Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 155 of 226
Found at i:50391306 original size:22 final size:21
Alignment explanation
Indices: 50391270--50391331 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 21
50391260 CATACATGTG
50391270 TATAATAAAATAAAT-ATATACA
1 TATAATAAAA-AAATAAT-TACA
50391292 TATAGATAAAAAAATAATTACA
1 TATA-ATAAAAAAATAATTACA
*
50391314 TATAAATAAATAAATAAT
1 TAT-AATAAAAAAATAAT
50391332 CATTATATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 27 0.75
23 9 0.25
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (21 bp):
TATAATAAAAAAATAATTACA
Found at i:50391388 original size:21 final size:21
Alignment explanation
Indices: 50391349--50391389 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50391339 TTATACTACA
* *
50391349 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
50391370 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
50391390 TTTTTTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:50391453 original size:30 final size:28
Alignment explanation
Indices: 50391397--50391472 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 28
50391387 TATTTTTTTT
*
50391397 TAAAAATAACTAAATATAAAAAAAAG-AA
1 TAAAAA-AACTAATTATAAAAAAAAGAAA
50391425 TAAAAAAACTAATTAATAAAAAATAAAGAAAA
1 TAAAAAAACTAATT-AT-AAAAA-AAAG-AAA
50391457 TGAAAAAAGACTAATT
1 T-AAAAAA-ACTAATT
50391473 TGAACTGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
27 7 0.17
28 8 0.20
29 5 0.12
30 4 0.10
32 3 0.08
33 6 0.15
34 7 0.17
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.20
Consensus pattern (28 bp):
TAAAAAAACTAATTATAAAAAAAAGAAA
Found at i:50391975 original size:22 final size:21
Alignment explanation
Indices: 50391940--50392073 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
50391930 AAAGGGTATC
* *
50391940 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
50391961 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
50391984 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
50392003 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
50392022 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
50392041 TATATATTATA-C-CTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
50392060 TGCATATCATATCT
1 TACAAATCATATCT
50392074 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
19 65 0.69
20 1 0.01
21 3 0.03
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:50391983 original size:23 final size:22
Alignment explanation
Indices: 50391940--50391997 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
50391930 AAAGGGTATC
* *
50391940 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
50391961 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
50391984 TGCATATCATATCT
1 TACAAATCATATCT
50391998 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:50392000 original size:19 final size:19
Alignment explanation
Indices: 50391976--50392086 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
50391966 AATCATATCT
50391976 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
50391995 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
50392014 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
50392033 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
*
50392052 CCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50392071 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
50392087 CCTGAAGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50392023 original size:38 final size:38
Alignment explanation
Indices: 50391976--50392079 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
50391966 AATCATATCT
50391976 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
50392014 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
50392052 CCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
50392080 GCATATCCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:50392423 original size:45 final size:43
Alignment explanation
Indices: 50392372--50392478 Score: 108
Period size: 43 Copynumber: 2.4 Consensus size: 43
50392362 AAGAATTGGT
*
50392372 GCTTCAATCTACTCCACTGCAAT-ATCAAGGAGATAGGACTTACAA
1 GCTTCAATCTACTCCACTGC--TGACCAAGGAGATAGGA-TTACAA
* * * * **
50392417 TCTTCAACCTATTCCACTGCTGACCAAGGAGATATGATTACTG
1 GCTTCAATCTACTCCACTGCTGACCAAGGAGATAGGATTACAA
*
50392460 GCTTCAATGTACTCCACTG
1 GCTTCAATCTACTCCACTG
50392479 TAACCACAGG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
43 20 0.40
44 13 0.26
45 17 0.34
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
GCTTCAATCTACTCCACTGCTGACCAAGGAGATAGGATTACAA
Found at i:50392641 original size:132 final size:132
Alignment explanation
Indices: 50392415--50392786 Score: 604
Period size: 132 Copynumber: 2.8 Consensus size: 132
50392405 TAGGACTTAC
* * * **
50392415 AATCTTCAACCTATTCCACTGCTGACCAAGG-AGATATGATTACTGGCTTCAATGTACTCCACTG
1 AATCTTCAATCTATTCCACTGTTGACCAGGGAAG-TAAAATTACTGGCTTCAATGTACTCCACTG
50392479 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATA
65 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATA
50392544 TGA
130 TGA
*
50392547 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGACCAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGT
* * * *
50392612 AACCACAGGGAGGTAAAATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATAT
50392677 GA
131 GA
*
50392679 AATCTTCAATCTATTCCACTGTT-ACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTG
1 AATCTTCAATCTATTCCACTGTTGA-CCAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTG
*
50392743 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCACT
65 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
50392787 GTCAATGCAG
Statistics
Matches: 222, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
132 220 0.99
133 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGACCAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATAT
GA
Found at i:50394153 original size:15 final size:15
Alignment explanation
Indices: 50394133--50394178 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
50394123 TGGCCTCTCC
50394133 TTTTTCTTTTTTTAT
1 TTTTTCTTTTTTTAT
50394148 TTTTTCTTTCTTTT-T
1 TTTTTCTTT-TTTTAT
**
50394163 TTTGCCTTTTTTTAT
1 TTTTTCTTTTTTTAT
50394178 T
1 T
50394179 GAATCTGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 19 0.70
16 4 0.15
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTTTTAT
Found at i:50396773 original size:24 final size:24
Alignment explanation
Indices: 50396745--50396791 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
50396735 ATCATTTTTT
* *
50396745 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
50396769 GCTGCTCCTGCATTTCCTTTTGA
1 GCTGCTCATGCATTTCCTTTTGA
50396792 GATTGTTCTA
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:50399209 original size:26 final size:26
Alignment explanation
Indices: 50399180--50399233 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
50399170 TGTGTATACT
* * *
50399180 AAAATAAATATATACATATAGATAAA
1 AAAATAAATACATACAAATAAATAAA
*
50399206 AAAATAATTACATACAAATAAATAAA
1 AAAATAAATACATACAAATAAATAAA
50399232 AA
1 AA
50399234 TAATTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (26 bp):
AAAATAAATACATACAAATAAATAAA
Found at i:50399226 original size:22 final size:22
Alignment explanation
Indices: 50399179--50399239 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 22
50399169 ATGTGTATAC
* *
50399179 TAAAATAAAT-ATATACATATAGA
1 TAAAA-AAATAAT-TACATACAAA
50399202 TAAAAAAATAATTACATACAAA
1 TAAAAAAATAATTACATACAAA
50399224 TAAATAAAAATAATTA
1 T-AA-AAAAATAATTA
50399240 TTATATTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 13 0.39
23 9 0.27
24 11 0.33
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAAAAAATAATTACATACAAA
Found at i:50399279 original size:21 final size:21
Alignment explanation
Indices: 50399255--50399295 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50399245 TTATACTGCA
*
50399255 AAAAATAAATATACGTATATG
1 AAAAATAAATATACATATATG
*
50399276 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
50399296 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:50399874 original size:22 final size:21
Alignment explanation
Indices: 50399849--50399903 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
50399839 TACAAATTAA
50399849 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTACAAAA-CAT
* *
50399871 ATCTTCTAAGATTGCATAACAT
1 ATC-TCTAAGATTACAAAACAT
50399893 A--TCTAAGATTA
1 ATCTCTAAGATTA
50399904 TATATCATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 9 0.31
22 7 0.24
23 13 0.45
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (21 bp):
ATCTCTAAGATTACAAAACAT
Found at i:50399882 original size:23 final size:22
Alignment explanation
Indices: 50399852--50399896 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
50399842 AAATTAAATC
50399852 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAA-CATATCT
* *
50399875 TCTAAGATTGCATAACATATCT
1 TCTAAGATTACAAAACATATCT
50399897 AAGATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (22 bp):
TCTAAGATTACAAAACATATCT
Found at i:50399899 original size:19 final size:19
Alignment explanation
Indices: 50399875--50399985 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
50399865 AATCATATCT
*
50399875 TCTAAGATTGCATAACATA
1 TCTAAGATTGCATATCATA
**
50399894 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
50399913 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
50399932 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
50399951 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50399970 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
50399986 CCTGAAGATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50399922 original size:38 final size:38
Alignment explanation
Indices: 50399875--50399978 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
50399865 AATCATATCT
*
50399875 TCTAAGATTGCATAACATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
50399913 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
50399951 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
50399979 GCATATCCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:50407026 original size:97 final size:97
Alignment explanation
Indices: 50406860--50407056 Score: 376
Period size: 97 Copynumber: 2.0 Consensus size: 97
50406850 GCAGCTAATA
50406860 ATGATATTCTATGCATTATAAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
1 ATGATATTCTATGCATTATAAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
*
50406925 GGAATGGGGTTGTTCATTCCATGGATCTAAAT
66 GGAATGGAGTTGTTCATTCCATGGATCTAAAT
*
50406957 ATGATATTCTATGCATTATGAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
1 ATGATATTCTATGCATTATAAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
50407022 GGAATGGAGTTGTTCATTCCATGGATCTAAAT
66 GGAATGGAGTTGTTCATTCCATGGATCTAAAT
50407054 ATG
1 ATG
50407057 CCTTTCTCCA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 98 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (97 bp):
ATGATATTCTATGCATTATAAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
GGAATGGAGTTGTTCATTCCATGGATCTAAAT
Found at i:50413957 original size:38 final size:40
Alignment explanation
Indices: 50413895--50413978 Score: 127
Period size: 38 Copynumber: 2.1 Consensus size: 40
50413885 ATTTTATAGC
* * *
50413895 AGATTTGTGGATTCTGATTTAGATGGATATGTTCAATTT-
1 AGATTTGTGGATTCCGATTCAGATGGATATATTCAATTTA
50413934 AGATTTGT-GATTCCGATTCAGATGGATATATTCAATTTA
1 AGATTTGTGGATTCCGATTCAGATGGATATATTCAATTTA
50413973 AGATTT
1 AGATTT
50413979 TATAGCAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 27 0.66
39 14 0.34
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (40 bp):
AGATTTGTGGATTCCGATTCAGATGGATATATTCAATTTA
Found at i:50416095 original size:34 final size:34
Alignment explanation
Indices: 50416044--50416111 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
50416034 AAAGTAGTTT
*
50416044 TTAGGAAAGCAGTAATAAAAAAAAGTAAAAACTA
1 TTAGAAAAGCAGTAATAAAAAAAAGTAAAAACTA
*
50416078 TTAGAAAAGTAGTAATAAAAAAAAGTAAAAACTA
1 TTAGAAAAGCAGTAATAAAAAAAAGTAAAAACTA
50416112 ATGCAAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.63, C:0.04, G:0.13, T:0.19
Consensus pattern (34 bp):
TTAGAAAAGCAGTAATAAAAAAAAGTAAAAACTA
Found at i:50416120 original size:34 final size:34
Alignment explanation
Indices: 50416049--50416121 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
50416039 AGTTTTTAGG
* *
50416049 AAAGCAGTAATAAAAAAAAGTAAAAACTATTAGA
1 AAAGTAGTAATAAAAAAAAGTAAAAACTAATAGA
50416083 AAAGTAGTAATAAAAAAAAGTAAAAACTAAT-GCA
1 AAAGTAGTAATAAAAAAAAGTAAAAACTAATAG-A
50416117 AAAGT
1 AAAGT
50416122 TACCAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 1 0.03
34 35 0.97
ACGTcount: A:0.64, C:0.05, G:0.12, T:0.18
Consensus pattern (34 bp):
AAAGTAGTAATAAAAAAAAGTAAAAACTAATAGA
Found at i:50420391 original size:15 final size:15
Alignment explanation
Indices: 50420373--50420408 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
50420363 AAAATAAAAT
*
50420373 TCGAGTCAAGTCGAA
1 TCGAGTCAAATCGAA
*
50420388 TCGAATCAAATCGAA
1 TCGAGTCAAATCGAA
50420403 TCGAGT
1 TCGAGT
50420409 TGAGTTGAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (15 bp):
TCGAGTCAAATCGAA
Found at i:50420721 original size:19 final size:20
Alignment explanation
Indices: 50420680--50420723 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
50420670 TTAGATATAA
*
50420680 ATTTTGAAATTATTATTAAT
1 ATTTTGAAATTATTATAAAT
50420700 ATTTTG-AATT-TTATAAATT
1 ATTTTGAAATTATTATAAA-T
50420719 ATTTT
1 ATTTT
50420724 AAAAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 10 0.45
20 6 0.27
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTTGAAATTATTATAAAT
Found at i:50420844 original size:9 final size:9
Alignment explanation
Indices: 50420812--50420838 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
50420802 ACACCAATCT
50420812 ATTATTTGA
1 ATTATTTGA
50420821 ATTATTTGA
1 ATTATTTGA
50420830 ATTATTTGA
1 ATTATTTGA
50420839 GATATTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (9 bp):
ATTATTTGA
Found at i:50420844 original size:18 final size:18
Alignment explanation
Indices: 50420812--50420850 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50420802 ACACCAATCT
*
50420812 ATTATTTGAATTATTTGA
1 ATTATTTGAATTATTCGA
50420830 ATTATTTGAGA-TATTCGA
1 ATTATTTGA-ATTATTCGA
50420848 ATT
1 ATT
50420851 GTGAAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (18 bp):
ATTATTTGAATTATTCGA
Found at i:50424988 original size:2 final size:2
Alignment explanation
Indices: 50424981--50425007 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50424971 CTTCACTGAT
50424981 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
50425008 TCGAATGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50428818 original size:2 final size:2
Alignment explanation
Indices: 50428811--50428842 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50428801 ACATACATAC
50428811 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50428843 GCAAAAGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50429320 original size:29 final size:29
Alignment explanation
Indices: 50429288--50429349 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
50429278 AAAAAGCCGT
50429288 TTTTTTTTA-AATTTACCGAAATGGGCCA
1 TTTTTTTTATAATTTACCGAAATGGGCCA
* * * *
50429316 ATTTTTTTATTATTTACCGGAATGGTCCA
1 TTTTTTTTATAATTTACCGAAATGGGCCA
50429345 TTTTT
1 TTTTT
50429350 CGAGAAATCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (29 bp):
TTTTTTTTATAATTTACCGAAATGGGCCA
Found at i:50433002 original size:29 final size:29
Alignment explanation
Indices: 50432969--50433057 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
50432959 ATTAAGCCAA
*
50432969 AAATTGTGTTAATGATTAGTAAAATTATC
1 AAATTGTGTTAATGATTAGTAAAGTTATC
* * * * *
50432998 AAATTATG-TAA-AATTA-TTAAGTCCA-A
1 AAATTGTGTTAATGATTAGTAAAGT-TATC
*
50433024 AAATTGTGTTAATGGTTAGTAAAGTTATC
1 AAATTGTGTTAATGATTAGTAAAGTTATC
50433053 AAATT
1 AAATT
50433058 ATGTAAAATT
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
26 11 0.26
27 8 0.19
28 7 0.16
29 17 0.40
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (29 bp):
AAATTGTGTTAATGATTAGTAAAGTTATC
Found at i:50433052 original size:55 final size:54
Alignment explanation
Indices: 50432890--50433105 Score: 360
Period size: 55 Copynumber: 3.9 Consensus size: 54
50432880 CAAATCTAAC
*
50432890 ATTATGTAAAATTATTAAGCCAAAAAAATTTTGTTAATGGTTAGTAAAATTATCAA
1 ATTATGTAAAATTATTAAGCC--AAAAATTGTGTTAATGGTTAGTAAAATTATCAA
* *
50432946 AATATGTAAAATTATTAAGCCAAAAATTGTGTTAATGATTAGTAAAATTATCAA
1 ATTATGTAAAATTATTAAGCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAA
*
50433000 ATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAGTTATCAA
1 ATTATGTAAAATTATTAAG-CCAAAAATTGTGTTAATGGTTAGTAAAATTATCAA
50433055 ATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTA
1 ATTATGTAAAATTATTAAG-CCAAAAATTGTGTTAATGGTTAGTAAAATTA
50433106 AGTTAGGTTA
Statistics
Matches: 152, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
54 49 0.32
55 83 0.55
56 20 0.13
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (54 bp):
ATTATGTAAAATTATTAAGCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAA
Found at i:50433052 original size:109 final size:110
Alignment explanation
Indices: 50432890--50433105 Score: 364
Period size: 109 Copynumber: 2.0 Consensus size: 110
50432880 CAAATCTAAC
*
50432890 ATTATGTAAAATTATTAAGCCAAAAAAATTTTGTTAATGGTTAGTAAAATTATCAAAATATGTAA
1 ATTATGTAAAATTATTAAGCC-AAAAAATTGTGTTAATGGTTAGTAAAATTATCAAAATATGTAA
50432955 AATTATTAAG-CCAAAAATTGTGTTAATGATTAGTAAAATTATCAA
65 AATTATTAAGTCCAAAAATTGTGTTAATGATTAGTAAAATTATCAA
* *
50433000 ATTATGTAAAATTATTAAGTCC-AAAAATTGTGTTAATGGTTAGTAAAGTTATCAAATTATGTAA
1 ATTATGTAAAATTATTAAG-CCAAAAAATTGTGTTAATGGTTAGTAAAATTATCAAAATATGTAA
*
50433064 AATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTA
65 AATTATTAAGTCCAAAAATTGTGTTAATGATTAGTAAAATTA
50433106 AGTTAGGTTA
Statistics
Matches: 100, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
109 49 0.49
110 49 0.49
111 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (110 bp):
ATTATGTAAAATTATTAAGCCAAAAAATTGTGTTAATGGTTAGTAAAATTATCAAAATATGTAAA
ATTATTAAGTCCAAAAATTGTGTTAATGATTAGTAAAATTATCAA
Found at i:50433212 original size:64 final size:64
Alignment explanation
Indices: 50433107--50433569 Score: 571
Period size: 64 Copynumber: 7.6 Consensus size: 64
50433097 GTAAAATTAA
* *
50433107 GTTA-GGTTAGGGTTAGGGTTTTTAATTTAGTTAGTTTAGGGTTAGGGTTTTTAATTAAGTTAG
1 GTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAG
* * *
50433170 GTTAGGGTTAGGGTTAGGATTTTTAATTAAGTTCGGTTAGGGTTAGGATTTTTAATTAAGTTA-
1 GTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAG
50433233 G-T----TTAGGGTTAGGGTTTTTAATT-A---A-GTTA-GGTTAGGGTTTTTAATTAAGTTAG
1 GTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAG
*
50433286 GTTAGGGTTAGGGTT----TTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGT
1 GTTAGGGTTAGGGTTAGGGTTT--TTAA-TTAAGTTA-GGTTAGGGTTAGGGTTTTTAATTAAGT
50433347 TAG
62 TAG
* * *
50433350 GTTA-----A-GGTTAAGGTTTTTAATTAAGTTAGTTTAGAGTTAGGGTTTTTAATTAAGTTAG
1 GTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAG
* * *
50433408 GTTAGGGTTAGGG-TAGGGTTTTTAATTAAGTTAGTTTAGGGTTAGGATTTTTAATTAATTTAG
1 GTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAG
* *
50433471 GTTAGGGTTAGGATTAGGATTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAG
1 GTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAG
* *
50433535 GTTAGGGTTA-GGTTAGGGTTTTCAATTAAATTAGG
1 GTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
50433570 GTTTTTATTT
Statistics
Matches: 347, Mismatches: 25, Indels: 56
0.81 0.06 0.13
Matches are distributed among these distances:
52 22 0.06
53 5 0.01
54 4 0.01
56 4 0.01
57 3 0.01
58 64 0.18
59 8 0.02
60 4 0.01
61 1 0.00
62 4 0.01
63 89 0.26
64 139 0.40
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.45
Consensus pattern (64 bp):
GTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAG
Found at i:50433315 original size:18 final size:18
Alignment explanation
Indices: 50433292--50433350 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
50433282 TTAGGTTAGG
50433292 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**** *
50433310 GTTA-GG-TTAGGGTTAGG
1 GTTAGGGTTTTTAATTA-A
50433327 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
50433345 GTTAGG
1 GTTAGG
50433351 TTAAGGTTAA
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 5 0.18
17 6 0.21
18 12 0.43
19 5 0.18
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:50433321 original size:23 final size:23
Alignment explanation
Indices: 50433239--50433323 Score: 116
Period size: 23 Copynumber: 3.4 Consensus size: 23
50433229 GTTAGTTTAG
50433239 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAGTTA
50433262 GGTTAGGGTTTTTAATTAAGTTAGGTTA
1 GGTTAGGGTTTTTAATT-A---A-GTTA
50433290 GGGTTAGGGTTTTTAATTAAGTTA
1 -GGTTAGGGTTTTTAATTAAGTTA
50433314 GGTTAGGGTT
1 GGTTAGGGTT
50433324 AGGGTTAGGG
Statistics
Matches: 56, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
23 27 0.48
24 5 0.09
25 1 0.02
27 1 0.02
28 5 0.09
29 17 0.30
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAGTTA
Found at i:50433535 original size:18 final size:18
Alignment explanation
Indices: 50433512--50433576 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
50433502 TTAGGTTAGG
50433512 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**** *
50433530 GTTA-GG-TTAGGGTTAG
1 GTTAGGGTTTTTAATTAA
*
50433546 GTTAGGGTTTTCAATTAA
1 GTTAGGGTTTTTAATTAA
*
50433564 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
50433577 TTTTATTATA
Statistics
Matches: 33, Mismatches: 12, Indels: 4
0.67 0.24 0.08
Matches are distributed among these distances:
16 9 0.27
17 4 0.12
18 20 0.61
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.46
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:50433546 original size:11 final size:11
Alignment explanation
Indices: 50433530--50433554 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50433520 TTTTAATTAA
50433530 GTTAGGTTAGG
1 GTTAGGTTAGG
50433541 GTTAGGTTAGG
1 GTTAGGTTAGG
50433552 GTT
1 GTT
50433555 TTCAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (11 bp):
GTTAGGTTAGG
Found at i:50433572 original size:29 final size:29
Alignment explanation
Indices: 50433101--50433546 Score: 535
Period size: 29 Copynumber: 14.8 Consensus size: 29
50433091 TGGTTAGTAA
50433101 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
50433130 AATTTAGTTAGTTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
50433159 AATTAAGTTAGGTTAGGGTTAGGGTTAGGATTTTT
1 AATTAAGTTAGGTTAGGGTTA--G---GG-TTTTT
* *
50433194 AATTAAGTTCGGTTAGGGTTAGGATTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
*
50433223 AATTAAGTTAGTTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
50433252 AATT-A---A-GTTA-GGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
50433275 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
50433304 AATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTT
1 AATT-A---A-GTTA-GGTTAGGGTTAGGGTTTTT
* *
50433339 AATTAAGTTAGGTTAAGGTTAAGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
50433368 AATTAAGTTAGTTTAGAGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
50433397 AATTAAGTTAGGTTAGGGTTAGGGTAGGGTTTTT
1 AATTAAGTTAGGTTAGGG-T----TAGGGTTTTT
* *
50433431 AATTAAGTTAGTTTAGGGTTAGGATTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
*
50433460 AATTAATTTAGGTTAGGGTTAGGATTAGGATTTTT
1 AATTAAGTTAGGTTAGGGTTA-G----GG-TTTTT
50433495 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
50433524 AATTAAGTTAGGTTAGGGTTAGG
1 AATTAAGTTAGGTTAGGGTTAGG
50433547 TTAGGGTTTT
Statistics
Matches: 364, Mismatches: 24, Indels: 58
0.82 0.05 0.13
Matches are distributed among these distances:
23 17 0.05
24 4 0.01
25 1 0.00
27 1 0.00
28 5 0.01
29 212 0.58
30 10 0.03
31 2 0.01
33 3 0.01
34 36 0.10
35 73 0.20
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (29 bp):
AATTAAGTTAGGTTAGGGTTAGGGTTTTT
Found at i:50433572 original size:93 final size:90
Alignment explanation
Indices: 50433101--50433569 Score: 518
Period size: 93 Copynumber: 5.1 Consensus size: 90
50433091 TGGTTAGTAA
* *
50433101 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTTAGTTAGTTTAGGGTTAGGGTTTTTAATTAAG
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAG
50433166 TTAGGTTAGGGTTAGGGTTAGGATTTTT
66 TTAGGTTAGGGTTA-GGTTA-G-TTTTT
* * *
50433194 AATTAAGTTCGGTTAGGGTTAGGATTTTTAATTAAGTTAGTTTAGGGTTAGGGTTTTTAATT-A-
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAG
50433257 --A-GTTA-GGTTAGG---GTTTTT
66 TTAGGTTAGGGTTAGGTTAGTTTTT
50433275 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTA
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATT-A---A-GTTA-GGTTAGGGTTAGGGTTTTTA
* *
50433340 ATTAAGTTAGGTTAAGGTTAAG---GTTTTT
60 ATTAAGTTAGGTTAGGGTTAGGTTAGTTTTT
* *
50433368 AATTAAGTTAGTTTAGAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTAGGGTTTTTAA
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG-T----TAGGGTTTTTAA
*
50433433 TTAAGTTAGTTTAGGGTTAGG--A-TTTTT
61 TTAAGTTAGGTTAGGGTTAGGTTAGTTTTT
*
50433460 AATTAATTTAGGTTAGGGTTAGGATTAGGATTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTA
1 AATTAAGTTAGGTTAGGGTTA-G----GG-TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTA
*
50433525 ATTAAGTTAGGTTAGGGTTAGGTTAGGGTTTTC
60 ATTAAGTTAGGTTAGGGTTAGGTTA--GTTTTT
*
50433558 AATTAAATTAGG
1 AATTAAGTTAGG
50433570 GTTTTTATTT
Statistics
Matches: 329, Mismatches: 18, Indels: 53
0.82 0.05 0.13
Matches are distributed among these distances:
81 36 0.11
82 2 0.01
85 1 0.00
86 6 0.02
87 35 0.11
88 10 0.03
89 2 0.01
91 1 0.00
92 59 0.18
93 135 0.41
95 1 0.00
97 3 0.01
98 38 0.12
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (90 bp):
AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAG
TTAGGTTAGGGTTAGGTTAGTTTTT
Found at i:50433660 original size:25 final size:25
Alignment explanation
Indices: 50433626--50433736 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
50433616 TTTCTATGCC
* *
50433626 TATTATATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTA
50433651 TATTACATCAAAT-AA-TATC-A--A
1 TATTACATCAAATAAACT-TCTATTA
* * * *
50433672 AATAAC-TCGAAA-AAATTTCTATGCA
1 TATTACATC-AAATAAACTTCTAT-TA
*
50433697 TATTACATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTA
50433722 TATTACATCAAATAA
1 TATTACATCAAATAA
50433737 TAAATTTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
20 2 0.03
21 11 0.16
22 2 0.03
23 2 0.03
24 4 0.06
25 35 0.52
26 11 0.16
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (25 bp):
TATTACATCAAATAAACTTCTATTA
Found at i:50433691 original size:71 final size:71
Alignment explanation
Indices: 50433575--50433738 Score: 292
Period size: 71 Copynumber: 2.3 Consensus size: 71
50433565 TTAGGGTTTT
* * *
50433575 TATTTTATTATATCAAATAATATCAAAATAACTCAAAAAAATTTCTATGCCTATTATATCAAATA
1 TATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATGCATATTACATCAAATA
50433640 AACTTC
66 AACTTC
*
50433646 TATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGCATATTACATCAAATA
1 TATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATGCATATTACATCAAATA
50433711 AACTTC
66 AACTTC
50433717 TATTTTATTACATCAAATAATA
1 TATTTTATTACATCAAATAATA
50433739 AATTTAAATA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 89 1.00
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (71 bp):
TATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATGCATATTACATCAAATA
AACTTC
Found at i:50433874 original size:21 final size:21
Alignment explanation
Indices: 50433845--50433902 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
50433835 TCGGCAGCAG
*
50433845 TTGTTCTTCTTCCGGTGGTGA
1 TTGTGCTTCTTCCGGTGGTGA
50433866 TTGTGCTTCTTCCGGTGGTGA
1 TTGTGCTTCTTCCGGTGGTGA
50433887 TTGTGCTTCTTCCGGT
1 TTGTGCTTCTTCCGGT
50433903 TCGACATCTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.03, C:0.21, G:0.29, T:0.47
Consensus pattern (21 bp):
TTGTGCTTCTTCCGGTGGTGA
Found at i:50434854 original size:7 final size:7
Alignment explanation
Indices: 50434844--50434868 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50434834 TTATATACAT
50434844 AATACTA
1 AATACTA
50434851 AATACTA
1 AATACTA
50434858 AATACTA
1 AATACTA
50434865 AATA
1 AATA
50434869 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:50436006 original size:29 final size:31
Alignment explanation
Indices: 50435949--50436013 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
50435939 GCCATTGATG
**
50435949 AAAATATAAAAAATTTTAAAATTATTTTTAA
1 AAAATATAAAAAATACTAAAATTATTTTTAA
50435980 AAAATATAAAAAA-ACTAAAATTA-TTTTAA
1 AAAATATAAAAAATACTAAAATTATTTTTAA
50436009 AAAAT
1 AAAAT
50436014 GAAATTGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 11 0.34
30 8 0.25
31 13 0.41
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (31 bp):
AAAATATAAAAAATACTAAAATTATTTTTAA
Found at i:50436126 original size:22 final size:22
Alignment explanation
Indices: 50436101--50436148 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
50436091 TATGGGTTTC
*
50436101 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGAAAGGAAATTG
50436123 AGAGAATTTTGAAAGGAAATTG
1 AGAGAATTTTGAAAGGAAATTG
50436145 AGAG
1 AGAG
50436149 GATTAGAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (22 bp):
AGAGAATTTTGAAAGGAAATTG
Found at i:50436136 original size:51 final size:51
Alignment explanation
Indices: 50436014--50436126 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
50436004 TTTAAAAAAT
* **
50436014 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGTGAGAATTTTCGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTCGAAG
* *
50436065 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTCAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTCGAAG
50436116 GAAATTGAGAG
1 GAAATTGAGAG
50436127 AATTTTGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.41, C:0.02, G:0.28, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTCGAAG
Found at i:50436563 original size:51 final size:51
Alignment explanation
Indices: 50436507--50436610 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
50436497 TTATCTCAAC
* ** *
50436507 TTTAAGGTGATAATTTGGTATAAAAATTTATTGTGACAAGTCACTTTTCCA
1 TTTAAGGTGATAAATTGGTATAAAAATTTAACGTGACAAGTCACTTCTCCA
*
50436558 TTTAAGGTGATAAATTGGTATAAAAATTTAACGTGACAATTCACTTCTCCA
1 TTTAAGGTGATAAATTGGTATAAAAATTTAACGTGACAAGTCACTTCTCCA
50436609 TT
1 TT
50436611 AAATTTAGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (51 bp):
TTTAAGGTGATAAATTGGTATAAAAATTTAACGTGACAAGTCACTTCTCCA
Found at i:50437139 original size:14 final size:14
Alignment explanation
Indices: 50437102--50437139 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
50437092 TTTTTGTGTA
50437102 ATAAATAATACAAC
1 ATAAATAATACAAC
*
50437116 ATAAAAAATA-AAC
1 ATAAATAATACAAC
50437129 ATAATATAATA
1 ATAA-ATAATA
50437140 TATTTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAATAATACAAC
Found at i:50446439 original size:19 final size:18
Alignment explanation
Indices: 50446415--50446465 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
50446405 TTCTTCAATA
*
50446415 TTTATAATTTTATAATTTT
1 TTTATAATTTTATAA-ATT
50446434 TTTATAATTTTCATAAATT
1 TTTATAATTTT-ATAAATT
*
50446453 TTTATAGTTTTAT
1 TTTATAATTTTAT
50446466 TATTAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 2 0.07
19 23 0.79
20 4 0.14
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATAATTTTATAAATT
Found at i:50450661 original size:20 final size:20
Alignment explanation
Indices: 50450626--50450688 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
50450616 CTAAATATTT
50450626 TATAGTTAAAAT-TTATTAAA
1 TATA-TTAAAATATTATTAAA
*
50450646 TAT-TTATAAATATTATTCATA
1 TATATTA-AAATATTATT-AAA
50450667 TATATTAAATATATT-TTAAA
1 TATATTAAA-ATATTATTAAA
50450687 TA
1 TA
50450689 CTATATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
18 3 0.08
19 4 0.11
20 12 0.33
21 9 0.25
22 8 0.22
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
TATATTAAAATATTATTAAA
Found at i:50450705 original size:12 final size:11
Alignment explanation
Indices: 50450626--50450698 Score: 64
Period size: 11 Copynumber: 6.8 Consensus size: 11
50450616 CTAAATATTT
50450626 TATAGTTAAA-A
1 TATA-TTAAATA
*
50450637 TTTATTAAATA
1 TATATTAAATA
*
50450648 TTTA-TAAATA
1 TATATTAAATA
*
50450658 T-TATT-CATA
1 TATATTAAATA
50450667 TATATTAAATA
1 TATATTAAATA
*
50450678 TATTTTAAATA
1 TATATTAAATA
50450689 CTATATTAAA
1 -TATATTAAA
50450699 AATTATACAT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
9 6 0.12
10 17 0.33
11 21 0.40
12 8 0.15
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (11 bp):
TATATTAAATA
Found at i:50453111 original size:31 final size:31
Alignment explanation
Indices: 50453073--50453141 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
50453063 CTAATATGGA
* *
50453073 TAAATTTGTTAA-AAGTTTTTATGAACTTTTT
1 TAAATTTGCTAATAACTTTTTATGAA-TTTTT
* *
50453104 TAAATTTGCTAATTACTTTTTATTAATTTTT
1 TAAATTTGCTAATAACTTTTTATGAATTTTT
50453135 TAAATTT
1 TAAATTT
50453142 TTATGAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 23 0.70
32 10 0.30
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (31 bp):
TAAATTTGCTAATAACTTTTTATGAATTTTT
Found at i:50456385 original size:20 final size:21
Alignment explanation
Indices: 50456348--50456386 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50456338 CCATGTGTAC
* *
50456348 TTGATTTTTTTATATTTATAT
1 TTGAATTTTTAATATTTATAT
50456369 TTGAATTTTTAAT-TTTAT
1 TTGAATTTTTAATATTTAT
50456387 GAATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (21 bp):
TTGAATTTTTAATATTTATAT
Found at i:50456579 original size:13 final size:15
Alignment explanation
Indices: 50456555--50456592 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
50456545 AACTAATAAT
*
50456555 AAATTTAATTTA-AA
1 AAATATAATTTACAA
50456569 AAATA-AATTTACAA
1 AAATATAATTTACAA
50456583 AAATATAATT
1 AAATATAATT
50456593 ATCCTTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 6 0.29
14 11 0.52
15 4 0.19
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATAATTTACAA
Found at i:50459228 original size:21 final size:21
Alignment explanation
Indices: 50459204--50459244 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50459194 GAGCTTCTGT
50459204 TTAACTCAT-ATGAGTTTCCGA
1 TTAAC-CATAATGAGTTTCCGA
*
50459225 TTAACCTTAATGAGTTTCCG
1 TTAACCATAATGAGTTTCCG
50459245 TTCATCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (21 bp):
TTAACCATAATGAGTTTCCGA
Found at i:50459707 original size:9 final size:9
Alignment explanation
Indices: 50459684--50459727 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
50459674 CAATAAATTA
*
50459684 TCAATTGAT
1 TCAATTTAT
*
50459693 TAAATTT-T
1 TCAATTTAT
50459701 TACAATTTAT
1 T-CAATTTAT
50459711 TCAATTTAT
1 TCAATTTAT
50459720 TCAATTTA
1 TCAATTTA
50459728 GTTCCTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 2 0.07
9 26 0.87
10 2 0.07
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (9 bp):
TCAATTTAT
Found at i:50467114 original size:16 final size:16
Alignment explanation
Indices: 50467093--50467126 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50467083 TACTATTTAC
50467093 AAAATAATATTATATT
1 AAAATAATATTATATT
* *
50467109 AAAATATTTTTATATT
1 AAAATAATATTATATT
50467125 AA
1 AA
50467127 TATTTATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATAATATTATATT
Found at i:50478244 original size:29 final size:30
Alignment explanation
Indices: 50478203--50478261 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
50478193 GAATTGGACC
* *
50478203 AAATCAAAATTTCATATATAAAATTACACA
1 AAATCAAAATTTCACATAGAAAATTACACA
*
50478233 AAATC-AAATTTCACATAGAGAATTACACA
1 AAATCAAAATTTCACATAGAAAATTACACA
50478262 TTAAACCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATCAAAATTTCACATAGAAAATTACACA
Found at i:50480480 original size:5 final size:5
Alignment explanation
Indices: 50480472--50480528 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
50480462 ACTTTTTATT
*
50480472 TTTCA TTTCA TTTCA TTTTTA TTTCCA TTTCA TTTCA TTTACA TTTCTA
1 TTTCA TTTCA TTTCA -TTTCA TTT-CA TTTCA TTTCA TTT-CA TTTC-A
*
50480521 TTCCA TTT
1 TTTCA TTT
50480529 AAATAATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 27 0.61
6 17 0.39
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTCA
Found at i:50480500 original size:22 final size:23
Alignment explanation
Indices: 50480464--50480511 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
50480454 TCCTTTCAAC
*
50480464 TTTTTATTTTTCATTTCATTTCA
1 TTTTTATTTTCCATTTCATTTCA
50480487 TTTTTA-TTTCCATTTCATTTCA
1 TTTTTATTTTCCATTTCATTTCA
50480509 TTT
1 TTT
50480512 ACATTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTTATTTTCCATTTCATTTCA
Found at i:50480505 original size:27 final size:27
Alignment explanation
Indices: 50480472--50480528 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
50480462 ACTTTTTATT
*
50480472 TTTCATTTCATTT-CATTTTTATTTCCA
1 TTTCATTTCATTTACATTTCTA-TTCCA
50480499 TTTCATTTCATTTACATTTCTATTCCA
1 TTTCATTTCATTTACATTTCTATTCCA
50480526 TTT
1 TTT
50480529 AAATAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTCATTTCATTTACATTTCTATTCCA
Found at i:50480506 original size:11 final size:10
Alignment explanation
Indices: 50480472--50480528 Score: 60
Period size: 11 Copynumber: 5.3 Consensus size: 10
50480462 ACTTTTTATT
50480472 TTTCATTTCA
1 TTTCATTTCA
*
50480482 TTTCATTTTTA
1 TTTCA-TTTCA
50480493 TTTCCATTTCA
1 TTT-CATTTCA
50480504 TTTCATTTACA
1 TTTCATTT-CA
*
50480515 TTTCTATTCCA
1 TTTC-ATTTCA
50480526 TTT
1 TTT
50480529 AAATAATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 10 0.25
11 25 0.62
12 5 0.12
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:50480517 original size:22 final size:22
Alignment explanation
Indices: 50480475--50480528 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
50480465 TTTTATTTTT
**
50480475 CATTTCATTTCATTTTTATTTC
1 CATTTCATTTCATTTACATTTC
50480497 CATTTCATTTCATTTACATTTC
1 CATTTCATTTCATTTACATTTC
* *
50480519 TATTCCATTT
1 CATTTCATTT
50480529 AAATAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.59
Consensus pattern (22 bp):
CATTTCATTTCATTTACATTTC
Found at i:50480598 original size:18 final size:17
Alignment explanation
Indices: 50480535--50480609 Score: 78
Period size: 18 Copynumber: 4.1 Consensus size: 17
50480525 ATTTAAATAA
* *
50480535 TTTTTTTCCATTTAAAT
1 TTTTTTTTCATTTCAAT
50480552 TTAATTATTTCTCATTTCAAT
1 TT--TT-TTT-TCATTTCAAT
*
50480573 TTTTTTTTCATTTCAGT
1 TTTTTTTTCATTTCAAT
50480590 TTTTGTTTTCATTTCAAT
1 TTTT-TTTTCATTTCAAT
50480608 TT
1 TT
50480610 ATAATTTACT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
17 15 0.31
18 17 0.35
19 4 0.08
20 3 0.06
21 10 0.20
ACGTcount: A:0.20, C:0.12, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTTTTTCATTTCAAT
Found at i:50481100 original size:5 final size:5
Alignment explanation
Indices: 50481077--50481152 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
50481067 TTTTTTTTTT
* * * *
50481077 TTTCAA TTTTA TTTCCA TTTCA TTTCA TTTC- TTCCA TTTCA TTCCA TTTGTA
1 TTTC-A TTTCA TTT-CA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTT-CA
*
50481129 TTTCCA TTTAA TTTCA TTTCA TTT
1 TTT-CA TTTCA TTTCA TTTCA TTT
50481153 AAATTATCTT
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
4 3 0.05
5 38 0.68
6 15 0.27
ACGTcount: A:0.20, C:0.20, G:0.01, T:0.59
Consensus pattern (5 bp):
TTTCA
Found at i:50481172 original size:21 final size:21
Alignment explanation
Indices: 50481148--50481336 Score: 89
Period size: 21 Copynumber: 8.2 Consensus size: 21
50481138 AATTTCATTT
*
50481148 CATTTAAATTATCTTTTTTTC
1 CATTTAAATTATATTTTTTTC
50481169 CATTTAAATT-TAATTTTTTTC
1 CATTTAAATTAT-ATTTTTTTC
* *
50481190 TCATTTTATTTAAATTATTTTTTTC
1 -CATTTAAATT--A-TATTTTTTTC
50481215 CATTTAAATT-TAATTTTTTTCTC
1 CATTTAAATTAT-A-TTTTTT-TC
* * *
50481238 ATTTCATTTAAATTATCTTTCTTCC
1 ----CATTTAAATTATATTTTTTTC
*
50481263 CATTTTAATT-TAATTTTTTTCTC
1 CATTTAAATTAT-A-TTTTTT-TC
*
50481286 ATTTCATTTAAATTATCTTTTTTTTC
1 ----CATTTAAATTAT-ATTTTTTTC
*
50481312 CATTTAAATT-TATTTTTTCC
1 CATTTAAATTATATTTTTTTC
50481332 CATTT
1 CATTT
50481337 CACTTAAATT
Statistics
Matches: 129, Mismatches: 17, Indels: 45
0.68 0.09 0.24
Matches are distributed among these distances:
20 15 0.12
21 29 0.22
22 29 0.22
23 3 0.02
24 8 0.06
25 10 0.08
26 8 0.06
27 25 0.19
28 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.62
Consensus pattern (21 bp):
CATTTAAATTATATTTTTTTC
Found at i:50481194 original size:94 final size:89
Alignment explanation
Indices: 50481140--50481405 Score: 327
Period size: 94 Copynumber: 2.8 Consensus size: 89
50481130 TTCCATTTAA
* *
50481140 TTTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTTATTTAAAT
1 TTTCATTTCATTTAAATTATCTTTCTTTCCATTT-AATTTAATTTTTTTCTCATTTCATTT-AAT
50481205 T-ATTTTTTTCCATTTAAATTTAATTTTT
64 TCATTTTTTTCCATTTAAATTT-A--TTT
*
50481233 TTCTCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAA
1 TT-TCATTTCATTTAAATTATCTTTCTTTCCA-TTTAATTTAATTTTTTTCTCATTTCATTT-AA
*
50481298 TTATCTTTTTTTTCCATTTAAATTTATTT
63 -T-TCATTTTTTTCCATTTAAATTTATTT
* *
50481327 TTTCCCATTTCACTTAAATTATCTTTCTTTCCATTCTAATTTAATTTTTTTCTCATTTCATCTAA
1 TTT--CATTTCATTTAAATTATCTTTCTTTCCATT-TAATTTAATTTTTTTCTCATTTCAT-TTA
*
50481392 ATTTCATTCTTTTC
62 A-TTCATTTTTTTC
50481406 TTTTCATTTA
Statistics
Matches: 155, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
93 3 0.02
94 71 0.46
95 59 0.38
96 3 0.02
97 19 0.12
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (89 bp):
TTTCATTTCATTTAAATTATCTTTCTTTCCATTTAATTTAATTTTTTTCTCATTTCATTTAATTC
ATTTTTTTCCATTTAAATTTATTT
Found at i:50481195 original size:48 final size:48
Alignment explanation
Indices: 50481142--50481435 Score: 386
Period size: 48 Copynumber: 6.1 Consensus size: 48
50481132 CCATTTAATT
50481142 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTC
*
50481190 TCATTTTATTTAAATTA--TTTTTTTCCATTTAAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTC
* * *
50481236 TCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTC
50481284 TCATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTT-A-TTTTTTC
1 TCATTTCATTTAAATTATC-TTTTTTTCCATTTAAATTTAATTTTTTTC
* * *
50481331 CCATTTCACTTAAATTATCTTTCTTTCCATTCT-AATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATT-TAAATTTAATTTTTTTC
* * *
50481379 TCATTTCATCTAAATTTCATTCTTTTCTTTTCATTTAAA-TTAACTTTCTTTC
1 TCATTTCATTTAAA-TT-A-TCTTTT-TTTCCATTTAAATTTAA-TTTTTTTC
50481431 -CATTT
1 TCATTT
50481436 TAATTTACGT
Statistics
Matches: 217, Mismatches: 17, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
46 61 0.28
47 26 0.12
48 80 0.37
49 18 0.08
50 1 0.00
51 15 0.07
52 16 0.07
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (48 bp):
TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTC
Found at i:50481344 original size:95 final size:97
Alignment explanation
Indices: 50481143--50481435 Score: 404
Period size: 95 Copynumber: 3.1 Consensus size: 97
50481133 CATTTAATTT
* * *
50481143 CATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTTATTTAAATTA-
1 CATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTAT
*
50481207 --TTTTTTTCCATTTAAATTTAATTTTTTTCT
66 CTTTTTTTTCCATTTAAATTTAATTTTTTTCC
*
50481237 CATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTAT
1 CATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTAT
50481302 CTTTTTTTTCCATTTAAATTT-A-TTTTTTCC
66 CTTTTTTTTCCATTTAAATTTAATTTTTTTCC
* * *
50481332 CATTTCACTTAAATTATCTTTCTTTCCATTCTAATTTAATTTTTTTCTCATTTCATCTAAATTTC
1 CATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAA-TT-
*
50481397 ATTCTTTTCTTTT-CATTTAAA-TTAACTTTCTTT-C
64 A-TCTTTT-TTTTCCATTTAAATTTAA-TTTTTTTCC
50481431 CATTT
1 CATTT
50481436 TAATTTACGT
Statistics
Matches: 179, Mismatches: 10, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
94 60 0.34
95 64 0.36
96 3 0.02
97 22 0.12
98 15 0.08
99 10 0.06
100 5 0.03
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (97 bp):
CATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTAT
CTTTTTTTTCCATTTAAATTTAATTTTTTTCC
Found at i:50481394 original size:22 final size:22
Alignment explanation
Indices: 50481142--50481419 Score: 138
Period size: 22 Copynumber: 11.7 Consensus size: 22
50481132 CCATTTAATT
*
50481142 TCATTTCATTTAAATTATCTTTTTT
1 TCATTTCATTTAAA-T-T-TTTTTC
*
50481167 TCCATTTAAATTT-AATTTTTTTC
1 T-CATTT-CATTTAAATTTTTTTC
* *
50481190 TCATTTTATTTAAATTATTTTTT
1 TCATTTCATTTAAATT-TTTTTC
*
50481213 TCCATTTAAATTT-AATTTTTTTC
1 T-CATTT-CATTTAAATTTTTTTC
50481236 TCATTTCATTTAAATTATCTTTCTTC
1 TCATTTCATTTAAA-T-T-TTT-TTC
* *
50481262 CCATTTTAATTT-AATTTTTTTC
1 TCA-TTTCATTTAAATTTTTTTC
50481284 TCATTTCATTTAAATTATCTTTT-
1 TCATTTCATTTAAATT-T-TTTTC
50481307 T--TTTCCATTTAAATTTATTTTTTC
1 TCATTT-CATTTAAA--T-TTTTTTC
* * *
50481331 CCATTTCACTTAAATTATCTTTCTT
1 TCATTTCATTTAAATT-T-TTT-TC
*
50481356 TCCATTCTAATTT-AATTTTTTTC
1 T-CATT-TCATTTAAATTTTTTTC
* *
50481379 TCATTTCATCTAAATTTCATTCTTT
1 TCATTTCATTTAAATTT--TT-TTC
*
50481404 TCTTTTCATTTAAATT
1 TCATTTCATTTAAATT
50481420 AACTTTCTTT
Statistics
Matches: 199, Mismatches: 23, Indels: 62
0.70 0.08 0.22
Matches are distributed among these distances:
21 22 0.11
22 43 0.22
23 32 0.16
24 26 0.13
25 36 0.18
26 25 0.13
27 15 0.08
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (22 bp):
TCATTTCATTTAAATTTTTTTC
Found at i:50481411 original size:73 final size:72
Alignment explanation
Indices: 50481169--50481442 Score: 217
Period size: 73 Copynumber: 3.8 Consensus size: 72
50481159 TCTTTTTTTC
* * * *
50481169 CATTTAAATTTAATTTTTTTCTCATTTTATTTAAATTAT-TTT-TTTCCATTTAAATTTAATTTT
1 CATTTAAATTTCATTCTTTTCT--TTTCAATTAAATTATCTTTCTTTCCATTT-AATTTAATTTT
50481232 TTTCTCATTT
63 TTTCTCATTT
* ** * * * * *
50481242 CATTTAAATTATCTTTCTTCCCATTTT-AATTTAATT-TTTTTCTCATTTCATTTAAATT-ATCT
1 CATTTAAATT-TCATTCTTTTC-TTTTCAATTAAATTATCTTTCT--TTCCATTTAATTTAATTT
*
50481304 TTTT-T--TTC
62 TTTTCTCATTT
* *
50481312 CATTTAAATTT-ATT-TTTTCCCATTTCACTTAAATTATCTTTCTTTCCATTCTAATTTAATTTT
1 CATTTAAATTTCATTCTTTT--CTTTTCAATTAAATTATCTTTCTTTCCATT-TAATTTAATTTT
50481375 TTTCTCATTT
63 TTTCTCATTT
* * *
50481385 CATCTAAATTTCATTCTTTTCTTTTCATTTAAATTAACTTTCTTTCCATTTTAATTTA
1 CATTTAAATTTCATTCTTTTCTTTTCAATTAAATTATCTTTCTTTCCA-TTTAATTTA
50481443 CGTTTATTAC
Statistics
Matches: 157, Mismatches: 26, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
67 2 0.01
68 11 0.07
69 14 0.09
70 25 0.16
71 2 0.01
72 11 0.07
73 65 0.41
74 15 0.10
75 12 0.08
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (72 bp):
CATTTAAATTTCATTCTTTTCTTTTCAATTAAATTATCTTTCTTTCCATTTAATTTAATTTTTTT
CTCATTT
Found at i:50481430 original size:25 final size:25
Alignment explanation
Indices: 50481348--50481430 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
50481338 ACTTAAATTA
* *
50481348 TCTTTCTTTCCATTCTAATTTAA-TT
1 TCTTTCTTTTCATT-TAAATTAACTT
* * * *
50481373 TTTTTCTCATTTCATCTAAATT-TCAT
1 TCTTTCT--TTTCATTTAAATTAACTT
50481399 TCTTTTCTTTTCATTTAAATTAACTT
1 TC-TTTCTTTTCATTTAAATTAACTT
50481425 TCTTTC
1 TCTTTC
50481431 CATTTTAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
25 22 0.51
26 11 0.26
27 10 0.23
ACGTcount: A:0.20, C:0.19, G:0.00, T:0.60
Consensus pattern (25 bp):
TCTTTCTTTTCATTTAAATTAACTT
Found at i:50484550 original size:16 final size:16
Alignment explanation
Indices: 50484529--50484560 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50484519 AAATTTGGAA
50484529 GTCAAATATTTTTTTT
1 GTCAAATATTTTTTTT
50484545 GTCAAATATTTTTTTT
1 GTCAAATATTTTTTTT
50484561 AAATGACACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
GTCAAATATTTTTTTT
Found at i:50484793 original size:122 final size:123
Alignment explanation
Indices: 50484553--50484796 Score: 300
Period size: 122 Copynumber: 2.0 Consensus size: 123
50484543 TTGTCAAATA
*
50484553 TTTTTTTTAAATGACACTGGTGCCGACCATCAGTGTCCCAAAGTAAAAAAAAAATGCATTAGGAG
1 TTTTTTTTAAATGACACTGGTGCCGACCATCAGTGTCCCAAAGTAAAAAAAAAATACATTAGGAG
* * * ** * *
50484618 CCGAAAATTGTACTTGATGCTGGTTATCTACTGGCTATCACCCAAAATATTTTTTTTC
66 CCAAAAATTGTACCTGATGCCGGCCATCTACTGGCCAGCACCCAAAATATTTTTTTTC
* *
50484676 TTTTTTTTAAAT-ACACTGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAATTTACCTT-GG
1 TTTTTTTTAAATGACACTGGTGCCGACCATCAGTGTCCCAAAGTAAAAAAAAAA--TACATTAGG
* * *
50484739 GGACCAAAAATAT-TACCTGGTGCCGGCCATCTATTGGCCAGCA-CCAAAAT-TTTTTTTT
64 AG-CCAAAAAT-TGTACCTGATGCCGGCCATCTACTGGCCAGCACCCAAAATATTTTTTTT
50484797 ATTAAATATA
Statistics
Matches: 104, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
122 48 0.46
123 22 0.21
124 33 0.32
125 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (123 bp):
TTTTTTTTAAATGACACTGGTGCCGACCATCAGTGTCCCAAAGTAAAAAAAAAATACATTAGGAG
CCAAAAATTGTACCTGATGCCGGCCATCTACTGGCCAGCACCCAAAATATTTTTTTTC
Found at i:50484997 original size:107 final size:106
Alignment explanation
Indices: 50484808--50485110 Score: 374
Period size: 107 Copynumber: 2.8 Consensus size: 106
50484798 TTAAATATAT
*
50484808 TTGGTGCC-AGCCATTACATGGCCAGCACCTAAATTTTTTTTTAAATATACTGGTGTCAAGCATC
1 TTGGTGCCGA-CCATTACATGGCCAGCACC-AAATTTTTTTTTAAATAT-CTGGTG-CCAGCATC
* * *
50484872 AGTGTTCCAAAATTAAAAAAATACATTGGGAGCCGGAAATTGTAC
62 AGTGTTCCAAAATAAAAAAAATACATTGAGAGCCGAAAATTGTAC
* *
50484917 TTGGTGCCGACCATTACATGGCCATCACCAAATTTTATTTTAAATATCTGGTGCCAGCCATCAGT
1 TTGGTGCCGACCATTACATGGCCAGCACCAAATTTTTTTTTAAATATCTGGTGCCAG-CATCAGT
* *
50484982 GTTTCAAAATAAAAAAAATGCATTGAGAGCCGAAAATTGTAC
65 GTTCCAAAATAAAAAAAATACATTGAGAGCCGAAAATTGTAC
* * * *
50485024 CTGGTGCCGGCCATTACATGGCCAGCACCCAATTTTTTTTTTTTAAATACACTGGTGCCAGTCAT
1 TTGGTGCCGACCATTACATGGCCAGCA-CCAA--ATTTTTTTTTAAATA-TCTGGTGCCAG-CAT
* * *
50485089 CAATGTCCCAAAGTAAAAAAAA
61 CAGTGTTCCAAAATAAAAAAAA
50485111 AATGTGGCTT
Statistics
Matches: 169, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
106 3 0.02
107 74 0.44
108 21 0.12
109 26 0.15
110 14 0.08
111 31 0.18
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (106 bp):
TTGGTGCCGACCATTACATGGCCAGCACCAAATTTTTTTTTAAATATCTGGTGCCAGCATCAGTG
TTCCAAAATAAAAAAAATACATTGAGAGCCGAAAATTGTAC
Found at i:50491757 original size:22 final size:21
Alignment explanation
Indices: 50491717--50491770 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
50491707 ATACTTTTAA
*
50491717 TTTTAA-AATTACATTATATT
1 TTTTAATAATTAAATTATATT
50491737 TTTTAATAAGTTAAATTATATT
1 TTTTAATAA-TTAAATTATATT
*
50491759 TTTTTATAATTA
1 TTTTAATAATTA
50491771 GATCCTTCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 6 0.20
21 5 0.17
22 19 0.63
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTTAATAATTAAATTATATT
Found at i:50492656 original size:16 final size:17
Alignment explanation
Indices: 50492626--50492658 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50492616 ATTACTATAA
50492626 TTAAAAAATATAATATT
1 TTAAAAAATATAATATT
50492643 TTAAAAAATA-AATATT
1 TTAAAAAATATAATATT
50492659 AAATGTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAAATATAATATT
Found at i:50493068 original size:44 final size:46
Alignment explanation
Indices: 50493003--50493090 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 46
50492993 TAAAATATAT
*
50493003 TTTATTCAAATTTTCTTAAA-TTA-TTGAA-TGTATTTCATTTTACC
1 TTTATTCAAATTTTCTTAAATTTATTTGAATTGAATTTC-TTTTACC
50493047 TTTATTC-AATTTT-TTAAAAATTTATTTGAATTGAATTTCTTTTA
1 TTTATTCAAATTTTCTT--AAATTTATTTGAATTGAATTTCTTTTA
50493091 ATTTATTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
42 2 0.05
43 6 0.16
44 10 0.26
45 3 0.08
46 10 0.26
47 7 0.18
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.57
Consensus pattern (46 bp):
TTTATTCAAATTTTCTTAAATTTATTTGAATTGAATTTCTTTTACC
Found at i:50495202 original size:32 final size:34
Alignment explanation
Indices: 50495159--50495250 Score: 89
Period size: 36 Copynumber: 2.6 Consensus size: 34
50495149 ATCCCAATTT
* *
50495159 TAAATAATTTCAAAGAAAT-A-TATAAAAATACA
1 TAAATATTTTCAAAGAAATAATTATAAAAATAAA
*
50495191 TAAATATTTTCAAATATAGATAATTATAAAAATAAA
1 TAAATATTTTCAAAGA-A-ATAATTATAAAAATAAA
* *
50495227 AAAATATTGTTCACAGAAAATAAT
1 TAAATATT-TTCAAAG-AAATAAT
50495251 AATATATAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
32 14 0.29
33 1 0.02
34 2 0.04
35 1 0.02
36 23 0.48
37 6 0.12
38 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (34 bp):
TAAATATTTTCAAAGAAATAATTATAAAAATAAA
Found at i:50499173 original size:17 final size:16
Alignment explanation
Indices: 50499144--50499178 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
50499134 GTGAAGCAAT
50499144 AAAGAAAAAAAGAAGA
1 AAAGAAAAAAAGAAGA
50499160 AAAGAAAAAGAAGAAGA
1 AAAGAAAAA-AAGAAGA
50499177 AA
1 AA
50499179 GGAATAGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAGAAGA
Found at i:50501402 original size:25 final size:25
Alignment explanation
Indices: 50501374--50501427 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
50501364 CTTAAAATAC
*
50501374 TATT-AATTGATAAATTAATTTTATT
1 TATTAAATTGA-AAATTAAATTTATT
*
50501399 TATTAAATTTAAAATTAAATTTATT
1 TATTAAATTGAAAATTAAATTTATT
50501424 TATT
1 TATT
50501428 TTTAGTGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TATTAAATTGAAAATTAAATTTATT
Found at i:50506350 original size:15 final size:15
Alignment explanation
Indices: 50506326--50506355 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50506316 TCATCAGTCA
50506326 AAAAAAAAAAAAAAT
1 AAAAAAAAAAAAAAT
*
50506341 AAAAATAAAAAAAAT
1 AAAAAAAAAAAAAAT
50506356 CCATAGTGAA
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:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAAAAAAT
Found at i:50506868 original size:17 final size:18
Alignment explanation
Indices: 50506813--50506873 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 18
50506803 TTAAGATTAC
*
50506813 TATATAAAAATT-TTCAA
1 TATATAAAAATTATTAAA
* *
50506830 TAAATAAAAATGTATAAAA
1 TATATAAAAAT-TATTAAA
50506849 TATAT-AAAATTATTAAA
1 TATATAAAAATTATTAAA
50506866 TAT-TAAAA
1 TATATAAAA
50506874 TAAAATAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
16 1 0.03
17 22 0.61
18 6 0.17
19 7 0.19
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TATATAAAAATTATTAAA
Found at i:50509659 original size:6 final size:6
Alignment explanation
Indices: 50509634--50509672 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
50509624 TATTCAACGA
* *
50509634 ATTTAT ATTCAAT ATATAT ATTTAT ATTTAT ATTTAT AT
1 ATTTAT ATT-TAT ATTTAT ATTTAT ATTTAT ATTTAT AT
50509673 AACATGTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (6 bp):
ATTTAT
Found at i:50512733 original size:82 final size:81
Alignment explanation
Indices: 50512577--50512739 Score: 202
Period size: 82 Copynumber: 2.0 Consensus size: 81
50512567 AATCAATTCA
* * *
50512577 ACTTCATTCAATAGTGGAAGGCCTTGAACCATTGAGATTAACACTTTCATCCTTGGATTATATCT
1 ACTTCATTCAATAGTGGAAGACCTTGAACCATTAAGATTAACACTTTCATCCTTGGA-TATATCC
**
50512642 TGGAATTGGGAACAACT
65 TACAATTGGGAACAACT
** * *
50512659 ACTTCATTCAATAGTGGAAGACCTTGAGTCATTAAGATTGACACTTCTCATCCTTGGA-AGTTTC
1 ACTTCATTCAATAGTGGAAGACCTTGAACCATTAAGATTAACACTT-TCATCCTTGGATA-TATC
*
50512723 CTACATTTGGGAACAAC
64 CTACAATTGGGAACAAC
50512740 GCTAGATCTT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 1 0.01
82 57 0.83
83 11 0.16
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (81 bp):
ACTTCATTCAATAGTGGAAGACCTTGAACCATTAAGATTAACACTTTCATCCTTGGATATATCCT
ACAATTGGGAACAACT
Found at i:50517718 original size:19 final size:19
Alignment explanation
Indices: 50517694--50517749 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
50517684 AGGATTGCAC
50517694 TTTGGTGCCTTTGTTACAG
1 TTTGGTGCCTTTGTTACAG
* * *
50517713 TTTGGTGTCTTTGTTTGCAT
1 TTTGGTGCCTTTG-TTACAG
*
50517733 TTTGGTGCCTCTGTTAC
1 TTTGGTGCCTTTGTTAC
50517750 GCATCTACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.07, C:0.16, G:0.25, T:0.52
Consensus pattern (19 bp):
TTTGGTGCCTTTGTTACAG
Found at i:50519590 original size:64 final size:63
Alignment explanation
Indices: 50519471--50519591 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 63
50519461 CTGTGGGGTT
* * *
50519471 TCACACGGCCTGACACACGCCTGTGTCTCTGGCCCATGTGGTCTCCAAATTACAAACAGTGAG
1 TCACACGGCCTGACACACGCCTGTGTCTCTGACCCATGTGGACTCCAAATCACAAACAGTGAG
* * **
50519534 TCACACGGCCTGGACACATG-CTCGTGTCTCTGACCCGTGTGGACTGTAAATCACAAAC
1 TCACACGGCCT-GACACACGCCT-GTGTCTCTGACCCATGTGGACTCCAAATCACAAAC
50519592 TGTAACACCC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 13 0.27
64 36 0.73
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (63 bp):
TCACACGGCCTGACACACGCCTGTGTCTCTGACCCATGTGGACTCCAAATCACAAACAGTGAG
Found at i:50520983 original size:128 final size:128
Alignment explanation
Indices: 50520755--50521056 Score: 595
Period size: 128 Copynumber: 2.4 Consensus size: 128
50520745 GCACACGCCC
50520755 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACAAGCCTGTGTCCCCTACTTG
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACAAGCCTGTGTCCCCTACTTG
50520820 TGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
66 TGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
*
50520883 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGTCTGGGCACAAGCCTGTGTCCCCTACTTG
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACAAGCCTGTGTCCCCTACTTG
50520948 TGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
66 TGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
50521011 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACA
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACA
50521057 CACCCGTGTG
Statistics
Matches: 172, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 172 1.00
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.29
Consensus pattern (128 bp):
GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACAAGCCTGTGTCCCCTACTTG
TGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
Found at i:50521057 original size:64 final size:64
Alignment explanation
Indices: 50520755--50521057 Score: 525
Period size: 64 Copynumber: 4.7 Consensus size: 64
50520745 GCACACGCCC
* *
50520755 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACAAGCCTGTGTCCCCTACTT
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACACGCCTGTGTCCCCTACCT
* *
50520819 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACACGCCTGTGTCCCCTACCT
* * *
50520883 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGTCTGGGCACAAGCCTGTGTCCCCTACTT
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACACGCCTGTGTCCCCTACCT
* *
50520947 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACACGCCTGTGTCCCCTACCT
50521011 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACAC
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACAC
50521058 ACCCGTGTGC
Statistics
Matches: 224, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 224 1.00
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.29
Consensus pattern (64 bp):
GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACACGCCTGTGTCCCCTACCT
Found at i:50525552 original size:49 final size:49
Alignment explanation
Indices: 50525495--50525594 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
50525485 ATTTGAGAAT
50525495 GAGTAAAACCTATATCAGTTAAGGTAGAATATAGTACAAAGTAAATAAA
1 GAGTAAAACCTATATCAGTTAAGGTAGAATATAGTACAAAGTAAATAAA
50525544 GAGTAAAACCTATATCAGTTAAGGTAGAATATAGTACAAAGTAAATAAA
1 GAGTAAAACCTATATCAGTTAAGGTAGAATATAGTACAAAGTAAATAAA
50525593 GA
1 GA
50525595 ACGTAGTCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.51, C:0.08, G:0.17, T:0.24
Consensus pattern (49 bp):
GAGTAAAACCTATATCAGTTAAGGTAGAATATAGTACAAAGTAAATAAA
Found at i:50529617 original size:21 final size:21
Alignment explanation
Indices: 50529559--50529609 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
50529549 GCAAATTGTT
50529559 GATTTTCAAAAGAAAATAGAG
1 GATTTTCAAAAGAAAATAGAG
*
50529580 GATTTTCAAAAGAAAATAGTG
1 GATTTTCAAAAGAAAATAGAG
50529601 GATTTTCAA
1 GATTTTCAA
50529610 CATAAAATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (21 bp):
GATTTTCAAAAGAAAATAGAG
Found at i:50533084 original size:5 final size:6
Alignment explanation
Indices: 50533062--50533101 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
50533052 GACAATTACC
*
50533062 AAAAAA AAAAGAG AAAAAG AAAAAG AAAAAGG AAAAAG AA
1 AAAAAG AAAA-AG AAAAAG AAAAAG AAAAA-G AAAAAG AA
50533102 TGAGAGAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:50533084 original size:13 final size:12
Alignment explanation
Indices: 50533062--50533101 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
50533052 GACAATTACC
*
50533062 AAAAAAAAAAGAG
1 AAAAAGAAAA-AG
50533075 AAAAAGAAAAAG
1 AAAAAGAAAAAG
50533087 AAAAAGGAAAAAG
1 AAAAA-GAAAAAG
50533100 AA
1 AA
50533102 TGAGAGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:50533090 original size:19 final size:19
Alignment explanation
Indices: 50533062--50533101 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
50533052 GACAATTACC
50533062 AAAAAAAAAAGAGAAAAAGA
1 AAAAAAAAAAG-GAAAAAGA
*
50533082 AAAAGAAAAAGGAAAAAGA
1 AAAAAAAAAAGGAAAAAGA
50533101 A
1 A
50533102 TGAGAGAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGGAAAAAGA
Found at i:50533687 original size:64 final size:64
Alignment explanation
Indices: 50533476--50533687 Score: 289
Period size: 64 Copynumber: 3.3 Consensus size: 64
50533466 TGGGGTGTTA
* * *
50533476 CACAAACAGCGAGTCACATGACCTGGACACACACCCGTGTCTTTGGCCCTTGTGGTTTCTAAAT
1 CACAAACAGTGAGTCACACGACCTGGACACACACCCGTGTCTCTGGCCCTTGTGGTTTCTAAAT
* * * * * * *
50533540 CACAAACAGTGAGTCAGACAAGCTGGACACACACCCATATGTCTGGCCCGTGTGGTTTCTAAAT
1 CACAAACAGTGAGTCACACGACCTGGACACACACCCGTGTCTCTGGCCCTTGTGGTTTCTAAAT
* * * *
50533604 CACAAATAGTGAGTCACACGACCTGGACACACAACCGTGTCTCTAGCCCTTGTGTTTTCTAAAT
1 CACAAACAGTGAGTCACACGACCTGGACACACACCCGTGTCTCTGGCCCTTGTGGTTTCTAAAT
*
50533668 CACAAATAGTGAGTCACACG
1 CACAAACAGTGAGTCACACG
50533688 GCCTACCACA
Statistics
Matches: 127, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 127 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (64 bp):
CACAAACAGTGAGTCACACGACCTGGACACACACCCGTGTCTCTGGCCCTTGTGGTTTCTAAAT
Found at i:50535894 original size:14 final size:14
Alignment explanation
Indices: 50535877--50535909 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
50535867 TAAAATATAT
50535877 TTATATTAGTATTA
1 TTATATTAGTATTA
*
50535891 TTATATTATTATTA
1 TTATATTAGTATTA
50535905 TTATA
1 TTATA
50535910 ATAAAGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TTATATTAGTATTA
Found at i:50536402 original size:21 final size:21
Alignment explanation
Indices: 50536376--50536417 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
50536366 ATAGAGTGTG
50536376 AATTGAATTAAGAAAGTAAGT
1 AATTGAATTAAGAAAGTAAGT
*
50536397 AATTGAATTAGGAAAGTAAGT
1 AATTGAATTAAGAAAGTAAGT
50536418 GAACTTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (21 bp):
AATTGAATTAAGAAAGTAAGT
Found at i:50536695 original size:3 final size:3
Alignment explanation
Indices: 50536687--50536750 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
50536677 TGAGGTAAGC
50536687 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
50536735 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
50536751 AGATGAGTGG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:50543930 original size:23 final size:23
Alignment explanation
Indices: 50543904--50543949 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
50543894 TTTTTCAATC
*
50543904 TTTTATAGTCAAAGAATTCAAAT
1 TTTTATAGTCAAAGAACTCAAAT
50543927 TTTTATAGTCAAAGAACTCAAAT
1 TTTTATAGTCAAAGAACTCAAAT
50543950 AATCATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (23 bp):
TTTTATAGTCAAAGAACTCAAAT
Found at i:50544047 original size:2 final size:2
Alignment explanation
Indices: 50544040--50544064 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50544030 AATGTTTGCA
50544040 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
50544065 AGAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50544792 original size:162 final size:162
Alignment explanation
Indices: 50544547--50544898 Score: 605
Period size: 162 Copynumber: 2.2 Consensus size: 162
50544537 TGCAATTGGG
50544547 AACAACTCTCTATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGA
1 AACAACTCTCTATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGA
* * *
50544612 AATTTCAATTTGTTGCATTCTCTGACTTGTAATTTCCTTAGGCATTGGAAGCTTATGGTTGATAC
66 AATTTCAACTTATTGCATTCTCTGACTTGTAATTCCCTTAGGCATTGGAAGCTTATGGTTGATAC
* *
50544677 TTGTGAGTCTTGGATTATTTCTTCCATTCCAA
131 TTGCGAGTCTTGAATTATTTCTTCCATTCCAA
* * * *
50544709 AGCACCTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGTGAAGAGA
1 AACAACTCTCTATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGA
* *
50544774 AATTTCAACTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATAC
66 AATTTCAACTTATTGCATTCTCTGACTTGTAATTCCCTTAGGCATTGGAAGCTTATGGTTGATAC
50544839 TTGCGAGTCTTGAATTATTTCTTCCATTCCAA
131 TTGCGAGTCTTGAATTATTTCTTCCATTCCAA
50544871 AACAACTCTCTATCTTCAGAGTTTGCAA
1 AACAACTCTCTATCTTCAGAGTTTGCAA
50544899 ATTGGGCGCA
Statistics
Matches: 177, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 177 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (162 bp):
AACAACTCTCTATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGA
AATTTCAACTTATTGCATTCTCTGACTTGTAATTCCCTTAGGCATTGGAAGCTTATGGTTGATAC
TTGCGAGTCTTGAATTATTTCTTCCATTCCAA
Found at i:50545709 original size:21 final size:22
Alignment explanation
Indices: 50545675--50545723 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
50545665 CTATTCAAAC
* *
50545675 AACAAATTATTAAA-AAAAAAA
1 AACAAATAAATAAATAAAAAAA
* *
50545696 AACAAATAAATAAATAATATAA
1 AACAAATAAATAAATAAAAAAA
50545718 AACAAA
1 AACAAA
50545724 AGGAAAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (22 bp):
AACAAATAAATAAATAAAAAAA
Found at i:50549675 original size:19 final size:19
Alignment explanation
Indices: 50549653--50549697 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
50549643 AATTACAAAA
*
50549653 AAAAATT-AAAATAATTTTT
1 AAAAATTGAAAAT-ATTTAT
50549672 AAAAATTGAAAATATTTAT
1 AAAAATTGAAAATATTTAT
50549691 AAAAATT
1 AAAAATT
50549698 CTAACTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAATTGAAAATATTTAT
Found at i:50551097 original size:16 final size:16
Alignment explanation
Indices: 50551063--50551112 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
50551053 AAAACTAAAG
* *
50551063 TTTTTAAAACATTTA-
1 TTTTTAAAATATTCAT
*
50551078 TTTTTATAATATTCAT
1 TTTTTAAAATATTCAT
*
50551094 TTTTTAAAATTTTCAT
1 TTTTTAAAATATTCAT
50551110 TTT
1 TTT
50551113 AAATTATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTTAAAATATTCAT
Found at i:50553203 original size:42 final size:42
Alignment explanation
Indices: 50553098--50553252 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 42
50553088 ATGTGATTTT
* * *
50553098 GTGTAAGACCACGTCTGGGACGTTGGCTTCG-ATTTGAGATTTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATTT--GA-TTAC
* *
50553142 GTGTAAGACCATGTTTGGGACATTGACATCGTATTTGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTAC
* * * *
50553184 GTGTAAGACCTTGTCTGGGATAGTGGCATTGTTATTTGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTAC
* ** *
50553227 ATGTAAGACCACATCTGGGACGTTGG
1 GTGTAAGACCATGTCTGGGACATTGG
50553253 TATTGTACGA
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 29 0.32
43 32 0.35
44 26 0.29
45 4 0.04
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTAC
Found at i:50553234 original size:43 final size:42
Alignment explanation
Indices: 50553098--50553247 Score: 133
Period size: 42 Copynumber: 3.5 Consensus size: 42
50553088 ATGTGATTTT
* * *
50553098 GTGTAAGACCACGTCTGGGAC-GTTGGCTTCG-ATTTGAGATTTAC
1 GTGTAAGACCATGTCTGGGACAG-TGACATCGTATTT--GA-TTAC
* *
50553142 GTGTAAGACCATGTTTGGGACATTGACATCGTATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAGTGACATCGTATTTGATTAC
* * * *
50553184 GTGTAAGACCTTGTCTGGGATAGTGGCATTGTTATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAGTGACATCG-TATTTGATTAC
* **
50553227 ATGTAAGACCACATCTGGGAC
1 GTGTAAGACCATGTCTGGGAC
50553248 GTTGGTATTG
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 29 0.33
43 29 0.33
44 25 0.29
45 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACAGTGACATCGTATTTGATTAC
Found at i:50554514 original size:2 final size:2
Alignment explanation
Indices: 50554507--50554563 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
50554497 TGTTATGCGC
50554507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50554549 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
50554564 ATAAAATGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50554742 original size:2 final size:2
Alignment explanation
Indices: 50554735--50554765 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
50554725 TAAGCTTGAT
50554735 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50554766 TAAATATTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50556254 original size:15 final size:15
Alignment explanation
Indices: 50556234--50556292 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
50556224 AATAAAAAGG
50556234 AAATAATAAGT-AAAT
1 AAATAATAA-TAAAAT
50556249 AAATAA-AATAAAAT
1 AAATAATAATAAAAT
50556263 AAAATAA-AATAAAAT
1 -AAATAATAATAAAAT
*
50556278 AAAAAATAAATAAAA
1 AAATAAT-AATAAAA
50556293 ATAATAACAC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
13 1 0.03
14 11 0.28
15 20 0.51
16 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (15 bp):
AAATAATAATAAAAT
Found at i:50556259 original size:5 final size:5
Alignment explanation
Indices: 50556245--50556292 Score: 71
Period size: 5 Copynumber: 9.6 Consensus size: 5
50556235 AATAATAAGT
*
50556245 AAAT- AAATA AAATA AAATA AAATA AAATA AAATA AAAAA TAAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA -AAATA AAA
50556293 ATAATAACAC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
4 4 0.10
5 32 0.80
6 4 0.10
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:50556283 original size:27 final size:27
Alignment explanation
Indices: 50556253--50556309 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
50556243 GTAAATAAAT
50556253 AAAATAAAATAAAATAAAATAA-A-ATAA
1 AAAAT-AAATAAAA-AAAATAACACATAA
*
50556280 AAAATAAATAAAAATAATAACACATAA
1 AAAATAAATAAAAAAAATAACACATAA
50556307 AAA
1 AAA
50556310 TGAATAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 6 0.22
26 9 0.33
27 12 0.44
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.18
Consensus pattern (27 bp):
AAAATAAATAAAAAAAATAACACATAA
Found at i:50556288 original size:11 final size:11
Alignment explanation
Indices: 50556198--50556293 Score: 56
Period size: 11 Copynumber: 9.1 Consensus size: 11
50556188 AAAAATGCAC
50556198 AATAAATAAAA
1 AATAAATAAAA
* * *
50556209 AACAAATCAAT
1 AATAAATAAAA
**
50556220 TTTAAATAAAA
1 AATAAATAAAA
** *
50556231 AGGAAATAATA
1 AATAAATAAAA
*
50556242 AGTAAAT-AAA
1 AATAAATAAAA
*
50556252 TA-AAATAAAA
1 AATAAATAAAA
*
50556262 TA-AAATAAAA
1 AATAAATAAAA
*
50556272 TA-AAATAAAA
1 AATAAATAAAA
50556282 AATAAATAAAA
1 AATAAATAAAA
50556293 A
1 A
50556294 TAATAACACA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
9 4 0.06
10 26 0.39
11 36 0.55
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (11 bp):
AATAAATAAAA
Found at i:50556293 original size:10 final size:10
Alignment explanation
Indices: 50556222--50556296 Score: 57
Period size: 11 Copynumber: 7.3 Consensus size: 10
50556212 AAATCAATTT
50556222 TAAATAAAAA
1 TAAATAAAAA
* *
50556232 GGAAATAATAAG
1 -TAAATAA-AAA
*
50556244 TAAATAAATA
1 TAAATAAAAA
50556254 -AAAT-AAAA
1 TAAATAAAAA
50556262 TAAA-ATAAAA
1 TAAATA-AAAA
50556272 TAAAATAAAAAA
1 T-AAAT-AAAAA
50556284 TAAATAAAAA
1 TAAATAAAAA
50556294 TAA
1 TAA
50556297 TAACACATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.06
9 7 0.14
10 14 0.27
11 19 0.37
12 7 0.14
13 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (10 bp):
TAAATAAAAA
Found at i:50556298 original size:20 final size:19
Alignment explanation
Indices: 50556234--50556299 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
50556224 AATAAAAAGG
* *
50556234 AAATAATAAGTAAATAAATA
1 AAATAAAAAATAAATAAA-A
*
50556254 AAATAAAATA-AAATAAAATA
1 AAATAAAAAATAAAT-AAA-A
50556274 AAATAAAAAATAAATAAAA
1 AAATAAAAAATAAATAAAA
50556293 ATAATAA
1 A-AATAA
50556300 CACATAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 6 0.15
20 29 0.74
21 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (19 bp):
AAATAAAAAATAAATAAAA
Found at i:50556307 original size:20 final size:17
Alignment explanation
Indices: 50556245--50556299 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 17
50556235 AATAATAAGT
50556245 AAATAAATAAAATAAAATA
1 AAATAAAT-AAA-AAAATA
*
50556264 AAATAAAATAAAATAA-A
1 AAAT-AAATAAAAAAATA
50556281 AAATAAATAAAAATAATA
1 AAATAAATAAAAA-AATA
50556299 A
1 A
50556300 CACATAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 8 0.26
17 7 0.23
18 5 0.16
19 7 0.23
20 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAAATAAAAAAATA
Found at i:50556961 original size:3 final size:3
Alignment explanation
Indices: 50556953--50557035 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
50556943 AAAAAGGTAA
*
50556953 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
50557001 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
50557036 AGTTTTGATT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:50557418 original size:89 final size:89
Alignment explanation
Indices: 50557240--50557722 Score: 416
Period size: 89 Copynumber: 5.4 Consensus size: 89
50557230 TTTGTAGTTC
* ** * * * *
50557240 TAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTT-ATAGCTTTAATCTGCTCCACCG-AACT
1 TAATCTGCTCCACTGCAACTTCAGAAAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACT
* * *
50557303 TCAGAGAGATAAGATTTATGTTTT
66 TCAGGGAGATAAGATTTGTGTCTT
* * * *
50557327 TAATCTGCTCTACTACAACTTCAGAAAGATAAGATTTGCTATCTTCAAACTGCTCTACTGCAACT
1 TAATCTGCTCCACTGCAACTTCAGAAAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACT
*
50557392 TCAGGGAGATAAGATTTGTGGCTT
66 TCAGGGAGATAAGATTTGTGTCTT
* * * *
50557416 TAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTTAATCTACTCCACTGCAACT
1 TAATCTGCTCCACTGCAACTTCAGAAAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACT
* *
50557481 TCAAGGAGATAAGATTTGCTATCTT
66 TCAGGGAGATAAGATTTG-TGTCTT
* ** * * * ** * *
50557506 CAATCTGCTCCACTGTGACTTTAGGAAGATAAGATTTTCTATCTTCAATCTTTTCTACTGCGACT
1 TAATCTGCTCCACTGCAACTTCAGAAAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACT
* * * *
50557571 TCGGGGAGATAAGGTTTGCTATCAT
66 TCAGGGAGATAAGATTTG-TGTCTT
* ** * ** * * * **
50557596 CAATCTGCTCCACTGTGACTTTAGGGAGATAAGATTTG-TGGT-TTTAATCTGCTCAACTATAAC
1 TAATCTGCTCCACTGCAACTTCAGAAAGATAAGATTTGCT-ATCTTCAATCTGCTCCACTGCAAC
* * *
50557659 TTCAGAGAGATAGGATTTGTGGCTT
65 TTCAGGGAGATAAGATTTGTGTCTT
* * * ** *
50557684 TAATCTACTCCACCGCAACTTTAGGGAGATAATATTTGC
1 TAATCTGCTCCACTGCAACTTCAGAAAGATAAGATTTGC
50557723 CATAATAACT
Statistics
Matches: 327, Mismatches: 64, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
87 32 0.10
88 51 0.16
89 130 0.40
90 114 0.35
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (89 bp):
TAATCTGCTCCACTGCAACTTCAGAAAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACT
TCAGGGAGATAAGATTTGTGTCTT
Found at i:50557721 original size:44 final size:44
Alignment explanation
Indices: 50557240--50557721 Score: 437
Period size: 45 Copynumber: 10.9 Consensus size: 44
50557230 TTTGTAGTTC
* * *
50557240 TAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTT
* * * * *
50557284 TAATCTGCTCCACCG-AACTTCAGAGAGATAAGATTTATGTTTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTT
* * **
50557327 TAATCTGCTCTACTACAACTTCAGAAAGATAAGATTTGCTATCTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTT
* * * **
50557372 CAAACTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTGGCTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTT
* *
50557416 TAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTT
* *
50557461 TAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTT
* ** * * *
50557506 CAATCTGCTCCACTGTGACTTTAGGAAGATAAGATTTTCTATCTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGTATCTT
* ** * * * * *
50557551 CAATCTTTTCTACTGCGACTTCGGGGAGATAAGGTTTGCTATCAT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTT
* ** * *
50557596 CAATCTGCTCCACTGTGACTTTAGGGAGATAAGATTTGTGGT-TT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-ATCTT
* ** * * **
50557640 TAATCTGCTCAACTATAACTTCAGAGAGATAGGATTTGTGGCTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTT
* * * *
50557684 TAATCTACTCCACCGCAACTTTAGGGAGATAATATTTG
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
50557722 CCATAATAAC
Statistics
Matches: 358, Mismatches: 73, Indels: 14
0.80 0.16 0.03
Matches are distributed among these distances:
43 37 0.10
44 140 0.39
45 178 0.50
46 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (44 bp):
TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTT
Found at i:50559291 original size:13 final size:13
Alignment explanation
Indices: 50559273--50559297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50559263 TAATTTATAT
50559273 GTGTGAAAATTTC
1 GTGTGAAAATTTC
50559286 GTGTGAAAATTT
1 GTGTGAAAATTT
50559298 TACCATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:50563342 original size:16 final size:15
Alignment explanation
Indices: 50563317--50563346 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
50563307 TTAATTTCAT
50563317 TCATTTCACAATTTC
1 TCATTTCACAATTTC
50563332 TCATATTCACAATTT
1 TCAT-TTCACAATTT
50563347 AAAATCGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (15 bp):
TCATTTCACAATTTC
Done.