16701536 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTA
1 TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTA
*
16701585 TCACATATATATA
1 TCACACATATATA
16701598 TCTTGTACAT
Statistics
Matches: 250, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 250 1.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (49 bp):
TCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTA
Found at i:16701749 original size:124 final size:124
Alignment explanation
Indices: 16701529--16701777 Score: 489
Period size: 124 Copynumber: 2.0 Consensus size: 124
16701519 TTGGCCGTTC
16701529 GGCCTTATCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACATATA
1 GGCCTTATCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACATATA
16701594 TATATCTTGTACATCAATTTCATCATAACAAAATTGACTAGGTATACTAGTCATTTGTG
66 TATATCTTGTACATCAATTTCATCATAACAAAATTGACTAGGTATACTAGTCATTTGTG
*
16701653 GGCCTTATCACACATATATACATTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACATATA
1 GGCCTTATCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACATATA
16701718 TATATCTTGTACATCAATTTCATCATAACAAAATTGACTAGGTATACTAGTCATTTGTG
66 TATATCTTGTACATCAATTTCATCATAACAAAATTGACTAGGTATACTAGTCATTTGTG
16701777 G
1 G
16701778 CTTATAGCTT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (124 bp):
GGCCTTATCACACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACATATA
TATATCTTGTACATCAATTTCATCATAACAAAATTGACTAGGTATACTAGTCATTTGTG
Found at i:16706879 original size:4 final size:4
Alignment explanation
Indices: 16706870--16706977 Score: 216
Period size: 4 Copynumber: 27.0 Consensus size: 4
16706860 CTCAACGGAA
16706870 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
16706918 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
16706966 ACAT ACAT ACAT
1 ACAT ACAT ACAT
16706978 GTAAACTCAT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 104 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:16710112 original size:6 final size:6
Alignment explanation
Indices: 16710101--16710133 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
16710091 TGTGTACCGC
*
16710101 TACTGT TACTGT TACTGT TACTGT TACTAT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
16710134 CCTTACGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:16710139 original size:18 final size:18
Alignment explanation
Indices: 16710101--16710139 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16710091 TGTGTACCGC
* **
16710101 TACTGTTACTGTTACTGT
1 TACTGTTACTATTACCCT
16710119 TACTGTTACTATTACCCT
1 TACTGTTACTATTACCCT
16710137 TAC
1 TAC
16710140 GGTGTATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (18 bp):
TACTGTTACTATTACCCT
Found at i:16712652 original size:66 final size:66
Alignment explanation
Indices: 16712524--16712652 Score: 161
Period size: 67 Copynumber: 1.9 Consensus size: 66
16712514 TACTGTGTGT
* * * *
16712524 ACACTATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTAGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGAGATAAATG-AGCTAGGTCACATGCGTAGTACCAAGTGAA
16712589 GG
65 GG
* * * *
16712591 ACACCATGTAGACAAGAGAGCTATGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGCGTAGTACCAAGTG
16712653 TTCACCATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
66 23 0.43
67 28 0.53
68 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (66 bp):
ACACCATGTAGACAAGAGAGCTACGAGATAAATGAGCTAGGTCACATGCGTAGTACCAAGTGAAG
G
Found at i:16713763 original size:2 final size:2
Alignment explanation
Indices: 16713756--16713784 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16713746 TCATGACATG
16713756 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16713785 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16723202 original size:5 final size:5
Alignment explanation
Indices: 16723192--16723228 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
16723182 TATTTATTTA
*
16723192 TTATT TTATT TTATG TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
16723229 TAGTCAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:16733772 original size:14 final size:13
Alignment explanation
Indices: 16733749--16733780 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
16733739 GGGATATCAA
16733749 AACAATAATTAAG
1 AACAATAATTAAG
16733762 AACACATAATTAAG
1 AACA-ATAATTAAG
16733776 AACAA
1 AACAA
16733781 GTTTAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:16745774 original size:14 final size:14
Alignment explanation
Indices: 16745757--16745783 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16745747 TATTAAAGCA
16745757 AGAATTAAGAACAC
1 AGAATTAAGAACAC
16745771 AGAATTAAGAACA
1 AGAATTAAGAACA
16745784 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.15
Consensus pattern (14 bp):
AGAATTAAGAACAC
Found at i:16746724 original size:15 final size:15
Alignment explanation
Indices: 16746704--16746734 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16746694 CCCCTCATCT
*
16746704 AAGTGATTGCCTTTG
1 AAGTGATTACCTTTG
16746719 AAGTGATTACCTTTG
1 AAGTGATTACCTTTG
16746734 A
1 A
16746735 TTCAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (15 bp):
AAGTGATTACCTTTG
Found at i:16751300 original size:13 final size:13
Alignment explanation
Indices: 16751282--16751306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16751272 GTTTAATTAC
16751282 TTAATTAGTTTAG
1 TTAATTAGTTTAG
16751295 TTAATTAGTTTA
1 TTAATTAGTTTA
16751307 ATAAACAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTAATTAGTTTAG
Found at i:16758922 original size:40 final size:40
Alignment explanation
Indices: 16758877--16759044 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
16758867 CGGAATATAA
16758877 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
16758917 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
16758957 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16758997 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
16759037 CCGGATAT
1 CCGGATAT
16759045 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16759027 original size:80 final size:80
Alignment explanation
Indices: 16758893--16759042 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
16758883 ATAATCACGT
*
16758893 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
16758957 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
16758973 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
16759036 CCCGGAT
64 CCCGGAT
16759043 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:16766937 original size:40 final size:40
Alignment explanation
Indices: 16766892--16767059 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
16766882 CGGAATATAA
16766892 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
16766932 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
16766972 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
16767012 CCGTATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
16767052 CCGGATAT
1 CCGGATAT
16767060 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16767042 original size:80 final size:80
Alignment explanation
Indices: 16766908--16767057 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
16766898 ATAATCACGT
*
16766908 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
16766972 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * * *
16766988 GCACAATTGCCTTCGGGTCTTAACCCGTATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
16767051 CCCGGAT
64 CCCGGAT
16767058 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:16775116 original size:13 final size:13
Alignment explanation
Indices: 16775098--16775131 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16775088 ATCGTACAAG
*
16775098 GGCGTGTCACATA
1 GGCGTGTCACACA
*
16775111 GGCGTGTCACACG
1 GGCGTGTCACACA
16775124 GGCGTGTC
1 GGCGTGTC
16775132 CCTACCGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.26, G:0.38, T:0.21
Consensus pattern (13 bp):
GGCGTGTCACACA
Found at i:16798340 original size:22 final size:22
Alignment explanation
Indices: 16798314--16798358 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
16798304 ATTATGTCTA
16798314 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
16798336 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
16798358 T
1 T
16798359 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:16801701 original size:44 final size:44
Alignment explanation
Indices: 16801647--16801923 Score: 203
Period size: 44 Copynumber: 6.3 Consensus size: 44
16801637 TCGAACACAA
* * *
16801647 AGATGTCAAATCTACTATTTCTGATTTGCTCTCTAACCATACAG
1 AGATGCCAAATCTGCTATTTCTGATTTGCTCTCTAACAATACAG
* * * *
16801691 AGATACCAAATCTGCTA-TCCTCGATCTGCTC-CTGACAATACAG
1 AGATGCCAAATCTGCTATTTCT-GATTTGCTCTCTAACAATACAG
* *
16801734 GGATGCCAAATCTGCT-TCTT-GGATTTGCTCCTCGTCAA-AATAC-G
1 AGATGCCAAATCTGCTAT-TTCTGATTTGCT-CTC-T-AACAATACAG
* * *
16801778 AAGATGCCAAATCTACT-TTCTCTGATTTGCTCTCTGACCATACAG
1 -AGATGCCAAATCTGCTATT-TCTGATTTGCTCTCTAACAATACAG
* * * * * *
16801823 AAATGCCAAATCTGCTATCTTC-GATCTGGTTTCTGACAAATACAA
1 AGATGCCAAATCTGCTAT-TTCTGATTTGCTCTCTAAC-AATACAG
* * * *
16801868 AGACGCCAAATCTGCTATCTT-TGATCTGCCCTCTGACAATACAG
1 AGATGCCAAATCTGCTAT-TTCTGATTTGCTCTCTAACAATACAG
16801912 AGATGCCAAATC
1 AGATGCCAAATC
16801924 ATCTTAGATT
Statistics
Matches: 185, Mismatches: 32, Indels: 32
0.74 0.13 0.13
Matches are distributed among these distances:
42 7 0.04
43 29 0.16
44 74 0.40
45 65 0.35
46 10 0.05
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (44 bp):
AGATGCCAAATCTGCTATTTCTGATTTGCTCTCTAACAATACAG
Found at i:16801829 original size:89 final size:89
Alignment explanation
Indices: 16801624--16801923 Score: 279
Period size: 89 Copynumber: 3.4 Consensus size: 89
16801614 CTGATATTTC
* * * * * * * * *
16801624 GATCTGCTCTCCGTCGAACACAAAGATGTCAAATCTACTAT-TTCTGATTTGCTCTCTAAC-CAT
1 GATCTGCTCTCTGAC-AATACAGAGATGCCAAATCTGCTATCTTC-GATCTGCTCTCTCACAAAT
* *
16801687 ACAGAGATACCAAATCTGCTATC-CT
64 ACAAAGATGCCAAATCTGCTATCTCT
* * *
16801712 CGATCTGCTC-CTGACAATACAGGGATGCCAAATCTGCT-TCTTGGATTTGCTCCTCGTCA-AAA
1 -GATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCT-CTC-TCACAAA
* * *
16801774 TACGAAGATGCCAAATCTACTTTCTCT
63 TACAAAGATGCCAAATCTGCTATCTCT
* * * * * *
16801801 GATTTGCTCTCTGACCATACAGAAATGCCAAATCTGCTATCTTCGATCTGGTTTCTGACAAATAC
1 GATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTCACAAATAC
* *
16801866 AAAGACGCCAAATCTGCTATCTTT
66 AAAGATGCCAAATCTGCTATCTCT
*
16801890 GATCTGCCCTCTGACAATACAGAGATGCCAAATC
1 GATCTGCTCTCTGACAATACAGAGATGCCAAATC
16801924 ATCTTAGATT
Statistics
Matches: 170, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
86 9 0.05
87 23 0.14
88 35 0.21
89 93 0.55
90 10 0.06
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (89 bp):
GATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTCACAAATAC
AAAGATGCCAAATCTGCTATCTCT
Found at i:16813998 original size:12 final size:13
Alignment explanation
Indices: 16813982--16814019 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
16813972 AAGTAATGTA
16813982 AGGTATAATATAT
1 AGGTATAATATAT
*
16813995 -GGTAAAATATAT
1 AGGTATAATATAT
16814007 AGTGTATAATATA
1 AG-GTATAATATA
16814020 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (13 bp):
AGGTATAATATAT
Found at i:16814065 original size:21 final size:19
Alignment explanation
Indices: 16814033--16814086 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
16814023 TGTAAACAAA
16814033 ATATATAATAATATAAACC
1 ATATATAATAATATAAACC
**
16814052 ATATGATAAGTAATATAAAAA
1 ATAT-ATAA-TAATATAAACC
16814073 ATATATATATAATA
1 ATATATA-ATAATA
16814087 AGATGTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.13
20 12 0.40
21 14 0.47
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (19 bp):
ATATATAATAATATAAACC
Found at i:16814107 original size:12 final size:12
Alignment explanation
Indices: 16814077--16814183 Score: 60
Period size: 14 Copynumber: 8.4 Consensus size: 12
16814067 TAAAAAATAT
16814077 ATATATAATAAGA
1 ATATATAATAA-A
*
16814090 TGTATATAATAAA
1 -ATATATAATAAA
16814103 ATATATAATAAA
1 ATATATAATAAA
*
16814115 A-AGA-AA-AAA
1 ATATATAATAAA
*
16814124 ATACTATAAGGAATA
1 ATA-TATAA-TAA-A
*
16814139 ATATACAATAAAA
1 ATATATAAT-AAA
16814152 TATGATATGTAATAAA
1 -AT-ATA--TAATAAA
16814168 ATATA-AATAAA
1 ATATATAATAAA
16814179 ATATA
1 ATATA
16814184 ATGAAATAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
9 4 0.05
10 3 0.04
11 14 0.19
12 14 0.19
13 2 0.03
14 23 0.31
15 9 0.12
16 3 0.04
17 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.29
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:16814177 original size:28 final size:27
Alignment explanation
Indices: 16814138--16814198 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
16814128 TATAAGGAAT
*
16814138 AATATACAATAAAATATGATATGTAATAA
1 AATATACAATAAAATAT-A-ATGAAATAA
16814167 AATATA-AATAAAATATAATGAAATAA
1 AATATACAATAAAATATAATGAAATAA
16814193 AA-ATAC
1 AATATAC
16814199 TATCATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.10
26 10 0.33
27 1 0.03
28 10 0.33
29 6 0.20
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (27 bp):
AATATACAATAAAATATAATGAAATAA
Found at i:16814285 original size:7 final size:6
Alignment explanation
Indices: 16814266--16814388 Score: 51
Period size: 6 Copynumber: 19.8 Consensus size: 6
16814256 TTTACACAAT
* * *
16814266 TAATGAA TAATAA TACATAA TTTATAGA AAATAA AAATAA T-ATATA TAA-AA
1 TAAT-AA TAATAA TA-ATAA -TAATA-A TAATAA TAATAA TAATA-A TAATAA
* *
16814317 TATATAA TAA-AA T-ATAA TTTATAA GTAA-AA TATATAA TAATAA AAATAA
1 TA-ATAA TAATAA TAATAA -TAATAA -TAATAA TA-ATAA TAATAA TAATAA
* *
16814366 T-ATAA TGGATAA TAAAAA TAATA
1 TAATAA T-AATAA TAATAA TAATA
16814389 TACATTATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 29
0.69 0.08 0.22
Matches are distributed among these distances:
4 1 0.01
5 18 0.20
6 36 0.40
7 34 0.37
8 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.33
Consensus pattern (6 bp):
TAATAA
Found at i:16814333 original size:19 final size:19
Alignment explanation
Indices: 16814309--16814370 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
16814299 AAAATAATAT
16814309 ATATAAAATATATAATAAA
1 ATATAAAATATATAATAAA
*
16814328 ATAT--AATTTATAAGTAAA
1 ATATAAAATATATAA-TAAA
* *
16814346 ATATATAATA-ATAAAAATA
1 ATATAAAATATATAATAA-A
16814365 ATATAA
1 ATATAA
16814371 TGGATAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 8 0.23
18 10 0.29
19 14 0.40
20 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
ATATAAAATATATAATAAA
Found at i:16814348 original size:30 final size:27
Alignment explanation
Indices: 16814295--16814390 Score: 101
Period size: 30 Copynumber: 3.6 Consensus size: 27
16814285 ATTTATAGAA
16814295 AATAAAAATAATATATATAAAATATAT
1 AATAAAAATAATATATATAAAATATAT
*
16814322 AATAAAATATAATTTATAAGTAAAATATAT
1 AATAAAA-ATAATATAT-A-TAAAATATAT
**
16814352 AATAATAAA-AATA-ATAT--AATGGAT
1 AATAA-AAATAATATATATAAAATATAT
16814376 AATAAAAATAATATA
1 AATAAAAATAATATA
16814391 CATTATTTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
23 3 0.05
24 14 0.24
25 1 0.02
26 1 0.02
27 8 0.14
28 10 0.17
29 4 0.07
30 16 0.27
31 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (27 bp):
AATAAAAATAATATATATAAAATATAT
Found at i:16814385 original size:18 final size:17
Alignment explanation
Indices: 16814293--16814385 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 17
16814283 TAATTTATAG
16814293 AAAATA-AA-AATAATA
1 AAAATATAATAATAATA
* * *
16814308 TATATAAAATATATAAT-
1 AAAATATAATA-ATAATA
*
16814325 AAAATATAATTTATAAGTA
1 AAAATATAA-TAATAA-TA
16814344 AAATATATAATAATAA-A
1 AAA-ATATAATAATAATA
*
16814361 AATAATATAATGGATAATA
1 AA-AATATAAT-AATAATA
16814380 AAAATA
1 AAAATA
16814386 ATATACATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
15 4 0.07
16 2 0.03
17 21 0.35
18 16 0.27
19 11 0.18
20 6 0.10
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAATATAATAATAATA
Found at i:16814385 original size:37 final size:37
Alignment explanation
Indices: 16814309--16814382 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
16814299 AAAATAATAT
* * **
16814309 ATATAAAATATATAATAAAATATAATTTATAAGTAAA
1 ATATATAATATATAAAAAAATATAATGGATAAGTAAA
16814346 ATATATAATA-ATAAAAATAATATAATGGATAA-TAAA
1 ATATATAATATATAAAAA-AATATAATGGATAAGTAAA
16814382 A
1 A
16814383 ATAATATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 11 0.34
37 21 0.66
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (37 bp):
ATATATAATATATAAAAAAATATAATGGATAAGTAAA
Found at i:16816186 original size:24 final size:25
Alignment explanation
Indices: 16816137--16816186 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
16816127 ACCCTTCTCA
* *
16816137 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCCCTCTCATTGTTC
16816162 TCTCTTCA-TTCCCT-TCCATTGTTC
1 TCTCTTCACTTCCCTCT-CATTGTTC
16816186 T
1 T
16816187 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 1 0.05
24 13 0.59
25 8 0.36
ACGTcount: A:0.08, C:0.36, G:0.02, T:0.54
Consensus pattern (25 bp):
TCTCTTCACTTCCCTCTCATTGTTC
Found at i:16824105 original size:40 final size:40
Alignment explanation
Indices: 16824038--16824114 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
16824028 TTGGTGCCAC
* *
16824038 ATATAGCCGAAGCTATTCTAATTCACACACTAAGTGCTAT
1 ATATAGCCGAAGCTATTCGAATACACACACTAAGTGCTAT
*
16824078 ATATAGCCGAAGCTATCTCGAA-ACACACGCTAAGTGC
1 ATATAGCCGAAGCTAT-TCGAATACACACACTAAGTGC
16824115 CAACCATAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
ATATAGCCGAAGCTATTCGAATACACACACTAAGTGCTAT
Found at i:16828963 original size:47 final size:46
Alignment explanation
Indices: 16828814--16828977 Score: 165
Period size: 44 Copynumber: 3.5 Consensus size: 46
16828804 TAGCCAATGT
* * *
16828814 CATGTCCCAGACATGGTCTTACATTGGCTATCATATACGAGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTTCGAG-GCTGATG
* *
16828863 CATGTCCCAGACATGTCTTACACTAGAAC-AACTCTT--A-GCTGATG
1 CATGTCCCAGACATGTCTTACACT-G-GCTATCTCTTCGAGGCTGATG
* * *
16828907 CGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTCT-TCGAGGCTGATG
*
16828954 CATGTCCCAGACTTGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
16828978 ATCCCTCATC
Statistics
Matches: 95, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 6 0.06
44 30 0.32
46 2 0.02
47 27 0.28
48 11 0.12
49 17 0.18
50 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTCTTCGAGGCTGATG
Found at i:16833372 original size:18 final size:19
Alignment explanation
Indices: 16833330--16833381 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
16833320 AAAGATCGAC
16833330 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* *
16833349 TGTTACTGTAT-ATTTGAT
1 TGTTACTGAATAATTTAAT
*
16833367 TTTTACTGAATAATT
1 TGTTACTGAATAATT
16833382 GACTATTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:16833390 original size:18 final size:18
Alignment explanation
Indices: 16833327--16833391 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
16833317 TGGAAAGATC
16833327 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* * * *
16833346 AATTGTTACTGTATATTT
1 GACTGTTACTGAATAATT
* *
16833364 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
16833382 GACTATTACT
1 GACTGTTACT
16833392 AGATAACCGA
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
18 24 0.67
19 12 0.33
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:16839215 original size:94 final size:92
Alignment explanation
Indices: 16838967--16839240 Score: 265
Period size: 94 Copynumber: 2.9 Consensus size: 92
16838957 TGGGATATAT
* * * *
16838967 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTG-GCCGATGCATGTCC
* *
16839032 CAGACATGTCTTATACTAGCACAACTTTTA
64 CAAACATGTCTTACACTAGCAC-ACTTTTA
* * * * *
16839062 -GCCGATG-CGTGTCCCAGACA-CGCCTTACACTGGCTAT-AT-CTGTCGAGGCCGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT---GGCCGATGCATGTC
16839122 CCAAACATGTCTTACACTAGC-C-CTTGTCTGGA
63 CCAAACATGTCTTACACTAGCACACTT-T-T--A
* * *
16839154 TGCCGATGCCATGTTCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCA
* *
16839219 AACATGTCTTACATTGGCACAC
66 AACATGTCTTACACTAGCACAC
16839241 AAATCACCCA
Statistics
Matches: 144, Mismatches: 21, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
88 3 0.02
89 2 0.01
90 2 0.01
91 33 0.23
92 16 0.11
93 19 0.13
94 48 0.33
95 15 0.10
96 3 0.02
97 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCA
AACATGTCTTACACTAGCACACTTTTA
Found at i:16846801 original size:13 final size:13
Alignment explanation
Indices: 16846783--16846808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16846773 AAGTAATCGT
16846783 ACACGGGCGTGTC
1 ACACGGGCGTGTC
16846796 ACACGGGCGTGTC
1 ACACGGGCGTGTC
16846809 CCTGCCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:16854594 original size:29 final size:29
Alignment explanation
Indices: 16854561--16854659 Score: 189
Period size: 29 Copynumber: 3.4 Consensus size: 29
16854551 TTGTGTGTAC
*
16854561 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCG
16854590 AATGTGAAAAGGGATAGCTTCGGCTATCG
1 AATGTGAAAAGGGATAGCTTCGGCTATCG
16854619 AATGTGAAAAGGGATAGCTTCGGCTATCG
1 AATGTGAAAAGGGATAGCTTCGGCTATCG
16854648 AATGTGAAAAGG
1 AATGTGAAAAGG
16854660 AAAGGTATAC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.23
Consensus pattern (29 bp):
AATGTGAAAAGGGATAGCTTCGGCTATCG
Found at i:16854689 original size:33 final size:33
Alignment explanation
Indices: 16854652--16854780 Score: 152
Period size: 33 Copynumber: 3.9 Consensus size: 33
16854642 CTATCGAATG
16854652 TGAAAAGGAAAGGTATACTTTGTGTATACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATT
** * * * *
16854685 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATT
* **
16854717 TGGAAAGGTTAGGTATACTTTGTGTATACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATT
* *
16854750 TGAAAAGGAAATGTATACTTTGTGTGTACCA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA
16854781 CTCGGAAAGA
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
32 27 0.34
33 52 0.66
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATT
Found at i:16854731 original size:65 final size:66
Alignment explanation
Indices: 16854662--16854789 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 66
16854652 TGAAAAGGAA
** *
16854662 AGGTATACTTTGTGTATACCATTTGAAAAGGTTATGTACACTTTGTGTGTA-CACTTGGAAAGGT
1 AGGTATACTTTGTGTATACCATTTGAAAAGGAAATGTACACTTTGTGTGTACCACTCGGAAAGGT
16854726 T
66 T
*
16854727 AGGTATACTTTGTGTATACCATTTGAAAAGGAAATGTATACTTTGTGTGTACCACTCGGAAAG
1 AGGTATACTTTGTGTATACCATTTGAAAAGGAAATGTACACTTTGTGTGTACCACTCGGAAAG
16854790 AAATGTACAC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
65 48 0.83
66 10 0.17
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.36
Consensus pattern (66 bp):
AGGTATACTTTGTGTATACCATTTGAAAAGGAAATGTACACTTTGTGTGTACCACTCGGAAAGGT
T
Found at i:16857713 original size:43 final size:43
Alignment explanation
Indices: 16857615--16857714 Score: 100
Period size: 43 Copynumber: 2.3 Consensus size: 43
16857605 TCAGATAATC
*
16857615 ACACATATAGTACAATGCCAACGTCCCAGACGTGGTCTTACATGT
1 ACACATATA-T-CGATGCCAACGTCCCAGACGTGGTCTTACATGT
*
16857660 A-ATCACATATCGATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGT
1 ACA-CATATATCGATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GT
16857703 ACACATATATCG
1 ACACATATATCG
16857715 GTGTCACATA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
42 3 0.06
43 34 0.72
44 4 0.09
45 6 0.13
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ACACATATATCGATGCCAACGTCCCAGACGTGGTCTTACATGT
Found at i:16860582 original size:47 final size:48
Alignment explanation
Indices: 16860493--16860634 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
16860483 GCTTTATCAT
* *
16860493 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
* **
16860542 ATAACTGGGGCATAAGCCCTTTT-ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
16860589 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
16860635 TGATCTTCCT
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
47 43 0.51
48 30 0.35
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:16860593 original size:71 final size:72
Alignment explanation
Indices: 16860492--16860635 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
16860482 TGCTTTATCA
*
16860492 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
16860557 GCCCTTT
66 GCCCTTT
* * **
16860564 TATAACT-GAGGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
16860627 AGCCCTTT
65 AGCCCTTT
16860635 T
1 T
16860636 GATCTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 55 0.83
72 11 0.17
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:16860636 original size:24 final size:24
Alignment explanation
Indices: 16860493--16860638 Score: 206
Period size: 24 Copynumber: 6.1 Consensus size: 24
16860483 GCTTTATCAT
* *
16860493 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
16860518 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
16860542 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
*
16860565 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
16860589 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
16860613 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
16860637 AT
1 AT
16860639 CTTCCTCCAT
Statistics
Matches: 112, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 22 0.20
24 78 0.70
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:16860710 original size:20 final size:20
Alignment explanation
Indices: 16860685--16860765 Score: 135
Period size: 20 Copynumber: 4.0 Consensus size: 20
16860675 TTATGATTAC
16860685 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
16860705 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
16860725 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
16860745 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
16860765 A
1 A
16860766 CCATATTTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:16860716 original size:11 final size:11
Alignment explanation
Indices: 16860685--16860740 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
16860675 TTATGATTAC
16860685 ATCATGTGCAT
1 ATCATGTGCAT
*
16860696 ATCA--TACAT
1 ATCATGTGCAT
16860705 ATCATGTGCAT
1 ATCATGTGCAT
*
16860716 ATCA--TACAT
1 ATCATGTGCAT
*
16860725 GTCATGTGCAT
1 ATCATGTGCAT
16860736 ATCAT
1 ATCAT
16860741 ACATGTCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:16860840 original size:25 final size:25
Alignment explanation
Indices: 16860808--16860855 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16860798 ATACATAAAC
* * *
16860808 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
16860833 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
16860856 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:16862110 original size:27 final size:27
Alignment explanation
Indices: 16862010--16862093 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
16862000 GGGCATATTC
* *
16862010 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
16862037 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
16862064 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
16862091 GTC
1 GTC
16862094 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:16862185 original size:27 final size:27
Alignment explanation
Indices: 16862153--16862370 Score: 184
Period size: 27 Copynumber: 8.0 Consensus size: 27
16862143 TGGTAAATCA
* *
16862153 ACAAACCAAAGGTATTTCAGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
** * **
16862180 GTAAACCAATGGTATTTCTATAATTTTT
1 ACAAACCAAGGGTATTTCGGTAA-TTTT
* * * *
16862208 AGAAAGTCAAGGGTATTTCTGTAACTTT
1 ACAAA-CCAAGGGTATTTCGGTAATTTT
** * * *
16862236 GTAAATCAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
*** *
16862263 ACAAATTGAGGGTATTTCGGTAATTTC
1 ACAAACCAAGGGTATTTCGGTAATTTT
*
16862290 ACAAACCAAGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
* * *
16862317 ACAAACTAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
**
16862344 ACAAACCAAGGGTATTTTAGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
16862371 GTAAATCGAG
Statistics
Matches: 155, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
27 127 0.82
28 13 0.08
29 15 0.10
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
ACAAACCAAGGGTATTTCGGTAATTTT
Found at i:16862382 original size:27 final size:27
Alignment explanation
Indices: 16862163--16862438 Score: 153
Period size: 27 Copynumber: 10.1 Consensus size: 27
16862153 ACAAACCAAA
* * * *
16862163 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
*
16862190 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* * *
16862219 GGTATTTCT-GTAACTTTGTAAATCAGG
1 GGTATTT-TAGTAATTTTATAAATCAAG
* * **
16862246 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
** * * *
16862273 GGTATTTCGGTAATTTCACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * *
16862300 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* * *
16862327 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* *
16862354 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
16862381 GGTAAAACAGTAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
16862408 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
16862435 GGTA
1 GGTA
16862439 AAACGGTAAT
Statistics
Matches: 205, Mismatches: 37, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
26 2 0.01
27 173 0.84
28 15 0.07
29 15 0.07
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:16862394 original size:54 final size:54
Alignment explanation
Indices: 16862245--16862449 Score: 169
Period size: 54 Copynumber: 3.8 Consensus size: 54
16862235 TGTAAATCAG
* * *** *
16862245 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTACAAACCAA
* * ****
16862299 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGA-GGGTAAAACGGTAATTTTACAAACCAA
** * * ** *
16862353 GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTACAAACCAA
**** * *
16862407 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATT
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATT
16862450 CTGTAAATCG
Statistics
Matches: 125, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.98
55 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTACAAACCAA
Found at i:16862411 original size:81 final size:81
Alignment explanation
Indices: 16862336--16862566 Score: 232
Period size: 81 Copynumber: 2.9 Consensus size: 81
16862326 GGGTATTTTG
* **** *
16862336 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
16862401 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * * * *
16862417 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
* *
16862482 AGTCGAGGGTAAAAC-
66 AATCAAGGGTAAAACA
** * * * * ** *
16862497 GATAA-TCATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAAGGGTAAAACGGTAATTCTG
1 G-TAATTC-TACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTG
16862561 TAAATC
64 TAAATC
16862567 GGGGGTACTT
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 3 0.02
81 125 0.98
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCAAGGGTAAAACA
Found at i:16862439 original size:27 final size:27
Alignment explanation
Indices: 16862363--16862573 Score: 291
Period size: 27 Copynumber: 7.8 Consensus size: 27
16862353 GGGTATTTTA
* *
16862363 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
16862390 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
16862417 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
16862444 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
16862471 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
16862498 ATAA-TCATGTAAATC-AGGGGTAAAACG
1 GTAATTC-TGTAAATCGA-GGGTAAAACG
* **
16862525 GTAATTATGTAAATTAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
16862552 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
16862574 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.02
27 159 0.97
28 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:16862600 original size:27 final size:27
Alignment explanation
Indices: 16862570--16862631 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
16862560 GTAAATCGGG
* *
16862570 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAAATTTACAAATCGAA
*
16862597 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAAATTTACAAATCGAA
16862624 GGTATTTC
1 GGTATTTC
16862632 AGTATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAAATTTACAAATCGAA
Found at i:16865440 original size:30 final size:31
Alignment explanation
Indices: 16865400--16865462 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
16865390 CCTTTTCATA
16865400 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
16865431 TTTCA-ATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
16865461 TT
1 TT
16865463 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:16865705 original size:24 final size:24
Alignment explanation
Indices: 16865654--16865796 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
16865644 GCTTTATCAT
*
16865654 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
16865679 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
16865703 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
16865726 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
16865750 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
16865774 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16865797 TCTTCCTCCA
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16865733 original size:47 final size:48
Alignment explanation
Indices: 16865654--16865795 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
16865644 GCTTTATCAT
* *
16865654 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
16865703 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
16865750 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
16865796 TTCTTCCTCC
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:16865754 original size:71 final size:72
Alignment explanation
Indices: 16865653--16865796 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
16865643 TGCTTTATCA
*
16865653 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
16865718 GCCCTTT
66 GCCCTTT
* * **
16865725 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
16865788 AGCCCTTT
65 AGCCCTTT
16865796 T
1 T
16865797 TCTTCCTCCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:16865866 original size:20 final size:20
Alignment explanation
Indices: 16865843--16865903 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
16865833 TTATGATTAC
16865843 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
16865863 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
16865883 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
16865903 A
1 A
16865904 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:16865978 original size:25 final size:25
Alignment explanation
Indices: 16865946--16865993 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16865936 ATACATAAAC
* * *
16865946 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
16865971 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
16865994 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:16867246 original size:27 final size:27
Alignment explanation
Indices: 16867146--16867229 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
16867136 GGGCATATTC
* *
16867146 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
16867173 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
16867200 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
16867227 GTC
1 GTC
16867230 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:16867321 original size:27 final size:27
Alignment explanation
Indices: 16867289--16867506 Score: 184
Period size: 27 Copynumber: 8.0 Consensus size: 27
16867279 TGGTAAATCA
* *
16867289 ACAAACCAAAGGTATTTCAGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
** * **
16867316 GTAAACCAATGGTATTTCTATAATTTTT
1 ACAAACCAAGGGTATTTCGGTAA-TTTT
* * * *
16867344 AGAAAGTCAAGGGTATTTCTGTAACTTT
1 ACAAA-CCAAGGGTATTTCGGTAATTTT
** * * *
16867372 GTAAATCAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
*** *
16867399 ACAAATTGAGGGTATTTCGGTAATTTC
1 ACAAACCAAGGGTATTTCGGTAATTTT
*
16867426 ACAAACCAAGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
* * *
16867453 ACAAACTAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
**
16867480 ACAAACCAAGGGTATTTTAGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
16867507 GTAAATCGAG
Statistics
Matches: 155, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
27 127 0.82
28 13 0.08
29 15 0.10
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
ACAAACCAAGGGTATTTCGGTAATTTT
Found at i:16867518 original size:27 final size:27
Alignment explanation
Indices: 16867299--16867574 Score: 153
Period size: 27 Copynumber: 10.1 Consensus size: 27
16867289 ACAAACCAAA
* * * *
16867299 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
*
16867326 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* * *
16867355 GGTATTTCT-GTAACTTTGTAAATCAGG
1 GGTATTT-TAGTAATTTTATAAATCAAG
* * **
16867382 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
** * * *
16867409 GGTATTTCGGTAATTTCACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * *
16867436 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* * *
16867463 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* *
16867490 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
16867517 GGTAAAACAGTAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
16867544 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
16867571 GGTA
1 GGTA
16867575 AAACGGTAAT
Statistics
Matches: 205, Mismatches: 37, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
26 2 0.01
27 173 0.84
28 15 0.07
29 15 0.07
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:16867530 original size:54 final size:54
Alignment explanation
Indices: 16867381--16867585 Score: 169
Period size: 54 Copynumber: 3.8 Consensus size: 54
16867371 TGTAAATCAG
* * *** *
16867381 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTACAAACCAA
* * ****
16867435 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGA-GGGTAAAACGGTAATTTTACAAACCAA
** * * ** *
16867489 GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTACAAACCAA
**** * *
16867543 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATT
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATT
16867586 CTGTAAATCG
Statistics
Matches: 125, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.98
55 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTACAAACCAA
Found at i:16867557 original size:81 final size:81
Alignment explanation
Indices: 16867472--16867701 Score: 225
Period size: 81 Copynumber: 2.9 Consensus size: 81
16867462 GGGTATTTTG
* **** *
16867472 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTGT
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGT
16867536 AAATCAAGGGTAAAACA
65 AAATCAAGGGTAAAACA
* * * *
16867553 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
* *
16867618 AGTCGAGGGTAAAAC-
66 AATCAAGGGTAAAACA
** * * * * * *
16867633 GATAA-TCATGTAAATCAGGGGTAAAACGGTAATTATGTAAAT-TAGGGTAAAACGGTAATTCTG
1 G-TAATTC-TACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTG
16867696 TAAATC
64 TAAATC
16867702 GGGGTACTTT
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
80 27 0.21
81 99 0.78
82 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
AATCAAGGGTAAAACA
Found at i:16867575 original size:27 final size:27
Alignment explanation
Indices: 16867498--16867707 Score: 261
Period size: 27 Copynumber: 7.9 Consensus size: 27
16867488 AGGGTATTTT
*
16867498 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
16867525 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
16867552 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
16867579 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
16867606 -GATAATTCTGTAAGTCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
16867633 -GATAA-TCATGTAAATC-AGGGGTAAAAC
1 AG-TAATTC-TGTAAATCGA-GGGTAAAAC
* * *
16867660 GGTAATTATGTAAAT-TAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
16867686 GGTAATTCTGTAAATCG-GGGTA
1 AGTAATTCTGTAAATCGAGGGTA
16867708 CTTTGGTAAT
Statistics
Matches: 165, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
26 32 0.19
27 131 0.79
28 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:16867733 original size:26 final size:27
Alignment explanation
Indices: 16867715--16867802 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
16867705 GTACTTTGGT
*
16867715 AATTTACAAGTCGAAGGTATTTCGGTA
1 AATTTACAAATCGAAGGTATTTCGGTA
* *
16867742 AATTTACAAATCGAGGGTATTTCAGTA
1 AATTTACAAATCGAAGGTATTTCGGTA
** *
16867769 TTTTTTACAAA-CTAAGGATATTTCGGTA
1 -AATTTACAAATCGAAGG-TATTTCGGTA
*
16867797 ATTTTA
1 AATTTA
16867803 GTAAACTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
27 33 0.66
28 17 0.34
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
AATTTACAAATCGAAGGTATTTCGGTA
Found at i:16873153 original size:17 final size:18
Alignment explanation
Indices: 16873117--16873154 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
16873107 GGTATCTGGT
* *
16873117 TGATAATTCTGTTTTATC
1 TGATAATTCTATTGTATC
16873135 TGATAA-TCTATTGTATC
1 TGATAATTCTATTGTATC
16873152 TGA
1 TGA
16873155 CTATGGGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (18 bp):
TGATAATTCTATTGTATC
Found at i:16874112 original size:32 final size:32
Alignment explanation
Indices: 16874052--16874112 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
16874042 ATCAAAGATG
*
16874052 GTTTACAAATGCTAATCTAGGTACCAAATATT
1 GTTTACAAATGCTAATCTAGGAACCAAATATT
*
16874084 GTTTACAAATGCTAATCTAGGAAGCAAAT
1 GTTTACAAATGCTAATCTAGGAACCAAAT
16874113 CTAACTTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
GTTTACAAATGCTAATCTAGGAACCAAATATT
Done.