Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 275 of 343
Found at i:91230422 original size:49 final size:48
Alignment explanation
Indices: 91230249--91230443 Score: 219
Period size: 50 Copynumber: 3.9 Consensus size: 48
91230239 TCTATTGTGA
* * * **
91230249 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATGTT
* * ** *
91230298 GTGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGA
1 G-G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT-GT-T
* *
91230350 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA-TGTT
*
91230399 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT
91230444 AGCTTCGGCT
Statistics
Matches: 125, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
48 1 0.01
49 42 0.34
50 44 0.35
51 37 0.30
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATGTT
Found at i:91234643 original size:55 final size:55
Alignment explanation
Indices: 91234543--91234648 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
91234533 TGACTTTTAA
* * *
91234543 ACATGGCCATGGCACACGCCCTTGTGGACTACCCGTGTTCAATACTGACTTTGGG
1 ACATGGCCATGGCACACGCCCATGTGGACTACCCGTGTCCAATACTAACTTTGGG
* * * * *
91234598 ACATGGCTATGGTAGACGCCCATGTGGCCTACCCGTGTCCTATACTAACTT
1 ACATGGCCATGGCACACGCCCATGTGGACTACCCGTGTCCAATACTAACTT
91234649 ATAAATTAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (55 bp):
ACATGGCCATGGCACACGCCCATGTGGACTACCCGTGTCCAATACTAACTTTGGG
Found at i:91248420 original size:26 final size:26
Alignment explanation
Indices: 91248334--91248422 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
91248324 AAAATCTACC
* * *
91248334 AGGAGTATCTTTTGTGGAAGTTCTTG
1 AGGACTATCTTTTGTGAAAGTTCATG
* * **
91248360 AGGACTATCTAATATGTGGAAAGTCCACC
1 AGGACTATCT--TTTGT-GAAAGTTCATG
91248389 AGGACTATCTTTTGTGAAAGTTCATG
1 AGGACTATCTTTTGTGAAAGTTCATG
*
91248415 ACGACTAT
1 AGGACTAT
91248423 GTAATATAAG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
26 24 0.50
27 4 0.08
28 4 0.08
29 16 0.33
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (26 bp):
AGGACTATCTTTTGTGAAAGTTCATG
Found at i:91248428 original size:55 final size:55
Alignment explanation
Indices: 91248240--91248438 Score: 213
Period size: 55 Copynumber: 3.6 Consensus size: 55
91248230 TGTATATGTA
* *
91248240 GAAG-TCAGTGAGGACTATCTAATATATGGAAAGTCCACCAAGACTATCTTTTCTG
1 GAAGTTCA-TGAGGACTATCTAATATATGGAAAGTCCACCAGGACTATCTTTTGTG
* * * * * * * * *
91248295 GAAGTCCGTAAGGACTGT-TGAAAATATGAAAAATCTACCAGGAGTATCTTTTGTG
1 GAAGTTCATGAGGACTATCT-AATATATGGAAAGTCCACCAGGACTATCTTTTGTG
* *
91248350 GAAGTTCTTGAGGACTATCTAATATGTGGAAAGTCCACCAGGACTATCTTTTGTG
1 GAAGTTCATGAGGACTATCTAATATATGGAAAGTCCACCAGGACTATCTTTTGTG
* * * *
91248405 AAAGTTCATGACGACTATGTAATATAAGGAAAGT
1 GAAGTTCATGAGGACTATCTAATATATGGAAAGT
91248439 TTTCCAGAAC
Statistics
Matches: 114, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
54 1 0.01
55 111 0.97
56 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (55 bp):
GAAGTTCATGAGGACTATCTAATATATGGAAAGTCCACCAGGACTATCTTTTGTG
Found at i:91248453 original size:110 final size:110
Alignment explanation
Indices: 91248248--91248454 Score: 245
Period size: 110 Copynumber: 1.9 Consensus size: 110
91248238 TAGAAGTCAG
* * * *
91248248 TGAGGACTATCTAATATATGGAAAGTCCACCAAGACTATCTTTTCTGGAAGTCCGTAAGGACTGT
1 TGAGGACTATCTAATATATGGAAAGTCCACCAAGACTATCTTTTCTGAAAGTCCATAACGACTAT
* * *
91248313 TGAAAATATGAAAAATCTACCAGGAGTATCTTTTGTGGAAGTTCT
66 TGAAAATAAGAAAAATCTACCAGAACTATCTTTTGTGGAAGTTCT
* * * * *
91248358 TGAGGACTATCTAATATGTGGAAAGTCCACCAGGACTATCTTTTGTGAAAGTTCATGACGACTA-
1 TGAGGACTATCTAATATATGGAAAGTCCACCAAGACTATCTTTTCTGAAAGTCCATAACGACTAT
* * * * *
91248422 TGTAATATAAGGAAAGTTTTCCAGAACTATCTT
66 TG-AAAATAAGAAAAATCTACCAGAACTATCTT
91248455 GTAAATATGA
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
109 2 0.03
110 77 0.97
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (110 bp):
TGAGGACTATCTAATATATGGAAAGTCCACCAAGACTATCTTTTCTGAAAGTCCATAACGACTAT
TGAAAATAAGAAAAATCTACCAGAACTATCTTTTGTGGAAGTTCT
Found at i:91254421 original size:51 final size:51
Alignment explanation
Indices: 91254344--91254466 Score: 142
Period size: 51 Copynumber: 2.4 Consensus size: 51
91254334 ACGGATACCG
* * *
91254344 GTGGCCTGCACAGAGTACCACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTGCACATAGTACCACACTTGTGA-CCAAAGCTACCTT-TTACACAAA
* * * *
91254395 GTGGCCTTCACATAGTACTACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTGCACATAGTACCACACTTGTGACCAAAGCTACCTTTTACACAAA
*
91254446 GTGGCCTGCACTTAGTACCAC
1 GTGGCCTGCACATAGTACCAC
91254467 GCATGTGATC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 2 0.03
51 57 0.95
52 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACTTGTGACCAAAGCTACCTTTTACACAAA
Found at i:91254474 original size:51 final size:51
Alignment explanation
Indices: 91254374--91254626 Score: 197
Period size: 51 Copynumber: 5.0 Consensus size: 51
91254364 CCCTTGTAGT
* * * * * *
91254374 CAAAGCTACCTTCTT-CACAAAGTGGCCTTCACATAGTACTACACTTGTGAC
1 CAAAGCTATCTT-TTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
* * * *
91254425 CAAAGCTATCTTTTACACATAGTGGCCTGCACTTAGTACCACGCATGTGAT
1 CAAAGCTATCTTTTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
* *** ** *
91254476 CGAAGCTATCGGGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGAC
1 CAAAGCTATCTTTTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
* * ** * * *
91254527 CTAA-CAATCTGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGAC
1 CAAAGCTATCTTTTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
* * * * *
91254577 CTAAAACCAT-TTTAAACACATAGTAGCCTACACATAGTACTACACATGTG
1 C-AAAGCTATCTTT-TACACATAGTAGCCTGCACTTAGTACTACACATGTG
91254627 TTCTCACAAT
Statistics
Matches: 160, Mismatches: 38, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
50 41 0.26
51 86 0.54
52 33 0.21
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (51 bp):
CAAAGCTATCTTTTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
Found at i:91259658 original size:31 final size:31
Alignment explanation
Indices: 91259620--91259685 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
91259610 TTTGGAGAGT
*
91259620 CACATGCCCGTGTGGGTACGCCGTGTGGTTA
1 CACATGCCCGTGTGGGTACGCCGTGTGGTCA
*
91259651 CACATGCCCGTGTGGGTAGGCCGTGTGGTCA
1 CACATGCCCGTGTGGGTACGCCGTGTGGTCA
91259682 CACA
1 CACA
91259686 CGCCTGAGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.15, C:0.27, G:0.35, T:0.23
Consensus pattern (31 bp):
CACATGCCCGTGTGGGTACGCCGTGTGGTCA
Found at i:91262118 original size:37 final size:37
Alignment explanation
Indices: 91262077--91262150 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
91262067 CCTTGCAAAT
*
91262077 TTCGGCACACTAGGAGGAAGATGGACTCAATTTTTTA
1 TTCGGCACACTAGGAGGAAGATGGACACAATTTTTTA
*
91262114 TTCGGTACACTAGGAGGAAGATGGACACAATTTTTTA
1 TTCGGCACACTAGGAGGAAGATGGACACAATTTTTTA
91262151 CTTGATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (37 bp):
TTCGGCACACTAGGAGGAAGATGGACACAATTTTTTA
Found at i:91265356 original size:46 final size:46
Alignment explanation
Indices: 91265306--91265481 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
91265296 TGGTTGAGCA
91265306 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
91265352 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
91265397 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * **
91265445 CCCGAGCTCATTGAGTTGAGTTCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91265482 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:91265462 original size:93 final size:93
Alignment explanation
Indices: 91265303--91265472 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
91265293 GGATGGTTGA
* * *
91265303 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
91265368 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
91265396 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
91265461 TGAGTTCGAGTT
66 TGAGTCCGAGTT
91265473 TGCTTATGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:91272924 original size:46 final size:46
Alignment explanation
Indices: 91272874--91273049 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
91272864 TGGTTGAGCA
91272874 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
91272920 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
91272965 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
91273013 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91273050 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:91273030 original size:93 final size:93
Alignment explanation
Indices: 91272871--91273042 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
91272861 GGATGGTTGA
* *
91272871 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
91272936 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
91272964 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
91273029 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
91273043 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:91273817 original size:38 final size:38
Alignment explanation
Indices: 91273769--91273845 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
91273759 GGTGATGGAC
*
91273769 TACATATCAAATTGAAGCTTATTATGCCTAGTTTCACA
1 TACATATCAAATTGAAGCTTATTATGCCTAATTTCACA
*
91273807 TACATATCAAATTGAAGCTTATTATGTCTAATTTCACA
1 TACATATCAAATTGAAGCTTATTATGCCTAATTTCACA
91273845 T
1 T
91273846 GAAACAAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (38 bp):
TACATATCAAATTGAAGCTTATTATGCCTAATTTCACA
Found at i:91276973 original size:27 final size:27
Alignment explanation
Indices: 91276940--91277117 Score: 284
Period size: 27 Copynumber: 6.5 Consensus size: 27
91276930 TAAATTGTGC
*
91276940 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
91276967 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
91276995 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
91277022 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
*
91277050 AGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
91277077 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
91277104 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
91277118 AGACTTAATA
Statistics
Matches: 145, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 92 0.63
28 53 0.37
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:91277004 original size:55 final size:55
Alignment explanation
Indices: 91276940--91277117 Score: 304
Period size: 55 Copynumber: 3.3 Consensus size: 55
91276930 TAAATTGTGC
* *
91276940 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
91276995 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
* *
91277050 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
*
91277104 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
91277118 AGACTTAATA
Statistics
Matches: 118, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
54 22 0.19
55 96 0.81
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:91277079 original size:82 final size:82
Alignment explanation
Indices: 91276940--91277117 Score: 286
Period size: 82 Copynumber: 2.2 Consensus size: 82
91276930 TAAATTGTGC
91276940 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
91277005 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATAT
* * *
91277022 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
*
91277086 TGTGCGAGTTGATTATAT
65 TGTGCGAGTTGACTATAT
*
91277104 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
91277118 AGACTTAATA
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
82 63 0.71
83 26 0.29
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:91279252 original size:45 final size:44
Alignment explanation
Indices: 91279153--91279276 Score: 121
Period size: 45 Copynumber: 2.8 Consensus size: 44
91279143 TTTTCTCAAA
* **
91279153 TCACCGGCATT-TCGCCTATTAGGCTCG-AGGCCCAATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCAATATCAGT
*
91279195 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC-AATA-TCAGT
** * *
91279239 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCAA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCAA
91279277 ATAATCAAGT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 10 0.15
43 13 0.19
44 9 0.13
45 35 0.51
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCAATATCAGT
Found at i:91279519 original size:43 final size:43
Alignment explanation
Indices: 91279456--91279625 Score: 254
Period size: 43 Copynumber: 4.0 Consensus size: 43
91279446 TTTGATAACT
* *
91279456 TAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGC
1 TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
91279499 TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
1 TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
**
91279542 TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTAT
1 TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
* * * *
91279585 TAGGCACGAAGGCCCGAATATA-AT-ACCAGCACTAGGCCTGC
1 TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
91279626 AGGATTTATC
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
41 13 0.11
42 2 0.02
43 102 0.87
ACGTcount: A:0.32, C:0.33, G:0.22, T:0.12
Consensus pattern (43 bp):
TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
Found at i:91279645 original size:38 final size:38
Alignment explanation
Indices: 91279597--91279680 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
91279587 GGCACGAAGG
* *
91279597 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGAATATAATACCAGCACTAAGCCTGCAGGATTTAA
* * *
91279635 CCCGGATATAATATCAGCACTAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACTAAGCCTGCAGGATTTAA
91279673 CCCGAATA
1 CCCGAATA
91279681 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACTAAGCCTGCAGGATTTAA
Found at i:91283865 original size:18 final size:18
Alignment explanation
Indices: 91283842--91283878 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
91283832 CTCAATATCA
91283842 ATTGAACTTTTACAATTT
1 ATTGAACTTTTACAATTT
91283860 ATTGAACTTTTACAATTT
1 ATTGAACTTTTACAATTT
91283878 A
1 A
91283879 GTCAACCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTGAACTTTTACAATTT
Found at i:91304599 original size:18 final size:19
Alignment explanation
Indices: 91304577--91304647 Score: 78
Period size: 18 Copynumber: 3.8 Consensus size: 19
91304567 GGTTTAATGT
*
91304577 TTTTTTAATTTTTATTACA
1 TTTTTTAATTTTTATTAAA
*
91304596 -TTTTTAGTTTTTATTAAA
1 TTTTTTAATTTTTATTAAA
91304614 TTTTTTAATTTTTAATT--A
1 TTTTTTAATTTTT-ATTAAA
91304632 TTATTTT-ATTTTTATT
1 TT-TTTTAATTTTTATT
91304648 GAGTTTGGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 3 0.07
18 25 0.54
19 15 0.33
20 3 0.07
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (19 bp):
TTTTTTAATTTTTATTAAA
Found at i:91304644 original size:26 final size:27
Alignment explanation
Indices: 91304581--91304636 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
91304571 TAATGTTTTT
* * *
91304581 TTAATTTTTATTACATTTTTAGTTTTTA
1 TTAAATTTT-TTACATTTTTAATTATTA
91304609 TTAAATTTTTTA-ATTTTTAATTATTA
1 TTAAATTTTTTACATTTTTAATTATTA
91304635 TT
1 TT
91304637 TTATTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.56
27 3 0.12
28 8 0.32
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (27 bp):
TTAAATTTTTTACATTTTTAATTATTA
Found at i:91309464 original size:30 final size:30
Alignment explanation
Indices: 91309428--91309488 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
91309418 CATGGGTAGG
*
91309428 CACATGGGCATGTTG-CCTGCCCGTGTGGAT
1 CACATGGGCATG-TGCCCAGCCCGTGTGGAT
*
91309458 CACATGGGCATGTGCCCAGTCCGTGTGGAT
1 CACATGGGCATGTGCCCAGCCCGTGTGGAT
91309488 C
1 C
91309489 CTAAAAACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.15, C:0.28, G:0.33, T:0.25
Consensus pattern (30 bp):
CACATGGGCATGTGCCCAGCCCGTGTGGAT
Found at i:91311236 original size:14 final size:14
Alignment explanation
Indices: 91311219--91311249 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
91311209 AAACAAAATT
91311219 TAAAAAAATAATAA
1 TAAAAAAATAATAA
*
91311233 TAAAATAATAATAA
1 TAAAAAAATAATAA
91311247 TAA
1 TAA
91311250 TACACTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAAAAATAATAA
Found at i:91311419 original size:21 final size:19
Alignment explanation
Indices: 91311367--91311406 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
91311357 AATAACAGCT
*
91311367 TATAAAAAATTAAAAAATA
1 TATAAAAAAATAAAAAATA
91311386 TATAAAAAAATAAAAAATA
1 TATAAAAAAATAAAAAATA
91311405 TA
1 TA
91311407 AGTATAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (19 bp):
TATAAAAAAATAAAAAATA
Found at i:91311820 original size:30 final size:30
Alignment explanation
Indices: 91311779--91311835 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
91311769 ATGTGAGATC
* *
91311779 CCACACGCCCGTGTGGCTAGGCCGTGTGCT
1 CCACACACCCGTGTGGCCAGGCCGTGTGCT
*
91311809 CCACACACCCGTGTGGCCAGGCTGTGT
1 CCACACACCCGTGTGGCCAGGCCGTGT
91311836 AACTCTCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.37, G:0.32, T:0.19
Consensus pattern (30 bp):
CCACACACCCGTGTGGCCAGGCCGTGTGCT
Found at i:91311876 original size:199 final size:199
Alignment explanation
Indices: 91311612--91312035 Score: 740
Period size: 199 Copynumber: 2.1 Consensus size: 199
91311602 GTGAGATCCT
* *
91311612 ACACGCCCGTGTGGCCAGGCCATTTAACTCTCTGACTTTGAAAAAAAATTAGCTCCAGATTTCAC
1 ACACACCCGTGTGGCCAGGCCATGTAACTCTCTGACTTTGAAAAAAAATTAGCTCCAGATTTCAC
* * * * *
91311677 ACGGCCTAGGATACGCCCGTTTGTCCAAGCTGTGTGGGTCACATGGCCATGTCGCCAAGCCGTGT
66 ACGGCCTAGGACACGCCCATGTGTCCAAGCCGTGTGGGTCACATGGCCATGTCGCCAAGCCGTAT
*
91311742 GTGTTTTCTTTCGCTTCTCCCACACCCATGTGAGATCCCACACGCCCGTGTGGCTAGGCCGTGTG
131 GTGTTTTCCTTCGCTTCTCCCACACCCATGTGAGATCCCACACGCCCGTGTGGCTAGGCCGTGTG
91311807 CTCC
196 CTCC
**
91311811 ACACACCCGTGTGGCCAGGCTGTGTAACTCTCTGACTTTGAAAAAAAATTAGCTCCAGATTTCAC
1 ACACACCCGTGTGGCCAGGCCATGTAACTCTCTGACTTTGAAAAAAAATTAGCTCCAGATTTCAC
*
91311876 ACGGCCTAGGACACGCCCATGTGTCCAGGCCGTGTGGGTCACATGGCCATGTCGCCAAGCCGTAT
66 ACGGCCTAGGACACGCCCATGTGTCCAAGCCGTGTGGGTCACATGGCCATGTCGCCAAGCCGTAT
91311941 GTGTTTTCCTTCGCTTCTCCCACACCCATGTGAGATCCCACACGCCCGTGTGGCTAGGCCGTGTG
131 GTGTTTTCCTTCGCTTCTCCCACACCCATGTGAGATCCCACACGCCCGTGTGGCTAGGCCGTGTG
91312006 CTCC
196 CTCC
*
91312010 ACACACCCGTGTGGCCAGGTCATGTA
1 ACACACCCGTGTGGCCAGGCCATGTA
91312036 GGTCAAAAAC
Statistics
Matches: 211, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
199 211 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.25
Consensus pattern (199 bp):
ACACACCCGTGTGGCCAGGCCATGTAACTCTCTGACTTTGAAAAAAAATTAGCTCCAGATTTCAC
ACGGCCTAGGACACGCCCATGTGTCCAAGCCGTGTGGGTCACATGGCCATGTCGCCAAGCCGTAT
GTGTTTTCCTTCGCTTCTCCCACACCCATGTGAGATCCCACACGCCCGTGTGGCTAGGCCGTGTG
CTCC
Found at i:91316004 original size:3 final size:3
Alignment explanation
Indices: 91315996--91316033 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
91315986 ATCTACTCAC
91315996 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
91316034 ATCTTCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:91316667 original size:26 final size:26
Alignment explanation
Indices: 91316609--91316668 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
91316599 ATTTATATTT
*
91316609 TCATTA-TTATATTTTAGATATTATG
1 TCATTATTTATATTTTAGATATTATA
*
91316634 TC-TATATTTATA-TTTAGGTATTAATA
1 TCAT-TATTTATATTTTAGATATT-ATA
91316660 TCATTATTT
1 TCATTATTT
91316669 TACTATTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 1 0.03
25 13 0.45
26 14 0.48
27 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (26 bp):
TCATTATTTATATTTTAGATATTATA
Found at i:91316713 original size:18 final size:18
Alignment explanation
Indices: 91316692--91316734 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
91316682 TTTTTCATAC
*
91316692 TATTATTATTATCACTAT
1 TATTATTATTAGCACTAT
*
91316710 TATTACTATTAGCACTAT
1 TATTATTATTAGCACTAT
*
91316728 TTTTATT
1 TATTATT
91316735 TGCTATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTATTAGCACTAT
Found at i:91319258 original size:30 final size:30
Alignment explanation
Indices: 91319200--91319260 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
91319190 CACGGGCTGG
* * *
91319200 CACATGAGCATGTGGCCTGCCCGTGTGGAT
1 CACATGAGCATGTGCCCAGCCCGAGTGGAT
* *
91319230 CACATGGGCATGTGCCCAGCCTGAGTGGAT
1 CACATGAGCATGTGCCCAGCCCGAGTGGAT
91319260 C
1 C
91319261 CTGAAAACTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (30 bp):
CACATGAGCATGTGCCCAGCCCGAGTGGAT
Found at i:91322850 original size:50 final size:50
Alignment explanation
Indices: 91322794--91322892 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
91322784 CATCTATGTA
* * *
91322794 AAAAAATATAAACCCAAATATATGATTGGTCCTACACCTTAAATTATATG
1 AAAAAATATAAACACAAATATATGATTCGTCCTACACCTTAAATAATATG
* *
91322844 AAAAAATATAAACACAAATATATTATTCGTCCTACTCCTTAAATAATAT
1 AAAAAATATAAACACAAATATATGATTCGTCCTACACCTTAAATAATAT
91322893 AGACTAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.31
Consensus pattern (50 bp):
AAAAAATATAAACACAAATATATGATTCGTCCTACACCTTAAATAATATG
Found at i:91323757 original size:14 final size:15
Alignment explanation
Indices: 91323734--91323781 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
91323724 TGATAAACTA
*
91323734 AAAAAAAAGTAC-TG
1 AAAAATAAGTACTTG
91323748 AAAAATAAGT-CTTG
1 AAAAATAAGTACTTG
91323762 AAAAATTAAGTA-TT-
1 AAAAA-TAAGTACTTG
91323776 AAAAAT
1 AAAAAT
91323782 TTTAAGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
14 21 0.70
15 7 0.23
ACGTcount: A:0.60, C:0.04, G:0.10, T:0.25
Consensus pattern (15 bp):
AAAAATAAGTACTTG
Found at i:91323782 original size:14 final size:15
Alignment explanation
Indices: 91323740--91323782 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
91323730 ACTAAAAAAA
*
91323740 AAGTACTGAAAAA-T
1 AAGTATTGAAAAATT
*
91323754 AAGTCTTGAAAAATT
1 AAGTATTGAAAAATT
91323769 AAGTATT-AAAAATT
1 AAGTATTGAAAAATT
91323783 TTAAGTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (15 bp):
AAGTATTGAAAAATT
Found at i:91325765 original size:25 final size:25
Alignment explanation
Indices: 91325719--91325769 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
91325709 ATTTAAGAGA
**
91325719 AAATTAAAAGACATGACCTAAAAAC
1 AAATTAAAAGACACAACCTAAAAAC
*
91325744 AAATTAAAAGACACAACTTAAAAAC
1 AAATTAAAAGACACAACCTAAAAAC
91325769 A
1 A
91325770 TAAATTTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.63, C:0.16, G:0.06, T:0.16
Consensus pattern (25 bp):
AAATTAAAAGACACAACCTAAAAAC
Found at i:91326712 original size:32 final size:32
Alignment explanation
Indices: 91326666--91326735 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
91326656 CTCCTTGTTG
*
91326666 ATGACTAAATTTAATAAATCAAGTGGTGAAAC
1 ATGATTAAATTTAATAAATCAAGTGGTGAAAC
91326698 ATGATTAAATTTAATAAATCAAGTGGTGAAAC
1 ATGATTAAATTTAATAAATCAAGTGGTGAAAC
91326730 ATGATT
1 ATGATT
91326736 TGCTAGAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.31
Consensus pattern (32 bp):
ATGATTAAATTTAATAAATCAAGTGGTGAAAC
Found at i:91328884 original size:38 final size:38
Alignment explanation
Indices: 91328842--91328930 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 38
91328832 TTACCGATTG
* * *
91328842 CATGTTCAGCATGCTTACTAT-TATTGTTGAA-TCGAATA
1 CATGTTAAGCATGCCTACT-TCTAATGTTGAACT-GAATA
91328880 CATGTTAAGCATGCCTACTTCTAATGTTGAACTGAATA
1 CATGTTAAGCATGCCTACTTCTAATGTTGAACTGAATA
91328918 CATGTTAAGCATG
1 CATGTTAAGCATG
91328931 TCTGTTGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
37 1 0.02
38 44 0.96
39 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (38 bp):
CATGTTAAGCATGCCTACTTCTAATGTTGAACTGAATA
Found at i:91330520 original size:40 final size:38
Alignment explanation
Indices: 91330429--91330520 Score: 89
Period size: 40 Copynumber: 2.3 Consensus size: 38
91330419 TATTTTTATG
*
91330429 TATTATTTATTATATTATTTTTTACTTATAAATTGTATT
1 TATTATTTATTATATTATTTTTTA-TTAAAAATTGTATT
* *
91330468 TTTTCATATATTATATATATATTTTT-TTAAAAATTATGTA-T
1 TATT-ATTTATTATAT-TAT-TTTTTATTAAAAA-T-TGTATT
91330509 TATTATTTATTA
1 TATTATTTATTA
91330521 ATTGTGTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
39 3 0.07
40 23 0.53
41 8 0.19
42 9 0.21
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (38 bp):
TATTATTTATTATATTATTTTTTATTAAAAATTGTATT
Found at i:91330601 original size:11 final size:12
Alignment explanation
Indices: 91330571--91330613 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
91330561 ATTATCCTTC
*
91330571 ATTATATTTACAT
1 ATTATA-TTACTT
91330584 ATTATATTA-TT
1 ATTATATTACTT
*
91330595 TTTATATTACTT
1 ATTATATTACTT
91330607 ATTATAT
1 ATTATAT
91330614 GGTTTATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 9 0.35
12 11 0.42
13 6 0.23
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTATATTACTT
Found at i:91330642 original size:21 final size:21
Alignment explanation
Indices: 91330583--91330632 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
91330573 TATATTTACA
*
91330583 TATTATAT-TAT-TTTTATAT
1 TATTATATATATGGTTTATAT
91330602 TACTTAT-TATATGGTTTATAT
1 TA-TTATATATATGGTTTATAT
91330623 TATTATATAT
1 TATTATATAT
91330633 TTTGGTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.12
20 11 0.42
21 12 0.46
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
TATTATATATATGGTTTATAT
Found at i:91334664 original size:14 final size:16
Alignment explanation
Indices: 91334645--91334677 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
91334635 CGATGTCCTT
91334645 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
91334659 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
91334675 TTT
1 TTT
91334678 TATCACATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:91336903 original size:28 final size:28
Alignment explanation
Indices: 91336863--91336919 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
91336853 GGAGAAAAAG
91336863 ACCGAAGTACCAATCAATGAGCCAGTAA
1 ACCGAAGTACCAATCAATGAGCCAGTAA
91336891 ACCGAAGTACCAATCAATGAGCCAGTAA
1 ACCGAAGTACCAATCAATGAGCCAGTAA
91336919 A
1 A
91336920 GGAGGAGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.25, G:0.18, T:0.14
Consensus pattern (28 bp):
ACCGAAGTACCAATCAATGAGCCAGTAA
Found at i:91342885 original size:86 final size:85
Alignment explanation
Indices: 91342767--91343422 Score: 354
Period size: 86 Copynumber: 7.6 Consensus size: 85
91342757 CAGACCAAAG
** * *
91342767 CATAGCAGATCTGGCCTTCACG-TGTTTACACTGAAGCAGATCCAAGATAACAAATCTGGCATCT
1 CATAGCAGATCTAACCTTCA-GATGTTT-CACTGAAGTAGATCCAAGATAACAGATCTGGCATCT
91342831 CCATTTCGACAGAGAGCAGATA
64 CCATTTCGACAGAGAGCAGATA
*
91342853 CATAGCAGATCTAACCTTCAGATGATTTCACTGAAGTAGATCCAAGAT----GATTTGGCA--TC
1 CATAGCAGATCTAACCTTCAGATG-TTTCACTGAAGTAGATCCAAGATAACAGATCTGGCATCTC
* ** * *
91342912 CTTGTGTTTACA-AGGGACAAATCGAAA
65 CAT-T-TCGACAGAGAG-C--A--GATA
* *
91342939 GCATAGCAGATCTGACCTTCACG-TGTTTACACTGAAGTAGATCCAAGATAACAGATATGGCATC
1 -CATAGCAGATCTAACCTTCA-GATGTTT-CACTGAAGTAGATCCAAGATAACAGATCTGGCATC
* *
91343003 TCCATTTCAACGGAGAGCAGATA
63 TCCATTTCGACAGAGAGCAGATA
*
91343026 CATAGCAGATCTAACCTTCAGATGATTTCACTGAAGTAGATCCAAGAT----GATTTGGCA--TC
1 CATAGCAGATCTAACCTTCAGATG-TTTCACTGAAGTAGATCCAAGATAACAGATCTGGCATCTC
* ** * *
91343085 CTTGTGTTTACA-AGGAACAAATCGAA
65 CAT-T-TCGACAGA-GAGCAGAT---A
* * * * * * ** **
91343111 GGCGTAGCAGATTTGACTTTCGGATGTTCCCACACCAAAAAAGATCCAAGATAACAGATCTGGCA
1 --CATAGCAGATCTAACCTTCAGATGTT---TCACTGAAGTAGATCCAAGATAACAGATCTGGCA
* *
91343176 TCTCCATTTCGACGGAGAGTAGATA
61 TCTCCATTTCGACAGAGAGCAGATA
* ** *
91343201 CATAGCAGATCTAACCTTTAGATGATTTCACTGAAACAGATCCAAGAT----GATTTGGCA--TC
1 CATAGCAGATCTAACCTTCAGATG-TTTCACTGAAGTAGATCCAAGATAACAGATCTGGCATCTC
* *
91343260 C-TTGT-GTTACA-AGGAACAAATCGAAGA
65 CATT-TCG--ACAGA-GAGC--A--G-ATA
* * * * * * **
91343287 CATATCAGATTTGACTTTCGGATGTTCCCACACCAAAGTAGATCCAAGATAACAGATCTGGCATC
1 CATAGCAGATCTAACCTTCAGATGTT---TCACTGAAGTAGATCCAAGATAACAGATCTGGCATC
*
91343352 TCCATTTCGACAGAGAGCAGACA
63 TCCATTTCGACAGAGAGCAGATA
*
91343375 CATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCAAGAT
1 CATAGCAGATCTAACCTTCAGATG-TTTCACTGAAGTAGATCCAAGAT
91343423 GATTTAGCAT
Statistics
Matches: 426, Mismatches: 82, Indels: 124
0.67 0.13 0.20
Matches are distributed among these distances:
79 3 0.01
80 13 0.03
81 10 0.02
82 37 0.09
83 1 0.00
84 1 0.00
85 6 0.01
86 142 0.33
87 69 0.16
88 56 0.13
89 22 0.05
90 1 0.00
91 13 0.03
92 12 0.03
93 26 0.06
94 7 0.02
95 7 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (85 bp):
CATAGCAGATCTAACCTTCAGATGTTTCACTGAAGTAGATCCAAGATAACAGATCTGGCATCTCC
ATTTCGACAGAGAGCAGATA
Found at i:91342960 original size:173 final size:173
Alignment explanation
Indices: 91342763--91343509 Score: 1038
Period size: 173 Copynumber: 4.3 Consensus size: 173
91342753 GTAACAGACC
* * * * *
91342763 AAAGCATAGCAGATCTGGCCTTCACGTGTTTACACTGAAGCAGATCCAAGATAACAAATCTGGCA
1 AAAGCATAGCAGATTTGACTTTCACGTGTTTACACTAAAGCAGATCCAAGATAACAGATCTGGCA
*
91342828 TCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGTAGA
66 TCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGA
*
91342893 TCCAAGATGATTTGGCATCCTTGTGTTTACAAGGGACAAATCG
131 TCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCG
* * * * *
91342936 AAAGCATAGCAGATCTGACCTTCACGTGTTTACACTGAAGTAGATCCAAGATAACAGATATGGCA
1 AAAGCATAGCAGATTTGACTTTCACGTGTTTACACTAAAGCAGATCCAAGATAACAGATCTGGCA
* * *
91343001 TCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGTAGA
66 TCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGA
91343066 TCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCG
131 TCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCG
* * * * * **
91343109 AAGGCGTAGCAGATTTGACTTTC-GGATGTTCCCACACCAAAAAAGATCCAAGATAACAGATCTG
1 AAAGCATAGCAGATTTGACTTTCACG-TGTT--TACACTAAAGCAGATCCAAGATAACAGATCTG
* * * *
91343173 GCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTTAGATGATTTCACTGAAAC
63 GCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGC
91343238 AGATCCAAGATGATTTGGCATCCTTGTG-TTACAAGGAACAAATCG
128 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCG
* * * * *
91343283 -AAGACATATCAGATTTGACTTTC-GGATGTTCCCACACCAAAGTAGATCCAAGATAACAGATCT
1 AAAG-CATAGCAGATTTGACTTTCACG-TGTT--TACACTAAAGCAGATCCAAGATAACAGATCT
*
91343346 GGCATCTCCATTTCGACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTTCACTGAAG
62 GGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAG
* *
91343411 CAGATCCAAGATGATTTAGCATCCTTGTGTTTACAAGGAGCAAATCG
127 CAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCG
* * *
91343458 -AAGACATAGCA-ATTTTGGCTTTCACGTGTTTACACTAAAGCAAATCTAAGAT
1 AAAG-CATAGCAGA-TTTGACTTTCACGTGTTTACACTAAAGCAGATCCAAGAT
91343510 GATTTGACAT
Statistics
Matches: 524, Mismatches: 43, Indels: 14
0.90 0.07 0.02
Matches are distributed among these distances:
172 1 0.00
173 208 0.40
174 161 0.31
175 153 0.29
176 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (173 bp):
AAAGCATAGCAGATTTGACTTTCACGTGTTTACACTAAAGCAGATCCAAGATAACAGATCTGGCA
TCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGA
TCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCG
Found at i:91343360 original size:174 final size:175
Alignment explanation
Indices: 91342804--91343472 Score: 1053
Period size: 174 Copynumber: 3.8 Consensus size: 175
91342794 ACACTGAAGC
*
91342804 AGATCCAAGATAACAAATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACC
1 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACC
* *
91342869 TTCAGATGATTTCACTGAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGGACAAAT
66 TTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
* * * * **
91342934 CGAA-AGCATAGCAGATCTGACCTTCACG-TGTT--TACACTGAAGT
131 CGAAGA-CATAGCAGATTTGACTTTC-GGATGTTCCCACACCAAAGT
* * *
91342977 AGATCCAAGATAACAGATATGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACC
1 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACC
*
91343042 TTCAGATGATTTCACTGAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
66 TTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
* * **
91343107 CGAAGGCGTAGCAGATTTGACTTTCGGATGTTCCCACACCAAAAA
131 CGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAGT
* *
91343152 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACC
1 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACC
* *
91343217 TTTAGATGATTTCACTGAAACAGATCCAAGATGATTTGGCATCCTTGTG-TTACAAGGAACAAAT
66 TTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
*
91343281 CGAAGACATATCAGATTTGACTTTCGGATGTTCCCACACCAAAGT
131 CGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAGT
*
91343326 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGAGCAGACACATAGCAGATCTAACC
1 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACC
* *
91343391 TTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGTTTACAAGGAGCAAAT
66 TTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
91343456 CGAAGACATAGCA-ATTT
131 CGAAGACATAGCAGATTT
91343473 TGGCTTTCAC
Statistics
Matches: 457, Mismatches: 34, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
172 1 0.00
173 149 0.33
174 167 0.37
175 140 0.31
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (175 bp):
AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACC
TTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
CGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAGT
Found at i:91344709 original size:20 final size:19
Alignment explanation
Indices: 91344684--91344745 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 19
91344674 TCCTTTAACA
91344684 ATTTTAATATTTATAATTTT
1 ATTTTAATATTT-TAATTTT
*
91344704 ATTTTATTTATTTTTTAATTTT
1 ATTTTA---ATATTTTAATTTT
* *
91344726 AGTTCTAATGTTTTAATTTT
1 A-TTTTAATATTTTAATTTT
91344746 GTTTCAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
20 18 0.51
22 8 0.23
23 9 0.26
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTTTAATATTTTAATTTT
Found at i:91345184 original size:20 final size:20
Alignment explanation
Indices: 91345170--91345207 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
91345160 ATATTTTATT
91345170 TTTATATTACTTATTATATGG
1 TTTATATTA-TTATTATATGG
91345191 TTTATATTATTA-TATAT
1 TTTATATTATTATTATAT
91345208 TTTGGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTATATTATTATTATATGG
Found at i:91352915 original size:13 final size:13
Alignment explanation
Indices: 91352897--91352922 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91352887 GGGAAGTTAC
91352897 CTCAAAGTCATAA
1 CTCAAAGTCATAA
91352910 CTCAAAGTCATAA
1 CTCAAAGTCATAA
91352923 GTGATAACAC
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:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
CTCAAAGTCATAA
Found at i:91353517 original size:18 final size:17
Alignment explanation
Indices: 91353478--91353510 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
91353468 CATGTGACAG
*
91353478 AAATTTTAAAAATAATA
1 AAATTTTAAAAAAAATA
91353495 AAATTTTAAAAAAAAT
1 AAATTTTAAAAAAAAT
91353511 TATAATTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTTTAAAAAAAATA
Found at i:91354764 original size:9 final size:9
Alignment explanation
Indices: 91354750--91354801 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
91354740 AAGAGACAAA
91354750 TTTATAATT
1 TTTATAATT
*
91354759 TTTATAAAT
1 TTTATAATT
*
91354768 TTGATATATT
1 TTTATA-ATT
*
91354778 TTTAAATATT
1 TTTATA-ATT
*
91354788 TTTAAAATT
1 TTTATAATT
91354797 TTTAT
1 TTTAT
91354802 TTTTTACTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
9 20 0.56
10 16 0.44
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:91354767 original size:17 final size:19
Alignment explanation
Indices: 91354747--91354781 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
91354737 TAAAAGAGAC
91354747 AAATTT-ATA-ATTTTTAT
1 AAATTTGATATATTTTTAT
91354764 AAATTTGATATATTTTTA
1 AAATTTGATATATTTTTA
91354782 AATATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
AAATTTGATATATTTTTAT
Found at i:91357017 original size:21 final size:24
Alignment explanation
Indices: 91356987--91357038 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 24
91356977 AAATTTTCAA
91356987 ATTT-AAAAATAAAAA-AAAAA-C
1 ATTTAAAAAATAAAAATAAAAATC
91357008 -TTTAAAAAATAAAAATAAAAATC
1 ATTTAAAAAATAAAAATAAAAATC
91357031 ATTTAAAA
1 ATTTAAAA
91357039 GTTCATCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.11
21 11 0.41
22 5 0.19
23 1 0.04
24 7 0.26
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (24 bp):
ATTTAAAAAATAAAAATAAAAATC
Found at i:91359508 original size:22 final size:23
Alignment explanation
Indices: 91359483--91359526 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
91359473 ATCGTCCAGA
*
91359483 CAAG-GAAGATCAAACCCAAATT
1 CAAGTGAAGAACAAACCCAAATT
**
91359505 CAAGTTTAGAACAAACCCAAAT
1 CAAGTGAAGAACAAACCCAAAT
91359527 CAGAAAATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.50, C:0.23, G:0.11, T:0.16
Consensus pattern (23 bp):
CAAGTGAAGAACAAACCCAAATT
Found at i:91371440 original size:24 final size:23
Alignment explanation
Indices: 91371391--91371441 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
91371381 TGCAACTTGG
*
91371391 TTTTTTATTTTTATTTTTAATTA
1 TTTTTTATTTTTATTTTTAATGA
**
91371414 TTTTTTATTCTTTATTTTTTGTGA
1 TTTTTTATT-TTTATTTTTAATGA
91371438 TTTT
1 TTTT
91371442 CTTTTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTTTATTTTTATTTTTAATGA
Found at i:91373696 original size:23 final size:24
Alignment explanation
Indices: 91373659--91373732 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 24
91373649 AGCTTCTCCT
* **
91373659 GAGATGATGAATAGTAAGCTCTATT
1 GAGATGA-AAATAGTAAGCTCTAAC
* *
91373684 GAGCTG-AAATAGTAAGGTCTAAC
1 GAGATGAAAATAGTAAGCTCTAAC
* *
91373707 GAGATGAAAACAGTAAGCTCTTAC
1 GAGATGAAAATAGTAAGCTCTAAC
91373731 GA
1 GA
91373733 ACTGATATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
23 18 0.46
24 16 0.41
25 5 0.13
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (24 bp):
GAGATGAAAATAGTAAGCTCTAAC
Found at i:91382862 original size:19 final size:20
Alignment explanation
Indices: 91382821--91382863 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
91382811 ACATGGTATG
*
91382821 CACATGATATGTTATGAGATA
1 CACATGATATGCTAT-AGATA
91382842 CACATGATATGCTAT-GATA
1 CACATGATATGCTATAGATA
91382861 CAC
1 CAC
91382864 TCATTACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
21 14 0.67
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
CACATGATATGCTATAGATA
Found at i:91382966 original size:24 final size:24
Alignment explanation
Indices: 91382934--91382980 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
91382924 CTGTTTACCA
**
91382934 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
91382957 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
91382981 ATGATAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:91389051 original size:19 final size:20
Alignment explanation
Indices: 91389019--91389056 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
91389009 GGATTTTCGT
* *
91389019 AATTTTTGAGAATTTGGTAA
1 AATTTTTGAAAATTCGGTAA
91389039 AATTTTT-AAAATTCGGTA
1 AATTTTTGAAAATTCGGTA
91389057 TTTGGTTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.03, G:0.16, T:0.45
Consensus pattern (20 bp):
AATTTTTGAAAATTCGGTAA
Found at i:91390957 original size:21 final size:22
Alignment explanation
Indices: 91390901--91390958 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
91390891 ATATAGTTAT
91390901 ACATGATATGAC-ATG-GTATGC
1 ACATGATATG-CTATGAGTATGC
*
91390922 ACATGATATGTTATGAG-ATGC
1 ACATGATATGCTATGAGTATGC
91390943 ACATGATATGCTATGA
1 ACATGATATGCTATGA
91390959 TACACTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (22 bp):
ACATGATATGCTATGAGTATGC
Found at i:91394866 original size:28 final size:28
Alignment explanation
Indices: 91394826--91394886 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
91394816 AAAATGTTAG
91394826 TCTCATGAGTACATATAAACAAACTTTA
1 TCTCATGAGTACATATAAACAAACTTTA
*
91394854 TCTCATGAGTACATATAAACAACCTTTA
1 TCTCATGAGTACATATAAACAAACTTTA
91394882 TCTCA
1 TCTCA
91394887 ATTTCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (28 bp):
TCTCATGAGTACATATAAACAAACTTTA
Found at i:91398379 original size:51 final size:51
Alignment explanation
Indices: 91398303--91398400 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
91398293 TTAAACATGC
*
91398303 TTAATTGCCATGGCTTATTACATGGGAGGTCCTTATGTTGTAATTAGACCA
1 TTAATTGCCATGACTTATTACATGGGAGGTCCTTATGTTGTAATTAGACCA
* *
91398354 TTAATTTCCATGACTTATTATATGGGAGGTCCTTATGTTGTAATTAG
1 TTAATTGCCATGACTTATTACATGGGAGGTCCTTATGTTGTAATTAG
91398401 TGGTGATGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (51 bp):
TTAATTGCCATGACTTATTACATGGGAGGTCCTTATGTTGTAATTAGACCA
Found at i:91399457 original size:47 final size:47
Alignment explanation
Indices: 91399399--91399510 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
91399389 CAGTTTTTTA
* * *
91399399 GCTACTGGCCATGATATAGGTATTTTGAGAGGAA-TTACCTTGATTTG
1 GCTACTGGCCATGATATAGCTACTTCGAGA-GAAGTTACCTTGATTTG
* * * * *
91399446 GCTACGGGCCATGGTATAGCTACTTCGGGATAAGTTACCTTGCTTTG
1 GCTACTGGCCATGATATAGCTACTTCGAGAGAAGTTACCTTGATTTG
*
91399493 GTTACTGGCCATGATATA
1 GCTACTGGCCATGATATA
91399511 TGTACTTATC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
46 2 0.04
47 51 0.96
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (47 bp):
GCTACTGGCCATGATATAGCTACTTCGAGAGAAGTTACCTTGATTTG
Found at i:91423861 original size:21 final size:21
Alignment explanation
Indices: 91423837--91423885 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
91423827 CTTGATGATG
91423837 AATCGGCTTCTGAGATGGATC
1 AATCGGCTTCTGAGATGGATC
91423858 AATCGGCTTCTGAGATGGATC
1 AATCGGCTTCTGAGATGGATC
91423879 AATCGGC
1 AATCGGC
91423886 ATCCTTGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (21 bp):
AATCGGCTTCTGAGATGGATC
Found at i:91426725 original size:23 final size:23
Alignment explanation
Indices: 91426699--91426745 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
91426689 TTTGTGAAAA
*
91426699 TTTCGTGAGCTAATTTTATCGTT
1 TTTCATGAGCTAATTTTATCGTT
91426722 TTTCATGAGCTAATTTTATCGTT
1 TTTCATGAGCTAATTTTATCGTT
91426745 T
1 T
91426746 AATGGCTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.13, G:0.15, T:0.53
Consensus pattern (23 bp):
TTTCATGAGCTAATTTTATCGTT
Found at i:91427974 original size:26 final size:26
Alignment explanation
Indices: 91427940--91428010 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 26
91427930 CTCTTTTAAT
*
91427940 AACTGGGGCAAAGCCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTCGATA
* *
91427966 AACTTGGGCAAAGCCC-TTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCGATA
91427991 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
91428011 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 22 0.55
26 18 0.45
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:91436278 original size:27 final size:26
Alignment explanation
Indices: 91436239--91436308 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
91436229 AGTGTGGCAG
*
91436239 CCAGAATCGATATTGTGACAGAGTCA
1 CCAGAATCGATATTGTGACAGAGCCA
* **
91436265 CCAGATTCAGATATTGTGGTAGAGCCA
1 CCAGAATC-GATATTGTGACAGAGCCA
*
91436292 CCAGAATAGATACTTGT
1 CCAGAATCGATA-TTGT
91436309 AGAATAGCCA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 11 0.31
27 25 0.69
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (26 bp):
CCAGAATCGATATTGTGACAGAGCCA
Found at i:91441854 original size:27 final size:27
Alignment explanation
Indices: 91441824--91441877 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
91441814 ATATTTAATT
91441824 ATTA-TAAAATAATTAAATTTTACTTAA
1 ATTATTAAAAT-ATTAAATTTTACTTAA
* * *
91441851 ATTATTAACATGTTTAATTTTACTTAA
1 ATTATTAAAATATTAAATTTTACTTAA
91441878 TTTTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTATTAAAATATTAAATTTTACTTAA
Found at i:91451095 original size:28 final size:27
Alignment explanation
Indices: 91451050--91451102 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
91451040 CTCATTTGAG
*
91451050 TTTATAAATTCTCTTTGAGTTTTCTTTT
1 TTTAAAAATTCTCTTTGA-TTTTCTTTT
91451078 TTTAAAAATT-TCTCTTGATTTTCTT
1 TTTAAAAATTCTCT-TTGATTTTCTT
91451103 GTAGAAGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (27 bp):
TTTAAAAATTCTCTTTGATTTTCTTTT
Found at i:91455604 original size:30 final size:30
Alignment explanation
Indices: 91455568--91455625 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
91455558 TAGCCGAAGA
91455568 TAATTTAAATAGCACACTTAGTGCCAAAGC
1 TAATTTAAATAGCACACTTAGTGCCAAAGC
*
91455598 TAATTTAAATCGCACACTTAGTGCCAAA
1 TAATTTAAATAGCACACTTAGTGCCAAA
91455626 ACTTCCGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (30 bp):
TAATTTAAATAGCACACTTAGTGCCAAAGC
Found at i:91458122 original size:46 final size:46
Alignment explanation
Indices: 91458064--91458231 Score: 171
Period size: 47 Copynumber: 3.6 Consensus size: 46
91458054 ATGGATGTGT
* *
91458064 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGA
* * *
91458110 GCTAGTGTAAGACCATGT-TGGGACATGGCATCGG-CATTAAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CAATATGAGA
* * *
91458157 GCTAGTATAAGACATGTTTGGGACATGCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-ATATG-AGA
* *
91458205 GCTAGTGTAAGACTTGTCTGAGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
91458232 GCATTGGCTT
Statistics
Matches: 100, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
46 33 0.33
47 39 0.39
48 27 0.27
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGA
Found at i:91462147 original size:20 final size:20
Alignment explanation
Indices: 91462122--91462167 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
91462112 ATTGGGCCTT
91462122 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
91462142 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
91462161 GCCCATA
1 GCCCATA
91462168 ATAAAACAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:91462176 original size:19 final size:20
Alignment explanation
Indices: 91462122--91462176 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
91462112 ATTGGGCCTT
*
91462122 GCCCATATTAACACAGTTGG
1 GCCCATATTAAAACAGTTGG
*
91462142 GCCCAT-TTCAATACAGTT-G
1 GCCCATATT-AAAACAGTTGG
*
91462161 GCCCATAATAAAACAG
1 GCCCATATTAAAACAG
91462177 CCTCATATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (20 bp):
GCCCATATTAAAACAGTTGG
Found at i:91481337 original size:27 final size:27
Alignment explanation
Indices: 91481304--91481391 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
91481294 CAAAACAGTC
91481304 ATTTTACCCTACAGGGGTATTTCGATA
1 ATTTTACCCTACAGGGGTATTTCGATA
* * *
91481331 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACCCTACAGGGGTATTTCGATA
** * *
91481358 ATTTTA-CAAATTAGGGGTATTTTGATA
1 ATTTTACCCTA-CAGGGGTATTTCGATA
91481385 ATTTTAC
1 ATTTTAC
91481392 AAACTGAGGT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.02
27 48 0.98
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTACAGGGGTATTTCGATA
Found at i:91481374 original size:54 final size:53
Alignment explanation
Indices: 91481316--91481720 Score: 345
Period size: 54 Copynumber: 7.5 Consensus size: 53
91481306 TTTACCCTAC
* *
91481316 AGGGGTATTTCGATAATTTTACACTACAAGGGTATTTCGGTAATTTTACAAATT
1 AGGGGTATTTCGATAATTTTACA-AACAAGGGTATTTCAGTAATTTTACAAATT
* * * * *
91481370 AGGGGTATTTTGATAATTTTACAAAC-TGAGGTATTTTAGTAAATTTATAAATT
1 AGGGGTATTTCGATAATTTTACAAACAAG-GGTATTTCAGTAATTTTACAAATT
* * * *
91481423 GGGGGTATTTCGGTAATTTTACACTACAAGGGTATTTCAGTAATTTTACAAACT
1 AGGGGTATTTCGATAATTTTACA-AACAAGGGTATTTCAGTAATTTTACAAATT
* * ** * *
91481477 -GGGTGTATTTTGGTAATTTTACAAATCGGGGGTATTTTAGTAATTTTACAAATC
1 AGGG-GTATTTCGATAATTTTACAAA-CAAGGGTATTTCAGTAATTTTACAAATT
* * * * **
91481531 GGGGGTATTTCAATAATTTTAAAAATTAAGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTCGATAATTTTACAAA-CAAGGGTATTTCAGTAATTTTACAAATT
* * * * *
91481585 -GGGGTATTTTGGTAATTTTACAAAC-TGGAGTATTTCAGTAATTTTACACTATA
1 AGGGGTATTTCGATAATTTTACAAACAAGG-GTATTTCAGTAATTTTACA-AATT
* * *
91481638 AGGGTAAGGTATTTCGATACTTTTACAAATCAGGGGTATTTC-GATAATTTTACAAACT
1 A-GG---GGTATTTCGATAATTTTACAAA-CAAGGGTATTTCAG-TAATTTTACAAATT
*
91481696 GGGGGTATTTCTG-TAATTTTACAAA
1 AGGGGTATTTC-GATAATTTTACAAA
91481721 TGAAGGTCTT
Statistics
Matches: 283, Mismatches: 51, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
51 2 0.01
52 18 0.06
53 68 0.24
54 145 0.51
55 7 0.02
57 2 0.01
58 21 0.07
59 18 0.06
60 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
AGGGGTATTTCGATAATTTTACAAACAAGGGTATTTCAGTAATTTTACAAATT
Found at i:91481392 original size:27 final size:27
Alignment explanation
Indices: 91481316--91481721 Score: 258
Period size: 27 Copynumber: 15.0 Consensus size: 27
91481306 TTTACCCTAC
* * *
91481316 AGGGGTATTTCGATAATTTTAC-ACTAC
1 AGGGGTATTTTGATAATTTTACAAAT-T
* * *
91481343 AAGGGTATTTCGGTAATTTTACAAATT
1 AGGGGTATTTTGATAATTTTACAAATT
*
91481370 AGGGGTATTTTGATAATTTTACAAACT
1 AGGGGTATTTTGATAATTTTACAAATT
* * *
91481397 -GAGGTATTTT-AGTAAATTTATAAATT
1 AGGGGTATTTTGA-TAATTTTACAAATT
* * * * *
91481423 GGGGGTATTTCGGTAATTTTAC-ACTAC
1 AGGGGTATTTTGATAATTTTACAAAT-T
* * *
91481450 AAGGGTA-TTTCAGTAATTTTACAAACT
1 AGGGGTATTTTGA-TAATTTTACAAATT
* *
91481477 -GGGTGTATTTTGGTAATTTTACAAATC
1 AGGG-GTATTTTGATAATTTTACAAATT
* *
91481504 GGGGGTATTTT-AGTAATTTTACAAATC
1 AGGGGTATTTTGA-TAATTTTACAAATT
* ** *
91481531 GGGGGTATTTCAATAATTTTAAAAATT
1 AGGGGTATTTTGATAATTTTACAAATT
* *
91481558 AAGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTTGATAATTTTACAAATT
* *
91481585 -GGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGATAATTTTACAAATT
* * * *
91481611 -GGAGTA-TTTCAGTAATTTTACACTATA
1 AGGGGTATTTTGA-TAATTTTACA-AATT
* * *
91481638 AGGGTAAGGTATTTCGATACTTTTACAAATC
1 A-GG---GGTATTTTGATAATTTTACAAATT
* *
91481669 AGGGGTATTTCGATAATTTTACAAACT
1 AGGGGTATTTTGATAATTTTACAAATT
*
91481696 GGGGGTATTTCTG-TAATTTTACAAAT
1 AGGGGTATTT-TGATAATTTTACAAAT
91481722 GAAGGTCTTA
Statistics
Matches: 296, Mismatches: 62, Indels: 42
0.74 0.16 0.10
Matches are distributed among these distances:
25 4 0.01
26 65 0.22
27 194 0.66
28 11 0.04
29 2 0.01
30 2 0.01
31 3 0.01
32 12 0.04
33 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGATAATTTTACAAATT
Found at i:91481466 original size:107 final size:106
Alignment explanation
Indices: 91481317--91481720 Score: 467
Period size: 107 Copynumber: 3.7 Consensus size: 106
91481307 TTACCCTACA
* *
91481317 GGGGTATTTCGATAATTTTACACTA-CAAGGGTATTTCGGTAATTTTACAAATTAGGGGTATTTT
1 GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACT-GGGGTATTTT
* * * *
91481381 GATAATTTTACAAACTGAGGTATTTTAGTAAATTTATAAATTG
65 GGTAATTTTACAAACTG-GGTATTTTAGTAATTTTACAAATAG
* * *
91481424 GGGGTATTTCGGTAATTTTACACTA-CAAGGGTATTTCAGTAATTTTACAAACTGGGTGTATTTT
1 GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACTGGG-GTATTTT
* *
91481488 GGTAATTTTACAAATCGGGGGTATTTTAGTAATTTTACAAATCG
65 GGTAATTTTACAAA-C-TGGGTATTTTAGTAATTTTACAAATAG
* * * * *
91481532 GGGGTATTTCAATAATTTTA-AAAATTAAGGGTATTTTGGTAATTTTACAAATTGGGGTATTTTG
1 GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACTGGGGTATTTTG
* *
91481596 GTAATTTTACAAACTGGAGTATTTCAGTAATTTTACACTATAAG
66 GTAATTTTACAAACTGG-GTATTTTAGTAATTTTACA-AAT-AG
* * *
91481640 GGTAAGGTATTTCGATACTTTTACA-AATCAGGGGTATTTCGATAATTTTACAAACTGGGGGTAT
1 GG---GGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACT-GGGGTAT
91481704 TTCT-GTAATTTTACAAA
62 TT-TGGTAATTTTACAAA
91481721 TGAAGGTCTT
Statistics
Matches: 257, Mismatches: 27, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
105 2 0.01
106 22 0.09
107 95 0.37
108 71 0.28
109 1 0.00
111 42 0.16
112 23 0.09
113 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (106 bp):
GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACTGGGGTATTTTG
GTAATTTTACAAACTGGGTATTTTAGTAATTTTACAAATAG
Found at i:91489361 original size:26 final size:26
Alignment explanation
Indices: 91489323--91489403 Score: 91
Period size: 24 Copynumber: 3.3 Consensus size: 26
91489313 CACTCTTTCA
* *
91489323 AGCT-ATGATCAGTAAGCTCCT-CCTG
1 AGCTGATGAACAGTAAGCTCCTGAC-G
91489348 AGCTGATGAACAGTAAGCT-CTGACG
1 AGCTGATGAACAGTAAGCTCCTGACG
*
91489373 AGCTGA-GAACAGTAAGCT-CTTACG
1 AGCTGATGAACAGTAAGCTCCTGACG
91489397 AGCTGAT
1 AGCTGAT
91489404 ATATTCGTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
24 23 0.46
25 13 0.26
26 14 0.28
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (26 bp):
AGCTGATGAACAGTAAGCTCCTGACG
Found at i:91489387 original size:24 final size:25
Alignment explanation
Indices: 91489347--91489403 Score: 98
Period size: 24 Copynumber: 2.3 Consensus size: 25
91489337 AGCTCCTCCT
91489347 GAGCTGATGAACAGTAAGCTCTGAC
1 GAGCTGATGAACAGTAAGCTCTGAC
*
91489372 GAGCTGA-GAACAGTAAGCTCTTAC
1 GAGCTGATGAACAGTAAGCTCTGAC
91489396 GAGCTGAT
1 GAGCTGAT
91489404 ATATTCGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (25 bp):
GAGCTGATGAACAGTAAGCTCTGAC
Found at i:91494681 original size:15 final size:15
Alignment explanation
Indices: 91494661--91494690 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
91494651 ACACTAAAAT
91494661 TTCGATAAATGAATA
1 TTCGATAAATGAATA
*
91494676 TTCGATAAATTAATA
1 TTCGATAAATGAATA
91494691 ATCTTAGTTA
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:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (15 bp):
TTCGATAAATGAATA
Found at i:91496698 original size:26 final size:27
Alignment explanation
Indices: 91496664--91496720 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
91496654 AAATATTCTC
*
91496664 TAAAATAAT-AAATGTTAATTTATCGA
1 TAAAATAATAAAATATTAATTTATCGA
* *
91496690 TAAATTAATAAAATATTCATTTATCGA
1 TAAAATAATAAAATATTAATTTATCGA
91496717 TAAA
1 TAAA
91496721 CAAATAACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (27 bp):
TAAAATAATAAAATATTAATTTATCGA
Found at i:91498174 original size:24 final size:24
Alignment explanation
Indices: 91498147--91498193 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
91498137 TTGATAAATT
91498147 TTAAATTAAAAAAAT-ATTTATTTG
1 TTAAA-TAAAAAAATCATTTATTTG
91498171 TTAAATAAAAAAATCATTTATTT
1 TTAAATAAAAAAATCATTTATTT
91498194 TTGGTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAAATAAAAAAATCATTTATTTG
Found at i:91501180 original size:16 final size:16
Alignment explanation
Indices: 91501155--91501192 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
91501145 ATCCTTTCAA
*
91501155 AATAGATATTTACACC
1 AATAGTTATTTACACC
91501171 AATAGTTATTTACACC
1 AATAGTTATTTACACC
91501187 AATAGT
1 AATAGT
91501193 GATTCATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (16 bp):
AATAGTTATTTACACC
Found at i:91515187 original size:40 final size:40
Alignment explanation
Indices: 91515127--91515250 Score: 203
Period size: 40 Copynumber: 3.1 Consensus size: 40
91515117 TCTAGCCCAA
* * * *
91515127 ATAATATTCCAGCACAAAGCCTGCGGGTCTTTAAGCCTGG
1 ATAACATTCCAGCACGAAGCCTGCGGGTTTTTAAGCCCGG
91515167 ATAACATTCCAGCACGAAGCCTGCGGGTTTTTAAGCCCGG
1 ATAACATTCCAGCACGAAGCCTGCGGGTTTTTAAGCCCGG
*
91515207 ATAACATTCCAGTACGAAGCCTGCGGGTTTTTAAGCCCGG
1 ATAACATTCCAGCACGAAGCCTGCGGGTTTTTAAGCCCGG
91515247 ATAA
1 ATAA
91515251 TACCTCAAGT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (40 bp):
ATAACATTCCAGCACGAAGCCTGCGGGTTTTTAAGCCCGG
Found at i:91518090 original size:40 final size:40
Alignment explanation
Indices: 91518026--91518262 Score: 332
Period size: 40 Copynumber: 5.9 Consensus size: 40
91518016 GCATGAGCAT
* * * *
91518026 TTGATATATCCAGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
*
91518066 -TGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 TTGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
91518106 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
*
91518146 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
* * *
91518186 ATGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
* * * * *
91518226 TTGCTATACCCGGGTTAAGACCAGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
91518263 TTGTGGTTAT
Statistics
Matches: 179, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 3 0.02
40 173 0.97
41 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
Found at i:91526430 original size:8 final size:9
Alignment explanation
Indices: 91526404--91526508 Score: 51
Period size: 8 Copynumber: 11.7 Consensus size: 9
91526394 AAAATAATGT
91526404 ATAATATAA
1 ATAATATAA
91526413 ATAA-ATAA
1 ATAATATAA
91526421 ATAATA-AA
1 ATAATATAA
91526429 ATATATATAA
1 ATA-ATATAA
* *
91526439 GTTAAAATATA
1 -ATAATATA-A
91526450 AT-ATATGATA
1 ATAATAT-A-A
*
91526460 ATAATTTACA
1 ATAATATA-A
* * *
91526470 A-ATTTTGA
1 ATAATATAA
91526478 A-AATATAA
1 ATAATATAA
91526486 ATAATAT-A
1 ATAATATAA
*
91526494 ATAATATAT
1 ATAATATAA
91526503 ATAATA
1 ATAATA
91526509 AATTAAAAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 18
0.71 0.11 0.17
Matches are distributed among these distances:
8 28 0.37
9 26 0.35
10 15 0.20
11 6 0.08
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (9 bp):
ATAATATAA
Found at i:91526501 original size:17 final size:17
Alignment explanation
Indices: 91526395--91526508 Score: 58
Period size: 17 Copynumber: 6.5 Consensus size: 17
91526385 TAAGTTTTTA
*
91526395 AAATAATGT-ATAATAT
1 AAATAATATAATAATAT
91526411 AAATAA-ATAAATAATA-
1 AAATAATAT-AATAATAT
*
91526427 AAATATATATAAGTTAAAAT
1 AAATA-ATATAA--TAATAT
*
91526447 ATAATATATGATAATAATTT
1 A-AATA-AT-ATAATAATAT
* *
91526467 ACAA-ATTTTGAA-AATAT
1 A-AATAATAT-AATAATAT
91526484 AAATAATATAATAATAT
1 AAATAATATAATAATAT
*
91526501 ATATAATA
1 AAATAATA
91526509 AATTAAAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
15 1 0.01
16 15 0.20
17 30 0.40
18 5 0.07
19 5 0.07
20 8 0.11
21 7 0.09
22 4 0.05
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.36
Consensus pattern (17 bp):
AAATAATATAATAATAT
Found at i:91526520 original size:26 final size:26
Alignment explanation
Indices: 91526396--91526520 Score: 63
Period size: 26 Copynumber: 5.1 Consensus size: 26
91526386 AAGTTTTTAA
* *
91526396 AATAATGTATA-ATATAAATAAATAAAT
1 AATAATATATATA-ATAAATTAA-AAAT
* *
91526423 AATAAAATATAT-ATAAGTT-AAAAT
1 AATAATATATATAATAAATTAAAAAT
* *
91526447 -ATAATATATGATAATAATTTACAAAT
1 AATAATATAT-ATAATAAATTAAAAAT
** * *
91526473 TTTGA-A-A-AT-ATAAA-T-AATAT
1 AATAATATATATAATAAATTAAAAAT
91526493 AATAATATATATAATAAATTAAAAAT
1 AATAATATATATAATAAATTAAAAAT
91526519 AA
1 AA
91526521 GTTTAAAAGT
Statistics
Matches: 71, Mismatches: 16, Indels: 23
0.65 0.15 0.21
Matches are distributed among these distances:
20 5 0.07
21 2 0.03
22 5 0.07
23 12 0.17
24 11 0.15
25 9 0.13
26 16 0.23
27 11 0.15
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (26 bp):
AATAATATATATAATAAATTAAAAAT
Found at i:91527513 original size:26 final size:26
Alignment explanation
Indices: 91527484--91527591 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
91527474 TGGTACAAAT
91527484 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
91527510 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91527536 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91527562 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91527588 TGAT
1 TGAT
91527592 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91529596 original size:137 final size:137
Alignment explanation
Indices: 91529350--91529636 Score: 502
Period size: 137 Copynumber: 2.1 Consensus size: 137
91529340 GAGTAGTCTC
* *
91529350 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATTAGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGAGCCTATGGGCCATAC
*
91529415 TGTTATCTGAATAATGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
91529480 ACTGTTA
131 ACTGTTA
*
91529487 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGAGCCTATGGGCCATAC
* *
91529552 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
91529617 ACTGTTA
131 ACTGTTA
**
91529624 CCTGAATGGGCTT
1 CCCAAATGGGCTT
91529637 AGGCCCAATG
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGAGCCTATGGGCCATAC
TGTTATCTGAATAAGGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:91530872 original size:12 final size:12
Alignment explanation
Indices: 91530855--91530884 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
91530845 ACTCGGGGAA
91530855 GAGGCCGTGGTC
1 GAGGCCGTGGTC
91530867 GAGGCCGTGGTC
1 GAGGCCGTGGTC
91530879 GAGGCC
1 GAGGCC
91530885 AAGGTAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.27, G:0.50, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:91535695 original size:26 final size:26
Alignment explanation
Indices: 91535666--91535773 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
91535656 TGGTACAAAT
91535666 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
91535692 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91535718 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91535744 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91535770 TGAT
1 TGAT
91535774 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91537254 original size:26 final size:26
Alignment explanation
Indices: 91537225--91537277 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
91537215 TTTACAGTTT
91537225 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
91537251 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
91537277 T
1 T
91537278 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:91537774 original size:137 final size:137
Alignment explanation
Indices: 91537528--91537811 Score: 473
Period size: 137 Copynumber: 2.1 Consensus size: 137
91537518 TAGTCTCCCT
* *
91537528 AAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATACTGT
91537593 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCACT
91537658 GTTACCC
131 GTTACCC
91537665 AAATGGGCTTGCATATGTCTT-CTGATGTTGCATGTATTTTGAAATGGGCCTATGGGT-CATACT
1 AAATGGGCTTGCATATGT-TTACTGATGTTGCATGTATTTTGAAATGGGCCTAT-GGTCCATACT
* * *
91537728 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
64 GTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA
*
91537793 CTGTTACCT
129 CTGTTACCC
*
91537802 GAATGGGCTT
1 AAATGGGCTT
91537812 AGGCCCAATG
Statistics
Matches: 138, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
137 133 0.96
138 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (137 bp):
AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATACTGT
TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCACT
GTTACCC
Found at i:91541341 original size:18 final size:18
Alignment explanation
Indices: 91541318--91541352 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91541308 AAAAGATTTT
91541318 TATATAATATTCTTAAAA
1 TATATAATATTCTTAAAA
* *
91541336 TATATAGTATTTTTAAA
1 TATATAATATTCTTAAA
91541353 TTATTCTGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TATATAATATTCTTAAAA
Found at i:91542371 original size:20 final size:19
Alignment explanation
Indices: 91542343--91542394 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
91542333 AAAAAACATA
*
91542343 TTTTCATAATTTCTGGAATT
1 TTTTTATAATTT-TGGAATT
* *
91542363 TTTTTATAATGATTGTAATT
1 TTTTTATAAT-TTTGGAATT
91542383 TTTTT-TAATTTT
1 TTTTTATAATTTT
91542395 ATTGTGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 4 0.15
20 20 0.74
21 1 0.04
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.63
Consensus pattern (19 bp):
TTTTTATAATTTTGGAATT
Found at i:91542614 original size:18 final size:16
Alignment explanation
Indices: 91542593--91542631 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
91542583 TCCAGAAAAG
91542593 TTTTTAAATTTTCTTTA
1 TTTTTAAATTTT-TTTA
91542610 TTTTTAAATTTTTTTA
1 TTTTTAAATTTTTTTA
91542626 TATTTT
1 T-TTTT
91542632 CCTTTTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTAAATTTTTTTA
Found at i:91552389 original size:18 final size:18
Alignment explanation
Indices: 91552362--91552398 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
91552352 CATTCAAATG
*
91552362 GCAAATAATCTCAACATT
1 GCAAACAATCTCAACATT
91552380 GCAAACAATCTCAACATT
1 GCAAACAATCTCAACATT
91552398 G
1 G
91552399 TATTTTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (18 bp):
GCAAACAATCTCAACATT
Found at i:91553767 original size:39 final size:39
Alignment explanation
Indices: 91553692--91553767 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
91553682 ATACCATGTG
* * *
91553692 GGGATAAAATCGACCCACCCAGCCCTACATCTCAAGTTA
1 GGGATAAAATCAACCCACCCAACCCTACATCCCAAGTTA
*
91553731 GGGATAAAATCAACCCATCCAACCCTACA-CACCAAGT
1 GGGATAAAATCAACCCACCCAACCCTACATC-CCAAGT
91553768 GGTACCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.37, C:0.34, G:0.13, T:0.16
Consensus pattern (39 bp):
GGGATAAAATCAACCCACCCAACCCTACATCCCAAGTTA
Found at i:91556308 original size:20 final size:22
Alignment explanation
Indices: 91556283--91556330 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
91556273 ACCAGAACAT
91556283 CTTTTTCAAT-ATTTTTG-AAA
1 CTTTTTCAATAATTTTTGTAAA
*
91556303 CTTTTT-TATAATTTTTGTAAA
1 CTTTTTCAATAATTTTTGTAAA
*
91556324 TTTTTTC
1 CTTTTTC
91556331 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 13 0.57
21 8 0.35
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (22 bp):
CTTTTTCAATAATTTTTGTAAA
Found at i:91556384 original size:14 final size:13
Alignment explanation
Indices: 91556359--91556383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91556349 TTTTTAATTT
91556359 TATTTTTAAAAAC
1 TATTTTTAAAAAC
91556372 TATTTTTAAAAA
1 TATTTTTAAAAA
91556384 AAATAAAAAA
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTTTTAAAAAC
Found at i:91556649 original size:13 final size:13
Alignment explanation
Indices: 91556617--91556648 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
91556607 TTTTTTACCA
91556617 TTTTTTTGAGTTT
1 TTTTTTTGAGTTT
91556630 TTTTTTTG-GTTT
1 TTTTTTTGAGTTT
91556642 TTTTTTT
1 TTTTTTT
91556649 TTGCATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.84
Consensus pattern (13 bp):
TTTTTTTGAGTTT
Found at i:91559811 original size:37 final size:37
Alignment explanation
Indices: 91559761--91559832 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
91559751 AAGGAGATTA
91559761 GATCATGCTACATTGAAGGGTAATCCTCATTTATTTG
1 GATCATGCTACATTGAAGGGTAATCCTCATTTATTTG
* *
91559798 GATCATGCTACATTGAAGGGTGATCTTCATTTATT
1 GATCATGCTACATTGAAGGGTAATCCTCATTTATT
91559833 CTCTAAGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (37 bp):
GATCATGCTACATTGAAGGGTAATCCTCATTTATTTG
Found at i:91573749 original size:17 final size:17
Alignment explanation
Indices: 91573727--91573778 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
91573717 TTTTTATCAT
91573727 TTATCATTTATCGGGCA
1 TTATCATTTATCGGGCA
**
91573744 TTATCATTTATTTCAAGCA
1 TTATCATTTA--TCGGGCA
*
91573763 TTATCATTTATTGGGC
1 TTATCATTTATCGGGC
91573779 TTTGTCGGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 13 0.46
19 15 0.54
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:91574107 original size:16 final size:13
Alignment explanation
Indices: 91574073--91574100 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
91574063 GATCTTTTTA
91574073 TTATTTATCATCT
1 TTATTTATCATCT
91574086 TTATTTATCATCT
1 TTATTTATCATCT
91574099 TT
1 TT
91574101 CCAATTTTGT
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:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:91574635 original size:19 final size:20
Alignment explanation
Indices: 91574606--91574643 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
91574596 ATCTAAAACC
91574606 AAAAAAGTTGTTGAAGAAGG
1 AAAAAAGTTGTTGAAGAAGG
91574626 AAAAAA-TTGTTGAAGAAG
1 AAAAAAGTTGTTGAAGAAG
91574644 ACTTTAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (20 bp):
AAAAAAGTTGTTGAAGAAGG
Found at i:91579540 original size:21 final size:21
Alignment explanation
Indices: 91579510--91579567 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 21
91579500 CAACCCACAA
*
91579510 CTCGTATGAGCATATTTACAG
1 CTCGTGTGAGCATATTTACAG
91579531 CTCGTGTGAGCATTATATTTACAG
1 CTCGTGTGAGC---ATATTTACAG
*
91579555 CTCATGTGAGCAT
1 CTCGTGTGAGCAT
91579568 TTCTATTTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 12 0.38
24 20 0.62
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (21 bp):
CTCGTGTGAGCATATTTACAG
Found at i:91579553 original size:24 final size:24
Alignment explanation
Indices: 91579521--91579568 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
91579511 TCGTATGAGC
*
91579521 ATATTTACAGCTCGTGTGAGCATT
1 ATATTTACAGCTCATGTGAGCATT
91579545 ATATTTACAGCTCATGTGAGCATT
1 ATATTTACAGCTCATGTGAGCATT
91579569 TCTATTTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (24 bp):
ATATTTACAGCTCATGTGAGCATT
Found at i:91584244 original size:21 final size:20
Alignment explanation
Indices: 91584219--91584258 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
91584209 TGTAGGGCTC
*
91584219 ACACGCCTGTGTGGTCTAGGG
1 ACACGCCTATGTGGT-TAGGG
91584240 ACACGCCTATGTGGTTAGG
1 ACACGCCTATGTGGTTAGG
91584259 CCGTGTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.23, G:0.35, T:0.25
Consensus pattern (20 bp):
ACACGCCTATGTGGTTAGGG
Found at i:91596783 original size:43 final size:42
Alignment explanation
Indices: 91596728--91596895 Score: 160
Period size: 43 Copynumber: 4.0 Consensus size: 42
91596718 ATATCGTACA
* * * *
91596728 ATGCCAACGTCCCAGATGTGGTCTTACATGCCATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* * * *
91596771 ATGCCATTGTCCCAGATAG-GGCCTTACACGAATCAAATA-CG
1 ATGCCAATGTCCCAGA-CGTGGTCTTACACGAATCACATATCG
* *
91596812 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
** * *
91596855 ATGCCAACATCCCAGACGTGGTCTTAAACGAGAACACATAT
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA-ATCACATAT
91596896 TAGAAATCCT
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
41 27 0.27
42 15 0.15
43 58 0.57
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:91597719 original size:4 final size:4
Alignment explanation
Indices: 91597710--91597734 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
91597700 TAAGCTTTAT
91597710 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
91597735 CAAGTTTCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:91598516 original size:5 final size:5
Alignment explanation
Indices: 91598506--91598558 Score: 52
Period size: 5 Copynumber: 10.6 Consensus size: 5
91598496 GTTCACAACA
* ** ** *
91598506 ATTAT ATTAT ATTAT GTTAT ATTGC ATTGC ATTAT ATTAT ATTAT ATCAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
91598556 ATT
1 ATT
91598559 GTTTTTTGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:91598559 original size:25 final size:25
Alignment explanation
Indices: 91598511--91598559 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
91598501 CAACAATTAT
* **
91598511 ATTATATTATGTTATATTGCATTGC
1 ATTATATTATATTATATCACATTGC
*
91598536 ATTATATTATATTATATCATATTG
1 ATTATATTATATTATATCACATTG
91598560 TTTTTTGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (25 bp):
ATTATATTATATTATATCACATTGC
Found at i:91602818 original size:43 final size:41
Alignment explanation
Indices: 91602744--91602855 Score: 109
Period size: 43 Copynumber: 2.7 Consensus size: 41
91602734 AGGATTTCCA
* ** *
91602744 ATATGTGTTCTCGTGTAAGACCA-CACTTGGGACGTTGGCATC
1 ATATGTGAT-TCGTGTAAGACCATGTC-TGGGACATTGGCATC
*
91602786 AATATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATC
1 -ATATGTGATT-CGTGTAAGACCATGTCTGGGACATTGGCATC
* * *
91602829 GTATTTGATTCGTGTAAGACCTTGTCT
1 ATATGTGATTCGTGTAAGACCATGTCT
91602856 AGAACAGTGG
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 15 0.26
42 9 0.16
43 33 0.57
44 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
ATATGTGATTCGTGTAAGACCATGTCTGGGACATTGGCATC
Found at i:91602855 original size:41 final size:43
Alignment explanation
Indices: 91602771--91602855 Score: 111
Period size: 41 Copynumber: 2.0 Consensus size: 43
91602761 AGACCACACT
* *
91602771 TGGGACGTTGGCATCAATATGTGATTATGTGTAAGACCATGTC
1 TGGGACATTGGCATCAATATGTGATTACGTGTAAGACCATGTC
* * *
91602814 TGGGACATTGGCATC-GTATTTGATT-CGTGTAAGACCTTGTC
1 TGGGACATTGGCATCAATATGTGATTACGTGTAAGACCATGTC
91602855 T
1 T
91602856 AGAACAGTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 15 0.41
42 8 0.22
43 14 0.38
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.35
Consensus pattern (43 bp):
TGGGACATTGGCATCAATATGTGATTACGTGTAAGACCATGTC
Found at i:91602998 original size:19 final size:19
Alignment explanation
Indices: 91602974--91603014 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
91602964 TGGGCAATGA
91602974 TAAGTTGTGATCGAATGTG
1 TAAGTTGTGATCGAATGTG
91602993 TAAGTTGTGATCGAATGTG
1 TAAGTTGTGATCGAATGTG
91603012 TAA
1 TAA
91603015 ATCGAGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.37
Consensus pattern (19 bp):
TAAGTTGTGATCGAATGTG
Found at i:91605538 original size:22 final size:20
Alignment explanation
Indices: 91605501--91605540 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
91605491 AACTTGATCA
91605501 TTTTAATAAAATATTTTGAT
1 TTTTAATAAAATATTTTGAT
*
91605521 TTTTTATAACAATGATTTTG
1 TTTTAATAA-AAT-ATTTTG
91605541 GTCTACGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTTAATAAAATATTTTGAT
Found at i:91606051 original size:130 final size:129
Alignment explanation
Indices: 91605830--91606066 Score: 293
Period size: 130 Copynumber: 1.8 Consensus size: 129
91605820 ATAAGCTTGT
* * *
91605830 CTTTATTTTTATTTGAAATCTCATGCGTTTTAATTTAGAAGGATATTCAGTTATTTAGATCCAAC
1 CTTTATTTTTATTTAAAATCTCATGCATTTTAATTTAGAAGGATATTCAGCTATTTAGATCCAAC
91605895 GAGAAAAATCAAACCCCCATAAGTTAGGGCACAACTTTCTCGAGTTTCTAAACACAGAATATCTC
66 GAGAAAAATCAAACCCCCATAAGTTAGGGCACAA-TTTCTCGAGTTTCTAAACACAGAATATCTC
* ** * **
91605960 CTTTATTTTTATTTAAAAT-TCATGTATTTTGAAATTT-GAAGGGATATTTGGCTATTTAGGTTT
1 CTTTATTTTTATTTAAAATCTCATGCATTTT--AATTTAGAA-GGATATTCAGCTATTTAGATCC
* * *
91606023 AATGAG-AAAATCGAAA-CCCCGTAAGTTAGGGTACAATTTCTCGA
63 AACGAGAAAAATC-AAACCCCCATAAGTTAGGGCACAATTTCTCGA
91606067 ATCTCCAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
129 17 0.19
130 45 0.49
131 29 0.32
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (129 bp):
CTTTATTTTTATTTAAAATCTCATGCATTTTAATTTAGAAGGATATTCAGCTATTTAGATCCAAC
GAGAAAAATCAAACCCCCATAAGTTAGGGCACAATTTCTCGAGTTTCTAAACACAGAATATCTC
Found at i:91606325 original size:3 final size:3
Alignment explanation
Indices: 91606313--91606356 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
91606303 TAACAATAAT
* *
91606313 AAC AAT AAC AAC AAC AAC AAC GAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
91606357 TAATAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.66, C:0.30, G:0.02, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:91608115 original size:44 final size:44
Alignment explanation
Indices: 91608050--91608221 Score: 229
Period size: 44 Copynumber: 3.9 Consensus size: 44
91608040 AGGAATTGTT
* * * *
91608050 GCTTCAATCTACTCTACTGCAACTTCATGGAGATAAGA-TCTGTA
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTC-GTG
*
91608094 GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTCGTG
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGTG
* ** *
91608138 GCTTTAATTTGTTCCACTGCAACTTCAGGGAGATAAGGTTCGTG
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGTG
* *
91608182 GCTTTAATATATTCCACTGCAACTTCAGGGAGATAAGATT
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
91608222 TGCCATGATA
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
44 112 0.98
45 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGTG
Done.