Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 47 of 297
Found at i:16760850 original size:25 final size:25
Alignment explanation
Indices: 16760822--16760871 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
16760812 ACCATTCAAG
16760822 AACATTCATGGAAAGTCCCTAAACA
1 AACATTCATGGAAAGTCCCTAAACA
*
16760847 AACATTCATGGCAAGTCCCTAAACA
1 AACATTCATGGAAAGTCCCTAAACA
16760872 TTTAACACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (25 bp):
AACATTCATGGAAAGTCCCTAAACA
Found at i:16763571 original size:24 final size:25
Alignment explanation
Indices: 16763544--16763595 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
16763534 GCCTAGCCTC
16763544 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
16763568 TTTTAGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
16763593 TTT
1 TTT
16763596 CGCACTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:16763697 original size:10 final size:11
Alignment explanation
Indices: 16763651--16763703 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
16763641 ATATATCCTA
16763651 GCATATCATGT
1 GCATATCATGT
* *
16763662 GCATCTCAT-A
1 GCATATCATGT
*
16763672 ACATATCATGT
1 GCATATCATGT
*
16763683 GCATATTATGT
1 GCATATCATGT
16763694 -CATATCATGT
1 GCATATCATGT
16763704 ATAAAAATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (11 bp):
GCATATCATGT
Found at i:16763697 original size:21 final size:21
Alignment explanation
Indices: 16763643--16763703 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
16763633 TATAATGAAT
* *
16763643 ATATCCTAGCATATCATGTGC
1 ATATCATAACATATCATGTGC
*
16763664 ATCTCATAACATATCATGTGC
1 ATATCATAACATATCATGTGC
* **
16763685 ATATTATGTCATATCATGT
1 ATATCATAACATATCATGT
16763704 ATAAAAATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:16766173 original size:46 final size:45
Alignment explanation
Indices: 16766026--16766245 Score: 139
Period size: 47 Copynumber: 4.7 Consensus size: 45
16766016 TTATTGTGGG
* *
16766026 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATG-AGAA
1 CTAGTGTAAGACATGTCTGGGACATGCATC-GGCACGA-TATGAAG-T
* * * *
16766072 CTAGTGTAAGACTATGTCTGGGAGATGGAATCGGCATCGAAACG-AGT
1 CTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCA-CGATATGAAGT
*
16766119 GCTAGTGTAAGACATGTCTGGCACATGCATCGGCTACGATATGATAGT
1 -CTAGTGTAAGACATGTCTGGGACATGCATCGGC-ACGATATGA-AGT
* * *
16766167 C-AGTGTAAGACCATGTCTTGGATATGGCATCGACTTGA-GATATG-AG-
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC---ACGATATGAAGT
* *
16766213 CAAGTGTAAGACCATGTTTGGGACATGGCATCG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
16766246 ACATCCTACC
Statistics
Matches: 142, Mismatches: 19, Indels: 25
0.76 0.10 0.13
Matches are distributed among these distances:
46 34 0.24
47 69 0.49
48 31 0.22
49 7 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCACGATATGAAGT
Found at i:16767929 original size:43 final size:42
Alignment explanation
Indices: 16767865--16768033 Score: 153
Period size: 43 Copynumber: 4.0 Consensus size: 42
16767855 AGGATTTCCG
* * * *
16767865 ATATGTGATCTCTGTAAGATCAGGTCTGGGACATTGGCATCA
1 ATATGTGATTTCAGTAAGACCATGTCTGGGACATTGGCATCA
* *
16767907 ATATGTGATTTCGAGTAAGATCATGTCTGGGACATCGGCATCGTA
1 ATATGTGATTTC-AGTAAGACCATGTCTGGGACATTGGCATC--A
* * * *
16767952 AT-TGTGA-TTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG
1 ATATGTGATTTC-AGTAAGACCATGTCTGGGACATTGGCATCA
* * * *
16767993 ACATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGATTTCA-GTAAGACCATGTCTGGGACATTGGCAT
16768034 TGTACGATAT
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 16 0.15
43 79 0.76
44 5 0.05
45 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
ATATGTGATTTCAGTAAGACCATGTCTGGGACATTGGCATCA
Found at i:16787169 original size:44 final size:43
Alignment explanation
Indices: 16787084--16787173 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 43
16787074 ATAAATGTAA
* * * *
16787084 ATTATAATTATAATTATTTTAAATGTGTAATTATCACAATTTCT
1 ATTATAATTATAATTATTTGAAATGTATAATTATAAAAATTT-T
16787128 ATTA-AATTATAATTATTGTGAAATGTATAATTATAAAAATTTT
1 ATTATAATTATAATTATT-TGAAATGTATAATTATAAAAATTTT
16787171 ATT
1 ATT
16787174 TTATGCCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 17 0.41
44 24 0.59
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (43 bp):
ATTATAATTATAATTATTTGAAATGTATAATTATAAAAATTTT
Found at i:16792357 original size:48 final size:48
Alignment explanation
Indices: 16792286--16792505 Score: 251
Period size: 48 Copynumber: 4.6 Consensus size: 48
16792276 TGAATTTTCT
* * * *
16792286 GATGCCATGTCCTAGACATGGTCTGACACTGGCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCC
* * ** * * * *
16792334 GATGCCATGTCCCAGACGTGGTCTTACACTAGCTCTTGTCTCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCC
* * * *
16792382 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCCTATGGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCC
* ** *
16792430 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAGGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCC
*
16792478 GATTCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
16792506 GTAGCACACA
Statistics
Matches: 144, Mismatches: 28, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 144 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCC
Found at i:16795317 original size:3 final size:3
Alignment explanation
Indices: 16795311--16795359 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
16795301 ATGATGAAAT
16795311 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
16795359 A
1 A
16795360 AAACAAAAGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16797784 original size:47 final size:46
Alignment explanation
Indices: 16797710--16797847 Score: 147
Period size: 46 Copynumber: 2.9 Consensus size: 46
16797700 AGGATATTTG
* * *
16797710 GGCATCCGAACTCGTTGAGTGGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCA-CCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--A
*
16797757 GGCAGCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 GGCA-CCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAA
* *
16797805 TGC-CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGC
1 GGCACCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC
16797848 GAACGCCGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
46 39 0.48
47 31 0.38
48 5 0.06
50 6 0.07
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (46 bp):
GGCACCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAA
Found at i:16811486 original size:12 final size:12
Alignment explanation
Indices: 16811469--16811504 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
16811459 ATTCATTTGA
16811469 CATTCATGCATT
1 CATTCATGCATT
16811481 CATTCATGCATT
1 CATTCATGCATT
*
16811493 CATTCATACATT
1 CATTCATGCATT
16811505 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:16814839 original size:45 final size:45
Alignment explanation
Indices: 16814790--16814880 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
16814780 AGCTCGAGCG
*
16814790 AGAAGAGGTTTAGGGAGATATCTGCAAGGAATAGTCAGGGCTTTA
1 AGAAGAGGTTTAGGGAGATATCTACAAGGAATAGTCAGGGCTTTA
16814835 AGAAGAGGTTTAGGGAGATATCTACAAGGAATAGTCAGGGCTTTA
1 AGAAGAGGTTTAGGGAGATATCTACAAGGAATAGTCAGGGCTTTA
16814880 A
1 A
16814881 AGCCAGTGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.24
Consensus pattern (45 bp):
AGAAGAGGTTTAGGGAGATATCTACAAGGAATAGTCAGGGCTTTA
Found at i:16819769 original size:71 final size:70
Alignment explanation
Indices: 16819670--16819845 Score: 230
Period size: 71 Copynumber: 2.5 Consensus size: 70
16819660 CTTTTCAAGG
* *
16819670 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
16819734 TGTTTT
65 TGTTTT
** * *
16819740 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
16819805 TGTTTT
65 TGTTTT
** * *
16819811 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
16819846 TTTAATTTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 31 0.33
71 61 0.65
72 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
GTTTT
Found at i:16821543 original size:18 final size:17
Alignment explanation
Indices: 16821498--16821545 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
16821488 CATTAAGCCC
16821498 CCCCCCAAAAAACCTAA
1 CCCCCCAAAAAACCTAA
***
16821515 CCCAAAAAAAAAACCTAAA
1 CCC-CCCAAAAAACCT-AA
16821534 CCCCCCAAAAAA
1 CCCCCCAAAAAA
16821546 ACCAAGAAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
17 3 0.13
18 15 0.65
19 5 0.22
ACGTcount: A:0.56, C:0.40, G:0.00, T:0.04
Consensus pattern (17 bp):
CCCCCCAAAAAACCTAA
Found at i:16824383 original size:26 final size:26
Alignment explanation
Indices: 16824354--16824403 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
16824344 CAGTGACTGG
16824354 TTTGACCAACTAATTCTAATAACTAA
1 TTTGACCAACTAATTCTAATAACTAA
* *
16824380 TTTGACCAACTGATTCTATTAACT
1 TTTGACCAACTAATTCTAATAACT
16824404 GTTTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (26 bp):
TTTGACCAACTAATTCTAATAACTAA
Found at i:16828732 original size:2 final size:2
Alignment explanation
Indices: 16828710--16828749 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
16828700 CATAAAATTT
16828710 TA TA T- TA TA T- TA TA T- TA TA TA 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 TA TA TA TA TA TA
16828749 T
1 T
16828750 TACATTGCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:16832063 original size:18 final size:18
Alignment explanation
Indices: 16832040--16832083 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
16832030 AATTTATATG
**
16832040 AAAATCCTTGAAGAATTT
1 AAAATCCTAAAAGAATTT
*
16832058 AAAATCCCAAAAGAATTT
1 AAAATCCTAAAAGAATTT
16832076 AAAATCCT
1 AAAATCCT
16832084 CGAATGATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.27
Consensus pattern (18 bp):
AAAATCCTAAAAGAATTT
Found at i:16839527 original size:94 final size:92
Alignment explanation
Indices: 16839366--16839720 Score: 303
Period size: 94 Copynumber: 3.8 Consensus size: 92
16839356 TGTGCGCCAG
** * * * * * *
16839366 TGTAAGACATGTCTGGGACATGTTTCAGCCACATTATGAGAACCAGTATAAGACCATGTCTAGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCATACTATAAGAGCCAGTGTAAGACCATGTCTGGGA
*
16839431 CATGGCATCGGCATCCAGACGAGGGCTAC
66 CATGGCATCGGCAT-CAGA-GAGAGCTAC
* *
16839460 TGTAAGACATGTCTGGAACATGCATCAGCCATACTATAATAGCCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCATACTATAAGAGCCAGTGTAAGACCATGTCTGGGA
*
16839525 CATGGCATCGG-AACAGAGATGAG-TATC
66 CATGGCATCGGCATCAGAGA-GAGCTA-C
* * * * * *
16839552 AGTGTAAGACATGTCTAGGACATGCATCAGCC-TCGAC-AGAGATAGCCAGTGTAA-AACGTGTT
1 --TGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATA-AGAGCCAGTGTAAGACCATGTC
* * * * *
16839614 TGGGACA-CGCATCGGC-TAAGAGTTGTGCTAG
61 TGGGACATGGCATCGGCATCAGAG-AGAGCTAC
* * *
16839645 TGTAAGACATGTCTGGGACATGCATCAACACGCGTA-TATGAGAGCCAGTGTAAGACCATGTCTG
1 TGTAAGACATGTCTGGGACATGCATC-A-GC-CATACTATAAGAGCCAGTGTAAGACCATGTCTG
16839709 GGACATGGCATC
63 GGACATGGCATC
16839721 AACAATGTAT
Statistics
Matches: 211, Mismatches: 33, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
91 29 0.14
92 20 0.09
93 30 0.14
94 116 0.55
95 16 0.08
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (92 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCATACTATAAGAGCCAGTGTAAGACCATGTCTGGGA
CATGGCATCGGCATCAGAGAGAGCTAC
Found at i:16839602 original size:47 final size:46
Alignment explanation
Indices: 16839361--16839721 Score: 195
Period size: 47 Copynumber: 7.7 Consensus size: 46
16839351 TGATTTGTGC
** * *
16839361 GCCAGTGTAAGACATGTCTGGGACATGTTTCAGCCACATTATGAGA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCA-CA-GAGATA
* * * * **
16839408 -CCAGTATAAGACCATGTCTAGGACATGGCATCGGCATC-CAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCACAGA-GATA
* * * *
16839455 GCTACTGTAAGACATGTCTGGAACATGCATCAGCCAT-ACTATA-ATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-TCAC-AGAGATA
**
16839501 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--GAACAGAGATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCACAGAGAT-A
* *
16839547 GTATCAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGACAGAGATA
1 G--CCAGTGTAAGACATGTCTGGGACATGCATCAGCCTC-ACAGAGATA
* * * * * * *
16839596 GCCAGTGTAAAACGTGTTTGGGACACGCATC-GGCT-A-AGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCACAGAGAT-A
* * * ** * *
16839640 GCTAGTGTAAGACATGTCTGGGACATGCATCAACACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-CTCACAGA-GATA
16839688 GCCAGTGTAAGACCATGTCTGGGACATGGCATCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCA
16839722 ACAATGTATC
Statistics
Matches: 236, Mismatches: 51, Indels: 51
0.70 0.15 0.15
Matches are distributed among these distances:
43 5 0.02
44 29 0.12
45 6 0.03
46 42 0.18
47 79 0.33
48 44 0.19
49 17 0.07
50 14 0.06
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCACAGAGATA
Found at i:16865299 original size:14 final size:14
Alignment explanation
Indices: 16865275--16865313 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
16865265 CAAAATGTAC
16865275 AATAT-AATTAAAT
1 AATATAAATTAAAT
16865288 AATATAAATTAAAT
1 AATATAAATTAAAT
* *
16865302 AAAATAATTTAA
1 AATATAAATTAA
16865314 TTAACTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAAATTAAAT
Found at i:16867419 original size:31 final size:31
Alignment explanation
Indices: 16867384--16867444 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
16867374 ACCTTTATAG
16867384 AAAATTTACAATAACATTTAAAAATAATAAA
1 AAAATTTACAATAACATTTAAAAATAATAAA
16867415 AAAATTTACAATAACATTTAAAAATAATAA
1 AAAATTTACAATAACATTTAAAAATAATAA
16867445 TAAAGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (31 bp):
AAAATTTACAATAACATTTAAAAATAATAAA
Found at i:16867437 original size:19 final size:19
Alignment explanation
Indices: 16867384--16867437 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
16867374 ACCTTTATAG
16867384 AAAATTTACAATAACATTT
1 AAAATTTACAATAACATTT
*
16867403 AAAA---ATAATAA-A---
1 AAAATTTACAATAACATTT
16867415 AAAATTTACAATAACATTT
1 AAAATTTACAATAACATTT
16867434 AAAA
1 AAAA
16867438 ATAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 14
0.62 0.05 0.33
Matches are distributed among these distances:
12 4 0.15
15 7 0.27
16 7 0.27
19 8 0.31
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATTTACAATAACATTT
Found at i:16869331 original size:21 final size:20
Alignment explanation
Indices: 16869305--16869521 Score: 79
Period size: 22 Copynumber: 10.1 Consensus size: 20
16869295 TTTAATGATA
*
16869305 ATAATATATAGATAAAAAAGT
1 ATAATATATA-ATAAAAAAAT
16869326 ATAATA-AT-ATAAAAATGACAT
1 ATAATATATAATAAAAA--A-AT
*
16869347 AATAATATATAATAAAATAATT
1 -ATAATATATAATAAAA-AAAT
* *
16869369 ATAATATATAAT-ATATAAT
1 ATAATATATAATAAAAAAAT
16869388 AT-ATATAATTAATAAATATATAAT
1 ATAATAT-A-TAATAAA-A-A-AAT
* *
16869412 ACAAGTA-AAAATATAATAATAAT
1 ATAA-TATATAATA-AA-AA-AAT
* *
16869435 AT-ATAAATAATAAACTAATAT
1 ATAATATATAATAAA--AAAAT
* *
16869456 ATAATAAATAATAATAATGTAA-
1 ATAATATATAATAA-AA--AAAT
16869478 ATAATATATAATAAAATAATTAT
1 ATAATATATAATAAAA-AA--AT
*
16869501 ATAATATATAATATAAAAAT
1 ATAATATATAATAAAAAAAT
16869521 A
1 A
16869522 AGGTTAAATA
Statistics
Matches: 153, Mismatches: 18, Indels: 51
0.69 0.08 0.23
Matches are distributed among these distances:
18 11 0.07
19 5 0.03
20 13 0.08
21 31 0.20
22 44 0.29
23 30 0.20
24 15 0.10
25 2 0.01
26 2 0.01
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (20 bp):
ATAATATATAATAAAAAAAT
Found at i:16869360 original size:7 final size:7
Alignment explanation
Indices: 16869348--16869515 Score: 113
Period size: 7 Copynumber: 24.1 Consensus size: 7
16869338 AAATGACATA
16869348 ATAATAT
1 ATAATAT
*
16869355 ATAATAAA
1 ATAAT-AT
16869363 ATAAT-T
1 ATAATAT
16869369 ATAATAT
1 ATAATAT
16869376 ATAATAT
1 ATAATAT
16869383 ATAATAT
1 ATAATAT
16869390 AT-ATA-
1 ATAATAT
*
16869395 ATTA-AT
1 ATAATAT
16869401 A-AATAT
1 ATAATAT
*
16869407 ATAATACA
1 ATAATA-T
*
16869415 AGTAAAAAT
1 A-T-AATAT
16869424 ATAATA-
1 ATAATAT
16869430 ATAATAT
1 ATAATAT
16869437 ATAA-AT
1 ATAATAT
16869443 AATAA-A-
1 -ATAATAT
*
16869449 CTAATAT
1 ATAATAT
*
16869456 ATAATAA
1 ATAATAT
16869463 ATAATA-
1 ATAATAT
*
16869469 ATAATGTAA
1 ATAA--TAT
16869478 ATAATAT
1 ATAATAT
*
16869485 ATAATAAA
1 ATAAT-AT
16869493 ATAATTAT
1 ATAA-TAT
16869501 ATAATAT
1 ATAATAT
16869508 ATAATAT
1 ATAATAT
16869515 A
1 A
16869516 AAAATAAGGT
Statistics
Matches: 130, Mismatches: 13, Indels: 36
0.73 0.07 0.20
Matches are distributed among these distances:
5 7 0.05
6 26 0.20
7 67 0.52
8 20 0.15
9 7 0.05
10 3 0.02
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:16869363 original size:24 final size:22
Alignment explanation
Indices: 16869302--16869575 Score: 84
Period size: 25 Copynumber: 11.6 Consensus size: 22
16869292 ACCTTTAATG
16869302 ATAATAATATATAGATAAAAA-A
1 ATAATAATATATA-ATAAAAATA
*
16869324 GT-ATAATA-AT-ATAAAAATGA
1 ATAATAATATATAATAAAAAT-A
16869344 CATAATAATATATAAT-AAAATA
1 -ATAATAATATATAATAAAAATA
*
16869366 ATTATAATATATAATATATAATATA
1 ATAATAATATATAATA-A-AA-ATA
* *
16869391 TATAATTAATAAATATATAATACA-A
1 -ATAA-TAATATATA-ATAA-AAATA
* * *
16869416 GTAAAAATATAATAATAATATATAA
1 ATAATAATAT-ATAATAA-AAAT-A
16869441 ATAATAA-ACTAATATATAATAAATA
1 ATAATAATA-T-ATA-ATAA-AAATA
* *
16869466 ATAATAATGTA-AATAATATATA
1 ATAATAATATATAATAA-AAATA
16869488 ATAAAATAATTATATAATATATAATATA
1 AT--AATAA-TATATAATA-A-AA-ATA
*
16869516 AAAATAAGGT-TA-AATAAAACA-A
1 ATAATAA--TATATAATAAAA-ATA
* * *
16869538 ATAACAATATAAAATATATATATA
1 ATAATAATATATAATA-A-AAATA
16869562 ATAATAAATATATA
1 ATAAT-AATATATA
16869576 GGGTTAGATT
Statistics
Matches: 195, Mismatches: 25, Indels: 61
0.69 0.09 0.22
Matches are distributed among these distances:
18 7 0.04
20 4 0.02
21 23 0.12
22 29 0.15
23 25 0.13
24 24 0.12
25 38 0.19
26 23 0.12
27 15 0.08
28 7 0.04
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (22 bp):
ATAATAATATATAATAAAAATA
Found at i:16869433 original size:101 final size:100
Alignment explanation
Indices: 16869326--16869513 Score: 258
Period size: 101 Copynumber: 1.9 Consensus size: 100
16869316 ATAAAAAAGT
* *
16869326 ATAATAATATAAAAATGACAT-AA-TAATATATAATAAAATAATTATAA-TATATAATATATAAT
1 ATAATAATATAAAAAT-A-ATAAACTAATATATAAT-AAATAATAATAAGTAAATAATATATAAT
*
16869388 ATATATAATTA-ATAAATATATAATACAAGTAAAAATATA
63 A-AAATAATTATAT-AATATATAATACAAGTAAAAATATA
*
16869427 ATAATAATATATAAATAATAAACTAATATATAATAAATAATAATAATGTAAATAATATATAATAA
1 ATAATAATATAAAAATAATAAACTAATATATAATAAATAATAATAA-GTAAATAATATATAATAA
16869492 AATAATTATATAATATATAATA
65 AATAATTATATAATATATAATA
16869514 TAAAAATAAG
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
99 2 0.03
100 14 0.18
101 45 0.58
102 17 0.22
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (100 bp):
ATAATAATATAAAAATAATAAACTAATATATAATAAATAATAATAAGTAAATAATATATAATAAA
ATAATTATATAATATATAATACAAGTAAAAATATA
Found at i:16869446 original size:45 final size:45
Alignment explanation
Indices: 16869346--16869506 Score: 112
Period size: 45 Copynumber: 3.7 Consensus size: 45
16869336 AAAAATGACA
* *
16869346 TAATAATATAT-AATAAAATAAT-TATAATA-TAT-AAT-ATATAA
1 TAATAATATATAAATAATA-AATATATAATACAATAAATAATATAA
*
16869387 T-AT-AT--ATAATTAATAAATATATAATACAAGTAAA-AATATAA
1 TAATAATATATAAATAATAAATATATAATACAA-TAAATAATATAA
*
16869428 TAATAATATATAAATAATAAACTA-AT-ATATAATAAATAATAATAA
1 TAATAATATATAAATAATAAA-TATATAATACAATAAATAAT-ATAA
* *
16869473 TGTAAATAATATATAATAAAATAATTATATAATA
1 --T-AATAATATATAA-ATAATAAATATATAATA
16869507 TATAATATAA
Statistics
Matches: 94, Mismatches: 7, Indels: 29
0.72 0.05 0.22
Matches are distributed among these distances:
37 5 0.05
38 12 0.13
39 3 0.03
40 3 0.03
41 10 0.11
42 2 0.02
43 6 0.06
44 8 0.09
45 17 0.18
46 2 0.02
47 1 0.01
48 14 0.15
49 8 0.09
50 3 0.03
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (45 bp):
TAATAATATATAAATAATAAATATATAATACAATAAATAATATAA
Found at i:16869522 original size:11 final size:11
Alignment explanation
Indices: 16869328--16869522 Score: 52
Period size: 11 Copynumber: 17.5 Consensus size: 11
16869318 AAAAAAGTAT
16869328 AATAATATAAA
1 AATAATATAAA
* * *
16869339 AATGACATAAT
1 AATAATATAAA
16869350 AAT-ATATAATAA
1 AATAATAT-A-AA
16869362 AATAATTATAATA
1 AATAA-TATAA-A
* *
16869375 TATAATAT-AT
1 AATAATATAAA
*
16869385 AAT-ATATATA
1 AATAATATAAA
*
16869395 ATTAATA-AATA
1 AATAATATAA-A
* *
16869406 TATAATACAAGTA
1 AATAATATAA--A
*
16869419 AA-AATATAAT
1 AATAATATAAA
*
16869429 AATAATATATA
1 AATAATATAAA
16869440 AAT-A-AT-AA
1 AATAATATAAA
* *
16869448 ACTAATAT-AT
1 AATAATATAAA
*
16869458 AATAA-ATAAT
1 AATAATATAAA
*
16869468 AATAATGTAAA
1 AATAATATAAA
16869479 TAAT-ATATAATAA
1 -AATAATAT-A-AA
16869492 AATAATTATATAA
1 AATAA-TATA-AA
16869505 TATATAATATAAA
1 -A-ATAATATAAA
16869518 AATAA
1 AATAA
16869523 GGTTAAATAA
Statistics
Matches: 136, Mismatches: 26, Indels: 44
0.66 0.13 0.21
Matches are distributed among these distances:
8 3 0.02
9 9 0.07
10 25 0.18
11 41 0.30
12 24 0.18
13 19 0.14
14 11 0.08
15 4 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (11 bp):
AATAATATAAA
Found at i:16871647 original size:239 final size:239
Alignment explanation
Indices: 16871227--16871698 Score: 741
Period size: 239 Copynumber: 2.0 Consensus size: 239
16871217 TGAGTCTGTT
* * *
16871227 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCATGTAAACACAAGAATATCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTCTTTCATGTAAACACAAGAATACCA
* ** *
16871292 AATCATCTTAGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTCTGAGAACATC
66 AATCATCTTAGATCTTACTTCAGTATAAACATCTGAAAACTAGATCTGCCATATCTGAGAACATC
* *
16871357 TGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCAAATCATGTTG
131 TGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
* *
16871422 GATGTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTC
196 GAT-CTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATGTC
*
16871467 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTCTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTCTTTCATGTAAACACAAGAATACCA
* * *
16871532 AATCATCTTGGATC-TACTTCAGTATAAACATCTGAAAACTAGATCTGCTATATTTGAGAACATC
66 AATCATCTTAGATCTTACTTCAGTATAAACATCTGAAAACTAGATCTGCCATATCTGAGAACATC
* * *
16871596 TGATAGTCAAATCTGCTATGT-CTTCGATTTGTTTCTTGTAAACACAAGAATACCAAATTATCTT
131 TGAGAGTCAAATCTGCTATGTCCTT-GATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
*
16871660 GGATCTGCTTCATTATAAACATCTGAAAGCTAGATCTGC
195 GGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGC
16871699 TATTCTGCGG
Statistics
Matches: 212, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
238 35 0.17
239 103 0.49
240 74 0.35
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (239 bp):
TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTCTTTCATGTAAACACAAGAATACCA
AATCATCTTAGATCTTACTTCAGTATAAACATCTGAAAACTAGATCTGCCATATCTGAGAACATC
TGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
GATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATGTC
Found at i:16871701 original size:119 final size:119
Alignment explanation
Indices: 16871227--16871698 Score: 739
Period size: 120 Copynumber: 3.9 Consensus size: 119
16871217 TGAGTCTGTT
* *
16871227 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCATGTAAACACAAGAATATCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATACCA
* *
16871292 AATCATCTTAGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTC
66 AATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATGTC
* *
16871347 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATACCA
* * *
16871412 AATCATGTTGGATGTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTC
66 AATCATCTTGGAT-CTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATGTC
* *
16871467 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTCTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATACCA
* * * * *
16871532 AATCATCTTGGATCTACTTCAGTATAAACATCTGAAAACTAGATCTGCTATATT
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATGTC
*
16871586 TGAGAACATCTGATAGTCAAATCTGCTATGT-CTTCGATTTGTTTCTTGTAAACACAAGAATACC
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTT-GATTTGTTTCTTGTAAACACAAGAATACC
* *
16871650 AAATTATCTTGGATCTGCTTCATTATAAACATCTGAAAGCTAGATCTGC
65 AAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGC
16871699 TATTCTGCGG
Statistics
Matches: 326, Mismatches: 24, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
118 2 0.01
119 137 0.42
120 187 0.57
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (119 bp):
TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATGTC
Found at i:16883446 original size:21 final size:20
Alignment explanation
Indices: 16883420--16883636 Score: 79
Period size: 22 Copynumber: 10.1 Consensus size: 20
16883410 TTTAATGATA
*
16883420 ATAATATATAGATAAAAAAGT
1 ATAATATATA-ATAAAAAAAT
16883441 ATAATA-AT-ATAAAAATGACAT
1 ATAATATATAATAAAAA--A-AT
*
16883462 AATAATATATAATAAAATAATT
1 -ATAATATATAATAAAA-AAAT
* *
16883484 ATAATATATAAT-ATATAAT
1 ATAATATATAATAAAAAAAT
16883503 AT-ATATAATTAATAAATATATAAT
1 ATAATAT-A-TAATAAA-A-A-AAT
* *
16883527 ACAAGTA-AAAATATAATAATAAT
1 ATAA-TATATAATA-AA-AA-AAT
* *
16883550 AT-ATAAATAATAAACTAATAT
1 ATAATATATAATAAA--AAAAT
* *
16883571 ATAATAAATAATAATAATGTAA-
1 ATAATATATAATAA-AA--AAAT
16883593 ATAATATATAATAAAATAATTAT
1 ATAATATATAATAAAA-AA--AT
*
16883616 ATAATATATAATATAAAAAT
1 ATAATATATAATAAAAAAAT
16883636 A
1 A
16883637 AGGTTAAATA
Statistics
Matches: 153, Mismatches: 18, Indels: 51
0.69 0.08 0.23
Matches are distributed among these distances:
18 11 0.07
19 5 0.03
20 13 0.08
21 31 0.20
22 44 0.29
23 30 0.20
24 15 0.10
25 2 0.01
26 2 0.01
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (20 bp):
ATAATATATAATAAAAAAAT
Found at i:16883475 original size:7 final size:7
Alignment explanation
Indices: 16883463--16883630 Score: 113
Period size: 7 Copynumber: 24.1 Consensus size: 7
16883453 AAATGACATA
16883463 ATAATAT
1 ATAATAT
*
16883470 ATAATAAA
1 ATAAT-AT
16883478 ATAAT-T
1 ATAATAT
16883484 ATAATAT
1 ATAATAT
16883491 ATAATAT
1 ATAATAT
16883498 ATAATAT
1 ATAATAT
16883505 AT-ATA-
1 ATAATAT
*
16883510 ATTA-AT
1 ATAATAT
16883516 A-AATAT
1 ATAATAT
*
16883522 ATAATACA
1 ATAATA-T
*
16883530 AGTAAAAAT
1 A-T-AATAT
16883539 ATAATA-
1 ATAATAT
16883545 ATAATAT
1 ATAATAT
16883552 ATAA-AT
1 ATAATAT
16883558 AATAA-A-
1 -ATAATAT
*
16883564 CTAATAT
1 ATAATAT
*
16883571 ATAATAA
1 ATAATAT
16883578 ATAATA-
1 ATAATAT
*
16883584 ATAATGTAA
1 ATAA--TAT
16883593 ATAATAT
1 ATAATAT
*
16883600 ATAATAAA
1 ATAAT-AT
16883608 ATAATTAT
1 ATAA-TAT
16883616 ATAATAT
1 ATAATAT
16883623 ATAATAT
1 ATAATAT
16883630 A
1 A
16883631 AAAATAAGGT
Statistics
Matches: 130, Mismatches: 13, Indels: 36
0.73 0.07 0.20
Matches are distributed among these distances:
5 7 0.05
6 26 0.20
7 67 0.52
8 20 0.15
9 7 0.05
10 3 0.02
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:16883478 original size:24 final size:22
Alignment explanation
Indices: 16883417--16883621 Score: 84
Period size: 25 Copynumber: 8.7 Consensus size: 22
16883407 ACCTTTAATG
16883417 ATAATAATATATAGATAAAAA-A
1 ATAATAATATATA-ATAAAAATA
*
16883439 GT-ATAATA-AT-ATAAAAATGA
1 ATAATAATATATAATAAAAAT-A
16883459 CATAATAATATATAAT-AAAATA
1 -ATAATAATATATAATAAAAATA
*
16883481 ATTATAATATATAATATATAATATA
1 ATAATAATATATAATA-A-AA-ATA
* *
16883506 TATAATTAATAAATATATAATACA-A
1 -ATAA-TAATATATA-ATAA-AAATA
* * *
16883531 GTAAAAATATAATAATAATATATAA
1 ATAATAATAT-ATAATAA-AAAT-A
16883556 ATAATAA-ACTAATATATAATAAATA
1 ATAATAATA-T-ATA-ATAA-AAATA
* *
16883581 ATAATAATGTA-AATAATATATA
1 ATAATAATATATAATAA-AAATA
16883603 ATAAAATAATTATATAATA
1 AT--AATAA-TATATAATA
16883622 TATAATATAA
Statistics
Matches: 144, Mismatches: 16, Indels: 42
0.71 0.08 0.21
Matches are distributed among these distances:
18 7 0.05
20 3 0.02
21 21 0.15
22 19 0.13
23 20 0.14
24 17 0.12
25 27 0.19
26 16 0.11
27 11 0.08
28 3 0.02
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (22 bp):
ATAATAATATATAATAAAAATA
Found at i:16883550 original size:101 final size:100
Alignment explanation
Indices: 16883441--16883628 Score: 258
Period size: 101 Copynumber: 1.9 Consensus size: 100
16883431 ATAAAAAAGT
* *
16883441 ATAATAATATAAAAATGACAT-AA-TAATATATAATAAAATAATTATAA-TATATAATATATAAT
1 ATAATAATATAAAAAT-A-ATAAACTAATATATAAT-AAATAATAATAAGTAAATAATATATAAT
*
16883503 ATATATAATTA-ATAAATATATAATACAAGTAAAAATATA
63 A-AAATAATTATAT-AATATATAATACAAGTAAAAATATA
*
16883542 ATAATAATATATAAATAATAAACTAATATATAATAAATAATAATAATGTAAATAATATATAATAA
1 ATAATAATATAAAAATAATAAACTAATATATAATAAATAATAATAA-GTAAATAATATATAATAA
16883607 AATAATTATATAATATATAATA
65 AATAATTATATAATATATAATA
16883629 TAAAAATAAG
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
99 2 0.03
100 14 0.18
101 45 0.58
102 17 0.22
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (100 bp):
ATAATAATATAAAAATAATAAACTAATATATAATAAATAATAATAAGTAAATAATATATAATAAA
ATAATTATATAATATATAATACAAGTAAAAATATA
Found at i:16883561 original size:45 final size:45
Alignment explanation
Indices: 16883461--16883621 Score: 112
Period size: 45 Copynumber: 3.7 Consensus size: 45
16883451 AAAAATGACA
* *
16883461 TAATAATATAT-AATAAAATAAT-TATAATA-TAT-AAT-ATATAA
1 TAATAATATATAAATAATA-AATATATAATACAATAAATAATATAA
*
16883502 T-AT-AT--ATAATTAATAAATATATAATACAAGTAAA-AATATAA
1 TAATAATATATAAATAATAAATATATAATACAA-TAAATAATATAA
*
16883543 TAATAATATATAAATAATAAACTA-AT-ATATAATAAATAATAATAA
1 TAATAATATATAAATAATAAA-TATATAATACAATAAATAAT-ATAA
* *
16883588 TGTAAATAATATATAATAAAATAATTATATAATA
1 --T-AATAATATATAA-ATAATAAATATATAATA
16883622 TATAATATAA
Statistics
Matches: 94, Mismatches: 7, Indels: 29
0.72 0.05 0.22
Matches are distributed among these distances:
37 5 0.05
38 12 0.13
39 3 0.03
40 3 0.03
41 10 0.11
42 2 0.02
43 6 0.06
44 8 0.09
45 17 0.18
46 2 0.02
47 1 0.01
48 14 0.15
49 8 0.09
50 3 0.03
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (45 bp):
TAATAATATATAAATAATAAATATATAATACAATAAATAATATAA
Found at i:16883574 original size:130 final size:133
Alignment explanation
Indices: 16883380--16883630 Score: 322
Period size: 132 Copynumber: 1.9 Consensus size: 133
16883370 ACAATTGNAA
* * * *
16883380 TAATAAGTATATAATACAAGTTAAAAAACCTTTAATGATAATAATATATAGATAAAAAAGTATAA
1 TAATAAATATATAATACAAGTTAAAAAA-CTATAATAATAATAATAAATAGATAAAAAAGTATAA
16883445 T-AAT-ATAAAAATGACATAATAATATATAATAAAATAA-T-TATAATATATAATATATAATATA
65 TAAATAATAAAAATG-CA-AATAATATATAATAAAATAATTATATAATATATAATATATAATATA
16883506 TATAAT
128 TATAAT
16883512 TAATAAATATATAATACAAG-T-AAAAA-TATAATAATAATATATAAATA-ATAAACTAATA-TA
1 TAATAAATATATAATACAAGTTAAAAAACTATAATAATAATA-ATAAATAGATAAA--AA-AGTA
* *
16883572 TAATAAATAATAATAATGTAAATAATATATAATAAAATAATTATATAATATATAATATA
62 TAATAAATAATAAAAATGCAAATAATATATAATAAAATAATTATATAATATATAATATA
16883631 AAAATAAGGT
Statistics
Matches: 105, Mismatches: 6, Indels: 16
0.83 0.05 0.13
Matches are distributed among these distances:
128 16 0.15
129 6 0.06
130 33 0.31
131 7 0.07
132 43 0.41
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (133 bp):
TAATAAATATATAATACAAGTTAAAAAACTATAATAATAATAATAAATAGATAAAAAAGTATAAT
AAATAATAAAAATGCAAATAATATATAATAAAATAATTATATAATATATAATATATAATATATAT
AAT
Found at i:16883637 original size:11 final size:11
Alignment explanation
Indices: 16883443--16883637 Score: 52
Period size: 11 Copynumber: 17.5 Consensus size: 11
16883433 AAAAAAGTAT
16883443 AATAATATAAA
1 AATAATATAAA
* * *
16883454 AATGACATAAT
1 AATAATATAAA
16883465 AAT-ATATAATAA
1 AATAATAT-A-AA
16883477 AATAATTATAATA
1 AATAA-TATAA-A
* *
16883490 TATAATAT-AT
1 AATAATATAAA
*
16883500 AAT-ATATATA
1 AATAATATAAA
*
16883510 ATTAATA-AATA
1 AATAATATAA-A
* *
16883521 TATAATACAAGTA
1 AATAATATAA--A
*
16883534 AA-AATATAAT
1 AATAATATAAA
*
16883544 AATAATATATA
1 AATAATATAAA
16883555 AAT-A-AT-AA
1 AATAATATAAA
* *
16883563 ACTAATAT-AT
1 AATAATATAAA
*
16883573 AATAA-ATAAT
1 AATAATATAAA
*
16883583 AATAATGTAAA
1 AATAATATAAA
16883594 TAAT-ATATAATAA
1 -AATAATAT-A-AA
16883607 AATAATTATATAA
1 AATAA-TATA-AA
16883620 TATATAATATAAA
1 -A-ATAATATAAA
16883633 AATAA
1 AATAA
16883638 GGTTAAATAA
Statistics
Matches: 136, Mismatches: 26, Indels: 44
0.66 0.13 0.21
Matches are distributed among these distances:
8 3 0.02
9 9 0.07
10 25 0.18
11 41 0.30
12 24 0.18
13 19 0.14
14 11 0.08
15 4 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (11 bp):
AATAATATAAA
Found at i:16883677 original size:21 final size:21
Alignment explanation
Indices: 16883653--16883693 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16883643 AATAAAACAA
16883653 ATAACAAT-ATAAAATATATAT
1 ATAACAATAAT-AAATATATAT
*
16883674 ATAATAATAATAAATATATA
1 ATAACAATAATAAATATATA
16883694 GGGTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAACAATAATAAATATATAT
Found at i:16885330 original size:22 final size:22
Alignment explanation
Indices: 16885305--16885347 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
16885295 ATCGTGAATC
16885305 ATCCTCTCAAAACTCATATCAT
1 ATCCTCTCAAAACTCATATCAT
*
16885327 ATCCTCTCAAAACTCTTATCA
1 ATCCTCTCAAAACTCATATCA
16885348 AACTGAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
ATCCTCTCAAAACTCATATCAT
Found at i:16889007 original size:5 final size:5
Alignment explanation
Indices: 16888999--16889045 Score: 76
Period size: 5 Copynumber: 9.4 Consensus size: 5
16888989 TAATAAAATA
* *
16888999 ATTAT ATTAT ATTAT ATTAT ATTGT ATTAT ATTAT ACTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
16889046 AGATTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:16890591 original size:24 final size:22
Alignment explanation
Indices: 16890560--16890609 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
16890550 CCTAAAAATG
*
16890560 AAAATAAACATAC-AAAACAATAT
1 AAAATAAA-AAACTAAAAC-ATAT
16890583 AAAAGTAAAAAACTAAAACATAT
1 AAAA-TAAAAAACTAAAACATAT
16890606 AAAA
1 AAAA
16890610 AAATGTGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.72, C:0.10, G:0.02, T:0.16
Consensus pattern (22 bp):
AAAATAAAAAACTAAAACATAT
Found at i:16901418 original size:39 final size:39
Alignment explanation
Indices: 16901364--16901559 Score: 220
Period size: 39 Copynumber: 5.0 Consensus size: 39
16901354 TTCAGTGATG
16901364 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
16901403 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
16901442 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
16901481 TATGTCCGGGC-TAAAGTCCCGCAGGCT-TCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTAT-GTGCTGGAAT
** **
16901520 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG-AAT
16901559 T
1 T
16901560 GGTTTCAAGT
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
38 16 0.12
39 121 0.88
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:16904673 original size:46 final size:46
Alignment explanation
Indices: 16904606--16904779 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
16904596 TAAGGTGCCG
*
16904606 ATGCCATGTCCCAGACATGGTCTGACACTGGCTCACATCTCAAGTC-
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAG-CA
* *
16904652 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTC-AAGCA
* * * * *
16904699 GATG-CATGTCCGAGACAT-GTCTTACACTAGCCCTCGTCTCAATGCCA
1 -ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA-G-CA
*
16904746 ATGCCATGTCCCAGACATGGTCTTACATTGGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC
16904780 TCATAATGTG
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.02
46 58 0.55
47 30 0.29
48 15 0.14
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGCA
Found at i:16904766 original size:94 final size:94
Alignment explanation
Indices: 16904652--16904823 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
16904642 ATCTCAAGTC
* *
16904652 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCAT-CTCGTAGCAGATGCATGTCCGAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATAAT-GTAGCAGATGCATGTCCGACACA
16904716 TGTCTTACACTAGCCCTCGTCTCAATGCCA
65 TGTCTTACACTAGCCCTCGTCTCAATGCCA
* * * * **
16904746 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGTGGATGCATGTCCGACACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATAATGTAGCAGATGCATGTCCGACACAT
16904811 GTCTTACACTAGC
66 GTCTTACACTAGC
16904824 AAATAATAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
94 68 0.99
95 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (94 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATAATGTAGCAGATGCATGTCCGACACAT
GTCTTACACTAGCCCTCGTCTCAATGCCA
Found at i:16907676 original size:20 final size:19
Alignment explanation
Indices: 16907647--16907685 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
16907637 TTCTTTCCTT
16907647 TTTCTTTATTCTT-TTATTA
1 TTTCTTTATT-TTATTATTA
16907666 TTTCTTTTATTTTATTATTA
1 TTTC-TTTATTTTATTATTA
16907686 ACTATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTTTATTTTATTATTA
Found at i:16911640 original size:28 final size:29
Alignment explanation
Indices: 16911603--16911668 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
16911593 TAAACTGATT
*
16911603 TTGAGTAAAAATGTATATT-AG-GGATTAAA
1 TTGAG-AAAAATGTAAATTGAGAGG-TTAAA
*
16911632 TTGAGAAAAGTGTAAATTGAGAGGTTAAA
1 TTGAGAAAAATGTAAATTGAGAGGTTAAA
*
16911661 TTGTGAAA
1 TTGAGAAA
16911669 TAAATGAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 11 0.34
29 19 0.59
30 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGAGGTTAAA
Found at i:16917552 original size:27 final size:27
Alignment explanation
Indices: 16917514--16917573 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
16917504 CCACGGTTTG
* *
16917514 TTGGACCATATGAAATTACAGAAAGAA
1 TTGGACCATATGAAATGACAAAAAGAA
16917541 TTGGACCATATGAAATGACAAAAAGAA
1 TTGGACCATATGAAATGACAAAAAGAA
16917568 TTGGAC
1 TTGGAC
16917574 TTGTTGCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.22
Consensus pattern (27 bp):
TTGGACCATATGAAATGACAAAAAGAA
Found at i:16920559 original size:20 final size:20
Alignment explanation
Indices: 16920534--16920583 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
16920524 CTTGTAACTT
16920534 GAAAAATTTTTAAATTTTGC
1 GAAAAATTTTTAAATTTTGC
* *
16920554 GAAAAATTTTGAAATTTTGT
1 GAAAAATTTTTAAATTTTGC
16920574 G-AAAATTTTT
1 GAAAAATTTTT
16920584 TGGAGTTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (20 bp):
GAAAAATTTTTAAATTTTGC
Found at i:16926357 original size:45 final size:45
Alignment explanation
Indices: 16926269--16926362 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
16926259 GAATGAATAG
*
16926269 AAATGGAGAAATGAAAAAAATTCAGAAATGATTATGATTTTCTTCA
1 AAATGGAGAAATGAAAAAAATTCAGAAATGAATATGATTTTCTT-A
** ** * *
16926315 AAATGGAGAAATG-AAATCATTTGGAAATGAATGTGGTTTTCTTA
1 AAATGGAGAAATGAAAAAAATTCAGAAATGAATATGATTTTCTTA
16926359 AAAT
1 AAAT
16926363 AAAAATGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 5 0.12
45 23 0.56
46 13 0.32
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (45 bp):
AAATGGAGAAATGAAAAAAATTCAGAAATGAATATGATTTTCTTA
Found at i:16931621 original size:43 final size:43
Alignment explanation
Indices: 16931583--16931699 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
16931573 TCGATGCCGC
* *
16931583 TGTCCCAGACAGGGTCTTACACGAAATCATAATACGATGCTAA
1 TGTCCCAGACATGGTCTTACACGAAATCACAATACGATGCTAA
* * * *
16931626 TGTCCCAGGCATGGTCTTACACGTAATCACAATACAATACTAA
1 TGTCCCAGACATGGTCTTACACGAAATCACAATACGATGCTAA
* *
16931669 TGTCCCAGACATGGTCTTACATGTAATCACA
1 TGTCCCAGACATGGTCTTACACGAAATCACA
16931700 TCTCGATAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGAAATCACAATACGATGCTAA
Found at i:16939570 original size:47 final size:48
Alignment explanation
Indices: 16939497--16939813 Score: 212
Period size: 47 Copynumber: 6.7 Consensus size: 48
16939487 AATTTCTTGT
*
16939497 GTGCCAGTGTAAG-CCATGTCTGGGACATGCATCAGCCAC-ATTATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCACGATGATGA
* ** *
16939543 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCGTA-GA-GATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGC-CACGATGATGA
* * * * *
16939591 GTGCCAGTGTAAGA-TATGTCTGGGACAAGTATCGGCCTCGATGATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCACGATGATGA
** * * * * * *
16939638 -TAGCCAGTGTAAGA-TGTGTCTGGAAGATGCATCGGCTAAGA-G-T-C
1 GT-GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCACGATGATGA
*
16939682 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAG-CACGTAT-ATACGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCACG-ATGAT--GA
* * * * *
16939730 GAGCTAGTATAAGACCATGTCTAGGACATGGCATCAGCCTCGATGATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCACGATGATGA
* * *
16939779 -TAGCCTGTGTGAGACCATGTCTGGAACATGGCATC
1 GT-GCCAGTGTAAGACCATGTCTGGGACAT-GCATC
16939814 GGCAACTTAT
Statistics
Matches: 211, Mismatches: 41, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
43 2 0.01
44 28 0.13
45 3 0.01
46 23 0.11
47 61 0.29
48 36 0.17
49 44 0.21
50 9 0.04
51 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCACGATGATGA
Found at i:16940664 original size:42 final size:42
Alignment explanation
Indices: 16940604--16940696 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
16940594 ACAGGTAGGC
*
16940604 CACACGGACGTGTGTCATGGCCATGTTTTAAAGTCAGTGTTG
1 CACACGGGCGTGTGTCATGGCCATGTTTTAAAGTCAGTGTTG
* *
16940646 TACACGGGCGTGTGTCATGGCCGTGTTTTAAAGTCAGTGTTG
1 CACACGGGCGTGTGTCATGGCCATGTTTTAAAGTCAGTGTTG
16940688 CACACGGGC
1 CACACGGGC
16940697 TAAGGGCACG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.29
Consensus pattern (42 bp):
CACACGGGCGTGTGTCATGGCCATGTTTTAAAGTCAGTGTTG
Found at i:16941980 original size:43 final size:43
Alignment explanation
Indices: 16941861--16941982 Score: 172
Period size: 43 Copynumber: 2.8 Consensus size: 43
16941851 TCACATATCG
* * * * *
16941861 ATGCCACTGTCCCAGACAGGGTCTTACAAGAAATCATAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACAAGTAATCAAAATACA
*
16941904 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACAAGTAATCAAAATACA
* *
16941947 ATGTCAATGTCCCAGACATGGTCTTACATGTAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACAAGTAATCA
16941983 CATCTCGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACAAGTAATCAAAATACA
Found at i:16942507 original size:28 final size:29
Alignment explanation
Indices: 16942466--16942522 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
16942456 ATTTTACAAT
* *
16942466 TTAACCCCTTAATTTACACTTTTCTCAAA
1 TTAAACCCTTAATTGACACTTTTCTCAAA
* *
16942495 TTAAACCC-TAATTGACATTTTTGTCAAA
1 TTAAACCCTTAATTGACACTTTTCTCAAA
16942523 AATCACTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (29 bp):
TTAAACCCTTAATTGACACTTTTCTCAAA
Found at i:16943430 original size:13 final size:13
Alignment explanation
Indices: 16943404--16943474 Score: 54
Period size: 13 Copynumber: 5.5 Consensus size: 13
16943394 CTTGCGATTC
**
16943404 CACTTAGCAATAT
1 CACTTAGCGGTAT
16943417 CACTTAGCGGTAT
1 CACTTAGCGGTAT
* * *
16943430 CATTTAGTGGTAG
1 CACTTAGCGGTAT
** *
16943443 CACTTAATGGTAG
1 CACTTAGCGGTAT
16943456 CACTTAG-GAGTAT
1 CACTTAGCG-GTAT
16943469 CACTTA
1 CACTTA
16943475 TTAGTATCAC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
12 1 0.02
13 47 0.98
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (13 bp):
CACTTAGCGGTAT
Found at i:16945252 original size:32 final size:33
Alignment explanation
Indices: 16945215--16945277 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
16945205 ATTTTTTTAT
16945215 AAATATGT-TTGGTGGTTGAACATAAAATATAA
1 AAATATGTATTGGTGGTTGAACATAAAATATAA
* *
16945247 AAATATGTATTGTTGGTTGAACATAGAATAT
1 AAATATGTATTGGTGGTTGAACATAAAATAT
16945278 TAGCAAAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 8 0.29
33 20 0.71
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (33 bp):
AAATATGTATTGGTGGTTGAACATAAAATATAA
Found at i:16947159 original size:26 final size:27
Alignment explanation
Indices: 16947076--16947159 Score: 77
Period size: 26 Copynumber: 3.2 Consensus size: 27
16947066 TAAATATTTT
* *
16947076 AAAATATATATAA--TAATAAAGATA-A
1 AAAATATATAAAATTTAA-AAAAATATA
* *
16947101 AAAATATATAAAATTTAAAAATATGTA
1 AAAATATATAAAATTTAAAAAAATATA
*
16947128 AAAATATAT-AATTTTAAAAAAATATA
1 AAAATATATAAAATTTAAAAAAATATA
*
16947154 ATAATA
1 AAAATA
16947160 AATTTAAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
25 12 0.24
26 24 0.49
27 13 0.27
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAATATATAAAATTTAAAAAAATATA
Found at i:16947414 original size:29 final size:30
Alignment explanation
Indices: 16947382--16947438 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
16947372 AAATAGTAAA
16947382 AATAAA-TTATAATTTAAT-TTCTTAAAAAT
1 AATAAATTTATAATTTAATCTT-TTAAAAAT
*
16947411 AATAAATTTTTAATTTAATCTTTTAAAA
1 AATAAATTTATAATTTAATCTTTTAAAA
16947439 TTTATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 6 0.24
30 17 0.68
31 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (30 bp):
AATAAATTTATAATTTAATCTTTTAAAAAT
Found at i:16948057 original size:19 final size:20
Alignment explanation
Indices: 16948035--16948072 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
16948025 AATATTAAGA
* *
16948035 TTAATATTTGTAT-ATATTT
1 TTAAAATTTATATAATATTT
16948054 TTAAAATTTATATAATATT
1 TTAAAATTTATATAATATT
16948073 ATTTTTGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTAAAATTTATATAATATTT
Found at i:16948066 original size:25 final size:24
Alignment explanation
Indices: 16948029--16948135 Score: 69
Period size: 25 Copynumber: 4.3 Consensus size: 24
16948019 TTATTTAATA
* *
16948029 TTAAGATTAATATTTGTATATATTT
1 TTAAAATTTATATTT-TATATATTT
**
16948054 TTAAAATTTATATAATAT-TATTTT
1 TTAAAATTTATATTTTATATA-TTT
*
16948078 TGTCAACAATTTTTATTTT-TATATATT
1 T-T-AA-AATTTATATTTTATATAT-TT
16948105 TT-AAATTT-TATTATTATATATTT
1 TTAAAATTTATATT-TTATATATTT
16948128 TTGAAAAT
1 TT-AAAAT
16948136 ATTTATGCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
22 4 0.06
23 13 0.20
24 13 0.20
25 16 0.25
26 5 0.08
27 14 0.22
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
TTAAAATTTATATTTTATATATTT
Found at i:16949640 original size:7 final size:7
Alignment explanation
Indices: 16949628--16949660 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
16949618 TTCTTAAACA
16949628 ATATGAG
1 ATATGAG
16949635 ATATGAG
1 ATATGAG
16949642 ATATGAG
1 ATATGAG
16949649 ATATGAG
1 ATATGAG
16949656 ATATG
1 ATATG
16949661 TGTATATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (7 bp):
ATATGAG
Found at i:16949669 original size:8 final size:8
Alignment explanation
Indices: 16949656--16949693 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
16949646 GAGATATGAG
16949656 ATATGTGT
1 ATATGTGT
16949664 ATATGTGT
1 ATATGTGT
16949672 ATATGTGT
1 ATATGTGT
16949680 ATATGTGT
1 ATATGTGT
16949688 ATATGT
1 ATATGT
16949694 AAACTAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (8 bp):
ATATGTGT
Found at i:16950047 original size:3 final size:3
Alignment explanation
Indices: 16950013--16950087 Score: 59
Period size: 3 Copynumber: 26.0 Consensus size: 3
16950003 CCTGGGCAGT
* * * *
16950013 AGA AGA AGG AG- AGA AAA AAA AGA ATA AG- AGA AGA A-A CAG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
* *
16950055 AGA AGA AGA AGA AGA AAA AGA AGA AGA ATA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
16950088 GAAAATGGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
2 7 0.12
3 51 0.88
ACGTcount: A:0.68, C:0.01, G:0.28, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:16950053 original size:28 final size:28
Alignment explanation
Indices: 16950013--16950069 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
16950003 CCTGGGCAGT
** *
16950013 AGAAGAAGGAGAGAAAAAAAAGAATAAG
1 AGAAGAAACAGAGAAAAAAAAGAAGAAG
* *
16950041 AGAAGAAACAGAGAAGAAGAAGAAGAAG
1 AGAAGAAACAGAGAAAAAAAAGAAGAAG
16950069 A
1 A
16950070 AAAAGAAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.02
Consensus pattern (28 bp):
AGAAGAAACAGAGAAAAAAAAGAAGAAG
Found at i:16950953 original size:40 final size:40
Alignment explanation
Indices: 16950916--16951140 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
16950906 GCTACTCGTT
* *
16950916 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
16950956 CAAATGCCTTCGGGACTTAACGCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
16950996 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
16951036 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * ** *
16951075 CAAATGTCTTC-GGATCTTAGTCCGGATATGGTCGCTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16951116 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16951141 CATCATTCGA
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 115 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16951101 original size:119 final size:120
Alignment explanation
Indices: 16950918--16951140 Score: 285
Period size: 119 Copynumber: 1.9 Consensus size: 120
16950908 TACTCGTTCA
*
16950918 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACGCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACGCGGAT
* *
16950983 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * *
16951038 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGTCTTC-GGATCTTAGTC-CG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACGCG
* ** *
16951099 GATATGGTCGCTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 GATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
16951141 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
118 4 0.04
119 64 0.72
120 21 0.24
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACGCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:16954079 original size:20 final size:21
Alignment explanation
Indices: 16954054--16954111 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
16954044 TGTGGGAGAA
* *
16954054 AGAAGATGAAGAGAAAAT-AG
1 AGAAGATAAAGAGAAAATAAC
*
16954074 AGAAGA-ACAAGAAAAAATAAC
1 AGAAGATA-AAGAGAAAATAAC
16954095 AGAAGCATAAAGAGAAA
1 AGAAG-ATAAAGAGAAA
16954112 GAGGTTGAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 15 0.50
21 6 0.20
22 8 0.27
23 1 0.03
ACGTcount: A:0.66, C:0.05, G:0.22, T:0.07
Consensus pattern (21 bp):
AGAAGATAAAGAGAAAATAAC
Found at i:16954191 original size:26 final size:26
Alignment explanation
Indices: 16954151--16954202 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
16954141 AGATGAGAAG
16954151 AAAAATCATTCTGGCCAATCATCTTT
1 AAAAATCATTCTGGCCAATCATCTTT
*
16954177 AAAAATCATTTTGGCCAATCATCTTT
1 AAAAATCATTCTGGCCAATCATCTTT
16954203 TCTTTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.37
Consensus pattern (26 bp):
AAAAATCATTCTGGCCAATCATCTTT
Found at i:16954270 original size:17 final size:17
Alignment explanation
Indices: 16954248--16954283 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
16954238 CGTGGCAAGT
16954248 TAACTGGCCACATCAAC
1 TAACTGGCCACATCAAC
16954265 TAACTGGCCACATCAAC
1 TAACTGGCCACATCAAC
16954282 TA
1 TA
16954284 GTTAACTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.11, T:0.19
Consensus pattern (17 bp):
TAACTGGCCACATCAAC
Found at i:16954295 original size:21 final size:20
Alignment explanation
Indices: 16954245--16954295 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 20
16954235 TTACGTGGCA
16954245 AGTTAACTGGCCACATCAAC
1 AGTTAACTGGCCACATCAAC
16954265 ---TAACTGGCCACATCAAC
1 AGTTAACTGGCCACATCAAC
*
16954282 TAGTTAACTTGCCA
1 -AGTTAACTGGCCA
16954296 TGTCAGCGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 17 0.65
21 9 0.35
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAAC
Found at i:16962990 original size:27 final size:28
Alignment explanation
Indices: 16962960--16963015 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
16962950 TTATTATTAA
*
16962960 TAAACTAAT-ATTTTAATTGATATTTTT
1 TAAAATAATCATTTTAATTGATATTTTT
* *
16962987 TAAAATTATCATTTTAATTGATTTTTTT
1 TAAAATAATCATTTTAATTGATATTTTT
16963015 T
1 T
16963016 TTTGTTTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (28 bp):
TAAAATAATCATTTTAATTGATATTTTT
Found at i:16963870 original size:25 final size:25
Alignment explanation
Indices: 16963816--16963863 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16963806 AACGCAATTC
* *
16963816 AAACAGAACAGAATTGAATAGAGCA
1 AAACAGAACAGAATGGAACAGAGCA
*
16963841 AAACAGAACAGGATGGAACAGAG
1 AAACAGAACAGAATGGAACAGAG
16963864 TAGAACAATA
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:0.54, C:0.12, G:0.25, T:0.08
Consensus pattern (25 bp):
AAACAGAACAGAATGGAACAGAGCA
Found at i:16963902 original size:15 final size:15
Alignment explanation
Indices: 16963884--16963922 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
16963874 CTGAACTGAA
16963884 CAGAACGAAACAGAG
1 CAGAACGAAACAGAG
*
16963899 CAGAGC-AGAACAGAG
1 CAGAACGA-AACAGAG
16963914 CAGAACGAA
1 CAGAACGAA
16963923 GCATGTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.05
15 18 0.90
16 1 0.05
ACGTcount: A:0.51, C:0.21, G:0.28, T:0.00
Consensus pattern (15 bp):
CAGAACGAAACAGAG
Found at i:16966452 original size:46 final size:44
Alignment explanation
Indices: 16966359--16966485 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 44
16966349 GCTATAGCAT
**
16966359 ATCT-GTA-CCGATGCCATGTCCCGGACATGGTCTTACACTGACAC
1 ATCTCGTAGCCGATG-CATGTCCCAAACAT-GTCTTACACTGACAC
*
16966403 ATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTAC
1 ATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGAC--AC
*
16966449 ATCTCG-AGGCCGATGCATGTCCCATACATGTCTTACA
1 ATCTCGTA-GCCGATGCATGTCCCAAACATGTCTTACA
16966486 TTAGCACTTG
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
44 16 0.22
45 16 0.22
46 42 0.57
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (44 bp):
ATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGACAC
Found at i:16968790 original size:41 final size:41
Alignment explanation
Indices: 16968733--16968815 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
16968723 ACCTTTTGTC
16968733 ATGTGAATCACATTTCCATATTTATTAAAAAATAACTCTCA
1 ATGTGAATCACATTTCCATATTTATTAAAAAATAACTCTCA
16968774 ATGTGAATCACATTTCCATATTTATTAAAAAATAACTCTCA
1 ATGTGAATCACATTTCCATATTTATTAAAAAATAACTCTCA
16968815 A
1 A
16968816 GGGAAAGTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (41 bp):
ATGTGAATCACATTTCCATATTTATTAAAAAATAACTCTCA
Found at i:16971662 original size:11 final size:11
Alignment explanation
Indices: 16971646--16971670 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16971636 TACCGTTTGG
16971646 CACAAGTTATA
1 CACAAGTTATA
16971657 CACAAGTTATA
1 CACAAGTTATA
16971668 CAC
1 CAC
16971671 GACAGGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (11 bp):
CACAAGTTATA
Found at i:16972659 original size:16 final size:16
Alignment explanation
Indices: 16972601--16972659 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
16972591 ACACAAAAAC
*
16972601 AAAAACAAAAACAAAT
1 AAAAACAAAAACAACT
*
16972617 CAAAAC-AAAACAAACT
1 AAAAACAAAAAC-AACT
*
16972633 AGAAAA-TAAAACAACT
1 A-AAAACAAAAACAACT
16972649 AAAAACAAAAA
1 AAAAACAAAAA
16972660 ATAAACATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 9 0.26
16 17 0.49
17 9 0.26
ACGTcount: A:0.76, C:0.15, G:0.02, T:0.07
Consensus pattern (16 bp):
AAAAACAAAAACAACT
Found at i:16973121 original size:19 final size:19
Alignment explanation
Indices: 16973097--16973133 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16973087 ATTGATTCTA
16973097 GGTTGCATGCTACCAATTG
1 GGTTGCATGCTACCAATTG
*
16973116 GGTTGCATGTTACCAATT
1 GGTTGCATGCTACCAATT
16973134 CATGCATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (19 bp):
GGTTGCATGCTACCAATTG
Found at i:16973482 original size:7 final size:7
Alignment explanation
Indices: 16973472--16973501 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
16973462 TTGTGATACA
16973472 TGATATG
1 TGATATG
16973479 TGATATG
1 TGATATG
*
16973486 TGATATA
1 TGATATG
16973493 TGATATG
1 TGATATG
16973500 TG
1 TG
16973502 TTGATGGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (7 bp):
TGATATG
Found at i:16974888 original size:18 final size:18
Alignment explanation
Indices: 16974854--16975131 Score: 186
Period size: 18 Copynumber: 15.1 Consensus size: 18
16974844 TCATTAACAC
* *
16974854 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
16974871 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAGTTAT
* *
16974889 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
16974907 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
16974925 TCAGTATCGATCAATTGATCGGTTAT
1 TCAGTA---A-C-A---ATCAGTTAT
* * *
16974951 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
16974969 TCAGTAA-AATTAGATAT
1 TCAGTAACAATCAGTTAT
*
16974986 TCAGTAACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
* *
16975005 TCAGTAGCAGTCA-TTCAT
1 TCAGTAACAATCAGTT-AT
*
16975023 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
16975041 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* *
16975059 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAGTTAT
16975077 TCAGTAACAATCTA-TTAT
1 TCAGTAACAATC-AGTTAT
* * *
16975095 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
*
16975113 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAGTTAT
16975131 T
1 T
16975132 TTATACCTTT
Statistics
Matches: 199, Mismatches: 47, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
17 20 0.10
18 145 0.73
19 17 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 12 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:16974988 original size:17 final size:19
Alignment explanation
Indices: 16974966--16975010 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
16974956 AACAGTCAAT
16974966 TATTCAGTAA-AATT-AGA
1 TATTCAGTAACAATTAAGA
*
16974983 TATTCAGTAACAATTAAGT
1 TATTCAGTAACAATTAAGA
16975002 TATTCAGTA
1 TATTCAGTA
16975011 GCAGTCATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 10 0.40
18 4 0.16
19 11 0.44
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (19 bp):
TATTCAGTAACAATTAAGA
Found at i:16975346 original size:45 final size:45
Alignment explanation
Indices: 16975295--16975397 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
16975285 ACAAATCCGG
* *
16975295 AACAGTAACAGTATTCAACACACAAAGTGT-TGAATCGATAACGGT
1 AACAGTAACAGTATTCAACACACAAAGT-TCCGAATCGATAACAGT
* *
16975340 AACAGTAACAGTATTCGACACACAAAGTTCCGAATCGGTAACAGT
1 AACAGTAACAGTATTCAACACACAAAGTTCCGAATCGATAACAGT
*
16975385 AACGGTAACAGTA
1 AACAGTAACAGTA
16975398 ACAGTAGTCG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
44 1 0.02
45 51 0.98
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (45 bp):
AACAGTAACAGTATTCAACACACAAAGTTCCGAATCGATAACAGT
Found at i:16975392 original size:12 final size:12
Alignment explanation
Indices: 16975375--16975399 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16975365 AGTTCCGAAT
16975375 CGGTAACAGTAA
1 CGGTAACAGTAA
16975387 CGGTAACAGTAA
1 CGGTAACAGTAA
16975399 C
1 C
16975400 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:16977155 original size:5 final size:5
Alignment explanation
Indices: 16977147--16977179 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
16977137 TTTATATAAT
16977147 ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA
16977180 ACAATTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:16977311 original size:21 final size:22
Alignment explanation
Indices: 16977272--16977324 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
16977262 CATACAATTG
*
16977272 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
16977294 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
16977314 ATAAAATAATA
1 TTAAAATAATA
16977325 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:16978004 original size:46 final size:46
Alignment explanation
Indices: 16977901--16978223 Score: 210
Period size: 46 Copynumber: 6.8 Consensus size: 46
16977891 TGGTTATTAT
* *
16977901 GAGCCAGTGTAAGACCATGTCTGGGGCATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATGGAGACGA
* * *
16977949 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTGGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATGGAGACG-A
** * *
16977996 -AGCCAGTGTAAGACATGTCTGGGACATGCATCAAC-T--ACAAGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATGGAGACGA
* * * * * *
16978038 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATTTGA
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATGGAGA--CGA
* * * * * *
16978089 GAGCTAGTGTAAGACCATGTCTGGGA-ATGGCGTCAGCCTCGATGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATGGA-GACGA
* * * * * *
16978137 TAGCCAGTGTAAGAATATGTCTGGAACATGGCATCGAC-TTGAGA-TA
1 GAGCCAGTGTAAG-ACATGTCTGGGACAT-GCATCGGCATGGAGACGA
16978183 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT
16978224 TCTACCCCAT
Statistics
Matches: 218, Mismatches: 41, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 11 0.05
45 15 0.07
46 53 0.24
47 48 0.22
48 40 0.18
49 21 0.10
50 24 0.11
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATGGAGACGA
Found at i:16980862 original size:15 final size:16
Alignment explanation
Indices: 16980842--16980871 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16980832 AAGATCTTAT
16980842 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
16980857 AATCATAACCTTACT
1 AATCATAACCTTACT
16980872 GAGGGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:16981126 original size:43 final size:42
Alignment explanation
Indices: 16981073--16981165 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
16981063 TTACATGGGC
* *
16981073 TCTCGTATCGATGGCAATAGCCCAGCTACAGTCTTACACAAAG
1 TCTCATATCGATGGC-ATAGCCCAGATACAGTCTTACACAAAG
* * ** *
16981116 TCTCATATCGATGTCATATCCCAGATATGGTCTTACACGAAG
1 TCTCATATCGATGGCATAGCCCAGATACAGTCTTACACAAAG
16981158 TCTCATAT
1 TCTCATAT
16981166 AGATTTCATT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 30 0.70
43 13 0.30
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
TCTCATATCGATGGCATAGCCCAGATACAGTCTTACACAAAG
Found at i:16981152 original size:42 final size:42
Alignment explanation
Indices: 16981103--16981194 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
16981093 CCCAGCTACA
*
16981103 GTCTTACACAAAGTCTCATATCGATGTCATATCCCAGATATG
1 GTCTTACACAAAGTCTCATATAGATGTCATATCCCAGATATG
* * *
16981145 GTCTTACACGAAGTCTCATATAGATTTCATTTCCCAGATATG
1 GTCTTACACAAAGTCTCATATAGATGTCATATCCCAGATATG
16981187 GTCTTACA
1 GTCTTACA
16981195 TATAGTCTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (42 bp):
GTCTTACACAAAGTCTCATATAGATGTCATATCCCAGATATG
Found at i:16982500 original size:29 final size:29
Alignment explanation
Indices: 16982458--16982517 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
16982448 TACTGTGATC
16982458 ATTACATTAAATTTTTTGAAATGTTGTGT
1 ATTACATTAAATTTTTTGAAATGTTGTGT
16982487 ATTACATTAAATTTTTTGAAATGTTGTGT
1 ATTACATTAAATTTTTTGAAATGTTGTGT
16982516 AT
1 AT
16982518 CTTTATTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (29 bp):
ATTACATTAAATTTTTTGAAATGTTGTGT
Found at i:16989973 original size:15 final size:14
Alignment explanation
Indices: 16989947--16989981 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
16989937 ATATATACAT
*
16989947 ATTCAATTCAATAA
1 ATTCATTTCAATAA
16989961 ATATCATTTCAATAA
1 AT-TCATTTCAATAA
16989976 ATTCAT
1 ATTCAT
16989982 CACATACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTCATTTCAATAA
Found at i:17001720 original size:30 final size:30
Alignment explanation
Indices: 17001686--17001746 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17001676 TCCTTAACTC
17001686 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
17001716 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
17001746 A
1 A
17001747 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:17010691 original size:13 final size:13
Alignment explanation
Indices: 17010673--17010703 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17010663 TTGTACACAT
*
17010673 GTGTGGCTTGAGA
1 GTGTGGCTCGAGA
17010686 GTGTGGCTCGAGA
1 GTGTGGCTCGAGA
17010699 GTGTG
1 GTGTG
17010704 CTTTCTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.48, T:0.29
Consensus pattern (13 bp):
GTGTGGCTCGAGA
Found at i:17010842 original size:10 final size:10
Alignment explanation
Indices: 17010827--17010854 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
17010817 TAAAAATCTT
17010827 GACATGAAAG
1 GACATGAAAG
17010837 GACATGAAAG
1 GACATGAAAG
17010847 GACATGAA
1 GACATGAA
17010855 TGAGAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.29, T:0.11
Consensus pattern (10 bp):
GACATGAAAG
Found at i:17011637 original size:13 final size:15
Alignment explanation
Indices: 17011619--17011650 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
17011609 CCTAGCCGAA
17011619 ATTTATA-CAC-TAC
1 ATTTATAGCACATAC
17011632 ATTTATAGCACATAC
1 ATTTATAGCACATAC
17011647 ATTT
1 ATTT
17011651 CACAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 3 0.18
15 7 0.41
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.41
Consensus pattern (15 bp):
ATTTATAGCACATAC
Found at i:17012360 original size:26 final size:26
Alignment explanation
Indices: 17012331--17012415 Score: 152
Period size: 26 Copynumber: 3.3 Consensus size: 26
17012321 TGGTACAAAT
17012331 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
17012357 TGATATTGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17012383 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17012409 TGATAAT
1 TGATAAT
17012416 AATTTCATGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:17012674 original size:27 final size:26
Alignment explanation
Indices: 17012639--17013310 Score: 547
Period size: 27 Copynumber: 25.1 Consensus size: 26
17012629 AATACCCCAG
* *
17012639 TTGTAAAATTACCAAAGTACCCCCGGT
1 TTGTAAAATTACCAAA-TACCCTCGAT
* *
17012666 TTATAAAATTACCGAAATACCGTCGA-
1 TTGTAAAATTACC-AAATACCCTCGAT
* *
17012692 TTATAAAATTACTAAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
17012719 TTGTAAAATTACTAAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
*
17012746 TTGTAAAATTACCAAAGTACCC-CTAGT
1 TTGTAAAATTACCAAA-TACCCTCGA-T
* **
17012773 TTATAAAATTACCGAAATACTGTCGA-
1 TTGTAAAATTACC-AAATACCCTCGAT
* * *
17012799 TTGTAAAATTACTAAAATACCTTCAAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
17012826 TTGTAAAATTACCGAAATACCCTC-AGT
1 TTGTAAAATTACC-AAATACCCTCGA-T
* *
17012853 TTGCAAAATTATCGAAATACCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
*
17012880 TTGTAAAATTATCGAAATACCCTC-AGT
1 TTGTAAAATTA-CCAAATACCCTCGA-T
* * *
17012907 TTATAAAATTACTGAAATACCCTAGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
17012934 TTGTAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
*
17012961 TTGTAAAATTACCAAAGTACTCC-CGGT
1 TTGTAAAATTACCAAA-TAC-CCTCGAT
* * * *
17012988 TTATAAAATTATCGAAATATCGTCG-T
1 TTGTAAAATTA-CCAAATACCCTCGAT
* *
17013014 TTATAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
17013041 TTGTAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
17013068 TTGTAAAATTACCAAAGTGCCC-CCAGT
1 TTGTAAAATTACCAAA-TACCCTCGA-T
* *
17013095 TTATAAAATTACCAAAATACCATCGA-
1 TTGTAAAATTACC-AAATACCCTCGAT
*
17013121 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
*
17013148 TTGTAAAATTACCGAAATACCCT-TAGT
1 TTGTAAAATTACC-AAATACCCTCGA-T
* **
17013175 TTGCAAAATTATTGAAATACCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
* *
17013202 TTGTAAAATTACTAAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
*
17013229 TTGTAAAATTACCAAAGTACCCCCGAT
1 TTGTAAAATTACCAAA-TACCCTCGAT
* * **
17013256 TTATAAAATTACTGAAATACTATCGA-
1 TTGTAAAATTAC-CAAATACCCTCGAT
*
17013282 TTGTAAAATTACTAAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
17013309 TT
1 TT
17013311 NNNNNNNNNN
Statistics
Matches: 535, Mismatches: 74, Indels: 72
0.79 0.11 0.11
Matches are distributed among these distances:
25 1 0.00
26 130 0.24
27 378 0.71
28 26 0.05
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAT
Found at i:17012900 original size:161 final size:161
Alignment explanation
Indices: 17012639--17013310 Score: 822
Period size: 161 Copynumber: 4.2 Consensus size: 161
17012629 AATACCCCAG
* * ** * * * * *
17012639 TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCGAAATACCGTCGATTATAAAATTAC
1 TTGTAAAATTACTAAAATACCTTCGATTTGTAAAATTACCGAAATACCCTCGTTTACAAAATTAC
*
17012704 TAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCC
66 TGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCC
**
17012769 TAG-TTTATAAAATTACCGAAATACTGTCGA
131 TAGATTTATAAAATTACCGAAATACCATCGA
* *
17012799 TTGTAAAATTACTAAAATACCTTCAATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTA
1 TTGTAAAATTACTAAAATACCTTCGATTTGTAAAATTACCGAAATACCCTC-GTTTACAAAATTA
* * * *
17012864 -TCGAAATACCCTCGATTTGTAAAATTA-TCGAAATACCCTC-AGTTTATAAAATTACTGAAA-T
65 CT-GAAATACCCTCGATTTGTAAAATTACT-AAAATACCCTCGA-CTTGTAAAATTAC-CAAAGT
* * *
17012925 A-CCCTAGATTTGTAAAATTACTGAAATACCCTCGA
126 ACCCCTAGATTTATAAAATTACCGAAATACCATCGA
* * * * * * * * *
17012960 CTTGTAAAATTACCAAAGTA-CTCCCGGTTTATAAAATTATCGAAATATCGTCGTTTATAAAATT
1 -TTGTAAAATTACTAAAATACCT-TCGATTTGTAAAATTACCGAAATACCCTCGTTTACAAAATT
* *
17013024 ACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTGCC
64 ACTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACC
* *
17013089 CCCAG-TTTATAAAATTACCAAAATACCATCGA
129 CCTAGATTTATAAAATTACCGAAATACCATCGA
* * * *
17013121 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTAGTTTGCAAAATTA
1 TTGTAAAATTACTAAAATACCTTCGATTTGTAAAATTACCGAAATACCC-TCGTTTACAAAATTA
*
17013186 TTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
65 CTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
* * *
17013251 C-CGATTTATAAAATTACTGAAATACTATCGA
130 CTAGATTTATAAAATTACCGAAATACCATCGA
*
17013282 TTGTAAAATTACTAAAATACCCTCGATTT
1 TTGTAAAATTACTAAAATACCTTCGATTT
17013311 NNNNNNNNNN
Statistics
Matches: 435, Mismatches: 61, Indels: 31
0.83 0.12 0.06
Matches are distributed among these distances:
160 93 0.21
161 292 0.67
162 50 0.11
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (161 bp):
TTGTAAAATTACTAAAATACCTTCGATTTGTAAAATTACCGAAATACCCTCGTTTACAAAATTAC
TGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCC
TAGATTTATAAAATTACCGAAATACCATCGA
Found at i:17013224 original size:322 final size:321
Alignment explanation
Indices: 17012612--17013303 Score: 1043
Period size: 322 Copynumber: 2.2 Consensus size: 321
17012602 AATACTTTAG
*
17012612 TTTACTAAAATTATTGAAATACCC-C-AGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAAT
1 TTTA-TAAAATTACTGAAATACCCTCGA-TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAAT
17012675 TACCGAAATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTGTAAAATTACTAAAATACC
64 TACCGAAATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTGTAAAATTACTAAAATACC
* * **
17012740 CTCGACTTGTAAAATTACCAAAGTACCCCTAGTTTATAAAATTACCGAAATACTGTCGATTGTAA
129 CTCGACTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCAAAATACCATCGATTGTAA
*
17012805 AATTACTAAAATACCTTCAATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTATCGAAA
194 AATTACTAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTATCGAAA
* * * *
17012870 TACCCTCGATTTGTAAAATTATCGAAATACCCTC-AGTTTATAAAATTACTGAAA-TACCCTAGA
259 TACCCTCGATTTGTAAAATTATCAAAATACCCTCGA-CTTATAAAATTAC-CAAAGTACCCCAGA
* *
17012933 TTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACTCCCGGTTTATAAAATT
1 TTTATAAAATTACTGAAATACCCTCGA-TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATT
* * * * *
17012998 ATCGAAATATCGTCGTTTATAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCC
65 ACCGAAATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTGTAAAATTACTAAAATACCC
*
17013063 TCGACTTGTAAAATTACCAAAGTGCCCCCAGTTTATAAAATTACCAAAATACCATCGATTGTAAA
130 TCGACTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCAAAATACCATCGATTGTAAA
* * * *
17013128 ATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTAGTTTGCAAAATTATTGAAAT
195 ATTACTAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTATCGAAAT
* *
17013193 ACCCTCGATTTGTAAAATTA-CTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGA
260 ACCCTCGATTTGTAAAATTATC-AAAATACCCTCGACTTATAAAATTACCAAAGTACCCCAGA
** * *
17013255 TTTATAAAATTACTGAAATACTATCGATTGTAAAATTACTAAAATACCC
1 TTTATAAAATTACTGAAATACCCTCGATTGTAAAATTACCAAAGTACCC
17013304 TCGATTTNNN
Statistics
Matches: 335, Mismatches: 31, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
320 18 0.05
321 27 0.08
322 289 0.86
323 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (321 bp):
TTTATAAAATTACTGAAATACCCTCGATTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTA
CCGAAATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTGTAAAATTACTAAAATACCCT
CGACTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCAAAATACCATCGATTGTAAAA
TTACTAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTATCGAAATA
CCCTCGATTTGTAAAATTATCAAAATACCCTCGACTTATAAAATTACCAAAGTACCCCAGA
Found at i:17013310 original size:107 final size:106
Alignment explanation
Indices: 17012617--17013310 Score: 783
Period size: 107 Copynumber: 6.5 Consensus size: 106
17012607 TTTAGTTTAC
* * *
17012617 TAAAATTATTGAAATACCC-C-AGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCG
1 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTA-CCCCGATTTATAAAATTACCG
*
17012680 AAATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTG
65 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
* *
17012722 TAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTAGTTTATAAAATTACCG
1 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCGA-TTTATAAAATTACCG
* * * * *
17012787 AAATACTGTCGATTGTAAAATTACTAAAATACCTTCAATTTG
65 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
* * * * * *
17012829 TAAAATTACCGAAATACCCTC-AGTTTGCAAAATTATCGAAA-TACCCTCGATTTGTAAAATTAT
1 TAAAATTACTGAAATACCCTCGA-CTTGTAAAATTA-CCAAAGTACCC-CGATTTATAAAATTAC
* * *
17012892 CGAAATACCCTCAGTTTATAAAATTACTGAAATACCCTAGATTTG
63 CGAAATACCGTC-GATTATAAAATTACTGAAATACCCTCGATTTG
* *
17012937 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACTCCCGGTTTATAAAATTATCG
1 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTAC-CCCGATTTATAAAATTACCG
* *
17013002 AAATATCGTCGTTTATAAAATTACTGAAATACCCTCGATTTG
65 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
* * *
17013044 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTGCCCCCAGTTTATAAAATTACCA
1 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCGA-TTTATAAAATTACCG
* *
17013109 AAATACCATCGATTGTAAAATTACTGAAATACCCTCGATTTG
65 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
* * * * ** *
17013151 TAAAATTACCGAAATACCCT-TAGTTTGCAAAATTATTGAAA-TACCCTCGATTTGTAAAATTAC
1 TAAAATTACTGAAATACCCTCGA-CTTGTAAAATTA-CCAAAGTACCC-CGATTTATAAAATTAC
** * * * * *
17013214 TAAAATACCCTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTTA
63 CGAAATACCGTCGA-TTATAAAATTACTGAAA-TACCCTCGATTTG
** * *
17013259 TAAAATTACTGAAATACTATCGA-TTGTAAAATTACTAAAATACCCTCGATTT
1 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC-CGATTT
17013311 NNNNNNNNNN
Statistics
Matches: 507, Mismatches: 64, Indels: 34
0.84 0.11 0.06
Matches are distributed among these distances:
105 17 0.03
106 13 0.03
107 339 0.67
108 134 0.26
109 4 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (106 bp):
TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCGATTTATAAAATTACCGA
AATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
Found at i:17023912 original size:17 final size:18
Alignment explanation
Indices: 17023882--17023919 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
17023872 GCCCTGGCTT
*
17023882 ACAAAAATTAAAAATTAA
1 ACAAAAAATAAAAATTAA
17023900 ACAAAAAAT-AAAATTAA
1 ACAAAAAATAAAAATTAA
17023917 ACA
1 ACA
17023920 GTCCATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (18 bp):
ACAAAAAATAAAAATTAA
Found at i:17024747 original size:13 final size:13
Alignment explanation
Indices: 17024729--17024753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17024719 TTTTTTCTGT
17024729 TGAATGTTTAAAA
1 TGAATGTTTAAAA
17024742 TGAATGTTTAAA
1 TGAATGTTTAAA
17024754 GTTTTTTTTT
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
TGAATGTTTAAAA
Found at i:17032101 original size:32 final size:32
Alignment explanation
Indices: 17032060--17032122 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
17032050 GATCCGCTAA
17032060 GAAAACCCTATATAAGAATTAATTAATCACAT
1 GAAAACCCTATATAAGAATTAATTAATCACAT
17032092 GAAAACCCTATATAAGAATTAATTAATCACA
1 GAAAACCCTATATAAGAATTAATTAATCACA
17032123 CCTCCACTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (32 bp):
GAAAACCCTATATAAGAATTAATTAATCACAT
Found at i:17032371 original size:7 final size:7
Alignment explanation
Indices: 17032359--17032384 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17032349 CTAAGCCTAA
17032359 AAACTAC
1 AAACTAC
17032366 AAACTAC
1 AAACTAC
17032373 AAACTAC
1 AAACTAC
17032380 AAACT
1 AAACT
17032385 GAAGTTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACTAC
Found at i:17039063 original size:40 final size:40
Alignment explanation
Indices: 17039007--17039479 Score: 757
Period size: 40 Copynumber: 11.8 Consensus size: 40
17038997 GAACATTGGA
* *
17039007 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
17039047 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
17039087 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
17039127 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
17039167 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
17039207 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
17039247 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
17039287 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
17039327 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
17039367 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
17039407 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTC
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
17039447 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
17039480 TTGCNNNNNN
Statistics
Matches: 399, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 399 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:17039140 original size:80 final size:80
Alignment explanation
Indices: 17039007--17039479 Score: 883
Period size: 80 Copynumber: 5.9 Consensus size: 80
17038997 GAACATTGGA
* *
17039007 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
17039072 CAATTATGCGGGATG
66 CAATTATGCGGGATG
17039087 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
17039152 CAATTATGCGGGATG
66 CAATTATGCGGGATG
17039167 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
17039232 CAATTATGCGGGATG
66 CAATTATGCGGGATG
17039247 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
17039312 CAATTATGCGGGATG
66 CAATTATGCGGGATG
17039327 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
17039392 CAATTATGCGGGATG
66 CAATTATGCGGGATG
* * * *
17039407 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCATATGTCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
*
17039472 CAAATATG
66 CAATTATG
17039480 TTGCNNNNNN
Statistics
Matches: 386, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 386 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGG
CAATTATGCGGGATG
Found at i:17045074 original size:28 final size:26
Alignment explanation
Indices: 17045032--17045093 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 26
17045022 TTGGAGGAAG
*
17045032 TGTTCTGGTGGCTCTGCCACAAATATC
1 TGTTCTGGTGACTCTGCCAC-AATATC
*
17045059 TGATTCTGGTGACTCTGTCACAATATC
1 TG-TTCTGGTGACTCTGCCACAATATC
17045086 TGTTCTGG
1 TGTTCTGG
17045094 CAGCCATGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 6 0.19
27 10 0.31
28 16 0.50
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
TGTTCTGGTGACTCTGCCACAATATC
Found at i:17047839 original size:28 final size:28
Alignment explanation
Indices: 17047798--17047902 Score: 138
Period size: 28 Copynumber: 3.8 Consensus size: 28
17047788 ATTCCATGAC
*
17047798 TATGAATGTGATTGGGCCTAACAGGCCA
1 TATGAATGTGATTGGGCCTAATAGGCCA
* * * *
17047826 GATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTAATAGGCCA
*
17047854 TATGAATGTGATTGGGCCTGATAGGCCA
1 TATGAATGTGATTGGGCCTAATAGGCCA
* *
17047882 TATGAATGAGATTGGCCCTAA
1 TATGAATGTGATTGGGCCTAA
17047903 AGGGGCCAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATAGGCCA
Found at i:17060133 original size:55 final size:54
Alignment explanation
Indices: 17060038--17060187 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
17060028 CTACTTTGTT
* ** * *
17060038 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
17060092 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
17060147 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
17060188 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:17060150 original size:27 final size:27
Alignment explanation
Indices: 17060010--17060187 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
17060000 TAAATTGTAC
17060010 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
17060037 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
17060063 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
17060091 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
17060119 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
17060146 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
17060173 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17060188 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:17060151 original size:82 final size:81
Alignment explanation
Indices: 17060011--17060166 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
17060001 AAATTGTACA
* * * *
17060011 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
17060076 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
17060092 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
17060155 TGTGCGAGTTGA
63 TGTGCGAATTGA
17060167 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:17068103 original size:27 final size:27
Alignment explanation
Indices: 17068072--17068249 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17068062 TAAATTGTAC
17068072 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17068099 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17068125 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17068153 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17068181 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17068208 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17068235 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17068250 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17068186 original size:82 final size:81
Alignment explanation
Indices: 17068073--17068228 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17068063 AAATTGTACA
* *
17068073 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17068137 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17068154 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17068219 TGCGAGTTGA
65 TGCGAATTGA
17068229 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17068240 original size:82 final size:81
Alignment explanation
Indices: 17068069--17068249 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
17068059 GATTAAATTG
* *
17068069 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17068134 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17068150 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17068214 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17068232 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17068250 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17071072 original size:27 final size:27
Alignment explanation
Indices: 17071041--17071120 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
17071031 TAGAATACTT
* *
17071041 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTGCAAAATTACCAAAATACCCC
* * *
17071068 TAGTTTGTAAAATTACCGAAATACCAC
1 TAGTTTGCAAAATTACCAAAATACCCC
*
17071095 TGGTTTGCAAAATTA-CAGAAATACCC
1 TAGTTTGCAAAATTACCA-AAATACCC
17071121 TTGACTTTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (27 bp):
TAGTTTGCAAAATTACCAAAATACCCC
Found at i:17071946 original size:27 final size:27
Alignment explanation
Indices: 17071907--17072167 Score: 299
Period size: 27 Copynumber: 9.7 Consensus size: 27
17071897 TATAATATGA
* *
17071907 AAAATAACTGTTTTACCCTTGATTTAC
1 AAAATTACTGTTTTACCCTCGATTTAC
* * *
17071934 AAAATTACCGTTTTACCCTCAATTTAT
1 AAAATTACTGTTTTACCCTCGATTTAC
* * *
17071961 AGAATTATTGTTTTACCCTCGATTTAT
1 AAAATTACTGTTTTACCCTCGATTTAC
*
17071988 AGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACTGTTTTACCCTCGATTTAC
*
17072015 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTGTTTTACCCTCGATTTAC
* * *
17072042 AGAATTA-TCGTTTTACCCTCGATTGAT
1 AAAATTACT-GTTTTACCCTCGATTTAC
* * **
17072069 AGAATTACTATTTTACCCTTAATTTAC
1 AAAATTACTGTTTTACCCTCGATTTAC
*
17072096 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTGTTTTACCCTCGATTTAC
* * *
17072123 AGAATTACGGTTTTACCCTCGATTTAT
1 AAAATTACTGTTTTACCCTCGATTTAC
**
17072150 AAAATTACCATTTTACCC
1 AAAATTACTGTTTTACCC
17072168 CTAGGGTGTT
Statistics
Matches: 200, Mismatches: 32, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
26 1 0.00
27 198 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (27 bp):
AAAATTACTGTTTTACCCTCGATTTAC
Found at i:17072005 original size:81 final size:81
Alignment explanation
Indices: 17071917--17072167 Score: 387
Period size: 81 Copynumber: 3.1 Consensus size: 81
17071907 AAAATAACTG
** * * *
17071917 TTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTATTGTTTTACCCTCG
1 TTTTACCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCG
*
17071982 ATTTATAGAATTACTG
66 ATTTATAGAATTACTA
*
17071998 TTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCG
1 TTTTACCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCG
*
17072063 ATTGATAGAATTACTA
66 ATTTATAGAATTACTA
*
17072079 TTTTACCCTTAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTA-CGGTTTTACCCTC
1 TTTTACCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTATC-GTTTTACCCTC
* *
17072143 GATTTATAAAATTACCA
65 GATTTATAGAATTACTA
17072160 TTTTACCC
1 TTTTACCC
17072168 CTAGGGTGTT
Statistics
Matches: 156, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 1 0.01
81 155 0.99
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (81 bp):
TTTTACCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCG
ATTTATAGAATTACTA
Found at i:17072416 original size:19 final size:19
Alignment explanation
Indices: 17072392--17072436 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
17072382 CGTTCTGGCA
17072392 GCCTCGCTGCAATCCGGTG
1 GCCTCGCTGCAATCCGGTG
17072411 GCCTCGCTGCAATCCGGTG
1 GCCTCGCTGCAATCCGGTG
17072430 GCCTCGC
1 GCCTCGC
17072437 CACATATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.09, C:0.40, G:0.31, T:0.20
Consensus pattern (19 bp):
GCCTCGCTGCAATCCGGTG
Found at i:17072624 original size:6 final size:6
Alignment explanation
Indices: 17072593--17072655 Score: 67
Period size: 6 Copynumber: 10.3 Consensus size: 6
17072583 TTGCATTCAC
* *
17072593 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
17072642 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
17072656 AATGTTTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
5 3 0.06
6 40 0.83
7 4 0.08
8 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:17073449 original size:42 final size:41
Alignment explanation
Indices: 17073335--17073449 Score: 99
Period size: 44 Copynumber: 2.7 Consensus size: 41
17073325 TTTTGATATG
* * * **
17073335 TGATTTCATGTAAGACCAC-GTCTAGGACGTTGGTATCGATT
1 TGATTTCATGTAAGACC-CTGTCTTGGACATCGACATCGATT
* *
17073376 TGAGATTTACGTGTAAGACCATGT-TTGGGACATCGACATCGTATT
1 T--GATTT-CATGTAAGACCCTGTCTT-GGACATCGACATCG-ATT
17073421 TGATTTCATGTAAGACCCTGTCTTGGACA
1 TGATTTCATGTAAGACCCTGTCTTGGACA
17073450 GTGGTATTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
41 1 0.02
42 18 0.31
43 13 0.22
44 22 0.38
45 4 0.07
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (41 bp):
TGATTTCATGTAAGACCCTGTCTTGGACATCGACATCGATT
Done.