Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 70 of 213
Found at i:18949560 original size:9 final size:8
Alignment explanation
Indices: 18949544--18949570 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18949534 TCTTTTAGAC
18949544 ATAAAAAA
1 ATAAAAAA
18949552 ATAAAAAA
1 ATAAAAAA
18949560 ATAAAAAA
1 ATAAAAAA
18949568 ATA
1 ATA
18949571 CACAAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
ATAAAAAA
Found at i:18951020 original size:11 final size:11
Alignment explanation
Indices: 18951004--18951040 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
18950994 CTGAACATTT
18951004 TATTTATTTTA
1 TATTTATTTTA
18951015 TATTTATTTTA
1 TATTTATTTTA
18951026 T-TTT-TTTTAA
1 TATTTATTTT-A
18951036 TATTT
1 TATTT
18951041 GTGCTCGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.17
10 5 0.21
11 15 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTATTTTA
Found at i:18951025 original size:20 final size:21
Alignment explanation
Indices: 18951000--18951040 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
18950990 AAAACTGAAC
18951000 ATTTTATTTATTTT-ATATTT
1 ATTTTATTTATTTTAATATTT
*
18951020 ATTTTATTTTTTTTAATATTT
1 ATTTTATTTATTTTAATATTT
18951041 GTGCTCGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (21 bp):
ATTTTATTTATTTTAATATTT
Found at i:18951458 original size:44 final size:43
Alignment explanation
Indices: 18951321--18951618 Score: 176
Period size: 44 Copynumber: 6.8 Consensus size: 43
18951311 ACTTACTGCG
** * *
18951321 ATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCT-ATTACTGT-A
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGCTT-CT-TCA
* * * * * ***
18951365 ATCCGCTCCACTACAACTCCAGGGAGATAGGATTATCGAATTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCTTCTTCA
18951409 ATCTGCTCCACTGCAACCTT-AGGGAGATAAGATGTGCTTCTTCA
1 ATCTGCTCCACTGCAA-CTTCAGGGAGATAAGAT-TGCTTCTTCA
* * *** *
18951453 GTCTGCCCCACTATGACTTCAGGTG-GATAAGACTTG-TTTTCTCA
1 ATCTGCTCCACTGCAACTTCAGG-GAGATAAGA-TTGCTTCT-TCA
* * * * *
18951497 GTCTGCTCCGCTGCAACTTCAGAGAGATAAGATCT-ATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGCTT-CTTCA
* * * * **
18951541 ATCCGCTCCACTACAACTTCAAGGAGATAGGATTGTCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTG-CTTCTTCA
*
18951585 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
18951619 CAATGTAATC
Statistics
Matches: 190, Mismatches: 49, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
43 11 0.06
44 173 0.91
45 6 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTTCTTCA
Found at i:18951552 original size:88 final size:87
Alignment explanation
Indices: 18951321--18951617 Score: 269
Period size: 88 Copynumber: 3.4 Consensus size: 87
18951311 ACTTACTGCG
** *
18951321 ATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTATTACTGTAATCCGCTCCACTACAACTCCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTCCA
*
18951386 GGGAGATAGGATTATCGAATTCA
66 GGGAGATAAGATTATC-AATTCA
* * * * * * * ** *
18951409 ATCTGCTCCACTGCAACCTT-AGGGAGATAAGATGTGCTT-CTTCAGTCTGCCCCACTATGACTT
1 ATCTGCTCCACTGCAA-CTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTCCACTACAACTC
* **
18951472 CAGGTG-GATAAGACTTGT-TTTCTCA
64 CAGG-GAGATAAGA-TTATCAAT-TCA
* * *
18951497 GTCTGCTCCGCTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTCCA
* * * *
18951562 AGGAGATAGGATTGTCGACTTCA
66 GGGAGATAAGATTATC-AATTCA
* *
18951585 ATCTGCTCCACTGCAACCTCAGGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
18951618 TCAATGTAAT
Statistics
Matches: 163, Mismatches: 36, Indels: 20
0.74 0.16 0.09
Matches are distributed among these distances:
87 11 0.07
88 142 0.87
89 10 0.06
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (87 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTCCA
GGGAGATAAGATTATCAATTCA
Found at i:18951824 original size:130 final size:129
Alignment explanation
Indices: 18951667--18952150 Score: 635
Period size: 129 Copynumber: 3.7 Consensus size: 129
18951657 ATATGTGGTT
* * * * * ** * *
18951667 TTAATCTGCTCCACTACAACTTTAGGGAGATAGGATTTATGGCTTAAATTTGCTTCCTTACGCTT
1 TTAATCTGCTCCACTGCAACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTACACTT
* * * *
18951732 GAAGATAAGATTCGCTGTCTTCGATCTGTCCCACTGCTACTTCAGTCGAGATAAGACCTGCTTAC
66 GAAGATAAGATTCGCCGTCTTCGATCTGTCCCACTGCAACTTCAG-AGGGATAAGACCTGCTTAC
* * *
18951797 TTAATCTGCTCTACTGCAACTTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCGTTACACTT
1 TTAATCTGCTCCACTGCAACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTACACTT
* * * *
18951862 GAAGATAAGATTCGCCGTCTTCGATCTGTTCCACTGCAACTTCAGGGGGATAAAACCTACTTAC
66 GAAGATAAGATTCGCCGTCTTCGATCTGTCCCACTGCAACTTCAGAGGGATAAGACCTGCTTAC
* * * *
18951926 TTAGTCCGCTCCACTGTAACCTCAAGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTACACTT
1 TTAATCTGCTCCACTGCAACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTACACTT
* *
18951991 GAATATAAGATTCGCCATCTTCGATCTGTCCCACTGCAACTTCAGAGGGATAAGACCTGCTTAC
66 GAAGATAAGATTCGCCGTCTTCGATCTGTCCCACTGCAACTTCAGAGGGATAAGACCTGCTTAC
* * * * *
18952055 TTAGTCTGTTCCACTGTAACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGTTTCCTTACTCCT
1 TTAATCTGCTCCACTGCAACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTAC-ACT
* *
18952120 GGGGAAGATAAGATTCGCCGTCTTTGATCTG
65 --TGAAGATAAGATTCGCCGTCTTCGATCTG
18952151 CTCCGCTATT
Statistics
Matches: 312, Mismatches: 39, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
129 188 0.60
130 99 0.32
132 25 0.08
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (129 bp):
TTAATCTGCTCCACTGCAACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTACACTT
GAAGATAAGATTCGCCGTCTTCGATCTGTCCCACTGCAACTTCAGAGGGATAAGACCTGCTTAC
Found at i:18951900 original size:259 final size:259
Alignment explanation
Indices: 18951667--18952150 Score: 639
Period size: 259 Copynumber: 1.9 Consensus size: 259
18951657 ATATGTGGTT
* * * * * * * * *
18951667 TTAATCTGCTCCACTACAACTTTAGGGAGATAGGATTTATGGCTTAAATTTGCTTCCTTACGCTT
1 TTAATCCGCTCCACTACAACCTCAAGGAGAAAGGACTCATGGCTTAAATCTGCTTCCTTACACTT
** * *
18951732 GAAGATAAGATTCGCTGTCTTCGATCTGTCCCACTGCTACTTCAGTCGAGATAAGACCTGCTTAC
66 GAAGATAAGATTCGCCATCTTCGATCTGTCCCACTGCAACTTCAG-AGAGATAAGACCTGCTTAC
* * *
18951797 TTAATCTGCTCTACTGCAACTTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCGTTAC-ACT
130 TTAATCTGCTCCACTGCAACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTACTACT
* ** *
18951861 -TGAAGATAAGATTCGCCGTCTTCGATCTGTTCCACTGCAACTTCAGGGGGATAAAACCTACTTA
195 GGGAAGATAAGATTCGCCGTCTTCGATCTGTTCCACTGCAACTTCAAAGAGATAAAACCTACTTA
* ** *
18951925 CTTAGTCCGCTCCACTGTAACCTCAAGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTACACT
1 -TTAATCCGCTCCACTACAACCTCAAGGAGAAAGGACTCATGGCTTAAATCTGCTTCCTTACACT
* *
18951990 TGAATATAAGATTCGCCATCTTCGATCTGTCCCACTGCAACTTCAGAGGGATAAGACCTGCTTAC
65 TGAAGATAAGATTCGCCATCTTCGATCTGTCCCACTGCAACTTCAGAGAGATAAGACCTGCTTAC
* * * * *
18952055 TTAGTCTGTTCCACTGTAACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGTTTCCTTACTCCT
130 TTAATCTGCTCCACTGCAACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTACTACT
*
18952120 GGGGAAGATAAGATTCGCCGTCTTTGATCTG
195 -GGGAAGATAAGATTCGCCGTCTTCGATCTG
18952151 CTCCGCTATT
Statistics
Matches: 193, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
258 71 0.37
259 95 0.49
261 27 0.14
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (259 bp):
TTAATCCGCTCCACTACAACCTCAAGGAGAAAGGACTCATGGCTTAAATCTGCTTCCTTACACTT
GAAGATAAGATTCGCCATCTTCGATCTGTCCCACTGCAACTTCAGAGAGATAAGACCTGCTTACT
TAATCTGCTCCACTGCAACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTACTACTG
GGAAGATAAGATTCGCCGTCTTCGATCTGTTCCACTGCAACTTCAAAGAGATAAAACCTACTTA
Found at i:18952394 original size:131 final size:131
Alignment explanation
Indices: 18952076--18953270 Score: 1860
Period size: 131 Copynumber: 9.2 Consensus size: 131
18952066 CACTGTAACC
* * * *
18952076 TCAGGGAGAAAGGACTCGTGGCTTAAATCTGTTTCCTTACTCCTGGGGAAGATAAGATTCGCCGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* * * **
18952141 CTTTGATCTGCTCCGCTATTGCTTATGGAGACAAGATCTGCAATTTCCAACCTA-TCCACTATTG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTG
18952205 G
131 G
* * *
18952206 TCAAGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTTGCTGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* * * *
18952271 CTTCGATCTACTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTACTG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTG
18952336 G
131 G
* * *
18952337 TCAGGGGCATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTGGGGAAAATAAGATTCGCCGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* *
18952402 CTTCGATCTGTTCCGCTACTGCTTAGGGAGACAAGATTTGCAATTTCCAACCTATTCCACTGCTG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTG
18952467 G
131 G
18952468 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* *
18952533 CTTTGATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTG
18952598 G
131 G
* * **
18952599 TCAGGGACATAGGACTTGTGGTTTAAATCTG-TTCCCTACTCCTTGGGAAGATAAGATTCGTTGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* * *
18952663 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATATACAATTTCCAACCTATTACACTGCTG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTG
18952728 G
131 G
* * *** *
18952729 TC-GGTACATAGGACTTGTGGCTT-AATCTGTTTCCCTGCTCCTAAAGAAGATAAGATCCGCCGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* * * * *
18952792 CTTCGATCTACTCCGCTACTGTTTAGGGAGACAAGATCTGTAATTTCCAACCTATTTCACTGCCG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTG
18952857 G
131 G
* *
18952858 TCAGGGACATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGTCGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* * **
18952923 CTTCGATCTGCTCCGCTACT-CTTTAGGAAGACAATATCTATAATTTCCAACCTATTCCACTGCT
66 CTTCGATCTGCTCCGCTACTGC-TTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCT
18952987 GG
130 GG
*
18952989 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTTGCCGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
*
18953054 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCCG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTG
18953119 G
131 G
*
18953120 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGTCGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* * *
18953185 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACGAGATCTGTAATTTCCAACCTATTCCGCTGCTG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTG
18953250 G
131 G
*
18953251 TTAGGGACATAGGACTTGTG
1 TCAGGGACATAGGACTTGTG
18953271 ATTTCACCGA
Statistics
Matches: 971, Mismatches: 88, Indels: 11
0.91 0.08 0.01
Matches are distributed among these distances:
128 6 0.01
129 106 0.11
130 219 0.23
131 639 0.66
132 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (131 bp):
TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTG
G
Found at i:18952887 original size:652 final size:652
Alignment explanation
Indices: 18952086--18953270 Score: 1962
Period size: 652 Copynumber: 1.8 Consensus size: 652
18952076 TCAGGGAGAA
* *** * * *
18952086 AGGACTCGTGGCTTAAATCTGTTTCCTTACTCCTGGGGAAGATAAGATTCGCCGTCTTTGATCTG
1 AGGACTCGTGGCTTAAATCTGTTTCCCTACTCCTAAAGAAGATAAGATCCGCCGTCTTCGATCTA
* * **
18952151 CTCCGCTATTGCTTATGGAGACAAGATCTGCAATTTCCAACCTATCCACTATTGGTCAAGGACAT
66 CTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATCCACTACCGGTCAAGGACAT
* *
18952216 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTTG-CTGTCTTCGATCT
131 AGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGTC-GTCTTCGATCT
* * * *
18952280 ACTCCGCTACTGC-TTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTACTGGTCAGGGG
195 ACTCCGCTACT-CTTTAGGAAGACAAGATCTATAATTTCCAACCTATTCCACTACTGGTCAGGGA
*
18952344 CATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTGGGGAAAATAAGATTCGCCGTCTTCGAT
259 CATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAAATAAGATTCGCCGTCTTCGAT
* * *
18952409 CTGTTCCGCTACTGCTTAGGGAGACAAGATTTGCAATTTCCAACCTATTCCACTGCTGGTCAGGG
324 CTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCCGGTCAGGG
*
18952474 ACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTTGA
389 ACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGA
18952539 TCTGCTCCGCTACTACTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGG
454 TCTGCTCCGCTACTACTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGG
18952604 GACATAGGACTTGTGGTTTAAATCTGTTCCCTACTCCTTGGGAAGATAAGATTCGTTGTCTTCGA
519 GACATAGGACTTGTGGTTTAAATCTGTTCCCTACTCCTTGGGAAGATAAGATTCGTTGTCTTCGA
18952669 TCTGCTCCGCTACTGCTTAGGGAGACAAGATATACAATTTCCAACCTATTACACTGCTGGTCGGT
584 TCTGCTCCGCTACTGCTTAGGGAGACAAGATATACAATTTCCAACCTATTACACTGCTGGTCGGT
18952734 ACAT
649 ACAT
* *
18952738 AGGACTTGTGGCTT-AATCTGTTTCCCTGCTCCTAAAGAAGATAAGATCCGCCGTCTTCGATCTA
1 AGGACTCGTGGCTTAAATCTGTTTCCCTACTCCTAAAGAAGATAAGATCCGCCGTCTTCGATCTA
* * * * *
18952802 CTCCGCTACTGTTTAGGGAGACAAGATCTGTAATTTCCAACCTATTTCACTGCCGGTCAGGGACA
66 CTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTA-TCCACTACCGGTCAAGGACA
18952867 TAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGATCT
130 TAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGATCT
* * *
18952932 GCTCCGCTACTCTTTAGGAAGACAATATCTATAATTTCCAACCTATTCCACTGCTGGTCAGGGAC
195 ACTCCGCTACTCTTTAGGAAGACAAGATCTATAATTTCCAACCTATTCCACTACTGGTCAGGGAC
* *
18952997 ATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTCGATC
260 ATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAAATAAGATTCGCCGTCTTCGATC
18953062 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCCGGTCAGGGA
325 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCCGGTCAGGGA
*
18953127 CATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGAT
390 CATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGAT
* * * * *
18953192 CTGCTCCGCTACTGCTTAGGGAGACGAGATCTGTAATTTCCAACCTATTCCGCTGCTGGTTAGGG
455 CTGCTCCGCTACTACTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGG
18953257 ACATAGGACTTGTG
520 ACATAGGACTTGTG
18953271 ATTTCACCGA
Statistics
Matches: 490, Mismatches: 40, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
651 83 0.17
652 406 0.83
653 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (652 bp):
AGGACTCGTGGCTTAAATCTGTTTCCCTACTCCTAAAGAAGATAAGATCCGCCGTCTTCGATCTA
CTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATCCACTACCGGTCAAGGACAT
AGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGATCTA
CTCCGCTACTCTTTAGGAAGACAAGATCTATAATTTCCAACCTATTCCACTACTGGTCAGGGACA
TAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAAATAAGATTCGCCGTCTTCGATCT
GCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCCGGTCAGGGAC
ATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATC
TGCTCCGCTACTACTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGA
CATAGGACTTGTGGTTTAAATCTGTTCCCTACTCCTTGGGAAGATAAGATTCGTTGTCTTCGATC
TGCTCCGCTACTGCTTAGGGAGACAAGATATACAATTTCCAACCTATTACACTGCTGGTCGGTAC
AT
Found at i:18954971 original size:26 final size:27
Alignment explanation
Indices: 18954928--18954983 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
18954918 CTTTGATTGA
18954928 TTTCTCTTTTTTGCTTTTGACTTTGATT
1 TTTCTCTTTTTT-CTTTTGACTTTGATT
**
18954956 TTT-TCTTTTCTT-TTTTGTTTTTGATT
1 TTTCTCTTTT-TTCTTTTGACTTTGATT
18954982 TT
1 TT
18954984 GATTTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 14 0.56
27 6 0.24
28 5 0.20
ACGTcount: A:0.05, C:0.11, G:0.09, T:0.75
Consensus pattern (27 bp):
TTTCTCTTTTTTCTTTTGACTTTGATT
Found at i:18954978 original size:32 final size:29
Alignment explanation
Indices: 18954912--18954989 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 29
18954902 TCCTATTTTA
*
18954912 TTTTGACTTTGATTGATTTCTCTTTTTTGC
1 TTTTGACTTTGATT-TTTTCTCTTTTTTGC
*
18954942 TTTTGACTTTGATTTTTTCTTTTCTTTTTTGT
1 TTTTGACTTTGATTTTTTC---TCTTTTTTGC
*
18954974 TTTTGATTTTGATTTT
1 TTTTGACTTTGATTTT
18954990 GATTTTTGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 4 0.10
30 14 0.33
32 24 0.57
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.71
Consensus pattern (29 bp):
TTTTGACTTTGATTTTTTCTCTTTTTTGC
Found at i:18954983 original size:7 final size:7
Alignment explanation
Indices: 18954967--18955003 Score: 53
Period size: 6 Copynumber: 5.7 Consensus size: 7
18954957 TTTCTTTTCT
18954967 TTTTTG-
1 TTTTTGA
18954973 TTTTTGA
1 TTTTTGA
18954980 -TTTTGA
1 TTTTTGA
18954986 -TTTTGA
1 TTTTTGA
18954992 TTTTTGA
1 TTTTTGA
18954999 TTTTT
1 TTTTT
18955004 TTTCGATCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.11, C:0.00, G:0.14, T:0.76
Consensus pattern (7 bp):
TTTTTGA
Found at i:18959014 original size:18 final size:18
Alignment explanation
Indices: 18958971--18959032 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 18
18958961 AATGTAAAAG
*
18958971 AGATATATATATATAATA
1 AGATATAAATATATAATA
18958989 AGACATATAAATATATAATA
1 AG--ATATAAATATATAATA
*
18959009 AGATATAAAGATAT-AT-
1 AGATATAAATATATAATA
18959025 AGATATAA
1 AGATATAA
18959033 GGTATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.20
17 2 0.05
18 13 0.32
20 17 0.43
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (18 bp):
AGATATAAATATATAATA
Found at i:18959258 original size:7 final size:8
Alignment explanation
Indices: 18959225--18959256 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
18959215 TCTTTTAGAC
18959225 ATAAAAAA
1 ATAAAAAA
18959233 ATAAAAAA
1 ATAAAAAA
18959241 ATAAAAAA
1 ATAAAAAA
18959249 ATAAAAAA
1 ATAAAAAA
18959257 TACACAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
ATAAAAAA
Found at i:18961062 original size:49 final size:49
Alignment explanation
Indices: 18961009--18961110 Score: 186
Period size: 49 Copynumber: 2.1 Consensus size: 49
18960999 ATCAGGCGTG
18961009 ATTCCAAAAAAAAAAAATTTTAGACTCAAACCCAACTTTCCCTATCTAA
1 ATTCCAAAAAAAAAAAATTTTAGACTCAAACCCAACTTTCCCTATCTAA
**
18961058 ATTCCAAAAAAAATTAATTTTAGACTCAAACCCAACTTTCCCTATCTAA
1 ATTCCAAAAAAAAAAAATTTTAGACTCAAACCCAACTTTCCCTATCTAA
18961107 ATTC
1 ATTC
18961111 TCCATTTTAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (49 bp):
ATTCCAAAAAAAAAAAATTTTAGACTCAAACCCAACTTTCCCTATCTAA
Found at i:18961174 original size:22 final size:22
Alignment explanation
Indices: 18961149--18961197 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
18961139 AATATTTTTT
*
18961149 TATTTAAACGAAATTATATAAA
1 TATTTAAACAAAATTATATAAA
* * *
18961171 TATTTAAATAAAATTATTTATA
1 TATTTAAACAAAATTATATAAA
18961193 TATTT
1 TATTT
18961198 TTAAACAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TATTTAAACAAAATTATATAAA
Found at i:18969270 original size:28 final size:28
Alignment explanation
Indices: 18969239--18969325 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
18969229 TGACCAGTTT
18969239 AAAAAAATCATAGTTAGGTGACAAAAAA
1 AAAAAAATCATAGTTAGGTGACAAAAAA
* ***
18969267 AAAACAAATCTATAGTT-GGATGACTAATTT
1 AAAA-AAATC-ATAGTTAGG-TGACAAAAAA
* * *
18969297 AAAAAATTTATAGTTAGGTGATAAAAAA
1 AAAAAAATCATAGTTAGGTGACAAAAAA
18969325 A
1 A
18969326 TGACCCATAA
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
28 16 0.36
29 12 0.27
30 16 0.36
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (28 bp):
AAAAAAATCATAGTTAGGTGACAAAAAA
Found at i:18976959 original size:34 final size:34
Alignment explanation
Indices: 18976907--18976974 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
18976897 GCATTTTTGA
* *
18976907 CACTATATTGATATGGGCTAAGGCCCAA-ACTGT
1 CACTATATTGAAAAGGGCTAAGGCCCAAGACTGT
*
18976940 CACTGATATTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACT-ATATTGAAAAGGGCTAAGGCCCAAGACTGT
18976975 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 4 0.13
34 21 0.70
35 5 0.17
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (34 bp):
CACTATATTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:18977730 original size:26 final size:26
Alignment explanation
Indices: 18977683--18977744 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
18977673 CTGTAAGTGT
* *
18977683 TCTGAAACTGATACATGCTATGATAA
1 TCTGAAACTAATAAATGCTATGATAA
* *
18977709 TCTGAAACTAATAAATGTTATGATAT
1 TCTGAAACTAATAAATGCTATGATAA
18977735 TCTGAAACTA
1 TCTGAAACTA
18977745 TTGTAGGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (26 bp):
TCTGAAACTAATAAATGCTATGATAA
Found at i:18985401 original size:45 final size:46
Alignment explanation
Indices: 18985314--18985401 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 46
18985304 CATTTAATTT
* *
18985314 GAAAACCATAATTCATTTCCAAGTCATTTTCATTTTTCATTTTGGA
1 GAAAACCATAATTCAATTCCAAATCATTTTCATTTTTCATTTTGGA
* *
18985360 GAAAACCA-CATTCAATTCCAAAT-ATTTTCATTTCTTGATTTT
1 GAAAACCATAATTCAATTCCAAATCATTTTCATTT-TTCATTTT
18985402 TATTTTCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 10 0.27
45 19 0.51
46 8 0.22
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (46 bp):
GAAAACCATAATTCAATTCCAAATCATTTTCATTTTTCATTTTGGA
Found at i:18985407 original size:58 final size:58
Alignment explanation
Indices: 18985339--18985461 Score: 167
Period size: 57 Copynumber: 2.1 Consensus size: 58
18985329 TTTCCAAGTC
18985339 ATTTTCATTTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTT-TCATTTCTTG
1 ATTTTCA-TTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTTCTCATTTCTTG
* * * * * **
18985397 ATTTTTATTTTCATTTTGGAGAAAATCATATTCATTTCCAAATGTTTCTCATTTCTCC
1 ATTTTCATTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTTCTCATTTCTTG
18985455 ATTTTCA
1 ATTTTCA
18985462 CAATTTGTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 36 0.64
58 20 0.36
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.49
Consensus pattern (58 bp):
ATTTTCATTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTTCTCATTTCTTG
Found at i:18990920 original size:17 final size:17
Alignment explanation
Indices: 18990898--18990933 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
18990888 ACATTGATAA
18990898 CATCTTGGTTGAGCTCG
1 CATCTTGGTTGAGCTCG
*
18990915 CATCTTTGTTGAGCTCG
1 CATCTTGGTTGAGCTCG
18990932 CA
1 CA
18990934 ACTTTGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (17 bp):
CATCTTGGTTGAGCTCG
Found at i:18990938 original size:17 final size:17
Alignment explanation
Indices: 18990905--18990957 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
18990895 TAACATCTTG
*
18990905 GTTGAGCTCGCATCTTT
1 GTTGAGCTCGCAACTTT
18990922 GTTGAGCTCGCAACTTT
1 GTTGAGCTCGCAACTTT
* *
18990939 GAATGAGCTCGCAAGTTT
1 G-TTGAGCTCGCAACTTT
18990957 G
1 G
18990958 GATGGGCTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 17 0.53
18 15 0.47
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (17 bp):
GTTGAGCTCGCAACTTT
Found at i:18990947 original size:18 final size:17
Alignment explanation
Indices: 18990907--18990975 Score: 75
Period size: 18 Copynumber: 3.9 Consensus size: 17
18990897 ACATCTTGGT
* *
18990907 TGAGCTCGCATCTTTGT
1 TGAGCTCGCAACTTTGA
18990924 TGAGCTCGCAACTTTGAA
1 TGAGCTCGCAACTTTG-A
*
18990942 TGAGCTCGCAAGTTTGGA
1 TGAGCTCGCAACTTT-GA
* *
18990960 TGGGCTCGCAGCTTTG
1 TGAGCTCGCAACTTTG
18990976 CGACCTGAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
17 16 0.36
18 27 0.61
19 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (17 bp):
TGAGCTCGCAACTTTGA
Found at i:18996403 original size:15 final size:15
Alignment explanation
Indices: 18996383--18996412 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18996373 TTGAGAGATA
18996383 AACAATTTATTATGT
1 AACAATTTATTATGT
18996398 AACAATTTATTATGT
1 AACAATTTATTATGT
18996413 CTTTATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
AACAATTTATTATGT
Found at i:18996546 original size:26 final size:24
Alignment explanation
Indices: 18996495--18996542 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
18996485 TTTCAACATG
* *
18996495 AAAAAAAAGGATTTGATTTTTATA
1 AAAAAAAAGGATTTGAATTTGATA
*
18996519 AAAAAAAATGGGTTTGAATTTGAT
1 AAAAAAAA-GGATTTGAATTTGAT
18996543 TAAATCCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (24 bp):
AAAAAAAAGGATTTGAATTTGATA
Found at i:18996751 original size:16 final size:16
Alignment explanation
Indices: 18996730--18996762 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18996720 TTCGCTATAT
18996730 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
18996746 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
18996762 T
1 T
18996763 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:18997013 original size:16 final size:16
Alignment explanation
Indices: 18996976--18997017 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18996966 TTAATCATAT
*
18996976 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
18996992 TT-AAATATATTATAA
1 TTAAAATATATTATAA
18997007 TTAAAATATAT
1 TTAAAATATAT
18997018 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:18997024 original size:14 final size:15
Alignment explanation
Indices: 18996985--18997026 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18996975 TTTAAACATA
*
18996985 ATTATTATTAAATAT
1 ATTATAATTAAATAT
18997000 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
18997014 A-TATAATTTAATA
1 ATTATAATTAAATA
18997027 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:18997201 original size:47 final size:46
Alignment explanation
Indices: 18997133--18997300 Score: 136
Period size: 47 Copynumber: 3.7 Consensus size: 46
18997123 TTAATTAAAA
18997133 TATATG-ATTTA-ATAAATTTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTTATAT-AA-TTTAAAATAATTATAA-TAATAAATTTTCT
* * **
18997180 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TAATA-ATA-AATTTTCT
* * *
18997228 TA-AT-AA--TATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
18997271 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
18997301 ATATTAAATA
Statistics
Matches: 94, Mismatches: 14, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
42 2 0.02
43 8 0.09
44 18 0.19
45 5 0.05
46 5 0.05
47 36 0.38
48 16 0.17
49 4 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:18997214 original size:101 final size:98
Alignment explanation
Indices: 18997092--18997374 Score: 272
Period size: 91 Copynumber: 3.0 Consensus size: 98
18997082 ACTATAAAAG
* * *
18997092 ATAAATTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAATTTTAAAA
1 ATAATTTAAAATAATTATTATTAAATATAATTTAA-TAAAATATAT-ATTT-ATAAATTTTAAAA
*
18997157 TAATT-ATAACTAATAAATTTTCTTATATGAATTTGT
63 TAATTCATAA-TAATAAATTTTCTTATATGAATTTAT
* * *
18997193 ATAATTTAAAATAATTATTATTACATATAATTTAAT--AATA-ATA--TAT-AATTTCATAA-AA
1 ATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAATTTTAAAATAA
* *
18997251 TTCTTGATAATAAATTTTCTTATATGAATTTAT
66 TTCATAATAATAAATTTTCTTATATGAATTTAT
* * * * *
18997284 ACAATTTAAAATAATTAATATTAAATATAATTTAAT--AAT-GATA--TAT-AATTTCATAA-AA
1 ATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAATTTTAAAATAA
* *
18997342 TTCTTAATAATAAAATGTTCTTATATGAATTTA
66 TTCATAATAAT-AAATTTTCTTATATGAATTTA
18997375 CTAAAATCAA
Statistics
Matches: 165, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
91 93 0.56
92 30 0.18
93 2 0.01
94 1 0.01
96 1 0.01
97 2 0.01
98 4 0.02
100 1 0.01
101 31 0.19
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (98 bp):
ATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAATTTTAAAATAA
TTCATAATAATAAATTTTCTTATATGAATTTAT
Found at i:18997222 original size:26 final size:28
Alignment explanation
Indices: 18997192--18997252 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
18997182 TATGAATTTG
*
18997192 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
18997218 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
18997246 TAAAATT
1 TATAATT
18997253 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:18997262 original size:91 final size:91
Alignment explanation
Indices: 18997167--18997374 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
18997157 TAATTATAAC
* * * *
18997167 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
18997232 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
18997258 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
18997323 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
18997349 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
18997375 CTAAAATCAA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 89 0.82
92 20 0.18
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:18997334 original size:44 final size:43
Alignment explanation
Indices: 18997192--18997334 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
18997182 TATGAATTTG
* *
18997192 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
18997236 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
18997283 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
18997327 TATAATTT
1 TATAATTT
18997335 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:18997349 original size:47 final size:47
Alignment explanation
Indices: 18997217--18997355 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
18997207 TTATTATTAC
* *
18997217 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
18997264 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
18997308 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
18997355 A
1 A
18997356 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:19001127 original size:13 final size:13
Alignment explanation
Indices: 19001109--19001133 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19001099 ATCAAATTTG
19001109 TATGTACTCTTTT
1 TATGTACTCTTTT
19001122 TATGTACTCTTT
1 TATGTACTCTTT
19001134 CACTAATAAA
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:0.16, C:0.16, G:0.08, T:0.60
Consensus pattern (13 bp):
TATGTACTCTTTT
Found at i:19001640 original size:29 final size:29
Alignment explanation
Indices: 19001608--19001687 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
19001598 TCTTTAACCC
19001608 TAAACAAATGCA-ACAATTTCCAGTTTCAT
1 TAAA-AAATGCAGACAATTTCCAGTTTCAT
19001637 TAAAAACA-GCAGACAATTTCCAGTTTCAT
1 TAAAAA-ATGCAGACAATTTCCAGTTTCAT
* *
19001666 TGAAAACTGCAGACAATTTCCA
1 TAAAAAATGCAGACAATTTCCA
19001688 TTGCAACAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 5 0.11
29 41 0.89
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (29 bp):
TAAAAAATGCAGACAATTTCCAGTTTCAT
Found at i:19002793 original size:15 final size:15
Alignment explanation
Indices: 19002773--19002801 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19002763 GCAATACAAA
19002773 CATACAAAACAGAAC
1 CATACAAAACAGAAC
19002788 CATACAAAACAGAA
1 CATACAAAACAGAA
19002802 ACCACAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.24, G:0.07, T:0.07
Consensus pattern (15 bp):
CATACAAAACAGAAC
Found at i:19004228 original size:16 final size:15
Alignment explanation
Indices: 19004207--19004242 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
19004197 AATTTAATGT
*
19004207 ATATATTATTGTTATA
1 ATATATTATTGCTA-A
19004223 ATATATTATTGCTAA
1 ATATATTATTGCTAA
19004238 ATATA
1 ATATA
19004243 AATAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
ATATATTATTGCTAA
Found at i:19005194 original size:13 final size:13
Alignment explanation
Indices: 19005178--19005205 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19005168 AATAAATATA
19005178 TATTTTTTAATTT
1 TATTTTTTAATTT
19005191 TATTTTTTAATTT
1 TATTTTTTAATTT
19005204 TA
1 TA
19005206 AAATACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTTTTAATTT
Found at i:19005252 original size:42 final size:44
Alignment explanation
Indices: 19005170--19005257 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 44
19005160 CCGAATATAA
*
19005170 TAAATATATATTTTTTAATTTTATTTTTTAATTTTAAAATACTTT
1 TAAATATATATTTTTT-ATTTTATTTTTTAATTTTAAAATAATTT
*
19005215 TAAA-ATATA-TTTTT-TTTTATTTTTTTATTTTTAAAATAATTT
1 TAAATATATATTTTTTATTTTA-TTTTTTAATTTTAAAATAATTT
19005257 T
1 T
19005258 TTAATGTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
41 5 0.12
42 21 0.52
43 5 0.12
44 5 0.12
45 4 0.10
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (44 bp):
TAAATATATATTTTTTATTTTATTTTTTAATTTTAAAATAATTT
Found at i:19005272 original size:31 final size:31
Alignment explanation
Indices: 19005212--19005272 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
19005202 TTTAAAATAC
**
19005212 TTTTAAAATATATTTTTTTTTATTTTTTTAT
1 TTTTAAAATATATTTTTTAATATTTTTTTAT
*
19005243 TTTTAAAATA-ATTTTTTAATGTTTATTTTA
1 TTTTAAAATATATTTTTTAATATTT-TTTTA
19005273 AAAATGGACC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (31 bp):
TTTTAAAATATATTTTTTAATATTTTTTTAT
Found at i:19008945 original size:22 final size:22
Alignment explanation
Indices: 19008898--19008947 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
19008888 CTCTGATTAT
*
19008898 TAGCACATTAGTGCTCTTCGTT
1 TAGCACATTAGTGCTCTTCGTA
*
19008920 TAGCACATTCGTGCTC-TCTGTA
1 TAGCACATTAGTGCTCTTC-GTA
19008942 TAGCAC
1 TAGCAC
19008948 TTGTAATAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTTCGTA
Found at i:19009360 original size:4 final size:4
Alignment explanation
Indices: 19009351--19009377 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
19009341 ATCCACCAAA
19009351 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
19009378 CCTAATCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:19010233 original size:25 final size:25
Alignment explanation
Indices: 19010212--19010313 Score: 159
Period size: 25 Copynumber: 4.1 Consensus size: 25
19010202 TTTCGATTTA
* *
19010212 CAACTCACATGAGCTTCCCGATATT
1 CAACTCGCATGAGCTTCCCGTTATT
*
19010237 CAACTCGCATGAGTTTCCCGTTATT
1 CAACTCGCATGAGCTTCCCGTTATT
*
19010262 CAACTCGCATGAACTTCCCGTTATT
1 CAACTCGCATGAGCTTCCCGTTATT
*
19010287 CAACTCGCATGAGCTTCTCGTTATT
1 CAACTCGCATGAGCTTCCCGTTATT
19010312 CA
1 CA
19010314 GCTTGGAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 70 1.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (25 bp):
CAACTCGCATGAGCTTCCCGTTATT
Found at i:19012286 original size:20 final size:20
Alignment explanation
Indices: 19012248--19012286 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19012238 AAACTCTATC
*
19012248 TATTTTGGTTTTATTTGAAG
1 TATTTTGGTTTTATATGAAG
19012268 TATTTTGGTTCTT-TATGAA
1 TATTTTGGTT-TTATATGAA
19012287 ATGAATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.59
Consensus pattern (20 bp):
TATTTTGGTTTTATATGAAG
Found at i:19018454 original size:15 final size:15
Alignment explanation
Indices: 19018417--19018467 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
19018407 AAATTACAAT
19018417 AATATTTAATAA-CA
1 AATATTTAATAATCA
19018431 AGA-ATTTAATAATCA
1 A-ATATTTAATAATCA
19018446 AATATTTAA-ACATCTA
1 AATATTTAATA-ATC-A
19018462 AATATT
1 AATATT
19018468 ATGCATACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 12 0.38
15 13 0.41
16 7 0.22
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (15 bp):
AATATTTAATAATCA
Found at i:19019754 original size:18 final size:18
Alignment explanation
Indices: 19019731--19019766 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19019721 AGCGAGTTCC
19019731 AAGCTACGATTCAAATAT
1 AAGCTACGATTCAAATAT
19019749 AAGCTACGATTCAAATAT
1 AAGCTACGATTCAAATAT
19019767 CGATATGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (18 bp):
AAGCTACGATTCAAATAT
Found at i:19024855 original size:2 final size:2
Alignment explanation
Indices: 19024848--19024882 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
19024838 CCAGTACATC
* *
19024848 AT AT AT AT AT AT AC AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19024883 CGAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19032216 original size:31 final size:30
Alignment explanation
Indices: 19032162--19032219 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
19032152 TAATTTTTAA
*
19032162 AGGATTAAATTAAATTTTAATATTTATATC
1 AGGATTAAAATAAATTTTAATATTTATATC
19032192 AGGAGTTAAAATATAATTTT-ATATTTAT
1 AGGA-TTAAAATA-AATTTTAATATTTAT
19032220 TAATTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 4 0.16
31 15 0.60
32 6 0.24
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (30 bp):
AGGATTAAAATAAATTTTAATATTTATATC
Found at i:19032943 original size:34 final size:34
Alignment explanation
Indices: 19032900--19032965 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 34
19032890 AGTAAAATGT
19032900 TTTTCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
19032933 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGGAAAATATTTT
19032966 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 5 0.16
34 12 0.39
35 14 0.45
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:19033077 original size:20 final size:20
Alignment explanation
Indices: 19033052--19033090 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19033042 GTTTTTACAT
19033052 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
19033072 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
19033091 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:19035482 original size:11 final size:11
Alignment explanation
Indices: 19035466--19035491 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19035456 AACCATCTGT
19035466 ATATAACCAAA
1 ATATAACCAAA
19035477 ATATAACCAAA
1 ATATAACCAAA
19035488 ATAT
1 ATAT
19035492 CATCCAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (11 bp):
ATATAACCAAA
Found at i:19035847 original size:18 final size:19
Alignment explanation
Indices: 19035824--19035867 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
19035814 TTTGCAACCC
19035824 AAGGGGAAGGGAAACGGG-
1 AAGGGGAAGGGAAACGGGA
*
19035842 AAGGGGAAGGGAAAGGGGA
1 AAGGGGAAGGGAAACGGGA
19035861 AAGGGGA
1 AAGGGGA
19035868 GAATGTGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.41, C:0.02, G:0.57, T:0.00
Consensus pattern (19 bp):
AAGGGGAAGGGAAACGGGA
Found at i:19035848 original size:6 final size:6
Alignment explanation
Indices: 19035824--19035867 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
19035814 TTTGCAACCC
* * *
19035824 AAGGGG AAGGGA AACGGG AAGGGG AAGGGA AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
19035868 GAATGTGTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.41, C:0.02, G:0.57, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:19043062 original size:36 final size:36
Alignment explanation
Indices: 19043021--19043090 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
19043011 AAATTATTAA
19043021 GAAACATTTATTTCAATATTTTTAATGTATTTTAGG
1 GAAACATTTATTTCAATATTTTTAATGTATTTTAGG
* * * *
19043057 GAAACATTTGTTTTAATGTTTTTACTGTATTTTA
1 GAAACATTTATTTCAATATTTTTAATGTATTTTA
19043091 TATTTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (36 bp):
GAAACATTTATTTCAATATTTTTAATGTATTTTAGG
Found at i:19044705 original size:15 final size:15
Alignment explanation
Indices: 19044687--19044716 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19044677 ATGCTATAAA
19044687 AATAAATACAACAAT
1 AATAAATACAACAAT
*
19044702 AATAAATACATCAAT
1 AATAAATACAACAAT
19044717 GGCATAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAATACAACAAT
Found at i:19044742 original size:13 final size:12
Alignment explanation
Indices: 19044724--19044762 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
19044714 AATGGCATAA
19044724 AAATAATATAAAC
1 AAATAA-ATAAAC
19044737 AAATAAATAAAC
1 AAATAAATAAAC
19044749 GAAATAAA-AAAC
1 -AAATAAATAAAC
19044761 AA
1 AA
19044763 TAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:19046903 original size:44 final size:42
Alignment explanation
Indices: 19046791--19047341 Score: 282
Period size: 44 Copynumber: 12.7 Consensus size: 42
19046781 TTTAATTTGT
* *
19046791 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCAGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTG-C-TCTT-AGTCTGC
*
19046836 -CTCACTGCAACTTCA-GGAGGATAAGCCTTGCTTACTTAGTCTGC
1 TC-CACTGCAACTTCAGGGA-GATAAGACTTGC-T-CTTAGTCTGC
* * * *
19046880 TCCACTGCAACTTCAGGGAGATAAGACTAGATGTGA-TCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCTCTTAGTCTGC
* ** ** * * * **
19046921 T-CTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCAC
1 TCCACTGCAACTTCAGGGAGATAAGA--CTTGCTCTTAGTCTGC
* * * **
19046964 TCCACTGCAACTTCAGGAAGATAGGATTATGGGCT-TTAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACT-T--GCTCTTAGTCTGC
*
19047008 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTG-C-TCTT-AGTCTGC
*
19047053 -CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTTCTTAGTTTGC
1 TC-CACTGCAACTTCAGGGA-GATAAGACTTGC--TCTTAGTCTGC
* * *
19047097 TCCACTGCAACTTCAGGGAGATAAGACTAGATGC-GA-TCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCT-CTTAGTCTGC
* * * * * * **
19047138 T-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCAC
1 TCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTCTTAGTCTGC
* * * **
19047181 TCCACTGCAACTTCAGGAAGATAGGATTATCGGCT-TTAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACT-T--GCTCTTAGTCTGC
* * * * *
19047225 TCCATTGCAACTTCAGAGAGACAAGATTTGCCATCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACTTG-C-TCTT-AGTCTGC
** *
19047270 -CTCACTGCAACTTCA-GGAGGATAAGACTTAATTTCTTAGTTTGC
1 TC-CACTGCAACTTCAGGGA-GATAAGACTT--GCTCTTAGTCTGC
*
19047314 TCCACTGCAACTTCAAGGAGATAAGACT
1 TCCACTGCAACTTCAGGGAGATAAGACT
19047342 AGATGCGATC
Statistics
Matches: 393, Mismatches: 74, Indels: 79
0.72 0.14 0.14
Matches are distributed among these distances:
40 43 0.11
41 15 0.04
42 16 0.04
43 16 0.04
44 202 0.51
45 101 0.26
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (42 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGCTCTTAGTCTGC
Found at i:19047058 original size:217 final size:217
Alignment explanation
Indices: 19046655--19047426 Score: 1179
Period size: 217 Copynumber: 3.5 Consensus size: 217
19046645 CTTCAATCTA
* * *
19046655 CTCCTCTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCGACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * * * *
19046720 GATCCAAGATTTGTGGTTCTAATCCGCTCCATTGCAACTTCAAGGAGATATGATTATTGGTTTTA
66 GATCCAAG----GT--TT-TAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTA
** * *
19046785 ATTTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCAGCCTCACTGCAACTTC
124 ACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
* * *
19046850 AGGAGGATAAGCCTTGCTTACTTAGTCTG
189 AGGAGGATAAGACTTGCTTTCTTAGTTTG
* *
19046879 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAAAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
*
19046944 GATCCAAGGTTTTAATCCACTCCACTGCAACTTC-AGGAAGATAGGATTATGGGCTTTAACCTGC
66 GATCCAAGGTTTTAATCCACTCCACTGCAACTTCAAGG-AGATAGGATTATCGGCTTTAACCTGC
19047008 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
130 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
19047073 ATAAGACTTGCTTTCTTAGTTTG
195 ATAAGACTTGCTTTCTTAGTTTG
19047096 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
*
19047161 GATCTAAGGTTTTAATCCACTCCACTGCAACTTC-AGGAAGATAGGATTATCGGCTTTAACCTGC
66 GATCCAAGGTTTTAATCCACTCCACTGCAACTTCAAGG-AGATAGGATTATCGGCTTTAACCTGC
* * * *
19047225 TCCATTGCAACTTCAGAGAGACAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGG
130 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
**
19047290 ATAAGACTTAATTTCTTAGTTTG
195 ATAAGACTTGCTTTCTTAGTTTG
* * *
19047313 CTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGACAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* *
19047378 GATCCAAGGTTTTAATCCACCCCATTGCAACTTCAAGGAGATAGGATTA
66 GATCCAAGGTTTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTA
19047427 CTAGCTACTG
Statistics
Matches: 515, Mismatches: 31, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
216 3 0.01
217 435 0.84
218 5 0.01
220 2 0.00
224 70 0.14
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCCAAGGTTTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTAACCTGCT
CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
TAAGACTTGCTTTCTTAGTTTG
Found at i:19064096 original size:42 final size:41
Alignment explanation
Indices: 19064004--19064566 Score: 313
Period size: 42 Copynumber: 13.7 Consensus size: 41
19063994 TTTTCAATCC
* *
19064004 GCTCCA-TGCAACTTCAGGAGAT-AGATT--ATGGTTTAAT-T
1 GCTCCACTGCAACTTCAGGAGATAAGATTGCAT--CTTAGTCT
*
19064042 G-TCCACTG-AACTTCGGGAGATAAGATTGCCATCTTCAGTC-
1 GCTCCACTGCAACTTCAGGAGATAAGATTG-CATCTT-AGTCT
* *
19064082 GC-CTCACTGCAACTTCAGGAGATAAGCTTGCTTACTTAGTCT
1 GCTC-CACTGCAACTTCAGGAGATAAGATTGCAT-CTTAGTCT
* **
19064124 GCTCCACTGCAACTTCAGGGAGATAAGACTAG-AT-GGA-TCT
1 GCTCCACTGCAACTTCA-GGAGATAAGA-TTGCATCTTAGTCT
* * * * *
19064164 GCT-CTCTGCAACTTCAAGAGATAAGA-TCCAAGTTTTAATC-
1 GCTCCACTGCAACTTCAGGAGATAAGATTGC-A-TCTTAGTCT
* * **
19064204 CCTCCACTGCAACTTCAGGAGATAGGATT--ATGGCTTTAACCT
1 GCTCCACTGCAACTTCAGGAGATAAGATTGCAT--C-TTAGTCT
19064246 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT
1 GCTCCACTGCAACTTCA-GGAGATAAGA-TTG-CATCTT-AGTCT
*
19064291 GC-CTCACTGCAACTTCAGGAGGATAAGACTTGCTTCTTAGT-T
1 GCTC-CACTGCAACTTCAGGA-GATAAGA-TTGCATCTTAGTCT
* *
19064333 GCTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TCT
1 GCTCCACTGCAACTTCA-GGAGATAAGA-TTGCAT-CTTAGTCT
* * * *
19064374 GCT-CTCTGCAACTTCAGAGAGATAAGA-T-CAAGTTTTAATCC
1 GCTCCACTGCAACTTCAG-GAGATAAGATTGC-A-TCTTAGTCT
* * * ** **
19064415 ACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCT
1 GCTCCACTGCAACTTCA-GGAGATAAGATT-GCATC-TTAGTCT
*
19064459 GCTCCATTGCAACTTCAGGAGA-AAGATTTGCCATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGAGATAAGA-TTG-CATCTT-AGTCT
* *
19064502 CCT-CACTGCAACTTCAGGAGATAAGACTT--TTCTTAGT-T
1 GCTCCACTGCAACTTCAGGAGATAAGA-TTGCATCTTAGTCT
19064540 GCTCCACTGCAACTTCAGGAGATAAGA
1 GCTCCACTGCAACTTCAGGAGATAAGA
19064567 CTAGATGGAT
Statistics
Matches: 412, Mismatches: 58, Indels: 109
0.71 0.10 0.19
Matches are distributed among these distances:
37 16 0.04
38 22 0.05
39 44 0.11
40 41 0.10
41 51 0.12
42 122 0.30
43 49 0.12
44 35 0.08
45 30 0.07
47 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (41 bp):
GCTCCACTGCAACTTCAGGAGATAAGATTGCATCTTAGTCT
Found at i:19072617 original size:24 final size:24
Alignment explanation
Indices: 19072589--19072635 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19072579 ATCATTTTTT
* *
19072589 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
19072613 GCTGCTCCTGCATTTCCTTTTGA
1 GCTGCTCATGCATTTCCTTTTGA
19072636 GACTGTTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:19076022 original size:13 final size:12
Alignment explanation
Indices: 19076004--19076042 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
19075994 AATGGCATAA
19076004 AAATAATATAAAC
1 AAATAA-ATAAAC
19076017 AAATAAATAAAC
1 AAATAAATAAAC
19076029 GAAATAAA-AAAC
1 -AAATAAATAAAC
19076041 AA
1 AA
19076043 TAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:19076514 original size:21 final size:20
Alignment explanation
Indices: 19076477--19076515 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19076467 ATTATACTAC
*
19076477 AAAAATAAATATGCATATGT
1 AAAAATAAATATACATATGT
*
19076497 AAAATATATATATACATAT
1 AAAA-ATAAATATACATAT
19076516 ATTTTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAATAAATATACATATGT
Found at i:19087794 original size:5 final size:5
Alignment explanation
Indices: 19087765--19087808 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
19087755 AAAATTTAAC
* *
19087765 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCAAT TCA
19087809 CATCTTAGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:19095022 original size:25 final size:25
Alignment explanation
Indices: 19094987--19095096 Score: 88
Period size: 25 Copynumber: 4.6 Consensus size: 25
19094977 CATACAAGCA
19094987 CATA-AACGGGAAGCTCTTCTGAGC
1 CATATAACGGGAAGCTCTTCTGAGC
* * * *
19095011 CATATAATGGGAAGCTCATGTGACC
1 CATATAACGGGAAGCTCTTCTGAGC
* **
19095036 CATGTAACGGGAAGCT-TTAGAGAGC
1 CATATAACGGGAAGCTCTT-CTGAGC
*
19095061 CAT-TAACGGGAAGCTCATAC-GAGC
1 CATATAACGGGAAGCTC-TTCTGAGC
19095085 CATAT--CGGGAAG
1 CATATAACGGGAAG
19095097 GTTCAAGCAA
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
23 7 0.10
24 24 0.34
25 38 0.54
26 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (25 bp):
CATATAACGGGAAGCTCTTCTGAGC
Found at i:19095628 original size:68 final size:68
Alignment explanation
Indices: 19095519--19095655 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
19095509 TTCAAACATA
*
19095519 TAAATATACATAATTTAGTTACACGAACTTACCTCGACAATTTTACGTTGATTTGTTGTATACTA
1 TAAATATACATAATTTAGTTACACGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
19095584 ATC
66 ATC
* *
19095587 TAAATATACATAATTTAGTTAGAGGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
1 TAAATATACATAATTTAGTTACACGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
19095652 ATC
66 ATC
19095655 T
1 T
19095656 GACACTTTCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (68 bp):
TAAATATACATAATTTAGTTACACGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
ATC
Found at i:19104042 original size:13 final size:13
Alignment explanation
Indices: 19104026--19104051 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19104016 AATGTGGTTT
19104026 GCTCATGTTTTAA
1 GCTCATGTTTTAA
19104039 GCTCATGTTTTAA
1 GCTCATGTTTTAA
19104052 ATATTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
GCTCATGTTTTAA
Found at i:19104199 original size:16 final size:16
Alignment explanation
Indices: 19104155--19104202 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
19104145 CATGTTTACG
19104155 TATGCTTTAATAT-TA
1 TATGCTTTAATATATA
*
19104170 -A-GCTTGT-ATGTATA
1 TATGCTT-TAATATATA
19104184 TATGCTTTAATATATA
1 TATGCTTTAATATATA
19104200 TAT
1 TAT
19104203 AGTTACTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
13 7 0.27
14 4 0.15
15 2 0.08
16 13 0.50
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.50
Consensus pattern (16 bp):
TATGCTTTAATATATA
Found at i:19108457 original size:20 final size:19
Alignment explanation
Indices: 19108428--19108465 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
19108418 TAAAAATTGA
19108428 TTAGCCTTGGTTGTCCCTT
1 TTAGCCTTGGTTGTCCCTT
19108447 TTAGACCTTGGTTGTCCCT
1 TTAG-CCTTGGTTGTCCCT
19108466 CTCTTCCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.08, C:0.26, G:0.21, T:0.45
Consensus pattern (19 bp):
TTAGCCTTGGTTGTCCCTT
Found at i:19111082 original size:30 final size:30
Alignment explanation
Indices: 19111046--19111106 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
19111036 AGGGGGAGTA
19111046 AGTATATATTCCTGGTTCTATATGTCAATG
1 AGTATATATTCCTGGTTCTATATGTCAATG
*
19111076 AGTATATATTCCTTGTTCTATATGTCAATG
1 AGTATATATTCCTGGTTCTATATGTCAATG
19111106 A
1 A
19111107 CATTTTGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (30 bp):
AGTATATATTCCTGGTTCTATATGTCAATG
Found at i:19121135 original size:53 final size:53
Alignment explanation
Indices: 19121055--19121159 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
19121045 ATATTTGACT
* *
19121055 TGTTACAAACATGTTCTATGATATGTTAAGATTAATTATTTCATTGTTGAACA
1 TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTATTGAACA
19121108 TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTATTGAAC
1 TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTATTGAAC
19121160 TCACTAACTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (53 bp):
TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTATTGAACA
Found at i:19128095 original size:17 final size:16
Alignment explanation
Indices: 19128072--19128117 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
19128062 TATTAAATAT
19128072 TATTAAAATAATAGAA
1 TATTAAAATAATAGAA
**
19128088 TGATTAAAATAAATTTAA
1 T-ATTAAAAT-AATAGAA
19128106 TATTAAAATAAT
1 TATTAAAATAAT
19128118 TAATTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 16 0.62
18 6 0.23
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (16 bp):
TATTAAAATAATAGAA
Found at i:19128124 original size:20 final size:20
Alignment explanation
Indices: 19128099--19128137 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19128089 GATTAAAATA
19128099 AATTTAATATTAAAATAATT
1 AATTTAATATTAAAATAATT
*
19128119 AATTTAATATTAAATTAAT
1 AATTTAATATTAAAATAAT
19128138 AAAATACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTTAATATTAAAATAATT
Found at i:19128175 original size:37 final size:36
Alignment explanation
Indices: 19128106--19128197 Score: 96
Period size: 37 Copynumber: 2.4 Consensus size: 36
19128096 ATAAATTTAA
*
19128106 TATTAAAATAATTAATTTAATATTAAATTAATA-AAATAC
1 TATTAAAATAA-T-ATTAAAT-TTAAATTAATATAAA-AC
* * *
19128145 TATTAAGATAAATATTAAATTTAATTTAATATTAAAC
1 TATTAAAAT-AATATTAAATTTAAATTAATATAAAAC
19128182 TATTAAAATAATATTA
1 TATTAAAATAATATTA
19128198 TTTTTGAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
36 7 0.15
37 20 0.43
38 8 0.17
39 9 0.20
40 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (36 bp):
TATTAAAATAATATTAAATTTAAATTAATATAAAAC
Found at i:19128188 original size:56 final size:54
Alignment explanation
Indices: 19128037--19128194 Score: 153
Period size: 56 Copynumber: 2.8 Consensus size: 54
19128027 AATATTTATC
* * *
19128037 AAGATAAATATGAAATTAAATTTAATATTAAATATTATTAAAATAATAGAAT-GATT
1 AAGATAAATATTAAATTAAATTTAATATT-AA-A-TATTAAAATAATAAAATATATT
* *
19128093 AAAATAAAT-TTAATATTAAAATAATTAAT-TT-AATATTAAATTAATAAAATACTATT
1 AAGATAAATATTAA-ATT-AAAT--TTAATATTAAATATTAAAATAATAAAATA-TATT
*
19128149 AAGATAAATATTAAATTTAATTTAATATTAAACTATTAAAATAATA
1 AAGATAAATATTAAATTAAATTTAATATTAAA-TATTAAAATAATA
19128195 TTATTTTTGA
Statistics
Matches: 84, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
53 5 0.06
54 17 0.20
55 9 0.11
56 38 0.45
57 8 0.10
58 2 0.02
59 5 0.06
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.39
Consensus pattern (54 bp):
AAGATAAATATTAAATTAAATTTAATATTAAATATTAAAATAATAAAATATATT
Found at i:19138471 original size:24 final size:23
Alignment explanation
Indices: 19138423--19138471 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
19138413 TTAAAACAGC
*
19138423 TTCTAAAAGAAACTCAAGAGCAA
1 TTCTAAAAGAAACTCAACAGCAA
*
19138446 TTCTTAAAGAAAACTCAAACAG-AA
1 TTCTAAAAG-AAACTC-AACAGCAA
19138470 TT
1 TT
19138472 ATTATTAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
24 10 0.45
25 4 0.18
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.22
Consensus pattern (23 bp):
TTCTAAAAGAAACTCAACAGCAA
Found at i:19141130 original size:36 final size:36
Alignment explanation
Indices: 19141090--19141163 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
19141080 GAAGGAGTGC
*
19141090 ATCAGTCAAAATAGATCC-AAAAGTCTATTGAACTGA
1 ATCAGTCAAAATAGATCCGAAAA-ACTATTGAACTGA
*
19141126 ATCAGTCAAAATAGATCCGAAAAACTGTTGAACTGA
1 ATCAGTCAAAATAGATCCGAAAAACTATTGAACTGA
19141162 AT
1 AT
19141164 AGAGTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 31 0.89
37 4 0.11
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (36 bp):
ATCAGTCAAAATAGATCCGAAAAACTATTGAACTGA
Found at i:19143066 original size:39 final size:40
Alignment explanation
Indices: 19142971--19143192 Score: 298
Period size: 39 Copynumber: 5.7 Consensus size: 40
19142961 TTGAATGATG
*
19142971 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
19143009 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
19143050 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
19143089 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19143128 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
19143167 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19143193 AACGAGGAGC
Statistics
Matches: 168, Mismatches: 8, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
39 129 0.77
40 27 0.16
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19149174 original size:17 final size:17
Alignment explanation
Indices: 19149154--19149192 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
19149144 ATAATAACAT
*
19149154 AATTTAAATTAATGCTA
1 AATTTAAATTAACGCTA
19149171 AATTTAAATTAACGCTA
1 AATTTAAATTAACGCTA
19149188 AATTT
1 AATTT
19149193 GAACCAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (17 bp):
AATTTAAATTAACGCTA
Found at i:19157482 original size:89 final size:89
Alignment explanation
Indices: 19157387--19157849 Score: 597
Period size: 89 Copynumber: 5.2 Consensus size: 89
19157377 TCAACTACAG
* * * * * * * *
19157387 CTTCAGGGAAATAAGATTCGCTATCCTCAGTCTGCTCCACTGTAACTTTAGGTAGATAAGGC-TG
1 CTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGATATAAGACTTG
* *
19157451 -ATGGCTTCAATCTGCTCCGCTGCAA
66 TAT--CTTCAACCTGCTCCACTGCAA
* * * * *
19157476 CTTCAGGGAGATAGGGTTTGCGATCTTCAGTCTACTCCACTACAACTTCAGGGATATAAGACTTG
1 CTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGATATAAGACTTG
* * *
19157541 TATCTTCAACCTGTTACACTGTAA
66 TATCTTCAACCTGCTCCACTGCAA
* *
19157565 CTTCAGAGAGATAGGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGATATAAGACTTG
1 CTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGATATAAGACTTG
19157630 TATCTTCAACCTGCTCCACTGCAA
66 TATCTTCAACCTGCTCCACTGCAA
* * *
19157654 CTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGTATATAAGACTTG
1 CTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGATATAAGACTTG
19157719 TATCTTCAACCTGCTCCACTGCAA
66 TATCTTCAACCTGCTCCACTGCAA
* * * ** *
19157743 CTTCAGTGAGATAAGGTTTGTTATCTTCAGTCTTCTCCACTATAACTTTAGGGAGATAAGACTTG
1 CTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGATATAAGACTTG
** *
19157808 TGGCTTCAACCTGCCCCACTGCAA
66 TATCTTCAACCTGCTCCACTGCAA
*
19157832 CTTCAGAGAGATAAGGTT
1 CTTCAGGGAGATAAGGTT
19157850 CACCATGATG
Statistics
Matches: 328, Mismatches: 44, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
89 324 0.99
90 2 0.01
91 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (89 bp):
CTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGATATAAGACTTG
TATCTTCAACCTGCTCCACTGCAA
Found at i:19157522 original size:45 final size:44
Alignment explanation
Indices: 19157230--19157849 Score: 440
Period size: 44 Copynumber: 13.9 Consensus size: 44
19157220 ATAGGATTAG
* * * * * *
19157230 CTTCAATCTGCTCCACTACAACTTTAGTGAGATAAGATTGGGAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAT
* * *
19157274 CTTTAACCTGCTCCACTGCAAATTCAGGGAGATAAGGTTTG-AT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAT
* * * * * * *
19157317 -AT-GATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGCAATTTATAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----G---TTTGTAT
* * * * * * * *
19157366 CTTCAATTTGTTCAACTACAGCTTCAGGGAAATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TAT
* * * * * *
19157411 CCTCAGTCTGCTCCACTGTAACTTTAGGTAGATAAGG-CTG-AT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAT
* * *
19157453 GGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAGGGTTTGCGAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TAT
* * * * **
19157500 CTTCAGTCTACTCCACTACAACTTCAGGGATATAAGACTTGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAT
* * * * * *
19157544 CTTCAACCTGTTACACTGTAACTTCAGAGAGATAGGGTTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TAT
* * * **
19157589 CTTCAGTCTGCTCCACTGCAACTTTAGGGATATAAGACTTGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAT
*
19157633 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TAT
* * * * **
19157678 CTTCAGTCTGCTCTACTGCAACTTCAGGTATATAAGACTTGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAT
* *
19157722 CTTCAACCTGCTCCACTGCAACTTCAGTGAGATAAGGTTTGTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TAT
* * ** * ** **
19157767 CTTCAGTCTTCTCCACTATAACTTTAGGGAGATAAGACTTGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAT
* * *
19157811 CTTCAACCTGCCCCACTGCAACTTCAGAGAGATAAGGTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTT
19157850 CACCATGATG
Statistics
Matches: 432, Mismatches: 125, Indels: 38
0.73 0.21 0.06
Matches are distributed among these distances:
41 26 0.06
42 3 0.01
43 2 0.00
44 201 0.47
45 168 0.39
47 2 0.00
48 3 0.01
49 1 0.00
50 1 0.00
51 25 0.06
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAT
Found at i:19157646 original size:178 final size:178
Alignment explanation
Indices: 19157230--19157849 Score: 653
Period size: 178 Copynumber: 3.5 Consensus size: 178
19157220 ATAGGATTAG
* ** * * *
19157230 CTTCAATCTGCTCCACTACAACTTTAGTGAGATAAGA-TTGGGATCTTTAACCTGCTCCACTGCA
1 CTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTT-GTATCTTCAACCTGCTCCACTGCA
* * * * * * *
19157294 AATTCAGGGAGATAAGGTTT--GAT-ATGA-TCTGCTCTACTACAACTTCAGAGAGATAAGATCT
65 ACTTCAGGGAGATAAGGTTTGCGATCTTCAGTCTACTCCACTACAACTTCAGGGATATAAGA-CT
* ** * * * * * * *
19157355 GCAATTTATAGCTTCAATTTG-TTCAACTACAGCTTCAGGGAAATAAGATTCGCTAT
129 ----TGTAT--CTTCAACCTGCTAC-ACTGCAACTTCAGAGAGATAAGGTTTGCTAT
* * * * *
19157411 CCTCAGTCTGCTCCACTGTAACTTTAGGTAGATAAGGC-TG-ATGGCTTCAATCTGCTCCGCTGC
1 CTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTAT--CTTCAACCTGCTCCACTGC
*
19157474 AACTTCAGGGAGATAGGGTTTGCGATCTTCAGTCTACTCCACTACAACTTCAGGGATATAAGACT
64 AACTTCAGGGAGATAAGGTTTGCGATCTTCAGTCTACTCCACTACAACTTCAGGGATATAAGACT
* * *
19157539 TGTATCTTCAACCTGTTACACTGTAACTTCAGAGAGATAGGGTTTGCTAT
129 TGTATCTTCAACCTGCTACACTGCAACTTCAGAGAGATAAGGTTTGCTAT
* *
19157589 CTTCAGTCTGCTCCACTGCAACTTTAGGGATATAAGACTTGTATCTTCAACCTGCTCCACTGCAA
1 CTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTATCTTCAACCTGCTCCACTGCAA
* * * * *
19157654 CTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGTATATAAGACTTG
66 CTTCAGGGAGATAAGGTTTGCGATCTTCAGTCTACTCCACTACAACTTCAGGGATATAAGACTTG
* * *
19157719 TATCTTCAACCTGCTCCACTGCAACTTCAGTGAGATAAGGTTTGTTAT
131 TATCTTCAACCTGCTACACTGCAACTTCAGAGAGATAAGGTTTGCTAT
* * ** *
19157767 CTTCAGTCTTCTCCACTATAACTTTAGGGAGATAAGACTTGTGGCTTCAACCTGCCCCACTGCAA
1 CTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTATCTTCAACCTGCTCCACTGCAA
*
19157832 CTTCAGAGAGATAAGGTT
66 CTTCAGGGAGATAAGGTT
19157850 CACCATGATG
Statistics
Matches: 372, Mismatches: 57, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
178 259 0.70
179 6 0.02
180 7 0.02
181 66 0.18
183 3 0.01
184 4 0.01
185 27 0.07
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (178 bp):
CTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTATCTTCAACCTGCTCCACTGCAA
CTTCAGGGAGATAAGGTTTGCGATCTTCAGTCTACTCCACTACAACTTCAGGGATATAAGACTTG
TATCTTCAACCTGCTACACTGCAACTTCAGAGAGATAAGGTTTGCTAT
Found at i:19172105 original size:22 final size:20
Alignment explanation
Indices: 19172079--19172132 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 20
19172069 AATCGTAGAT
*
19172079 TTGATATGTAATCTTAGGAGA
1 TTGATTTGTAATCTTA-GAGA
19172100 TATGATTTTGTAAATCTTAGAGA
1 T-TGA-TTTGT-AATCTTAGAGA
19172123 TTGATTTGTA
1 TTGATTTGTA
19172133 GATACCATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.03
21 6 0.21
22 6 0.21
23 9 0.31
24 7 0.24
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (20 bp):
TTGATTTGTAATCTTAGAGA
Found at i:19177246 original size:22 final size:21
Alignment explanation
Indices: 19177216--19177274 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
19177206 ATACAATCAT
*
19177216 AGATTTGATATGTAATCTTAGG
1 AGATTTGATTTGTAATCTTA-G
*
19177238 AGATATGATTTTGTAAATCTTAG
1 AGATTTGA-TTTGT-AATCTTAG
19177261 AGATTTGATTTGTA
1 AGATTTGATTTGTA
19177275 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.03
22 12 0.38
23 12 0.38
24 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.44
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:19185067 original size:12 final size:12
Alignment explanation
Indices: 19185047--19185077 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
19185037 TCGCTTCTTC
*
19185047 ACCATCATCGGA
1 ACCAGCATCGGA
19185059 ACCAGCATCGGA
1 ACCAGCATCGGA
19185071 ACCAGCA
1 ACCAGCA
19185078 CCAACACCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.35, G:0.19, T:0.10
Consensus pattern (12 bp):
ACCAGCATCGGA
Found at i:19186257 original size:14 final size:14
Alignment explanation
Indices: 19186217--19186259 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
19186207 AAACCAATTC
*
19186217 AATAA-TTTAAAAC
1 AATAATTTTAAAAA
19186230 AATAATTATTAAAAA
1 AATAATT-TTAAAAA
*
19186245 AATACTTTTAAAAA
1 AATAATTTTAAAAA
19186259 A
1 A
19186260 CTTTAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 12 0.46
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAATTTTAAAAA
Found at i:19196876 original size:50 final size:50
Alignment explanation
Indices: 19196821--19197015 Score: 237
Period size: 50 Copynumber: 3.9 Consensus size: 50
19196811 CATTGAGATT
* *
19196821 ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* *
19196871 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** * * *
19196921 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* ** ** * * *
19196971 ATGAAAACTCTTATGTAATACCATATCTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19197016 GTACAAGAAA
Statistics
Matches: 126, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 126 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:19196955 original size:100 final size:102
Alignment explanation
Indices: 19196768--19196967 Score: 260
Period size: 100 Copynumber: 1.9 Consensus size: 102
19196758 ATTTGGGTAA
*
19196768 AGAGATCCCATGTAAGACCATGTCTGGAACATGGCATTGACATCATTGAGATTATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGAACATGGCATTGACACCA-T-AG--TATGAGAGGTCCC
* * *
19196833 ATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAGATG
62 ACGTAAGACCATGTCTGAGACATGGCATGGGCACCGAGATG
* * * * *
19196874 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AG-ATGAGAGGTCCCCCGT
1 AGAGATCCCATGTAAGACCATGTCTGGAACATGGCATTGACACCATAGTATGAGAGGTCCCACGT
*
19196937 AAGACCATGTCTGGGACATGGCATGGGCACC
66 AAGACCATGTCTGAGACATGGCATGGGCACC
19196968 TATATGAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
100 42 0.50
103 2 0.02
106 40 0.48
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCATGTCTGGAACATGGCATTGACACCATAGTATGAGAGGTCCCACGT
AAGACCATGTCTGAGACATGGCATGGGCACCGAGATG
Found at i:19203150 original size:22 final size:23
Alignment explanation
Indices: 19203125--19203178 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
19203115 ACTAATGAAT
19203125 AGAGAGCACTA-AAGTGCTAAAC
1 AGAGAGCACTAGAAGTGCTAAAC
*
19203147 AGAGAGCAC-AGATGTGCTAAAC
1 AGAGAGCACTAGAAGTGCTAAAC
*
19203169 GGAGAGCACT
1 AGAGAGCACT
19203179 GTCGTGCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.13
Consensus pattern (23 bp):
AGAGAGCACTAGAAGTGCTAAAC
Found at i:19205035 original size:19 final size:19
Alignment explanation
Indices: 19204979--19205051 Score: 110
Period size: 19 Copynumber: 3.7 Consensus size: 19
19204969 AATCACATCT
* *
19204979 TCTAATATTACATATCATA
1 TCTAAGATTGCATATCATA
19204998 TCTAAGATTGCAAATATCATA
1 TCTAAGATTGC--ATATCATA
19205019 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
19205038 TCTAAGATTGCATA
1 TCTAAGATTGCATA
19205052 GCCTCGAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 31 0.62
21 19 0.38
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:19205533 original size:128 final size:129
Alignment explanation
Indices: 19205337--19205588 Score: 294
Period size: 128 Copynumber: 2.0 Consensus size: 129
19205327 AGATGAATTT
* * * * *
19205337 GATGCGATCTGCTCTACTGTAATTTCATAGAGATAAGATCCATCATTCTAATCCACTCCGCTACA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * *
19205402 ACTTTAGGGAGATAGGATT-T-GTTTATTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACT
66 ACTTCAGGGAGATAGGATTATCG--GATTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACT
19205465 A
129 A
* ** * * * * *
19205466 GATGCGTTCTGCTCT-CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATTCGCTTCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * *
19205530 ACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAA
66 ACTTCAGGGAGATAGGATTATCGGATTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
19205589 AATTTGCCAT
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
128 86 0.84
129 15 0.15
130 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (129 bp):
GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
ACTTCAGGGAGATAGGATTATCGGATTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTA
Found at i:19205961 original size:44 final size:44
Alignment explanation
Indices: 19205895--19206101 Score: 222
Period size: 44 Copynumber: 4.7 Consensus size: 44
19205885 GCTATTTTCC
* *
19205895 ACCTACTCCACTGCT-ACTCAGGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGGTTCACAATCTTCA
**
19205939 ACCTATTCCACTGCTGACCAGGGAGATA-GGACCTACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGGTTC-ACAATCTTCA
* * ** *
19205983 ATCC-ATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCA
1 A-CCTATTCCACTGCTGACCAGGGAGATAGGGTTCACAATCTTCA
* * * * *
19206027 CCCTATTCCACTGTTGACCAGAGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGGTTCACAATCTTCA
* *
19206071 ACCTATTCCACTACTGACCAAGGAGATAGGG
1 ACCTATTCCACTGCTGACCAGGGAGATAGGG
19206102 CTGAGGTCAT
Statistics
Matches: 133, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
43 5 0.04
44 123 0.92
45 5 0.04
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGGTTCACAATCTTCA
Found at i:19206010 original size:88 final size:88
Alignment explanation
Indices: 19205895--19206101 Score: 249
Period size: 88 Copynumber: 2.4 Consensus size: 88
19205885 GCTATTTTCC
* * *
19205895 ACCTACTCCACTGCT-ACTCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTGCTGACCA
1 ACCTATTCCACTACTGAC-CAGGGAGATAGGGTTCACAATCTTCAACCTATTCCACTGCTGACCA
*
19205959 GGGAGATAGGAC-CTACAATCTTCA
65 GAGAGATAGGACTC-ACAATCTTCA
* ** * * *
19205983 ATCC-ATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCACCCTATTCCACTGTTGACCA
1 A-CCTATTCCACTACTGACCAGGGAGATAGGGTTCACAATCTTCAACCTATTCCACTGCTGACCA
* *
19206047 GAGAGATAGGATTCACAATCTTTA
65 GAGAGATAGGACTCACAATCTTCA
*
19206071 ACCTATTCCACTACTGACCAAGGAGATAGGG
1 ACCTATTCCACTACTGACCAGGGAGATAGGG
19206102 CTGAGGTCAT
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
87 2 0.02
88 93 0.94
89 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (88 bp):
ACCTATTCCACTACTGACCAGGGAGATAGGGTTCACAATCTTCAACCTATTCCACTGCTGACCAG
AGAGATAGGACTCACAATCTTCA
Found at i:19206282 original size:44 final size:44
Alignment explanation
Indices: 19206221--19206859 Score: 580
Period size: 44 Copynumber: 14.6 Consensus size: 44
19206211 GCTGTCGGTG
* *
19206221 TAGGAA-AGCAAGATCTACTATCTTCGATCTACTTCACGCCAATA
1 TAGGAAGA-CAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * * * * *
19206265 CATGAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAGTA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
* *
19206310 TGGGAAGACAAGATCTG-TATCTTCGATCCACTTC-CTACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * * **
19206353 TAGGAAGACAGGACCTGCTATTTTCGATCTACTTCATGCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * * *
19206397 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
* * *
19206442 TGGGAAGATAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * * * *
19206485 TAGGAAGACAGGACCTGCTATCTTTGATCTACTTTACGCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * * * *
19206529 CATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
* * *
19206574 TGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * * *
19206618 TAGGAAGACAGGATCTACTATCTTCGATCTACTTCACGCTAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * *
19206662 CATGAAGACAAGATCTG-TATCTTCGATCCACTTC-CTACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * *
19206705 TAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * * ** *
19206749 AATGAAGACAAGATCTGCTTTCTTTGATCTACCGC-CACTAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* *
19206792 TGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
** *
19206835 TAGGAAGACGGGACCTGCTATCTTC
1 TAGGAAGACAAGATCTGCTATCTTC
19206860 ACTGATCTAC
Statistics
Matches: 469, Mismatches: 109, Indels: 34
0.77 0.18 0.06
Matches are distributed among these distances:
42 15 0.03
43 116 0.25
44 261 0.56
45 77 0.16
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
Found at i:19206402 original size:132 final size:132
Alignment explanation
Indices: 19206238--19206780 Score: 795
Period size: 132 Copynumber: 4.1 Consensus size: 132
19206228 GCAAGATCTA
* *
19206238 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTTGATCTACTTCGCC
1 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
*
19206303 ACCAGTATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACC
66 ACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACC
19206368 TG
131 TG
* *
19206370 CTATTTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
*
19206435 ACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACC
66 ACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACC
19206500 TG
131 TG
* * *
19206502 CTATCTTTGATCTACTTTACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCC
1 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
*
19206567 ACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGAT
66 ACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGAC
*
19206632 CTA
130 CTG
* * * *
19206635 CTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTG-TATCTTCGATCCACTTC-CT
1 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
* * * * * * * * *
19206698 ACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATAAATGAAGACAAGA
66 ACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGA
*
19206762 TCTG
129 CCTG
* *
19206766 CTTTCTTTGATCTAC
1 CTATCTTCGATCTAC
19206781 CGCCACTAAT
Statistics
Matches: 375, Mismatches: 34, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
131 54 0.14
132 257 0.69
133 64 0.17
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (132 bp):
CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
ACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACC
TG
Found at i:19206601 original size:220 final size:219
Alignment explanation
Indices: 19206313--19206843 Score: 728
Period size: 220 Copynumber: 2.4 Consensus size: 219
19206303 ACCAGTATGG
* * * * * * *
19206313 GAAGACAAGATCTG-TATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCT
* * * * * * * * *
19206376 TCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
65 TCGATCCACTTCCTACCAATATAGGAAGACAAGATCTACTATCTTCGATCTACTTC-ACACCAAT
** *
19206441 ATGGGAAGATAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTAT
129 ACAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTAT
* * *
19206506 CTTTGATCTACTTTACGCCAATACAT
194 CTTCGATCTACTTCACGCCAATAAAT
* *
19206532 GAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
* * *
19206597 CGATCCACTTCGCTACCAATATAGGAAGACAGGATCTACTATCTTCGATCTACTTCACGCTAATA
66 CGATCCACTTC-CTACCAATATAGGAAGACAAGATCTACTATCTTCGATCTACTTCACACCAATA
* *
19206662 CATGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATC
130 CAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATC
19206727 TTCGATCTACTTCACGCCAATAAAT
195 TTCGATCTACTTCACGCCAATAAAT
* *
19206752 GAAGACAAGATCTGCTTTCTTTGATCTAC--CGCCACTAATATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
19206815 CGATCCACTTCCTACCAATATAGGAAGAC
66 CGATCCACTTCCTACCAATATAGGAAGAC
19206844 GGGACCTGCT
Statistics
Matches: 276, Mismatches: 33, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
217 18 0.07
218 43 0.16
219 13 0.05
220 143 0.52
221 59 0.21
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (219 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
CGATCCACTTCCTACCAATATAGGAAGACAAGATCTACTATCTTCGATCTACTTCACACCAATAC
AGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCT
TCGATCTACTTCACGCCAATAAAT
Found at i:19208078 original size:6 final size:6
Alignment explanation
Indices: 19208063--19208096 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
19208053 GGCCTCTCCA
19208063 TTTTTC -TTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
19208097 ATCACTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:19212785 original size:25 final size:26
Alignment explanation
Indices: 19212738--19212801 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
19212728 AAATTGAAAT
* **
19212738 AAAAATAAATAAAAAGGTAAATTA-A
1 AAAAATAAAAAAAAAACTAAATTACA
*
19212763 AAAAATAAAAAAAAAACTTAATTACA
1 AAAAATAAAAAAAAAACTAAATTACA
*
19212789 AAAACATTAAAAA
1 AAAA-ATAAAAAA
19212802 GCGAAGGGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 20 0.62
26 5 0.16
27 7 0.22
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (26 bp):
AAAAATAAAAAAAAAACTAAATTACA
Found at i:19213121 original size:19 final size:19
Alignment explanation
Indices: 19213097--19213171 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
19213087 AATCACATCT
19213097 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
19213116 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
19213137 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
19213156 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
19213172 GTCAAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:19213134 original size:21 final size:21
Alignment explanation
Indices: 19213108--19213170 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
19213098 CTAAGATTAC
19213108 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
19213129 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
19213148 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
19213169 AT
1 AT
19213171 CGTCAAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:19213181 original size:17 final size:18
Alignment explanation
Indices: 19213100--19213181 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 18
19213090 CACATCTTCT
* *
19213100 AAGATTACATATCATATCT
1 AAGATTGCATATCA-ATCA
*
19213119 AAGATTGCATATATCATATCT
1 AAGATTGC--ATATCA-ATCA
*
19213140 AAGATTGCATATCATATCT
1 AAGATTGCATATCA-ATCA
*
19213159 AAGATTGCATATC-GTCA
1 AAGATTGCATATCAATCA
19213176 AAGATT
1 AAGATT
19213182 ATGTTTCCAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.14
19 31 0.53
21 19 0.33
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (18 bp):
AAGATTGCATATCAATCA
Found at i:19213273 original size:16 final size:17
Alignment explanation
Indices: 19213242--19213276 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19213232 AAAAATAATT
*
19213242 CAATTATCATATTTACA
1 CAATTATCACATTTACA
19213259 CAATT-TCACATTTACA
1 CAATTATCACATTTACA
19213275 CA
1 CA
19213277 CATATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (17 bp):
CAATTATCACATTTACA
Found at i:19214085 original size:5 final size:5
Alignment explanation
Indices: 19214075--19214103 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
19214065 TGTTTTTATT
19214075 ATATA ATATA ATATA ATATA ATAT- ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA
19214104 CTTAACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:19216150 original size:28 final size:26
Alignment explanation
Indices: 19216118--19216175 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
19216108 TTTTTCTAAG
19216118 TTTTAAT-AAATTTAAAATATTTTTATAT
1 TTTTAATAAAATTT--AATA-TTTTATAT
* *
19216146 TTTTATTAAAATTTTATATTTTATAT
1 TTTTAATAAAATTTAATATTTTATAT
19216172 TTTT
1 TTTT
19216176 TTTATCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 12 0.44
27 3 0.11
28 6 0.22
29 6 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTAATAAAATTTAATATTTTATAT
Found at i:19216794 original size:86 final size:86
Alignment explanation
Indices: 19216678--19216934 Score: 399
Period size: 86 Copynumber: 3.0 Consensus size: 86
19216668 TTTTTTGAAA
* * ** * * * * *
19216678 AAAAAGTTTGAG-GACCTTTTTGATACATTTTGGCAGTTCAAATACACAAGTAAGAGAAAAAAAT
1 AAAAAGTTTGAGAG-CTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTGAAAAAAAT
19216742 AGGGGCTTAATTGCTTTTTTTG
65 AGGGGCTTAATTGCTTTTTTTG
19216764 AAAAAGTTTGAGAGCTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTGAAAAAAATA
1 AAAAAGTTTGAGAGCTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTGAAAAAAATA
19216829 GGGGCTTAATTGCTTTTTTTG
66 GGGGCTTAATTGCTTTTTTTG
19216850 AAAAAGTTTGAGAGCTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTGAAAAAAATA
1 AAAAAGTTTGAGAGCTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTGAAAAAAATA
* *
19216915 GGGGCTTAAATGTTTTTTTT
66 GGGGCTTAATTGCTTTTTTT
19216935 AAGGGTTTGA
Statistics
Matches: 159, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
86 158 0.99
87 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (86 bp):
AAAAAGTTTGAGAGCTTTTTTGATATATTTTGAAAGTTTAAATACCCAATTGAGTGAAAAAAATA
GGGGCTTAATTGCTTTTTTTG
Found at i:19218106 original size:20 final size:20
Alignment explanation
Indices: 19218058--19218112 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
19218048 TTTTAAAATT
* *
19218058 AAGTTAAAATGATTTTAGCC
1 AAGTTAAAATGATTTCAACC
* **
19218078 TAGCCAAAATGATTTCAACC
1 AAGTTAAAATGATTTCAACC
*
19218098 AAGTTAAAATAATTT
1 AAGTTAAAATGATTT
19218113 TAACATATCA
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.33
Consensus pattern (20 bp):
AAGTTAAAATGATTTCAACC
Found at i:19218134 original size:40 final size:40
Alignment explanation
Indices: 19218058--19218141 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
19218048 TTTTAAAATT
* * * *
19218058 AAGTTAAAATGATTTTAGCCTAGCCAAAATGATTTCAACC
1 AAGTTAAAATAATTTTAACATAGCCAAAATGATTTCAAAC
* *
19218098 AAGTTAAAATAATTTTAACATA-TCAAAGTGATTTTCAAAC
1 AAGTTAAAATAATTTTAACATAGCCAAAATGA-TTTCAAAC
19218138 AAGT
1 AAGT
19218142 CAGAATTGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 7 0.19
40 30 0.81
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (40 bp):
AAGTTAAAATAATTTTAACATAGCCAAAATGATTTCAAAC
Found at i:19221096 original size:39 final size:38
Alignment explanation
Indices: 19221039--19221112 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
19221029 ATTCCCCGAT
19221039 TATTAATAACATAATTATTTAATTTAATTATTATTTTTAC
1 TATTAATAACATAATTATTT-ATTTAATTA-TATTTTTAC
* *
19221079 TATTATTAAC-TAATTATTTATTTTATTATATTTT
1 TATTAATAACATAATTATTTATTTAATTATATTTT
19221113 AATTCCTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 6 0.19
38 8 0.25
39 9 0.28
40 9 0.28
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.59
Consensus pattern (38 bp):
TATTAATAACATAATTATTTATTTAATTATATTTTTAC
Found at i:19221957 original size:17 final size:17
Alignment explanation
Indices: 19221931--19221967 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19221921 TGTGTTCTAA
19221931 AAAACATTTGTTTGTGT
1 AAAACATTTGTTTGTGT
* *
19221948 AAAACCTTTGTTTTTGT
1 AAAACATTTGTTTGTGT
19221965 AAA
1 AAA
19221968 TTGTTTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (17 bp):
AAAACATTTGTTTGTGT
Found at i:19225843 original size:18 final size:18
Alignment explanation
Indices: 19225808--19225846 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
19225798 CTTGAGAAAC
* **
19225808 TTTATATCCTTCTGGGAT
1 TTTAAATCCTTCAAGGAT
19225826 TTTAAATCCTTCAAGGAT
1 TTTAAATCCTTCAAGGAT
19225844 TTT
1 TTT
19225847 CATATAAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (18 bp):
TTTAAATCCTTCAAGGAT
Found at i:19235631 original size:11 final size:11
Alignment explanation
Indices: 19235614--19235643 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19235604 ATAATGCTTA
19235614 AGATAATCTAC
1 AGATAATCTAC
*
19235625 GGATAATCTAC
1 AGATAATCTAC
19235636 AGATAATC
1 AGATAATC
19235644 ATGCAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (11 bp):
AGATAATCTAC
Found at i:19236375 original size:14 final size:15
Alignment explanation
Indices: 19236356--19236385 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19236346 CATTAGAGGT
19236356 AAAGTCC-AAAGTCC
1 AAAGTCCAAAAGTCC
19236370 AAAGTCCAAAAGTCC
1 AAAGTCCAAAAGTCC
19236385 A
1 A
19236386 CAAACCACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAGTCCAAAAGTCC
Found at i:19236383 original size:8 final size:7
Alignment explanation
Indices: 19236356--19236385 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
19236346 CATTAGAGGT
19236356 AAAGTCC
1 AAAGTCC
19236363 AAAGTCC
1 AAAGTCC
19236370 AAAGTCC
1 AAAGTCC
19236377 AAAAGTCC
1 -AAAGTCC
19236385 A
1 A
19236386 CAAACCACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAGTCC
Found at i:19239722 original size:40 final size:40
Alignment explanation
Indices: 19239685--19239817 Score: 205
Period size: 40 Copynumber: 3.3 Consensus size: 40
19239675 GCTACTCGTT
* *
19239685 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
** *
19239725 CAAATGCCTTCGACACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
19239765 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
19239805 CAAATGCCTTCGG
1 CAAATGCCTTCGG
19239818 ATCTTAGTCC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 82 0.98
41 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:19239854 original size:80 final size:80
Alignment explanation
Indices: 19239685--19239868 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 80
19239675 GCTACTCGTT
* *
19239685 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGACACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGACACTTAACCCGA
*
19239750 ATTTAGTAACTCACA
66 ATATAGTAACTCACA
* * **
19239765 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGA-TCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTC-GACACTTAACCC
* * *
19239828 GAATATGGTCACTTAGCA
64 GAATATAGTAACTCA-CA
19239846 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
19239869 AACATCATTC
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
80 80 0.89
81 10 0.11
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGACACTTAACCCGA
ATATAGTAACTCACA
Found at i:19247782 original size:40 final size:39
Alignment explanation
Indices: 19247745--19247877 Score: 212
Period size: 40 Copynumber: 3.3 Consensus size: 39
19247735 GCTACTCGTT
* *
19247745 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
19247785 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
*
19247825 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GGTTTAGTAACTCGCA
19247865 CAAATGCCTTCGG
1 CAAATGCCTTCGG
19247878 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
40 85 0.97
41 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:19247914 original size:80 final size:80
Alignment explanation
Indices: 19247745--19247928 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 80
19247735 GCTACTCGTT
* * * *
19247745 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
* *
19247810 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
**
19247825 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAACCC-GATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
19247888 GAATATGGTCACTTAGCA
64 GAATATAGTAAC-TAGCA
*
19247906 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
19247929 GACATCATTC
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
79 4 0.04
80 75 0.83
81 11 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCA
Found at i:19250545 original size:71 final size:71
Alignment explanation
Indices: 19250455--19250603 Score: 262
Period size: 71 Copynumber: 2.1 Consensus size: 71
19250445 GGATACTAAA
* *
19250455 ACATATAAGCTTTCTACAGGTTAAGGGGTGTCTGTATCATCTCAGCATATCAAATCAATAATGTG
1 ACATGTAAGCTTTCTACAGGTTAAGGGGTGTCTCTATCATCTCAGCATATCAAATCAATAATGTG
19250520 GTCTCG
66 GTCTCG
* *
19250526 ACATGTAAGCTTTTTACAGGTTAAGGGGTGTCTCTATCATCTCAGCATATCAAATCTATAATGTG
1 ACATGTAAGCTTTCTACAGGTTAAGGGGTGTCTCTATCATCTCAGCATATCAAATCAATAATGTG
19250591 GTCTCG
66 GTCTCG
19250597 ACATGTA
1 ACATGTA
19250604 TAACTGAAGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (71 bp):
ACATGTAAGCTTTCTACAGGTTAAGGGGTGTCTCTATCATCTCAGCATATCAAATCAATAATGTG
GTCTCG
Found at i:19250805 original size:14 final size:15
Alignment explanation
Indices: 19250779--19250807 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19250769 GGGAGACAAC
19250779 CTAAAACAATAATTT
1 CTAAAACAATAATTT
19250794 CTAAAA-AATAATTT
1 CTAAAACAATAATTT
19250808 ATCATACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
CTAAAACAATAATTT
Done.