Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 15 of 207
Found at i:4815018 original size:43 final size:43
Alignment explanation
Indices: 4814971--4815107 Score: 102
Period size: 44 Copynumber: 3.2 Consensus size: 43
4814961 AAAACAAAGC
4814971 CTTGCCTCCATCGGTTGCAGTGAAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTCCATCGGTTGCAGTGAAGCTGGTTAAAGAAGCAGAT
* * * * * * * *
4815014 CTTGCCTTCC-T-GCATTAACAGCGAAGCAGATTGAA-AA-CAAAGC
1 CTTGCC-TCCATCG-GTT-GCAGTGAAGCTGGTTAAAGAAGCAGA-T
* *
4815057 CTTGCTTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGAT
1 CTTGCCTCCATCGGTTGCAGTGAAGCTGGTTAAAGA-AGCAGAT
*
4815101 ATTGCCT
1 CTTGCCT
4815108 TCCTAAGTAC
Statistics
Matches: 65, Mismatches: 20, Indels: 17
0.64 0.20 0.17
Matches are distributed among these distances:
42 19 0.29
43 20 0.31
44 23 0.35
45 3 0.05
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (43 bp):
CTTGCCTCCATCGGTTGCAGTGAAGCTGGTTAAAGAAGCAGAT
Found at i:4815067 original size:86 final size:86
Alignment explanation
Indices: 4814921--4815650 Score: 1092
Period size: 86 Copynumber: 8.5 Consensus size: 86
4814911 AACAAAAAAA
* * * *
4814921 AGCAGATATTGCCTTCCTACATTAAC-AACGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGG
1 AGCAGATCTTGCCTTCCTA-AGT-ACTAGCGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGG
*
4814985 TTGCAGTGAAGCTGGTTAAAGA-
64 TTGCAGTGGAGCTGGTTAAAGAT
* * * * *
4815007 AGCAGATCTTGCCTTCCTGCATTAAC-AGCGAAGCAGATTGAAAACAAAGCCTTGCTTCCATCGG
1 AGCAGATCTTGCCTTCCT-AAGT-ACTAGCGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGG
4815071 TTGCAGTGGAGCTGGTTAAAGAT
64 TTGCAGTGGAGCTGGTTAAAGAT
* ** * *
4815094 AGCAGATATTGCCTTCCTAAGTACTAGCGGAGCAGATAAAAAACAAAGCCCTGCCTCCATCTGTT
1 AGCAGATCTTGCCTTCCTAAGTACTAGCGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
4815159 GCAGTGGAGCTGGTTAAAGAT
66 GCAGTGGAGCTGGTTAAAGAT
*
4815180 AGCAGATCTTGCCTTCCTAAGTACTAGCGGAGTAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
1 AGCAGATCTTGCCTTCCTAAGTACTAGCGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
4815245 GCAGTGGAGCTGGTTAAAGAT
66 GCAGTGGAGCTGGTTAAAGAT
* * * * *
4815266 AACAGATCTTGCCTTCCTAAGTACTAGTGGAGCAGAT-AAAAAAAAAGCCTTGCCTCCATCTGTT
1 AGCAGATCTTGCCTTCCTAAGTACTAGCGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
4815330 GCAGTGGAGCTGGTTAAAGAT
66 GCAGTGGAGCTGGTTAAAGAT
*
4815351 AGCAGATCTTGCCTTCCTAAGTACTAGCGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCTGTT
1 AGCAGATCTTGCCTTCCTAAGTACTAGCGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
4815416 GCAGTGGAGCTGGTTAAAGAT
66 GCAGTGGAGCTGGTTAAAGAT
* *
4815437 AGCAGATCTTGCCTTCCTAAGTACTAACGGAGCAGATCGAAAACAAAGCCTTACCTCCATCGGTT
1 AGCAGATCTTGCCTTCCTAAGTACTAGCGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
*
4815502 GTAGTGGAGCTGGTTAAAGAT
66 GCAGTGGAGCTGGTTAAAGAT
** * *
4815523 AGCAGATCTTGCCTTCCTGCGTTAAC-AGCGAAGCAGATCGAAAACAAAGCCTTACCTCCATCGG
1 AGCAGATCTTGCCTTCCTAAG-T-ACTAGCGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGG
4815587 TTGCAGTGGAGCTGGTTAAAGAT
64 TTGCAGTGGAGCTGGTTAAAGAT
* *
4815610 AGTAGATCTTGCCTTCCTAAGTACTAGTGGAGCAGATCGAA
1 AGCAGATCTTGCCTTCCTAAGTACTAGCGGAGCAGATCGAA
4815651 GAGGGCGAAT
Statistics
Matches: 592, Mismatches: 45, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
85 84 0.14
86 412 0.70
87 94 0.16
88 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (86 bp):
AGCAGATCTTGCCTTCCTAAGTACTAGCGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
GCAGTGGAGCTGGTTAAAGAT
Found at i:4815379 original size:257 final size:257
Alignment explanation
Indices: 4814921--4815646 Score: 1134
Period size: 257 Copynumber: 2.8 Consensus size: 257
4814911 AACAAAAAAA
* * *
4814921 AGCAGATATTGCCTTCCTACATTAAC-AACGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGG
1 AGCAGATCTTGCCTTCCTA-AGT-ACTAACGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGG
* * *
4814985 TTGCAGTGAAGCTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATTGAA
64 TTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT-AAGTAACAGCGAAGCAGA-TGAA
* *
4815049 AACAAAGCCTTGCTTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATATTGCCTTCCTAA
127 AACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAA
4815114 GTACTAGCGGAGCAGATAAAAAACAAAGCCCTGCCTCCATCTGTTGCAGTGGAGCTGGTTAAAGA
192 GTACTAGCGGAGCAGATAAAAAACAAAGCCCTGCCTCCATCTGTTGCAGTGGAGCTGGTTAAAGA
4815179 T
257 T
* *
4815180 AGCAGATCTTGCCTTCCTAAGTACTAGCGGAGTAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
1 AGCAGATCTTGCCTTCCTAAGTACTAACGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
* * * * *
4815245 GCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCTAAGT-ACTAGTGGAGCAGATAAAAAA
66 GCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTAAC-AGCGAAGCAGATGAAAAC
*
4815309 AAAGCCTTGCCTCCATCTGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTA
130 AAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTA
** *
4815374 CTAGCGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCTGTTGCAGTGGAGCTGGTTAAAGAT
195 CTAGCGGAGCAGATAAAAAACAAAGCCCTGCCTCCATCTGTTGCAGTGGAGCTGGTTAAAGAT
*
4815437 AGCAGATCTTGCCTTCCTAAGTACTAACGGAGCAGATCGAAAACAAAGCCTTACCTCCATCGGTT
1 AGCAGATCTTGCCTTCCTAAGTACTAACGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
* **
4815502 GTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAA
66 GCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAG-TAACAGCGAAGCAGAT-GAAAA
* *
4815567 CAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGTAGATCTTGCCTTCCTAAGT
129 CAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGT
*
4815632 ACTAGTGGAGCAGAT
194 ACTAGCGGAGCAGAT
4815647 CGAAGAGGGC
Statistics
Matches: 427, Mismatches: 34, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
257 231 0.54
258 80 0.19
259 116 0.27
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (257 bp):
AGCAGATCTTGCCTTCCTAAGTACTAACGGAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
GCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTAACAGCGAAGCAGATGAAAACA
AAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTAC
TAGCGGAGCAGATAAAAAACAAAGCCCTGCCTCCATCTGTTGCAGTGGAGCTGGTTAAAGAT
Found at i:4815469 original size:44 final size:44
Alignment explanation
Indices: 4815078--4815469 Score: 142
Period size: 44 Copynumber: 9.1 Consensus size: 44
4815068 CGGTTGCAGT
*
4815078 GGAGCTGGTTAAAGATAGCAGATATTGCCTTCCTAAGTACTAGC
1 GGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTACTAGC
* * * * * * ** * *
4815122 GGAGC-AGATAAA-A-AACAAAGCCCTGCC-TCCATCTGTTGC-AGT
1 GGAGCTGGTTAAAGATAGCAGA-TCTTGCCTTCC-TAAG-TACTAGC
4815164 GGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTACTAGC
1 GGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTACTAGC
* ** * * ** * *
4815208 GGAG-TAGATCGAA-A-A-CAAAGCCTTGCC-TCCATCGGTTGC-AGT
1 GGAGCT-GGTTAAAGATAGCAGA-TCTTGCCTTCC-TAAG-TACTAGC
* *
4815250 GGAGCTGGTTAAAGATAACAGATCTTGCCTTCCTAAGTACTAGT
1 GGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTACTAGC
* * * ** * ** * *
4815294 GGAGC-AGATAAA-AAAAAAG-CCTTGCC-TCCATCTGTTGC-AGT
1 GGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC-TAAG-TACTAGC
4815335 GGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTACTAGC
1 GGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTACTAGC
* * ** * * ** * *
4815379 GGAGCAGATCGAA-A-A-CAAAGCCTTGCC-TCCATCTGTTGC-AGT
1 GGAGCTGGTTAAAGATAGCAGA-TCTTGCCTTCC-TAAG-TACTAGC
*
4815421 GGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTACTAAC
1 GGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTACTAGC
4815465 GGAGC
1 GGAGC
4815470 AGATCGAAAA
Statistics
Matches: 238, Mismatches: 77, Indels: 66
0.62 0.20 0.17
Matches are distributed among these distances:
40 3 0.01
41 35 0.15
42 65 0.27
43 39 0.16
44 74 0.31
45 22 0.09
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
GGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTAAGTACTAGC
Found at i:4815767 original size:44 final size:44
Alignment explanation
Indices: 4815703--4815907 Score: 277
Period size: 44 Copynumber: 4.7 Consensus size: 44
4815693 AAGCCACTAG
*
4815703 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGCAGA
* *
4815747 TCCTATCTCCCTAAGAAGTAGTGGAGCAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGCAGA
*
4815791 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGCAGA
* * * ** *
4815835 TCTTATCTCCATAAGCAGTAGTGGAGCAGATTGAAGACGGC-GAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGCAG-A
* * *
4815879 TCTTATCTTCCTAAGCAGTAGTGAAGCAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAG
4815908 ATTTAGGCCA
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 1 0.01
44 145 0.99
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGCAGA
Found at i:4815910 original size:44 final size:45
Alignment explanation
Indices: 4815622--4815909 Score: 259
Period size: 44 Copynumber: 6.6 Consensus size: 45
4815612 TAGATCTTGC
* * * * **
4815622 CTTCCTAAGTACTAGTGGAGCAGATCGAAGAGGGCGA-ATATTAT
1 CTTCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCTAGATCCTAT
* * ** ***
4815666 CTTCCTAAGCAATAGTGAAGCAGATTTAAG-CCACTAG-TCCTAT
1 CTTCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCTAGATCCTAT
* *
4815709 CTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGC-AGATCCTAT
1 CTTCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCTAGATCCTAT
* * * *
4815753 CTCCCTAAGAAGTAGTGGAGCAGGTCAAAGATGG-TAGATCCTAT
1 CTTCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCTAGATCCTAT
* * * *
4815797 CTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGG-TAGATCTTAT
1 CTTCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCTAGATCCTAT
* * * *
4815841 C-TCCATAAGCAGTAGTGGAGCAGATTGAAGACGGCGA-ATCTTAT
1 CTTCC-TAAGCAGTAGTGGAGCAGATCGAAGATGGCTAGATCCTAT
*
4815885 CTTCCTAAGCAGTAGTGAAGCAGAT
1 CTTCCTAAGCAGTAGTGGAGCAGAT
4815910 TTAGGCCACC
Statistics
Matches: 206, Mismatches: 31, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
43 34 0.17
44 168 0.82
45 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (45 bp):
CTTCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCTAGATCCTAT
Found at i:4815951 original size:44 final size:43
Alignment explanation
Indices: 4815898--4816037 Score: 153
Period size: 44 Copynumber: 3.3 Consensus size: 43
4815888 CCTAAGCAGT
* *
4815898 AGTGAAGCAGATTTAGGCCACCAGTCTTATCTCCCTGAGGTTAC
1 AGTGGAGCAGATTCA-GCCACCAGTCTTATCTCCCTGAGGTTAC
* * *
4815942 AGTGGAGCAGATTGAAGCCA-GAGATCTTATCTCCCTGAGATTAC
1 AGTGGAGCAGATT-CAGCCACCAG-TCTTATCTCCCTGAGGTTAC
* *
4815986 AGTGGAGCAGA-TCA--CATCTAGTCTTATCTCCCTGAAGTTAC
1 AGTGGAGCAGATTCAGCCA-CCAGTCTTATCTCCCTGAGGTTAC
4816027 AGTGGAGCAGA
1 AGTGGAGCAGA
4816038 CTAAGACCAC
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
40 2 0.02
41 29 0.35
42 3 0.04
43 3 0.04
44 46 0.55
45 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (43 bp):
AGTGGAGCAGATTCAGCCACCAGTCTTATCTCCCTGAGGTTAC
Found at i:4817466 original size:3 final size:3
Alignment explanation
Indices: 4817458--4817486 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4817448 GATTTAGTCC
4817458 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4817487 CCTATTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4818049 original size:16 final size:16
Alignment explanation
Indices: 4818030--4818060 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4818020 TACACCTATA
*
4818030 TATATGTACATATTTT
1 TATATATACATATTTT
4818046 TATATATACATATTT
1 TATATATACATATTT
4818061 ATTGTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:4820371 original size:18 final size:18
Alignment explanation
Indices: 4820348--4820382 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4820338 GAAGACAGAG
*
4820348 GGCAAAAACAGTGGAAAT
1 GGCAAAAACAGTAGAAAT
4820366 GGCAAAAACAGTAGAAA
1 GGCAAAAACAGTAGAAA
4820383 CAACAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.26, T:0.09
Consensus pattern (18 bp):
GGCAAAAACAGTAGAAAT
Found at i:4833741 original size:3 final size:3
Alignment explanation
Indices: 4833733--4833760 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4833723 AAGTCGAACC
4833733 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4833761 GAGGAGGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4838907 original size:11 final size:11
Alignment explanation
Indices: 4838893--4838917 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4838883 AATACATACA
4838893 AAATTATAAAT
1 AAATTATAAAT
4838904 AAATTATAAAT
1 AAATTATAAAT
4838915 AAA
1 AAA
4838918 CGAATATATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTATAAAT
Found at i:4842051 original size:20 final size:20
Alignment explanation
Indices: 4842028--4842093 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
4842018 TAATAGAAAG
4842028 AAATCAAAGGATTGAGAATC
1 AAATCAAAGGATTGAGAATC
* * * **
4842048 AAATCAATGTAATG-GAAAG
1 AAATCAAAGGATTGAGAATC
*
4842067 AAATCAAAAGATTGAGAATC
1 AAATCAAAGGATTGAGAATC
4842087 AAATCAA
1 AAATCAA
4842094 TGTAAACAAG
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
19 13 0.38
20 21 0.62
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCAAAGGATTGAGAATC
Found at i:4842071 original size:39 final size:39
Alignment explanation
Indices: 4842017--4842098 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
4842007 AAGCAAAACA
*
4842017 GTAATAGAAAGAAATCAAAGGATTGAGAATCAAATCAAT
1 GTAATAGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
*
4842056 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
1 GTAATAGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
4842095 GTAA
1 GTAA
4842099 ACAAGATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.21
Consensus pattern (39 bp):
GTAATAGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
Found at i:4843003 original size:20 final size:20
Alignment explanation
Indices: 4842980--4843028 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
4842970 ATGTACGTAT
*
4842980 ATATATAATACTTTCTATAC
1 ATATATAATAATTTCTATAC
* * *
4843000 ATATTTTATAATTTCTATAT
1 ATATATAATAATTTCTATAC
4843020 ATATATAAT
1 ATATATAAT
4843029 CATTATCTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATATAATAATTTCTATAC
Found at i:4843040 original size:98 final size:99
Alignment explanation
Indices: 4842919--4843125 Score: 308
Period size: 98 Copynumber: 2.1 Consensus size: 99
4842909 TTTTTAAGTT
* * * * *
4842919 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATGTACGTATATA-
1 TATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATGTACGTATATAG
*
4842983 TATAATACTTTCTATACATATTTTATAATTTCTA
66 TATAATACTTTCTATACACATTTTATAATTTCTA
*
4843017 TATATATATAATCATTATCTTTATGATCTATATGTTTATTAACTTATATATATGTACGTATATAT
1 TATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATGTACGTATATA-
* *
4843082 GTATTATACTTTCTATCCACATTTTATAATTTCTA
65 GTATAATACTTTCTATACACATTTTATAATTTCTA
*
4843117 TATGTATAT
1 TATATATAT
4843126 TTTCTTTATT
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
98 58 0.60
100 39 0.40
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.53
Consensus pattern (99 bp):
TATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATGTACGTATATAG
TATAATACTTTCTATACACATTTTATAATTTCTA
Found at i:4845406 original size:24 final size:24
Alignment explanation
Indices: 4845378--4845423 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
4845368 ATCAAAGGAT
*
4845378 GGAAAAGCTA-GAGCAGTTTCAAAA
1 GGAAAAGC-AGGAGCAGCTTCAAAA
*
4845402 GGAAATGCAGGAGCAGCTTCAA
1 GGAAAAGCAGGAGCAGCTTCAA
4845424 CGACAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.41, C:0.15, G:0.28, T:0.15
Consensus pattern (24 bp):
GGAAAAGCAGGAGCAGCTTCAAAA
Found at i:4851091 original size:132 final size:132
Alignment explanation
Indices: 4850862--4851537 Score: 1003
Period size: 132 Copynumber: 5.1 Consensus size: 132
4850852 TCGAAGACTC
** * * *
4850862 CAGATCTTATCTCCCTAAATAGTAGCGAAGCAGATCGAAGGTGGCAGATTTTACCTCTCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGT
* * * * *
4850927 TACAATGGAGTACATTGAAACCAGTAATTCTACTTTCCTGGACAACAGTGGAATATATTGAAGAT
66 TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
4850992 TT
131 TT
* * *
4850994 CAGATTTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGT
* * ** * *
4851059 TATAGTGGAGTACATTGAAGCTAGTAGTTCTACTTCCCTGGGTAACAGTAGAATAAATTGAAGAT
66 TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
4851124 TT
131 TT
* * * *
4851126 CAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGT
* *
4851191 TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGACAATAGTGGAATAGATTGAAGAT
66 TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
4851256 TT
131 TT
* * *
4851258 CAGATCTTATCTCCCTAAGCAGTAGCGAAGCAGATCGAAGATGACAGATTTTACCTCTCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGT
*
4851323 TATAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
66 TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
4851388 TT
131 TT
* *
4851390 CAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAATATAGCGGATTTTACCTCTCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGT
* * * *
4851455 TACAGCGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGAT
66 TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
4851520 TGT
131 T-T
* *
4851523 GA-ATCCTATCTCCCT
1 CAGATCTTATCTCCCT
4851538 TGTCAGCAGT
Statistics
Matches: 490, Mismatches: 53, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
132 488 1.00
133 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (132 bp):
CAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGT
TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
TT
Found at i:4851545 original size:44 final size:44
Alignment explanation
Indices: 4851489--4851648 Score: 257
Period size: 44 Copynumber: 3.6 Consensus size: 44
4851479 TAATTCTACT
* *
4851489 TCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAATCCTATC
1 TCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATC
*
4851533 TCCCTTGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATC
1 TCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATC
* * *
4851577 TCTCTGGTCAGCGGTGGAATAGGTTGAAGATTGAGAATCCTATC
1 TCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATC
*
4851621 TCCCTGGTTAGCAGTGGAATAGGTTGAA
1 TCCCTGGTCAGCAGTGGAATAGGTTGAA
4851649 AGTAAACAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 106 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (44 bp):
TCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATC
Found at i:4851714 original size:396 final size:394
Alignment explanation
Indices: 4850869--4851672 Score: 911
Period size: 396 Copynumber: 2.0 Consensus size: 394
4850859 CTCCAGATCT
* ** * *
4850869 TATCTCCCTAA-ATAGTAGCGAAGCAGATCGAAGGTGGCAGATTTTACCTCTCTGTGGTTACAAT
1 TATCTCCCTAAGA-AATAGCGAAGCAGATCGAAAATGACAGATCTTACCTCTCTGTGGTTACAAT
* * *
4850933 GGAGTACATTGAAACCAGTAATTCTACTTTCCTGGACAACAGTGGAATATATTGAAGATTTCAGA
65 GGAGTACATTGAAACCAATAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGA
* * * *
4850998 TTTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTATA
130 TCTTATCTCCCTAAGCAATAGCGGAGCAGATCGAAGATAGCGGATTTTACCTCTCTGTGGTTACA
* * * *
4851063 GTGGAGTACATTGAAGCTAGTAGTTCTACTTCCCTGGGTAACAGTAGAATAAATTGAAGATTTCA
195 GCGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTAGAATAAATTGAAGATTTCA
* * * * ** * *
4851128 GATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTA
260 GATCCTATCTCCTT-AGCAGCAGTGGAACAGATCGAAGATGGTGAATCCTA-CTCCCTCTGGTCA
* * * * **
4851193 TAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGACAATAGTGGAATAGATTGAAGATTT
323 CAGTGGAATACATTGAAGCCAGTAATCCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATAA
* *
4851258 CAGATCT
388 CAAATCC
* * * * * *
4851265 TATCTCCCTAAGCAGTAGCGAAGCAGATCGAAGATGACAGATTTTACCTCTCTGTGGTTATAGTG
1 TATCTCCCTAAGAAATAGCGAAGCAGATCGAAAATGACAGATCTTACCTCTCTGTGGTTACAATG
*
4851330 GAGTACATTGAAGCCAATAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGAT
66 GAGTACATTGAAACCAATAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGAT
* *
4851395 CTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAATATAGCGGATTTTACCTCTCTGTGGTTACAG
131 CTTATCTCCCTAAGCAATAGCGGAGCAGATCGAAGATAGCGGATTTTACCTCTCTGTGGTTACAG
* * * *
4851460 CGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGA
196 CGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTAGAATAAATTGAAGATT-TCA
* * * * *
4851525 -ATCCTATCTCCCTT-GTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA-TCTCTCTGGTCA
260 GATCCTATCT-CCTTAG-CAGCAGTGGAACAGATCGAAGATGGTGAATCCTACTCCCTCTGGTCA
* ** ** * ** * *
4851587 GCGGTGGAATAGGTTGAAGATTGAG-AATCCTA-TCTCCCTGGTTAGCAGTGGAATAGGTTGAA-
323 -CAGTGGAATACATTGAAG--CCAGTAATCCTACT-TCCCTAGACAACAGTGGAATAGATTGAAG
4851649 AGTAAACAAATCC
384 A-T-AACAAATCC
4851662 TATCTCCCTAA
1 TATCTCCCTAA
4851673 AATTATAGTG
Statistics
Matches: 344, Mismatches: 54, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
394 9 0.03
395 16 0.05
396 295 0.86
397 24 0.07
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (394 bp):
TATCTCCCTAAGAAATAGCGAAGCAGATCGAAAATGACAGATCTTACCTCTCTGTGGTTACAATG
GAGTACATTGAAACCAATAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGAT
CTTATCTCCCTAAGCAATAGCGGAGCAGATCGAAGATAGCGGATTTTACCTCTCTGTGGTTACAG
CGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTAGAATAAATTGAAGATTTCAG
ATCCTATCTCCTTAGCAGCAGTGGAACAGATCGAAGATGGTGAATCCTACTCCCTCTGGTCACAG
TGGAATACATTGAAGCCAGTAATCCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATAACAA
ATCC
Found at i:4852265 original size:20 final size:20
Alignment explanation
Indices: 4852240--4852305 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
4852230 TAATGGAAAG
4852240 AAATCAAAGGATTGAGAATC
1 AAATCAAAGGATTGAGAATC
* * * **
4852260 AAATCAATGTAATG-GAAAG
1 AAATCAAAGGATTGAGAATC
*
4852279 AAATCAAAAGATTGAGAATC
1 AAATCAAAGGATTGAGAATC
4852299 AAATCAA
1 AAATCAA
4852306 TGTAAACAAG
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
19 13 0.38
20 21 0.62
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCAAAGGATTGAGAATC
Found at i:4852283 original size:39 final size:39
Alignment explanation
Indices: 4852229--4852310 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
4852219 AAGCAAAACA
*
4852229 GTAATGGAAAGAAATCAAAGGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
4852268 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
4852307 GTAA
1 GTAA
4852311 ACAAGATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.21
Consensus pattern (39 bp):
GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
Found at i:4852284 original size:19 final size:19
Alignment explanation
Indices: 4852228--4852286 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
4852218 GAAGCAAAAC
4852228 AGTAATGGAAAGAAATCAA
1 AGTAATGGAAAGAAATCAA
* * **
4852247 AGGATTGAGAATCAAATCAA
1 AGTAATG-GAAAGAAATCAA
*
4852267 TGTAATGGAAAGAAATCAA
1 AGTAATGGAAAGAAATCAA
4852286 A
1 A
4852287 AGATTGAGAA
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.54, C:0.07, G:0.20, T:0.19
Consensus pattern (19 bp):
AGTAATGGAAAGAAATCAA
Found at i:4853220 original size:20 final size:20
Alignment explanation
Indices: 4853197--4853245 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
4853187 ATGTACGTAT
*
4853197 ATATATAATACTTTCTATAC
1 ATATATAATAATTTCTATAC
* * *
4853217 ATATTTTATAATTTCTATAT
1 ATATATAATAATTTCTATAC
4853237 ATATATAAT
1 ATATATAAT
4853246 CATTATCTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATATAATAATTTCTATAC
Found at i:4853251 original size:100 final size:99
Alignment explanation
Indices: 4853134--4853342 Score: 294
Period size: 100 Copynumber: 2.1 Consensus size: 99
4853124 TTTTTAAGTT
* * * * *
4853134 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATATGTACGTATAT
1 TATATATATAATCATTATCTTTATGATCTATATATTTATTAAC-T-TATATATATGTACGTATAT
*
4853199 A-TATAATACTTTCTATACATATTTTATAATTTCTA
64 AGTATAATACTTTCTATACACATTTTATAATTTCTA
*
4853234 TATATATATAATCATTATCTTTATGATCTATATGTTTATTAACTTATATATATGTACGTATATAT
1 TATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATGTACGTATATA-
* *
4853299 GTATTATACTTTCTATCCACATTTTATAATTTCTA
65 GTATAATACTTTCTATACACATTTTATAATTTCTA
*
4853334 TATGTATAT
1 TATATATAT
4853343 TTTCTTTATT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 20 0.21
99 1 0.01
100 76 0.78
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.53
Consensus pattern (99 bp):
TATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATGTACGTATATAG
TATAATACTTTCTATACACATTTTATAATTTCTA
Found at i:4869942 original size:7 final size:7
Alignment explanation
Indices: 4869932--4869975 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
4869922 AAAAGAAACG
4869932 AAAAGAA
1 AAAAGAA
4869939 AAAA-AA
1 AAAAGAA
4869945 AAGAA-AA
1 AA-AAGAA
4869952 AAAAGAA
1 AAAAGAA
*
4869959 AAACGAA
1 AAAAGAA
4869966 AAAAGAA
1 AAAAGAA
4869973 AAA
1 AAA
4869976 GGAGAGGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.86, C:0.02, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:4869945 original size:10 final size:10
Alignment explanation
Indices: 4869920--4869961 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
4869910 CTTCACTTGG
4869920 AAAAAAGAAA
1 AAAAAAGAAA
**
4869930 CGAAAAGAAA
1 AAAAAAGAAA
4869940 AAAAAA-AGAA
1 AAAAAAGA-AA
4869950 AAAAAAGAAA
1 AAAAAAGAAA
4869960 AA
1 AA
4869962 CGAAAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 1 0.04
10 24 0.92
11 1 0.04
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:4869968 original size:16 final size:15
Alignment explanation
Indices: 4869920--4869975 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 15
4869910 CTTCACTTGG
*
4869920 AAAAAAGAAACGAAA
1 AAAAAAAAAACGAAA
*
4869935 AGAAAAAAAAAAGAAA
1 A-AAAAAAAAACGAAA
4869951 AAAAAGAAAAACGAAA
1 AAAAA-AAAAACGAAA
4869967 AAAGAAAAA
1 AAA-AAAAA
4869976 GGAGAGGCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 5 0.14
16 28 0.80
17 2 0.06
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACGAAA
Found at i:4869976 original size:20 final size:20
Alignment explanation
Indices: 4869920--4869975 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
4869910 CTTCACTTGG
*
4869920 AAAAAAGAAACGAAAAGAAAA
1 AAAAAAGAAA-AAAAAGAAAA
4869941 AAAAAAGAAAAAAAAGAAAAA
1 AAAAAAGAAAAAAAAG-AAAA
4869962 CGAAAAAAGAAAAA
1 --AAAAAAGAAAAA
4869976 GGAGAGGCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 5 0.16
21 14 0.45
23 12 0.39
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAAAAAAGAAAA
Found at i:4871296 original size:50 final size:50
Alignment explanation
Indices: 4871233--4871402 Score: 178
Period size: 50 Copynumber: 3.4 Consensus size: 50
4871223 TACAAACAAA
** * *
4871233 AAATCTTGTTTCCCTGGCATTGCAATTAAAAAGATTGAGGCCGCAACAGC
1 AAATCTTACTTCCCTGGCATTGCAATTAAAAAGATTGAAGCCGCAACGGC
* * ** * * * ** *
4871283 AAATCTTACTTCCCTGGCAGTGCAGTGGAACATATTAAAGCTACGACGGC
1 AAATCTTACTTCCCTGGCATTGCAATTAAAAAGATTGAAGCCGCAACGGC
* *
4871333 AAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCGCAACGGC
1 AAATCTTACTTCCCTGGCATTGCAATTAAAAAGATTGAAGCCGCAACGGC
* *
4871383 GAATCTTACTTCCCTAGCAT
1 AAATCTTACTTCCCTGGCAT
4871403 AGACAAAAAA
Statistics
Matches: 90, Mismatches: 30, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
50 90 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (50 bp):
AAATCTTACTTCCCTGGCATTGCAATTAAAAAGATTGAAGCCGCAACGGC
Found at i:4871376 original size:100 final size:98
Alignment explanation
Indices: 4870946--4871397 Score: 496
Period size: 99 Copynumber: 4.5 Consensus size: 98
4870936 TTACTCGTAC
* * * * * * *
4870946 CCCTGAGATTGCATTTAAAAGTTTGAAGCCGTAACGGTGAATCTTACTCCCCTGGCGGTGCAGTG
1 CCCTGACATTGCAATTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGTG
* * *
4871011 GAACAGATTGAAGCTAC-AGCGGTGAATCCTGTTT
66 GAACAGATTAAAGCTACGA-CGG-AAATCTTGTTT
* *
4871045 -CCTCGATATTGCAATTAAAAGATTGAAGCTGCAACGGCGAATCTTAC-TCCCTTGGCAGTGCAG
1 CCCT-GACATTGCAATTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCC-TGGCAGTGCAG
** * *
4871108 TGGAATGGATTGAAGCTACGACGGAGAATCTCGTTT
64 TGGAACAGATTAAAGCTACGACGGA-AATCTTGTTT
** * * * **
4871144 CCCTGACATTATAATTAAAAGATTAAAGCCGTAACGGCGAATCTTACTCCCCTGGTGGTGCAGTG
1 CCCTGACATTGCAATTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGTG
* * **
4871209 GAACAAATTAAAGCTACAAACAAAAAATCTTGTTT
66 GAACAGATTAAAGCTAC-GAC-GGAAATCTTGTTT
* * * *
4871244 CCCTGGCATTGCAATTAAAAAGATTGAGGCCGCAACAGCAAATCTTACTTCCCTGGCAGTGCAGT
1 CCCTGACATTGCAATT-AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGT
* *
4871309 GGAACATATTAAAGCTACGACGGCAAATCTTGCTT
65 GGAACAGATTAAAGCTACGACGG-AAATCTTGTTT
4871344 CCCTGACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCT
1 CCCTGACATTGCAATT-AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCT
4871398 AGCATAGACA
Statistics
Matches: 293, Mismatches: 50, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
98 6 0.02
99 136 0.46
100 93 0.32
101 58 0.20
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (98 bp):
CCCTGACATTGCAATTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGTG
GAACAGATTAAAGCTACGACGGAAATCTTGTTT
Found at i:4872180 original size:127 final size:127
Alignment explanation
Indices: 4871420--4872176 Score: 1226
Period size: 127 Copynumber: 6.0 Consensus size: 127
4871410 AAAAAGAAAA
* * *
4871420 AAACCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCTTAA
1 AAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
* *
4871485 GCAGTAGTGGAGCAGATTGCATCAAGTCTTATCTCCTTAAGCAGTAGTGGAGCAGACGGAAG
66 GCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAG
* * * *
4871547 AAACCAATCCTATCTCCCTAAAGTTGTAGTGGAGCTGATTAAAACCACAAATCTTATCTCTCTAA
1 AAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
* * *
4871612 GTAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGATGGAAG
66 GCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAG
* * *
4871674 AAACCAATCCTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAA
1 AAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
* *
4871739 GCAGTAGTGGAGCAGATCGTATCAAGTCTTATCTCCCTAAGCAGTAGTGAAGCAGACGGAAG
66 GCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAG
* *
4871801 AAACCAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAACCATAGATCTTATCTCCCTAA
1 AAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
* * *
4871866 GCAGTAGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATGGAAG
66 GCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAG
* * * *
4871928 AAACCAATCCTATCTCCCTGAAGTTCCAGTGAAGCGAATTAAAACCACAGATCTTATCTCCCTAA
1 AAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
* * *
4871993 GCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCTTAAGCAGTAGTGGAGTAGACAGAAG
66 GCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAG
* *
4872055 AAACTAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTACCTCCCTAA
1 AAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
*
4872120 GCAGTAGTGGAGCAGATCGAATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC
66 GCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC
4872177 AGAACCACAG
Statistics
Matches: 575, Mismatches: 55, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
127 575 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (127 bp):
AAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAG
Found at i:4872598 original size:19 final size:19
Alignment explanation
Indices: 4872574--4872614 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4872564 AAAGCCCAGG
4872574 CAAAACCCAATACCCAAA-A
1 CAAAACCCAA-ACCCAAATA
4872593 CAAAACCCAAACCCAAATA
1 CAAAACCCAAACCCAAATA
4872612 CAA
1 CAA
4872615 CTAAACCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.59, C:0.37, G:0.00, T:0.05
Consensus pattern (19 bp):
CAAAACCCAAACCCAAATA
Found at i:4876065 original size:56 final size:56
Alignment explanation
Indices: 4876003--4876117 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
4875993 GAAGCCAAAT
*
4876003 TAAGTGACCATATCATATGTATCATATATATATACTAGTGTATCATGTAATTAAGG
1 TAAGTGACCATATCATATGTATCATATATATACACTAGTGTATCATGTAATTAAGG
4876059 TAAGTGACCATATCATATGTATCATATATATACACTAGTGTATCATGTAATTAAGG
1 TAAGTGACCATATCATATGTATCATATATATACACTAGTGTATCATGTAATTAAGG
4876115 TAA
1 TAA
4876118 TTGTTTAGGT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (56 bp):
TAAGTGACCATATCATATGTATCATATATATACACTAGTGTATCATGTAATTAAGG
Found at i:4876660 original size:49 final size:49
Alignment explanation
Indices: 4876605--4876816 Score: 183
Period size: 45 Copynumber: 4.5 Consensus size: 49
4876595 TGACATCCCG
*
4876605 GATTGCCCGACAACAATGATTTTCTCAGTTTGAACAATCTGTCACCCTA
1 GATTGCCCGACAACGATGATTTTCTCAGTTTGAACAATCTGTCACCCTA
* * * * ** *
4876654 GATTGCCC-AGCAACGGTGA--ATCT-A-TGTGAACAATTTACCACCTTA
1 GATTGCCCGA-CAACGATGATTTTCTCAGTTTGAACAATCTGTCACCCTA
*
4876699 GGTTGCCCGACAACGATGATTTTCTCAGTTTGAACAATCTGTCACCCTA
1 GATTGCCCGACAACGATGATTTTCTCAGTTTGAACAATCTGTCACCCTA
* * * * ** *
4876748 GATTGCCC-AGCAACGGTGA--ATCT-A-TGTGAACAATTTACCACCTTA
1 GATTGCCCGA-CAACGATGATTTTCTCAGTTTGAACAATCTGTCACCCTA
*
4876793 GGTTGCCCGACAACGATGATTTTC
1 GATTGCCCGACAACGATGATTTTC
4876817 AACAAATAAT
Statistics
Matches: 126, Mismatches: 27, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
45 62 0.49
46 4 0.03
47 11 0.09
48 3 0.02
49 46 0.37
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (49 bp):
GATTGCCCGACAACGATGATTTTCTCAGTTTGAACAATCTGTCACCCTA
Found at i:4876768 original size:94 final size:94
Alignment explanation
Indices: 4876607--4876816 Score: 411
Period size: 94 Copynumber: 2.2 Consensus size: 94
4876597 ACATCCCGGA
*
4876607 TTGCCCGACAACAATGATTTTCTCAGTTTGAACAATCTGTCACCCTAGATTGCCCAGCAACGGTG
1 TTGCCCGACAACGATGATTTTCTCAGTTTGAACAATCTGTCACCCTAGATTGCCCAGCAACGGTG
4876672 AATCTATGTGAACAATTTACCACCTTAGG
66 AATCTATGTGAACAATTTACCACCTTAGG
4876701 TTGCCCGACAACGATGATTTTCTCAGTTTGAACAATCTGTCACCCTAGATTGCCCAGCAACGGTG
1 TTGCCCGACAACGATGATTTTCTCAGTTTGAACAATCTGTCACCCTAGATTGCCCAGCAACGGTG
4876766 AATCTATGTGAACAATTTACCACCTTAGG
66 AATCTATGTGAACAATTTACCACCTTAGG
4876795 TTGCCCGACAACGATGATTTTC
1 TTGCCCGACAACGATGATTTTC
4876817 AACAAATAAT
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 115 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (94 bp):
TTGCCCGACAACGATGATTTTCTCAGTTTGAACAATCTGTCACCCTAGATTGCCCAGCAACGGTG
AATCTATGTGAACAATTTACCACCTTAGG
Found at i:4877000 original size:7 final size:7
Alignment explanation
Indices: 4876988--4877012 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4876978 AATTTCATAC
4876988 CAATTAT
1 CAATTAT
4876995 CAATTAT
1 CAATTAT
4877002 CAATTAT
1 CAATTAT
4877009 CAAT
1 CAAT
4877013 CAAATTATAA
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (7 bp):
CAATTAT
Found at i:4879666 original size:20 final size:20
Alignment explanation
Indices: 4879641--4879679 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4879631 TAGTTTTAAT
* *
4879641 GAACACCGATATCAAATTGG
1 GAACACCAATACCAAATTGG
4879661 GAACACCAATACCAAATTG
1 GAACACCAATACCAAATTG
4879680 AAACTACCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (20 bp):
GAACACCAATACCAAATTGG
Found at i:4883723 original size:2 final size:2
Alignment explanation
Indices: 4883716--4883745 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4883706 ACAGATTAAA
*
4883716 AC AC AC AC AC AC AC AC AC AC AC AC AG AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
4883746 TAGAGAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4883894 original size:21 final size:21
Alignment explanation
Indices: 4883865--4883907 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4883855 AAAGTAAGCT
*
4883865 TATTGCAACGCGTTTGTGATC
1 TATTACAACGCGTTTGTGATC
4883886 TATTACAACGCGTTTGTGATC
1 TATTACAACGCGTTTGTGATC
4883907 T
1 T
4883908 TTAGAACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (21 bp):
TATTACAACGCGTTTGTGATC
Found at i:4887036 original size:21 final size:21
Alignment explanation
Indices: 4887010--4887050 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4887000 ATCTGCTCAA
* *
4887010 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4887031 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4887051 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4889898 original size:36 final size:36
Alignment explanation
Indices: 4889821--4889890 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
4889811 TGGTGGTTGT
* ***
4889821 CATTATTGATTGTCTCCCATTAATGTTAATGGCAAC
1 CATTATTAATTGTCTCCCATTAATGTTAACAACAAC
*
4889857 CATTATTAATTGTCTTCCATTAATGTTAACAACA
1 CATTATTAATTGTCTCCCATTAATGTTAACAACA
4889891 GGTATTATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (36 bp):
CATTATTAATTGTCTCCCATTAATGTTAACAACAAC
Found at i:4890495 original size:19 final size:19
Alignment explanation
Indices: 4890454--4890495 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4890444 AAAGGAGGGC
* *
4890454 TAAGTTAGAAAATAGAAAT
1 TAAGTTAAAAAATAGAAAA
4890473 TAAGTTAAAAAATA-AATAA
1 TAAGTTAAAAAATAGAA-AA
4890492 TAAG
1 TAAG
4890496 CTCTGCATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (19 bp):
TAAGTTAAAAAATAGAAAA
Found at i:4891342 original size:16 final size:16
Alignment explanation
Indices: 4891321--4891351 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4891311 CAAAAAGTAG
4891321 CCCAAAAGTATTTTTT
1 CCCAAAAGTATTTTTT
4891337 CCCAAAAGTATTTTT
1 CCCAAAAGTATTTTT
4891352 GAGAAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (16 bp):
CCCAAAAGTATTTTTT
Found at i:4896971 original size:24 final size:24
Alignment explanation
Indices: 4896944--4897023 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 24
4896934 CAAGGCATTT
4896944 TTTTCCTTTTTTATTTACTTATTA
1 TTTTCCTTTTTTATTTACTTATTA
*
4896968 --TT--TTATTTATTTACCTATACTTA
1 TTTTCCTTTTTTATTTA-CT-TA-TTA
* * *
4896991 TTTTCATTTATTATTTATTTATTA
1 TTTTCCTTTTTTATTTACTTATTA
4897015 TTATTCCTT
1 TT-TTCCTT
4897024 CAATCTTTGC
Statistics
Matches: 43, Mismatches: 5, Indels: 15
0.68 0.08 0.24
Matches are distributed among these distances:
20 10 0.23
21 2 0.05
22 4 0.09
23 3 0.07
24 5 0.12
25 9 0.21
26 1 0.02
27 9 0.21
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTCCTTTTTTATTTACTTATTA
Found at i:4896978 original size:20 final size:24
Alignment explanation
Indices: 4896953--4897002 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 24
4896943 TTTTTCCTTT
4896953 TTTATTTA-CT-TA-TTATTTT-A
1 TTTATTTACCTATACTTATTTTCA
4896973 TTTATTTACCTATACTTATTTTCA
1 TTTATTTACCTATACTTATTTTCA
4896997 TTTATT
1 TTTATT
4897003 ATTTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.31
21 2 0.08
22 2 0.08
23 7 0.27
24 7 0.27
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATTTACCTATACTTATTTTCA
Found at i:4897295 original size:15 final size:15
Alignment explanation
Indices: 4897257--4897298 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
4897247 CTACTACTAT
*
4897257 TATTATTAATATTAC
1 TATTATTATTATTAC
4897272 TATTATTATTATTAC
1 TATTATTATTATTAC
* *
4897287 TGTTGTTATTAT
1 TATTATTATTAT
4897299 ATTTTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:4900122 original size:21 final size:21
Alignment explanation
Indices: 4900088--4900131 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
4900078 AATAAGCTAA
* *
4900088 CAAATTTCCTTAGGACTTAGT
1 CAAATCTCCCTAGGACTTAGT
4900109 CAAATCTCCCTAGGACTTAGT
1 CAAATCTCCCTAGGACTTAGT
4900130 CA
1 CA
4900132 TAATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (21 bp):
CAAATCTCCCTAGGACTTAGT
Found at i:4903578 original size:16 final size:14
Alignment explanation
Indices: 4903516--4903580 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 14
4903506 GAATAAGAAT
4903516 AATAAATAA-AATAA
1 AATAAA-AATAATAA
*
4903530 AATAAAAAATTAGTAA
1 AAT-AAAAA-TAATAA
4903546 AATAAAAATAAATAA
1 AATAAAAAT-AATAA
*
4903561 TATAACAAATAAT-A
1 AATAA-AAATAATAA
4903575 AATAAA
1 AATAAA
4903581 TAAAATAAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 1 0.02
14 11 0.26
15 19 0.45
16 11 0.26
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (14 bp):
AATAAAAATAATAA
Found at i:4903579 original size:23 final size:22
Alignment explanation
Indices: 4903545--4903588 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
4903535 AAAATTAGTA
*
4903545 AAATAAAAATAAATAATATAAC
1 AAATAAAAATAAATAAAATAAC
4903567 AAATAATAAATAAATAAAATAA
1 AAATAA-AAATAAATAAAATAA
4903589 GCATAATGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
AAATAAAAATAAATAAAATAAC
Found at i:4903586 original size:16 final size:16
Alignment explanation
Indices: 4903507--4903588 Score: 65
Period size: 19 Copynumber: 4.6 Consensus size: 16
4903497 AAAATCTGAG
4903507 AATAAGAATAATAAATAA
1 AATAA-AATAATAAAT-A
* *
4903525 AATAAAATAAAAAATT
1 AATAAAATAATAAATA
*
4903541 AGTAAAATAAAAATAAATA
1 AATAAAAT---AATAAATA
4903560 ATATAACAAATAATAAATA
1 A-AT-A-AAATAATAAATA
4903579 AATAAAATAA
1 AATAAAATAA
4903589 GCATAATGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
16 13 0.25
17 10 0.19
18 7 0.13
19 16 0.31
20 1 0.02
21 1 0.02
22 4 0.08
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.23
Consensus pattern (16 bp):
AATAAAATAATAAATA
Found at i:4908563 original size:28 final size:28
Alignment explanation
Indices: 4908532--4908622 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 28
4908522 TAAAAAATCG
4908532 TAAAAAAATTATAAAATATATAGAAATA
1 TAAAAAAATTATAAAATATATAGAAATA
* *
4908560 TAAAAAAATTATAAAATTTTATA-AAGTCA
1 TAAAAAAATTATAAAA-TATATAGAAAT-A
* * *
4908589 TAAGAAAATTATACAAAATGTAAAGAAATA
1 TAAAAAAATTAT--AAAATATATAGAAATA
4908619 TAAA
1 TAAA
4908623 TTTCGTAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
28 19 0.37
29 17 0.33
30 8 0.16
31 7 0.14
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (28 bp):
TAAAAAAATTATAAAATATATAGAAATA
Found at i:4908864 original size:26 final size:27
Alignment explanation
Indices: 4908835--4908885 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
4908825 AAAAAATCTA
*
4908835 ATTTTTAATAATATTTAAT-TTTTTAT
1 ATTTTTAATAAAATTTAATATTTTTAT
*
4908861 ATTTTTATTAAAATTTAATATTTTT
1 ATTTTTAATAAAATTTAATATTTTT
4908886 TTATAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTTAATAAAATTTAATATTTTTAT
Found at i:4908908 original size:19 final size:20
Alignment explanation
Indices: 4908862--4908906 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4908852 ATTTTTTATA
4908862 TTTTTATTAAAATTTAATATT
1 TTTTTA-TAAAATTTAATATT
4908883 TTTTTATAAAATTTAATATT
1 TTTTTATAAAATTTAATATT
4908903 TTTT
1 TTTT
4908907 ATTTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTATAAAATTTAATATT
Found at i:4908918 original size:26 final size:26
Alignment explanation
Indices: 4908835--4908918 Score: 76
Period size: 26 Copynumber: 3.5 Consensus size: 26
4908825 AAAAAATCTA
* *
4908835 ATTTTTAATAATATTT-A-ATTTTTT
1 ATTTTTTATAAAATTTAATATTTTTT
4908859 ATATTTTTATTAAAATTTAATA-----T
1 AT-TTTTTA-TAAAATTTAATATTTTTT
4908882 -TTTTTTATAAAATTTAATATTTTTT
1 ATTTTTTATAAAATTTAATATTTTTT
4908907 ATTTTTTATAAA
1 ATTTTTTATAAA
4908919 TAAGAGCAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
20 12 0.25
21 6 0.12
22 1 0.02
23 1 0.02
24 2 0.04
25 6 0.12
26 18 0.38
27 1 0.02
28 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTTTTTATAAAATTTAATATTTTTT
Found at i:4909016 original size:86 final size:87
Alignment explanation
Indices: 4908925--4909137 Score: 222
Period size: 87 Copynumber: 2.5 Consensus size: 87
4908915 TAAATAAGAG
* * * *
4908925 CAGGGGCTTAATTTC-TTTTTAAAAAAATTTTGAGGGTCTTTTTTATACATTTTG-AAAGTTGAA
1 CAGGGGCTTAATTGCTTTTTTAAAAAAAGTTTGAGGGTCTTTTTGATACA-TTTGAAAAGTTCAA
4908988 GTACTCAATTGAGTGAAAAAAAA
65 GTACTCAATTGAGTGAAAAAAAA
* ** * *
4909011 CAGGGGCTTTATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTTTGATGCATTTGAAAAGTTCAAG
1 CAGGGGCTTAATTGCTTTTTTAAAAAAAGTTTGAGGGTCTTTTTGATACATTTGAAAAGTTCAAG
* *
4909076 TGCTCAATTGAAT-ACAAAAAAA
66 TACTCAATTGAGTGA-AAAAAAA
* ** *
4909098 -AAGGATTTAATTGCTTTTGTTGAAAAAA-TTTGAGGG-CTTT
1 CAGGGGCTTAATTGCTTTT-TTAAAAAAAGTTTGAGGGTCTTT
4909138 ATACACCCTT
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
85 4 0.04
86 40 0.38
87 61 0.58
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.38
Consensus pattern (87 bp):
CAGGGGCTTAATTGCTTTTTTAAAAAAAGTTTGAGGGTCTTTTTGATACATTTGAAAAGTTCAAG
TACTCAATTGAGTGAAAAAAAA
Found at i:4912331 original size:98 final size:97
Alignment explanation
Indices: 4912196--4912500 Score: 276
Period size: 98 Copynumber: 3.1 Consensus size: 97
4912186 ACCATAGTCC
* * * *
4912196 TCATTTGTTCTTAAGCAGTTCTTAATATTACATGTGTTTTGCTAATATCGATATTATAATTTATT
1 TCATTTATTCATATGCAGTTCTTAATATTACACGTGTTTTGCTAATATCGATATTATAATTTATT
* *
4912261 TAATTTACGAGATTCAAATATAAATTATTGTCT
66 TAATTTA-GAGATTCAAATACAAATTATTATCT
* * * *
4912294 TCATTTATTCATATGTAGTTCTCAATATTACACGTG-TTTG-TGAAGATCGATGA-TATAATTGA
1 TCATTTATTCATATGCAGTTCTTAATATTACACGTGTTTTGCT-AATATCGAT-ATTATAATTTA
* ** *
4912356 TTTGATTTTTAGAG-TTCAAATACAAACCATCATCT
64 TTT-A-ATTTAGAGATTCAAATACAAATTATTATCT
* * * * * * * *
4912391 TCATTTATTCTTATGCGGTTCTTAATATTACACGTGTTTTACAAATGTCAATCTTATAATTTGTT
1 TCATTTATTCATATGCAGTTCTTAATATTACACGTGTTTTGCTAATATCGATATTATAATTTATT
* * * **
4912456 TAATTTATAGGATTAAAATAGAAATTATTATGG
66 TAATTTAGA-GATTCAAATACAAATTATTATCT
*
4912489 TCATTCATTCAT
1 TCATTTATTCAT
4912501 TGTTAGTTTT
Statistics
Matches: 161, Mismatches: 37, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
96 6 0.04
97 73 0.45
98 78 0.48
99 4 0.02
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (97 bp):
TCATTTATTCATATGCAGTTCTTAATATTACACGTGTTTTGCTAATATCGATATTATAATTTATT
TAATTTAGAGATTCAAATACAAATTATTATCT
Found at i:4912393 original size:97 final size:95
Alignment explanation
Indices: 4912098--4912429 Score: 283
Period size: 97 Copynumber: 3.4 Consensus size: 95
4912088 AATTATTGTA
* * * * * * ** * * *
4912098 TTCATTCATTCATACGCAATTCTTAATGTTACACATACTTGTGAAGATTGATCCTATAATTGAAT
1 TTCATTTATTCTTATGCAGTTCTTAATATTACACGTGTTTGTGAAGATCGAT-ATATAATTGATT
** * *
4912163 TGATTTTTATTGTTAAAATACATACCATAGTC
65 TGATTTTTAGAGTTCAAATACAAACCATA-TC
* * * * * *
4912195 CTCATTTGTTCTTAAGCAGTTCTTAATATTACATGTGTTT-TGCTAATATCGATATTATAATTTA
1 TTCATTTATTCTTATGCAGTTCTTAATATTACACGTGTTTGTG--AAGATCGATA-TATAATTGA
* * ** *
4912259 TTT-A-ATTTACGAGATTCAAATATAAATTATTGTC
63 TTTGATTTTTA-GAG-TTCAAATACAAACCA-TATC
* * *
4912293 TTCATTTATTCATATGTAGTTCTCAATATTACACGTGTTTGTGAAGATCGATGATATAATTGATT
1 TTCATTTATTCTTATGCAGTTCTTAATATTACACGTGTTTGTGAAGATCGAT-ATATAATTGATT
4912358 TGATTTTTAGAGTTCAAATACAAACCATCATC
65 TGATTTTTAGAGTTCAAATACAAACCAT-ATC
*
4912390 TTCATTTATTCTTATGCGGTTCTTAATATTACACGTGTTT
1 TTCATTTATTCTTATGCAGTTCTTAATATTACACGTGTTT
4912430 TACAAATGTC
Statistics
Matches: 181, Mismatches: 43, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
96 7 0.04
97 100 0.55
98 67 0.37
99 7 0.04
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (95 bp):
TTCATTTATTCTTATGCAGTTCTTAATATTACACGTGTTTGTGAAGATCGATATATAATTGATTT
GATTTTTAGAGTTCAAATACAAACCATATC
Found at i:4912529 original size:195 final size:194
Alignment explanation
Indices: 4911997--4912530 Score: 563
Period size: 195 Copynumber: 2.7 Consensus size: 194
4911987 TAAGAAATCG
* * * * **
4911997 ATCTTCATTAAATCTTATGCTGTTCTTAATATTGCACGTGTTTTGCAAA-GAAAAATCTTATAAT
1 ATCTTCATTTATTCTTATGCAGTTCTTAATATTACACGTGTTTTGCAAATG-TCAATCTTATAAT
* * * * * * *
4912061 TTATTTAATTTATTGGCTTCAAAGATAAATTATTGTATTCATTCATTCATACGCAATTCTT-AAT
65 TTATTTAATTTATAGGATTCAAATATAAATTATTGTATTCATTCATTCATATGTAGTTCTTAAAA
** * * ** *
4912125 GTTACACATACTTGTGAAGATTGATCCTATAATTGAATTGATTTTTATTGTTAAAATACATACCA
130 G-TACACATGTTTGTGAAGATCGATCATATAATTGAATTGATTTTTAGAGTTAAAATACAAACCA
4912190 T
194 T
* * * * * * * *
4912191 AGTCCTCATTTGTTCTTAAGCAGTTCTTAATATTACATGTGTTTTGCTAATATCGATATTATAAT
1 A-TCTTCATTTATTCTTATGCAGTTCTTAATATTACACGTGTTTTGCAAATGTCAATCTTATAAT
* * * * *
4912256 TTATTTAATTTA-CGAGATTCAAATATAAATTATTGTCTTCATTTATTCATATGTAGTTCTCAAT
65 TTATTTAATTTATAG-GATTCAAATATAAATTATTGTATTCATTCATTCATATGTAGTTCTTAAA
* * * * *
4912320 ATTACACGTGTTTGTGAAGATCGATGATATAATTGATTTGATTTTTAGAGTTCAAATACAAACCA
129 AGTACACATGTTTGTGAAGATCGATCATATAATTGAATTGATTTTTAGAGTTAAAATACAAACCA
4912385 T
194 T
* *
4912386 CATCTTCATTTATTCTTATGCGGTTCTTAATATTACACGTGTTTTACAAATGTCAATCTTATAAT
1 -ATCTTCATTTATTCTTATGCAGTTCTTAATATTACACGTGTTTTGCAAATGTCAATCTTATAAT
* * * * ** *
4912451 TTGTTTAATTTATAGGATTAAAATAGAAATTATTATGGTCATTCATTCAT-TGTTAGTTTTTAAA
65 TTATTTAATTTATAGGATTCAAATATAAATTATTGTATTCATTCATTCATATG-TAGTTCTTAAA
4912515 AGTACACATGTTTGTG
129 AGTACACATGTTTGTG
4912531 CAAACGAATT
Statistics
Matches: 273, Mismatches: 60, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
194 4 0.01
195 266 0.97
196 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (194 bp):
ATCTTCATTTATTCTTATGCAGTTCTTAATATTACACGTGTTTTGCAAATGTCAATCTTATAATT
TATTTAATTTATAGGATTCAAATATAAATTATTGTATTCATTCATTCATATGTAGTTCTTAAAAG
TACACATGTTTGTGAAGATCGATCATATAATTGAATTGATTTTTAGAGTTAAAATACAAACCAT
Found at i:4913057 original size:26 final size:26
Alignment explanation
Indices: 4913024--4913073 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
4913014 GAGTTGTCCA
*
4913024 AAAATCACATATATGGTTATGAATCC
1 AAAATCACATATATAGTTATGAATCC
*
4913050 AAAATCACATATTTAGTTATGAAT
1 AAAATCACATATATAGTTATGAAT
4913074 ATGTCCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (26 bp):
AAAATCACATATATAGTTATGAATCC
Found at i:4913573 original size:26 final size:26
Alignment explanation
Indices: 4913544--4913596 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
4913534 AGCAAAGTTG
*
4913544 TCCAAAATCACATATATGGTTATGAA
1 TCCAAAATCACATATATGATTATGAA
*
4913570 TCCAAAATCACATATTTGATTATGAA
1 TCCAAAATCACATATATGATTATGAA
4913596 T
1 T
4913597 ATGTCCAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (26 bp):
TCCAAAATCACATATATGATTATGAA
Found at i:4913912 original size:11 final size:12
Alignment explanation
Indices: 4913887--4913916 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4913877 ATTGAAAAGG
4913887 AAATATAATTTA
1 AAATATAATTTA
*
4913899 AAATATAATTAA
1 AAATATAATTTA
4913911 AAATAT
1 AAATAT
4913917 TTAACTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATATAATTTA
Found at i:4913978 original size:15 final size:16
Alignment explanation
Indices: 4913948--4913980 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4913938 ATATTAATGC
*
4913948 TATTTAATTTTTAAAA
1 TATTTAATTATTAAAA
4913964 TATTTAA-TATTAAAA
1 TATTTAATTATTAAAA
4913979 TA
1 TA
4913981 ACAGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTAATTATTAAAA
Found at i:4917878 original size:27 final size:26
Alignment explanation
Indices: 4917848--4917898 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
4917838 TATAAACACA
4917848 GATAATAATATTTAATAAATTTTTTTG
1 GATAATAATATTTAAT-AATTTTTTTG
4917875 GATAATAATATTTAATAATTTTTT
1 GATAATAATATTTAATAATTTTTT
4917899 GACTCGGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (26 bp):
GATAATAATATTTAATAATTTTTTTG
Found at i:4921940 original size:12 final size:12
Alignment explanation
Indices: 4921923--4921957 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4921913 AAATAGGGAG
4921923 AAAATAGCAAAT
1 AAAATAGCAAAT
4921935 AAAATAGCAAA-
1 AAAATAGCAAAT
*
4921946 AAAGTAGCAAAT
1 AAAATAGCAAAT
4921958 TTTTTTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.66, C:0.09, G:0.11, T:0.14
Consensus pattern (12 bp):
AAAATAGCAAAT
Found at i:4924711 original size:11 final size:11
Alignment explanation
Indices: 4924695--4924719 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4924685 TTTTATACTA
4924695 AATAAAAGAAT
1 AATAAAAGAAT
4924706 AATAAAAGAAT
1 AATAAAAGAAT
4924717 AAT
1 AAT
4924720 CTTGATGCAT
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:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (11 bp):
AATAAAAGAAT
Found at i:4926355 original size:27 final size:28
Alignment explanation
Indices: 4926322--4926375 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
4926312 AATTTGTAAC
4926322 GTTATTTGGTAAC-GTTTATTTTTAATA
1 GTTATTTGGTAACAGTTTATTTTTAATA
* *
4926349 GTTATTTGGTAACATTTTCTTTTTAAT
1 GTTATTTGGTAACAGTTTATTTTTAAT
4926376 TTGTAACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.24, C:0.06, G:0.13, T:0.57
Consensus pattern (28 bp):
GTTATTTGGTAACAGTTTATTTTTAATA
Found at i:4929148 original size:6 final size:6
Alignment explanation
Indices: 4929134--4929163 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
4929124 GATTGAGCAC
4929134 AAAAA- AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
4929164 GTTTACTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4939131 original size:25 final size:25
Alignment explanation
Indices: 4939097--4939146 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4939087 ACTACAATAG
4939097 GTTAATTACTTGACATAATTTTCAC
1 GTTAATTACTTGACATAATTTTCAC
4939122 GTTAATTACTTGACATAATTTTCAC
1 GTTAATTACTTGACATAATTTTCAC
4939147 AAACTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (25 bp):
GTTAATTACTTGACATAATTTTCAC
Found at i:4940631 original size:14 final size:14
Alignment explanation
Indices: 4940612--4940665 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
4940602 ATGACCCAAC
4940612 CTAATTTCGATTCA
1 CTAATTTCGATTCA
*
4940626 CTAATTCTCGATTTA
1 CTAATT-TCGATTCA
*
4940641 CTAACTT-GATTCTA
1 CTAATTTCGATTC-A
4940655 CTAA-TTCGATT
1 CTAATTTCGATT
4940666 TTTGAAATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 6 0.18
14 16 0.47
15 12 0.35
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.44
Consensus pattern (14 bp):
CTAATTTCGATTCA
Found at i:4944315 original size:99 final size:99
Alignment explanation
Indices: 4944033--4944329 Score: 319
Period size: 99 Copynumber: 3.0 Consensus size: 99
4944023 AGCTCAGCTT
* * * * *
4944033 GAAGGCTACTTCCAATATGACCATTGAGA-TTATTTGTTTGAACTGAGTTAACCCTATGCTCCGA
1 GAAGGCTACTTCCAATATGACTATT-AAACTGATTTGCTTGAACTGAGTTAACCCTATGTTCCGA
* * *
4944097 GGAAACTGGTTGAGAAGTATAAATTCCATCTTCTG
65 GCAAACTGGTTGAGCAGTATAAACTCCATCTTCTG
* * * * * * *
4944132 GAAGGCTATTTCTAATATGACTATTGAACTTATTTTCTTGAA-TCGAGTTAACCCTATATCCCGA
1 GAAGGCTACTTCCAATATGACTATTAAACTGATTTGCTTGAACT-GAGTTAACCCTATGTTCCGA
* * *
4944196 GCAAACCGATTGAGCCGTATAAACTCCATCTTCTG
65 GCAAACTGGTTGAGCAGTATAAACTCCATCTTCTG
* * * * *
4944231 GCAGGCTACTTCCAATATGATTATTAAACTGGTTTGCTTGAACTGAGTTAACCCTAGGTTCTGAG
1 GAAGGCTACTTCCAATATGACTATTAAACTGATTTGCTTGAACTGAGTTAACCCTATGTTCCGAG
* * * *
4944296 TAAATTGGTTGATCTGTATAAACTCCATCTTCTG
66 CAAACTGGTTGAGCAGTATAAACTCCATCTTCTG
4944330 AGAGCCTTTC
Statistics
Matches: 161, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
98 2 0.01
99 158 0.98
100 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (99 bp):
GAAGGCTACTTCCAATATGACTATTAAACTGATTTGCTTGAACTGAGTTAACCCTATGTTCCGAG
CAAACTGGTTGAGCAGTATAAACTCCATCTTCTG
Found at i:4944419 original size:16 final size:16
Alignment explanation
Indices: 4944398--4944430 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4944388 AGTGTAATTT
4944398 AAATTATTTATATCTG
1 AAATTATTTATATCTG
4944414 AAATTATTTATATCTG
1 AAATTATTTATATCTG
4944430 A
1 A
4944431 TAGGCATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
AAATTATTTATATCTG
Found at i:4950658 original size:9 final size:10
Alignment explanation
Indices: 4950624--4950667 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
4950614 TAGTATTTGG
4950624 AAAATTTAAA
1 AAAATTTAAA
* *
4950634 ATGATTTTCAAA
1 A-AAATTT-AAA
4950646 AAAATTTAAA
1 AAAATTTAAA
4950656 AAAATTTAAA
1 AAAATTTAAA
4950666 AA
1 AA
4950668 TTAAATCGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 16 0.57
11 8 0.29
12 4 0.14
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:4961359 original size:305 final size:302
Alignment explanation
Indices: 4960601--4961470 Score: 1078
Period size: 304 Copynumber: 2.9 Consensus size: 302
4960591 ATTTCACAAG
* * * *
4960601 TTCATCATTTCGCCTTCAATTATAATGTTTTTCTCATTTCCATAATCCAAGTTTATGACTGCCTT
1 TTCATCATTTCGCCTTCAATTATACTATTTTTCTCATTTTCATAATCCAAGTTTATGACTGCCTA
* ** *
4960666 CTCAACAAT-TTCGTCTCCAACATTCATACCTCCTTTAAATCGATAAATGACTAAATAAAATATA
66 C-CAACAATGTT-GTCTCCAACATTCGTACCTCCCCTAAATCGATAAATGACTAAATGAAA-ATA
* * * *
4960730 ACTCTAAATATCAAAGTGGTTAAAAAAACT-------TAAGAAAATAGTATAATCTAGCTTAATC
128 ACTTTAGATATCAAAGTGGTTAAAAAAACTAACACAATAAGAAAAAAGTATAATTTAGCTTAATC
*
4960788 ATTAGTAAAAGCTTAATTACATTATACAAGAAAACTAAACCTCCAACTATACCAAAAATAACATC
193 ATTAGTAAAAGCTTAATTACATTATAAAAGAAAACTAAACCTCCAACTATACC---AA-AA-A--
*
4960853 CTTAACATCACATGATAAGTTCGATATTCAAATTTTACAAGTCCATGGATAACA
251 --TAACATCACATGATAAGTTCGAAATTCAAATTTTACAAGTCCATGGATAACA
* * * *
4960907 TTCATCATTTCACCTTCAATTATACTATTTTTCTCATTTTGATAATCCAGGTTTATGATTGCCTT
1 TTCATCATTTCGCCTTCAATTATACTATTTTTCTCATTTTCATAATCCAAGTTTATGACTGCC-T
* * *
4960972 ACCAACAATGTCGTCTCCAACATTCGTACCTCCCCAAAATTGATAAATGACTAAATGAAACATAA
65 ACCAACAATGTTGTCTCCAACATTCGTACCTCCCCTAAATCGATAAATGACTAAATGAAA-ATAA
* ** *
4961037 CTTTAGATATAAAAGTGGTTAAAAAAACTAACACAATAAGAAAACGGTATAATTTAGCTTAATTA
129 CTTTAGATATCAAAGTGGTTAAAAAAACTAACACAATAAGAAAAAAGTATAATTTAGCTTAATCA
** * * *
4961102 TTAAAAAAAGCTTAATCACATTATAAAAGAAAACTACACCTCCAATTATACCAAAAATAACATCA
194 TTAGTAAAAGCTTAATTACATTATAAAAGAAAACTAAACCTCCAACTATACCAAAAATAACATCA
* *
4961167 CATGATAAGTTTGAAATTCAAATTTTACAAGTCTATGGATAACA
259 CATGATAAGTTCGAAATTCAAATTTTACAAGTCCATGGATAACA
* * * * * *
4961211 TTCATTATTTCGTCTTCAATTATACCTTTTTTTCTCGTTTTCATAATCCAAATTTATGACTACAC
1 TTCATCATTTCGCCTTCAATTATA-CTATTTTTCTCATTTTCATAATCCAAGTTTATGACTGC-C
*
4961276 TACCAACAATGTTGTCTACAACATTCGTACCTCCCCTAAATCGATAAATGACTAAATGAAAAGTA
64 TACCAACAATGTTGTCTCCAACATTCGTACCTCCCCTAAATCGATAAATGACTAAATGAAAA-TA
* * *
4961341 ACTTTAGATATCAAAGTGGCTT-TAAAAATTAACACAATAA-AAAAAAGTATAATTTAACTTAAT
128 ACTTTAGATATCAAAGTGG-TTAAAAAAACTAACACAATAAGAAAAAAGTATAATTTAGCTTAAT
* * * *
4961404 CATTAGTAAAA-CTTTAATTATATTATAATAGAAAACTAAACTTCTAACTATACCAAAAATAACA
192 CATTAGTAAAAGC-TTAATTACATTATAAAAGAAAACTAAACCTCCAACTATACCAAAAATAACA
4961468 TCA
256 TCA
4961471 ACAACATCAC
Statistics
Matches: 488, Mismatches: 62, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
303 1 0.00
304 146 0.30
305 124 0.25
306 138 0.28
307 3 0.01
308 1 0.00
309 2 0.00
310 2 0.00
313 71 0.15
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (302 bp):
TTCATCATTTCGCCTTCAATTATACTATTTTTCTCATTTTCATAATCCAAGTTTATGACTGCCTA
CCAACAATGTTGTCTCCAACATTCGTACCTCCCCTAAATCGATAAATGACTAAATGAAAATAACT
TTAGATATCAAAGTGGTTAAAAAAACTAACACAATAAGAAAAAAGTATAATTTAGCTTAATCATT
AGTAAAAGCTTAATTACATTATAAAAGAAAACTAAACCTCCAACTATACCAAAAATAACATCACA
TGATAAGTTCGAAATTCAAATTTTACAAGTCCATGGATAACA
Found at i:4968738 original size:56 final size:56
Alignment explanation
Indices: 4968646--4968756 Score: 127
Period size: 56 Copynumber: 2.0 Consensus size: 56
4968636 TAGAGTATTC
* ** * *
4968646 TAATTATATTTTTTAATTTTAGTGTAAACGAGAATTAAAATA-ATTACATTTAAATG
1 TAATTATATTTTTTAATATTAAAGTAAACAAGAATTAAAATATATAAC-TTTAAATG
* *
4968702 TAATTAT-TTTTTTAATATTAAAGTAAAACAATAATTAATATATATAACTTTAAAT
1 TAATTATATTTTTTAATATTAAAGT-AAACAAGAATTAAAATATATAACTTTAAAT
4968757 TATTAAAGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
55 14 0.30
56 28 0.61
57 4 0.09
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (56 bp):
TAATTATATTTTTTAATATTAAAGTAAACAAGAATTAAAATATATAACTTTAAATG
Found at i:4970917 original size:20 final size:20
Alignment explanation
Indices: 4970892--4970933 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4970882 AAAAACTAAG
4970892 AAAATAGTATAATTTAGCTT
1 AAAATAGTATAATTTAGCTT
4970912 AAAATAGTATAATTTAGCTT
1 AAAATAGTATAATTTAGCTT
4970932 AA
1 AA
4970934 TCATTAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAATAGTATAATTTAGCTT
Found at i:4970950 original size:18 final size:19
Alignment explanation
Indices: 4970927--4970965 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
4970917 AGTATAATTT
4970927 AGCTTAA-T-CATTAGTAAA
1 AGCTTAATTACATTA-TAAA
4970945 AGCTTAATTACATTATAAA
1 AGCTTAATTACATTATAAA
4970964 AG
1 AG
4970966 AAAACTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 7 0.37
20 5 0.26
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (19 bp):
AGCTTAATTACATTATAAA
Found at i:4971313 original size:312 final size:309
Alignment explanation
Indices: 4970917--4971640 Score: 1044
Period size: 312 Copynumber: 2.3 Consensus size: 309
4970907 AGCTTAAAAT
*
4970917 AGTATAATTTAGCTTAATCATTAGTAAAAGCTTAATTACATTATAAAAGAAAACTAAACCTCCAA
1 AGTATAATTTAGCTTAATCATTAGTAAAAGCTTAATTATATTAT-AAAGAAAACTAAACCTCCAA
*
4970982 CTATACCAAAAATAACATCCATAACATCACATGATAAGTTCAAAATTCAAATTTTACAAGTCCAT
65 CTATACCAAAAATAACATCCATAACATCACATGATAAGTTCAAAATTCAAATTTCACAAGTCCAT
* * * *
4971047 GGATAACATTCATCATTTCACCTTCAACTATACTATTTTTCTCATTTTGATAATCCAGGTTTAT-
130 AGATAACATTCATCATTTCGCCTTCAATTATACTATTTTTCTCATTTTCATAATCCAGGTTTATG
* * *
4971111 ACCTGCCCTACCAACAATGTCATCTCCAACAGTCGTACCTCCCCTCAATTGATAAATGACTAAAT
195 A-CTGCCCTACCAACAATGTCGTCTCCAACATTCGTACCTCCCCTAAATTGATAAATGACTAAAT
*
4971176 GAAATGTAACTTTAGATATAAAAGTGGTTAAAAAATTAACACAATAAGAAA
259 GAAATGTAACTTTAGATATCAAAGTGGTTAAAAAATTAACACAATAAGAAA
4971227 ACGGTATAATTTAGCTTAATCATTAG-AAAAGGCTTAATTATATTATAAAGGAAAACTAAACCTC
1 A--GTATAATTTAGCTTAATCATTAGTAAAA-GCTTAATTATATTATAAA-GAAAACTAAACCTC
* ** *
4971291 CAATTATACCAAAAATAACATCCATAACATCACATGATAAGTTTGAAATTCAAATTTCACAATTC
62 CAACTATACCAAAAATAACATCCATAACATCACATGATAAGTTCAAAATTCAAATTTCACAAGTC
* * **
4971356 CTTAGATAACATTCATCATTTTGCCTTCAATTATACT-TCTTTTCTCATTTTCATAATCCAAATT
127 CATAGATAACATTCATCATTTCGCCTTCAATTATACTAT-TTTTCTCATTTTCATAATCCAGGTT
* * * ***
4971420 TATGACTACTCTACCAACAATGTTGTCTCCAACATTCGTACCTCCCCTAAACCAATAAATGACTA
191 TATGACTGCCCTACCAACAATGTCGTCTCCAACATTCGTACCTCCCCTAAATTGATAAATGACTA
* **
4971485 AATGAAAAGTAACTTTAGATATCAAAGTGGTTTTCAAAATTAACACAATAA-AAA
256 AATGAAATGTAACTTTAGATATCAAAGTGG-TTAAAAAATTAACACAATAAGAAA
* *
4971539 AGTACAATTTAGCTTAATCATTAGTAAAA-CTTTAATTATATTATAATAGAAAACTAAACTTCCA
1 AGTATAATTTAGCTTAATCATTAGTAAAAGC-TTAATTATATTATAA-AGAAAACTAAACCTCCA
* *
4971603 ACTATACCAAAAATAACATCGATAACATCACATAATAA
64 ACTATACCAAAAATAACATCCATAACATCACATGATAA
4971641 TGTCATTTTT
Statistics
Matches: 372, Mismatches: 32, Indels: 20
0.88 0.08 0.05
Matches are distributed among these distances:
309 1 0.00
310 88 0.24
311 13 0.03
312 251 0.67
313 19 0.05
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (309 bp):
AGTATAATTTAGCTTAATCATTAGTAAAAGCTTAATTATATTATAAAGAAAACTAAACCTCCAAC
TATACCAAAAATAACATCCATAACATCACATGATAAGTTCAAAATTCAAATTTCACAAGTCCATA
GATAACATTCATCATTTCGCCTTCAATTATACTATTTTTCTCATTTTCATAATCCAGGTTTATGA
CTGCCCTACCAACAATGTCGTCTCCAACATTCGTACCTCCCCTAAATTGATAAATGACTAAATGA
AATGTAACTTTAGATATCAAAGTGGTTAAAAAATTAACACAATAAGAAA
Found at i:4974656 original size:11 final size:12
Alignment explanation
Indices: 4974634--4974659 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4974624 GATGAGAGGC
4974634 TTAGATTTTTTT
1 TTAGATTTTTTT
4974646 TTAGATTTTTTT
1 TTAGATTTTTTT
4974658 TT
1 TT
4974660 GTTTGAGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTAGATTTTTTT
Found at i:4974997 original size:26 final size:25
Alignment explanation
Indices: 4974899--4975000 Score: 91
Period size: 26 Copynumber: 4.0 Consensus size: 25
4974889 TTTTATCATC
*
4974899 ATTTATTTTAAGTTTTATATATATT
1 ATTTATTTTAAATTTTATATATATT
* *
4974924 ATTTATTTTAAGCTGTTT-TACATATT
1 ATTTATTTTAA-AT-TTTATATATATT
* *
4974950 ATTTA-TTTAAATTTCTTTTATATGTT
1 ATTTATTTTAAA-TT-TTATATATATT
*
4974976 ATTTATTGTAAATTATTATATATAT
1 ATTTATTTTAAATT-TTATATATAT
4975001 ATCTTTCAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
24 1 0.02
25 19 0.31
26 34 0.55
27 8 0.13
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (25 bp):
ATTTATTTTAAATTTTATATATATT
Found at i:4975770 original size:6 final size:6
Alignment explanation
Indices: 4975754--4975790 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
4975744 ATATTTCAAA
*
4975754 AAAAAG GAAAAG -AAAA- AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
4975791 GATGAGAGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 8 0.29
6 20 0.71
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4975772 original size:16 final size:16
Alignment explanation
Indices: 4975751--4975792 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
4975741 AAAATATTTC
*
4975751 AAAAAAAAGGAAAAGA
1 AAAAAAAAGAAAAAGA
4975767 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
*
4975783 AAAAGAAAGA
1 AAAAAAAAGA
4975793 TGAGAGGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:4976794 original size:45 final size:44
Alignment explanation
Indices: 4976682--4976795 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 44
4976672 TCATCATGGT
* * * * *
4976682 GAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAC
1 GAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAC
* ** *
4976726 CAGCCTTATCTTCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGC
1 GAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACA-C
* *
4976771 GAATCTTATGTCCCTGACGTTGCAG
1 GAATCTTATCTCCCTGAAGTTGCAG
4976796 TGGAACAAAT
Statistics
Matches: 54, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
44 34 0.63
45 20 0.37
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (44 bp):
GAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAC
Found at i:4976942 original size:143 final size:141
Alignment explanation
Indices: 4976684--4977127 Score: 589
Period size: 143 Copynumber: 3.1 Consensus size: 141
4976674 ATCATGGTGA
*
4976684 ATCTTAT-TTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTTCCTGAAGTTG
1 ATCTTATCTT-CCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAG-CTTATCTCCCT-AAGTTG
* * *
4976748 CAGCGGAGCAGACTGAAGACAGCGAATCTTATGTCCCTGACGTTGCAGTGGAACAAATTAAAGCT
63 CAGCGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCT
4976813 ACAAATTATGGCGG
128 ACAAATTATGGCGG
* * *
4976827 ATCTTATCTTCCTGAAGTTACAGTGGAGTAGATTGAAGCCACCAGCTTAATCTCCCTACAGTTGC
1 ATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCTT-ATCTCCCTA-AGTTGC
* ** *
4976892 AGCGGAGCAGACT-AAGGACAGTGAATCTCATTTCCCTGGTGTTGCAGTGGAACATATTAAAGCT
64 AGCGGAGCAGACTGAA-GACAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCT
4976956 ACAAATTATGGCGG
128 ACAAATTATGGCGG
* *
4976970 ATCTTATCTTCCTTAAGTTGCAGTGGAGCAGATTGAAGCCAGC--CTTATCTCCCTAAAGTTGCA
1 ATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCTTATCTCCCT-AAGTTGCA
* * * * * *
4977033 GCGGAGTAGACTGAAGACAGTAAATCTTATTTCCTTGAAGTTGTAGTGGAACAGATTAAAGCTAT
65 GCGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTAC
4977098 AAATTA---CGG
130 AAATTATGGCGG
4977107 ATCTTATC-TCTCTAAAGTTGC
1 ATCTTATCTTC-CTAAAGTTGC
4977128 GGTAAAGCAG
Statistics
Matches: 270, Mismatches: 24, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
136 2 0.01
137 20 0.07
140 74 0.27
141 6 0.02
142 6 0.02
143 160 0.59
144 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (141 bp):
ATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCTTATCTCCCTAAGTTGCAG
CGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACA
AATTATGGCGG
Found at i:4977302 original size:44 final size:44
Alignment explanation
Indices: 4977145--4977410 Score: 205
Period size: 44 Copynumber: 5.9 Consensus size: 44
4977135 CAGATCATAT
* * * **
4977145 CAAACCTTATCTCCTTGAAGTTGCAGTGAAACA-AGTTAAAAATAAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCT--A
* * *
4977191 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGATGGGCTA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAA-A---GCTA
* * *
4977240 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * *
4977284 CAAACCTTATCTCCCTGAAGTT-CAGTAGAGCAGGTTAAAGATA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * *
4977327 CCAATCTTATCTCTCTAAAGTTGTAGTGGAGCAGATTGAAGCTA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
4977371 CTAATCC-TATTTTCTTGAAGTTGCAGTGGAGCAGACTAAA
1 C-AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
4977411 ACAGTGAATC
Statistics
Matches: 174, Mismatches: 38, Indels: 18
0.76 0.17 0.08
Matches are distributed among these distances:
43 34 0.20
44 66 0.38
45 2 0.01
46 29 0.17
47 4 0.02
48 3 0.02
49 35 0.20
51 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
Found at i:4977390 original size:87 final size:88
Alignment explanation
Indices: 4977196--4977404 Score: 208
Period size: 87 Copynumber: 2.3 Consensus size: 88
4977186 ATAAACCAAT
* * * *
4977196 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATAGAAGATGGGCTACAAATCTTATCTCCCTGAAG
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTA-AAGA-----TACCAATCTTATCTCCCTAAAG
*
4977260 TTGCAGTGGAGTAGATTAAAGCCACAAAC
60 TTGCAGTGGAGCAGATTAAAGCCACAAAC
* *
4977289 CTTATCTCCCTGAAGTT-CAGTAGAGCAGGTTAAAGATACCAATCTTATCTCTCTAAAGTTGTAG
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTAAAGATACCAATCTTATCTCCCTAAAGTTGCAG
* * *
4977353 TGGAGCAGATTGAAGCTACTAATC
66 TGGAGCAGATTAAAGCCAC-AAAC
* * * *
4977377 C-TATTTTCTTGAAGTTGCAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAG
4977405 ACTAAAACAG
Statistics
Matches: 99, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
87 52 0.53
88 14 0.14
92 13 0.13
93 20 0.20
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (88 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTAAAGATACCAATCTTATCTCCCTAAAGTTGCAG
TGGAGCAGATTAAAGCCACAAAC
Found at i:4979026 original size:26 final size:26
Alignment explanation
Indices: 4978977--4979045 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
4978967 GGTTTTATAT
* * *
4978977 ATATTATTTATTTTAAGCTGTTTTCC
1 ATATTATTTATTTAAAGCTCTTTTAC
** *
4979003 ATATTATTTATTTAAATTTCTTTTAT
1 ATATTATTTATTTAAAGCTCTTTTAC
*
4979029 ATGTTATTTATTGTAAA
1 ATATTATTTATT-TAAA
4979046 CTATTATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
26 31 0.89
27 4 0.11
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (26 bp):
ATATTATTTATTTAAAGCTCTTTTAC
Found at i:4979084 original size:17 final size:17
Alignment explanation
Indices: 4979062--4979095 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4979052 TATATATATA
*
4979062 TATATATCTTTCAAATT
1 TATATATATTTCAAATT
*
4979079 TATATATATTTTAAATT
1 TATATATATTTCAAATT
4979096 GTTTTATATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATATATTTCAAATT
Found at i:4979084 original size:19 final size:17
Alignment explanation
Indices: 4979060--4979095 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
4979050 TATATATATA
4979060 TATATATATCTTTCAAATT
1 TATATATAT-TTT-AAATT
4979079 TATATATATTTTAAATT
1 TATATATATTTTAAATT
4979096 GTTTTATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 9 0.53
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATATATTTTAAATT
Found at i:4979125 original size:25 final size:24
Alignment explanation
Indices: 4979097--4979160 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
4979087 TTTTAAATTG
*
4979097 TTTTATATGTTTTTTTCTTTATTTA
1 TTTTATATGTTTTTTT-GTTATTTA
* *
4979122 TTTTAAATTGTTTTATTGTTATTTA
1 TTTTATA-TGTTTTTTTGTTATTTA
4979147 TTTT-TA-GTTTTTTT
1 TTTTATATGTTTTTTT
4979161 ATATTTTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
22 7 0.21
24 1 0.03
25 17 0.52
26 8 0.24
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (24 bp):
TTTTATATGTTTTTTTGTTATTTA
Found at i:4979161 original size:25 final size:25
Alignment explanation
Indices: 4979115--4979205 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 25
4979105 GTTTTTTTCT
4979115 TTATTTATTTTAAATTGTTTTATTG
1 TTATTTATTTTAAATTGTTTTATTG
* * * *
4979140 TTATTTATTTTTAGTTTTTTTATATT
1 TTATTTATTTTAAATTGTTTTAT-TG
* * *
4979166 TTGTTTATTTGAAACT-TTTTA---
1 TTATTTATTTTAAATTGTTTTATTG
*
4979187 TTATTTATTTTGAATTGTT
1 TTATTTATTTTAAATTGTT
4979206 CTTACAAATC
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
21 12 0.24
22 2 0.04
25 25 0.49
26 12 0.24
ACGTcount: A:0.22, C:0.01, G:0.08, T:0.69
Consensus pattern (25 bp):
TTATTTATTTTAAATTGTTTTATTG
Found at i:4982853 original size:99 final size:99
Alignment explanation
Indices: 4982610--4982899 Score: 289
Period size: 99 Copynumber: 2.9 Consensus size: 99
4982600 CATCTTCGAG
* * * * *
4982610 GCTACTTCCAACATGACCGTT-AAGTGTTTTTTCTTGAAGTGAGTTAACCTTACACTCCAAGTAA
1 GCTACTTCCAATATGACCGTTAAATTG-ATTTTCTTGAACTGAGTTAACCCTACACTCCAAGTAA
* * * *
4982674 ACCGATTTAGCTATATAAACTCCATCTTTTGGGAG
65 ACCGATTGAGCTATATAAACTCCATCTTCTGGAAA
* * *** * ** *
4982709 GCTACTTCCAATATGACCATTGAGATT-ATTGAATTGAACTAAGTTAACCCTACGTTTCAAGTAA
1 GCTACTTCCAATATGACCGTT-AAATTGATTTTCTTGAACTGAGTTAACCCTACACTCCAAGTAA
* * * *
4982773 ATCGATTGAGTTGTATATACTCCATCTTCTGGAAA
65 ACCGATTGAGCTATATAAACTCCATCTTCTGGAAA
* * * *
4982808 GCTACTTCCAATATGACTGTTAAATTGATTTTCTTCAACTGAGTTAACCCTGCACTCCGAGTAAA
1 GCTACTTCCAATATGACCGTTAAATTGATTTTCTTGAACTGAGTTAACCCTACACTCCAAGTAAA
*
4982873 CCGATTAAGTCT-TATAAACTCCATCTT
66 CCGATTGAG-CTATATAAACTCCATCTT
4982900 TTGGGAGCAT
Statistics
Matches: 148, Mismatches: 39, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
98 4 0.03
99 141 0.95
100 1 0.01
101 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (99 bp):
GCTACTTCCAATATGACCGTTAAATTGATTTTCTTGAACTGAGTTAACCCTACACTCCAAGTAAA
CCGATTGAGCTATATAAACTCCATCTTCTGGAAA
Found at i:4991980 original size:21 final size:21
Alignment explanation
Indices: 4991956--4991999 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
4991946 GAGGTCAAGG
* *
4991956 GGCATTAGAAGAACTAGTCTA
1 GGCATAAGAAGAACTAGGCTA
* *
4991977 GGCATAAGAGGAGCTAGGCTA
1 GGCATAAGAAGAACTAGGCTA
4991998 GG
1 GG
4992000 TTAATTGAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.18
Consensus pattern (21 bp):
GGCATAAGAAGAACTAGGCTA
Found at i:4995403 original size:3 final size:3
Alignment explanation
Indices: 4995395--4995421 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4995385 CAGGTTTGCA
4995395 GTG GTG GTG GTG GTG GTG GTG GTG GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG
4995422 ACGGCGGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GTG
Found at i:4996355 original size:17 final size:17
Alignment explanation
Indices: 4996333--4996366 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4996323 ATCCACTAAT
*
4996333 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
4996350 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
4996367 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:5000984 original size:17 final size:17
Alignment explanation
Indices: 5000962--5000995 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5000952 ATCCACTAAT
*
5000962 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
5000979 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
5000996 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:5002866 original size:120 final size:121
Alignment explanation
Indices: 5002722--5002965 Score: 472
Period size: 121 Copynumber: 2.0 Consensus size: 121
5002712 TTTTATCTTA
5002722 TTTAACTCAAAAAACTTTAATATTTATAAAAATGAATTTAATTT-AAAATATTTATTAAAATAAT
1 TTTAACTCAAAAAACTTTAATATTTATAAAAATGAATTTAATTTAAAAATATTTATTAAAATAAT
*
5002786 TTGAAATGAACAGTAAATTTAAGTTTTAAGAATCCAATGGCCGACACTACTTAGTG
66 TTGAAATGAACAGTAAATTTAAGTTTTAAGAACCCAATGGCCGACACTACTTAGTG
5002842 TTTAACTCAAAAAACTTTAATATTTATAAAAATGAATTTAATTTAAAAATATTTATTAAAATAAT
1 TTTAACTCAAAAAACTTTAATATTTATAAAAATGAATTTAATTTAAAAATATTTATTAAAATAAT
5002907 TTGAAATGAACAGTAAATTTAAGTTTTAAGAACCCAATGGCCGACACTACTTAGTG
66 TTGAAATGAACAGTAAATTTAAGTTTTAAGAACCCAATGGCCGACACTACTTAGTG
5002963 TTT
1 TTT
5002966 TGGCCCCATT
Statistics
Matches: 122, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
120 44 0.36
121 78 0.64
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (121 bp):
TTTAACTCAAAAAACTTTAATATTTATAAAAATGAATTTAATTTAAAAATATTTATTAAAATAAT
TTGAAATGAACAGTAAATTTAAGTTTTAAGAACCCAATGGCCGACACTACTTAGTG
Found at i:5003700 original size:12 final size:12
Alignment explanation
Indices: 5003683--5003708 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5003673 TCCATTTAAG
5003683 TTTTTGTTTGCT
1 TTTTTGTTTGCT
5003695 TTTTTGTTTGCT
1 TTTTTGTTTGCT
5003707 TT
1 TT
5003709 ATTAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.15, T:0.77
Consensus pattern (12 bp):
TTTTTGTTTGCT
Found at i:5006291 original size:90 final size:89
Alignment explanation
Indices: 5006083--5006325 Score: 228
Period size: 90 Copynumber: 2.7 Consensus size: 89
5006073 AGTACACAAA
* * *
5006083 AAATTAAATTTACAGATACAATAAAATACAAAC-ATTCTACAATATTAATACACAAAAATATAAA
1 AAATTAAATTTACACATACAAAAAAATACAAACAATGCTACAATATTAATACACAAAAATATAAA
*
5006147 ATTCAAAAAAAAATAATACGCACT
66 ATTCAAAAAAAAATAATACGCAAT
* ** * * *
5006171 AAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTA-AA-ATTAATACACGAAAAAT-T
1 AAATTAAATTTACACATACAAAAAAATACAAACA-AT-GCTACAATATTAATACAC-AAAAATAT
* * * * *
5006233 TAAATTCAAACTACATATAATACGGAAT
63 AAAATTCAAA-AAAAAATAATACGCAAT
* * * *
5006261 AAATTAAATTTACATATACAAAAAAATACAAAC-ATTCTA-AGAAATTAATACACGAAAATATAA
1 AAATTAAATTTACACATACAAAAAAATACAAACAATGCTACA-ATATTAATACACAAAAATATAA
5006324 AA
65 AA
5006326 ATGAAACCTT
Statistics
Matches: 123, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
87 3 0.02
88 35 0.28
89 34 0.28
90 49 0.40
91 2 0.02
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.24
Consensus pattern (89 bp):
AAATTAAATTTACACATACAAAAAAATACAAACAATGCTACAATATTAATACACAAAAATATAAA
ATTCAAAAAAAAATAATACGCAAT
Found at i:5007158 original size:110 final size:106
Alignment explanation
Indices: 5006959--5007163 Score: 252
Period size: 107 Copynumber: 1.9 Consensus size: 106
5006949 TGCCGGCCGG
* * *
5006959 CACCCAATTTTTTTTAAATACACTGGTGCCAGCCATCAGTATTCCAAAATAAAAAAATGCATTGG
1 CACCCAATTTTTTTTAAATACACTAGTGCCAGCCATCAGTATCCCAAAAAAAAAAAATGCATTGG
* * *
5007024 AAGCCGAAAATTGTACTTGGTGCCGACCATGTAATGGTCGT
66 AAGCCGAAAATTATACCTGCTGCCGACCATGTAATGGTCGT
* * *
5007065 CACCCAATTTTTTTTTAAATATACTAGTGCC-GACCATTAGTGTCCCAAAGTAAAAAAAAAGTGC
1 CACCCAA-TTTTTTTTAAATACACTAGTGCCAG-CCATCAGTATCCCAAA--AAAAAAAAA-TGC
*
5007129 ATTGGGAA-CCGAAAATTATACCTGCTGCCGGCCAT
61 ATT-GGAAGCCGAAAATTATACCTGCTGCCGACCAT
5007164 CTACTGCCAA
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
106 8 0.10
107 34 0.41
109 8 0.10
110 29 0.35
111 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (106 bp):
CACCCAATTTTTTTTAAATACACTAGTGCCAGCCATCAGTATCCCAAAAAAAAAAAATGCATTGG
AAGCCGAAAATTATACCTGCTGCCGACCATGTAATGGTCGT
Found at i:5007572 original size:14 final size:15
Alignment explanation
Indices: 5007549--5007596 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
5007539 TAAATTTAAA
5007549 TTTTAGTTTTGATAT
1 TTTTAGTTTTGATAT
* *
5007564 TTTTA-TTTTCATAA
1 TTTTAGTTTTGATAT
5007578 TTTTAGTTTTGATAT
1 TTTTAGTTTTGATAT
5007593 TTTT
1 TTTT
5007597 TAGATTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (15 bp):
TTTTAGTTTTGATAT
Found at i:5010030 original size:12 final size:14
Alignment explanation
Indices: 5010013--5010051 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
5010003 TACTTTATGT
5010013 TTTTATTATTA-C-
1 TTTTATTATTATCA
5010025 TTTTATTATTATCA
1 TTTTATTATTATCA
5010039 TTTTATTTATTAT
1 TTTTA-TTATTAT
5010052 TTATTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 5 0.21
15 7 0.29
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTATTATCA
Found at i:5010035 original size:15 final size:15
Alignment explanation
Indices: 5010014--5010076 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 15
5010004 ACTTTATGTT
5010014 TTTATTATTACTTTTA
1 TTTATTATTA-TTTTA
*
5010030 -TTATTATCATTTTA
1 TTTATTATTATTTTA
5010044 TTTATTATTTATTTATA
1 TTTATTA-TTATTT-TA
*
5010061 TCTTTTTATATATTTT
1 T-TTATTAT-TATTTT
5010077 TAAACTCTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 5 0.13
15 14 0.36
16 5 0.13
17 5 0.13
18 10 0.26
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATTATTATTTTA
Found at i:5010062 original size:25 final size:27
Alignment explanation
Indices: 5010013--5010078 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 27
5010003 TACTTTATGT
5010013 TTTTA-TTATTACTTT-TATTATTATCA
1 TTTTATTTATTA-TTTATATTATTATCA
*
5010039 TTTTATTTATTATTTAT-TTA-TATCT
1 TTTTATTTATTATTTATATTATTATCA
*
5010064 TTTTATATATT-TTTA
1 TTTTATTTATTATTTA
5010079 AACTCTAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 4 0.11
25 14 0.39
26 11 0.31
27 7 0.19
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTATTTATTATTTATATTATTATCA
Found at i:5017208 original size:6 final size:6
Alignment explanation
Indices: 5017193--5017242 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
5017183 TCACTTGAAA
* *
5017193 AAAAAT AAAAAG AAAAAG AAAATAG AAAAAA AAAGAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAA-AG AAAAAG AAA-AAG AAAAAG AAAAAG
5017243 GAGAGGCCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
6 28 0.72
7 11 0.28
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:5017219 original size:13 final size:12
Alignment explanation
Indices: 5017193--5017242 Score: 64
Period size: 13 Copynumber: 4.0 Consensus size: 12
5017183 TCACTTGAAA
*
5017193 AAAAATAAAAAG
1 AAAAAGAAAAAG
5017205 AAAAAGAAAATAG
1 AAAAAGAAAA-AG
*
5017218 AAAAAAAAAGAAG
1 AAAAAGAAA-AAG
5017231 AAAAAGAAAAAG
1 AAAAAGAAAAAG
5017243 GAGAGGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 12 0.36
13 20 0.61
14 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:5018191 original size:11 final size:11
Alignment explanation
Indices: 5018175--5018199 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5018165 GATTATTTTT
5018175 AAAAAAATAAA
1 AAAAAAATAAA
5018186 AAAAAAATAAA
1 AAAAAAATAAA
5018197 AAA
1 AAA
5018200 TTATGTTAAA
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:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:5021013 original size:143 final size:143
Alignment explanation
Indices: 5020751--5021305 Score: 806
Period size: 143 Copynumber: 3.9 Consensus size: 143
5020741 GATTGAAATC
* * *
5020751 ATTATGGCGAATCTTATCTTCCTGAAGTT-TCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTC
1 ATTATGGCGGATATTATCTTCCTGAAGTTGT-AGTGGAGCAGATTGAAGCCACCAGCCTTATCTC
** * * * * **
5020815 TTTGAAGTTGTAGCGGAGTAGACTGAAGACAGCGAATCTTATTTCCTTGATGTTGCAGTGGAACA
65 CCTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
*
5020880 AATTAAAGTTACAA
130 AATTAAAGCTACAA
* * *
5020894 ATTATGGCGGATCTTATCTTCCTGAAGTTGTAGTAGAGCAGATTGAAGCCACCAGTCTTATCTCC
1 ATTATGGCGGATATTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
5020959 CTGAAGTTTCAGCGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACAA
5021024 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* *
5021037 ATTATGGCAGATATTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCC
1 ATTATGGCGGATATTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
5021102 CTGAAGTTGCAGTGGAGCAGACTGAAGACAACGAATCTTATTTCTCTGGCGTTGCAGTAGAATAA
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACAA
5021167 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * * **
5021180 ATTATGGTGGATATGATCTTCCTGAAGTTGCAGTGGAGTAGATTGAATTCACCAGCCTTATCTCC
1 ATTATGGCGGATATTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
*
5021245 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGCGTTGCAGTGGA
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGA
5021306 GCAGATTGAA
Statistics
Matches: 371, Mismatches: 40, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
143 370 1.00
144 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (143 bp):
ATTATGGCGGATATTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACAA
ATTAAAGCTACAA
Found at i:5021299 original size:45 final size:45
Alignment explanation
Indices: 5021250--5021383 Score: 121
Period size: 45 Copynumber: 3.0 Consensus size: 45
5021240 TCTCCCTGAA
5021250 GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
1 GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
* * * * ** * *
5021295 GTTGCAGTGGAGCAGATTGAAG-CCACTAGCCTTATCTCCCT-GAA
1 GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAG-C
* ** *
5021339 GTTGCAGCGAAAAAGACTAAAGA-AAGCGAATCTTATTTCCCTAGC
1 GTTGCAGCGGAGCAGACTGAAGACAA-CGAATCTTATTTCCCTAGC
5021384 TTTCTAATGG
Statistics
Matches: 65, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
43 1 0.02
44 31 0.48
45 32 0.49
46 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (45 bp):
GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
Found at i:5021341 original size:232 final size:232
Alignment explanation
Indices: 5021063--5021487 Score: 568
Period size: 232 Copynumber: 1.8 Consensus size: 232
5021053 TCTTCCTGAA
* * * ** *
5021063 GTTGTAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCCCTGAAGTTGCAGCGAAAAAGACTAAA
* * * * **
5021128 GACAA-CGAATCTTATTTCTCTGGCGTTGC-AGTAGAATA-AATTAAAGCTACAAATTATGGTGG
66 GA-AAGCGAATCTTATTTCCCTAGC-TTGCTAATAGAACAGAA-TAAAGCTACAAATTATGGCAG
* * * ** *
5021190 ATATGATCTTCCTGAAGTTGCAGTGGAGTAGATTGAATTCACCAGCCTTATCTCCCTGAAGTTGC
128 ATATGATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCACTGAAGTTGC
5021255 AGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
193 AGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
* *
5021295 GTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGAAAAAGACTAAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCCCTGAAGTTGCAGCGAAAAAGACTAAA
* * * *
5021360 GAAAGCGAATCTTATTTCCCTAGCTTTCTAATGGAACAGAATAAAGTTACAAATTATGGCAGATC
66 GAAAGCGAATCTTATTTCCCTAGCTTGCTAATAGAACAGAATAAAGCTACAAATTATGGCAGATA
* *
5021425 TTATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGCCACCAGTCTTATCTCACTGAAGTTGCA
131 TGATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCACTGAAGTTGCA
5021488 ATGGGTTAGG
Statistics
Matches: 164, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
231 5 0.03
232 157 0.96
233 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (232 bp):
GTTGCAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCCCTGAAGTTGCAGCGAAAAAGACTAAA
GAAAGCGAATCTTATTTCCCTAGCTTGCTAATAGAACAGAATAAAGCTACAAATTATGGCAGATA
TGATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCACTGAAGTTGCAGC
GGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
Found at i:5021344 original size:44 final size:44
Alignment explanation
Indices: 5021195--5021345 Score: 160
Period size: 44 Copynumber: 3.4 Consensus size: 44
5021185 GGTGGATATG
* * **
5021195 ATCTTCCTGAAGTTGCAGTGGAGTAGATTGAATTCACCAGCCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTT
* * * * **
5021239 ATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACCAGCCTT
* * *
5021284 ATTTCCCT-AGCGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTT
1 ATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTT
5021328 ATCTCCCTGAAGTTGCAG
1 ATCTCCCTGAAGTTGCAG
5021346 CGAAAAAGAC
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
44 50 0.60
45 34 0.40
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTT
Found at i:5021369 original size:89 final size:89
Alignment explanation
Indices: 5021206--5021383 Score: 268
Period size: 89 Copynumber: 2.0 Consensus size: 89
5021196 TCTTCCTGAA
* ** * ** *
5021206 GTTGCAGTGGAGTAGATTGAATTCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAAAAGACTAAA
5021271 GACAACGAATCTTATTTCCCTAGC
66 GACAACGAATCTTATTTCCCTAGC
*
5021295 GTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGAAAAAGACTAAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAAAAGACTAAA
5021360 GA-AAGCGAATCTTATTTCCCTAGC
66 GACAA-CGAATCTTATTTCCCTAGC
5021384 TTTCTAATGG
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 2 0.03
89 78 0.98
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (89 bp):
GTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAAAAGACTAAA
GACAACGAATCTTATTTCCCTAGC
Found at i:5022864 original size:12 final size:14
Alignment explanation
Indices: 5022847--5022885 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
5022837 CACTTTATGT
5022847 TTTTATTATTA-C-
1 TTTTATTATTATCA
5022859 TTTTATTATTATCA
1 TTTTATTATTATCA
5022873 TTTTATTTATTAT
1 TTTTA-TTATTAT
5022886 TTATCTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 5 0.21
15 7 0.29
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTATTATCA
Found at i:5022869 original size:15 final size:15
Alignment explanation
Indices: 5022848--5022886 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
5022838 ACTTTATGTT
5022848 TTTATTATTACTTTTA
1 TTTATTATTA-TTTTA
*
5022864 -TTATTATCATTTTA
1 TTTATTATTATTTTA
5022878 TTTATTATT
1 TTTATTATT
5022887 TATCTATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTATTATTTTA
Found at i:5031719 original size:21 final size:21
Alignment explanation
Indices: 5031677--5031719 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
5031667 GTTTAGAATG
**
5031677 TTTTTGTTTCAAAAGTGTTTT
1 TTTTTGTTTCAAAAGTACTTT
5031698 TTTTTGTCTT-AAAAGTACTTT
1 TTTTTGT-TTCAAAAGTACTTT
5031719 T
1 T
5031720 GAGAAGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60
Consensus pattern (21 bp):
TTTTTGTTTCAAAAGTACTTT
Found at i:5032679 original size:3 final size:3
Alignment explanation
Indices: 5032673--5032716 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
5032663 TGGTGGTGAT
5032673 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5032717 TCAAATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5036515 original size:2 final size:2
Alignment explanation
Indices: 5036508--5036536 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5036498 TTGCAAACCC
5036508 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
5036537 ACATCTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:5064321 original size:104 final size:103
Alignment explanation
Indices: 5064106--5064302 Score: 360
Period size: 104 Copynumber: 1.9 Consensus size: 103
5064096 CTGCACTCCA
5064106 AACAACCATCAAATTTGCACACGTGACACTTATTCATAACTTCTCTCGGTTGTAATACCATAGAA
1 AACAACCATCAAATTTGCACACGTGACACTTATTCATAACTTCTCTCGGTTGTAATACCATAGAA
* *
5064171 ATAGAAGAAGAACCTTCGGCAACAACCAATTGCACTCC
66 ATAGAAGAAGAACCTTCGGCAACAACCAATTGAAATCC
5064209 AAACAACCATCAAATTTGCACACGTGACACTTATTCATAACTTCTCTC-GTTGTAATACCATAGA
1 -AACAACCATCAAATTTGCACACGTGACACTTATTCATAACTTCTCTCGGTTGTAATACCATAGA
5064273 AATAGAAGAAGAACCTTCGGCAACAACCAA
65 AATAGAAGAAGAACCTTCGGCAACAACCAA
5064303 GGTATTGAAA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
103 46 0.49
104 47 0.51
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (103 bp):
AACAACCATCAAATTTGCACACGTGACACTTATTCATAACTTCTCTCGGTTGTAATACCATAGAA
ATAGAAGAAGAACCTTCGGCAACAACCAATTGAAATCC
Found at i:5068678 original size:50 final size:50
Alignment explanation
Indices: 5068554--5068802 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
5068544 GATAATAACA
* * ** * *
5068554 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
5068605 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
5068655 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
5068705 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
5068760 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
5068803 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:5068732 original size:100 final size:104
Alignment explanation
Indices: 5068553--5068802 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
5068543 TGATAATAAC
**
5068553 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
5068618 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
5068655 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
5068718 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
5068760 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
5068803 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Done.