Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 61 of 196
Found at i:17239425 original size:83 final size:83
Alignment explanation
Indices: 17239331--17239504 Score: 294
Period size: 83 Copynumber: 2.1 Consensus size: 83
17239321 TTCGGTTAAT
** * *
17239331 GGTTAATTCGGTTTGAAATCGATTAATTAACTGAACTTAATAAATAATATTATATATTATATGCA
1 GGTTAATTCGGTTCAAAATCGATTAATTAACCGAACTTAATAAATAATAGTATATATTATATGCA
*
17239396 TTAGGCTATTCCTAGTTC
66 TTAGGCTATTACTAGTTC
*
17239414 GGTTAATTCGGTTCAAAATCGATTAATTAACCGAATTTAATAAATAATAGTATATATTATATGCA
1 GGTTAATTCGGTTCAAAATCGATTAATTAACCGAACTTAATAAATAATAGTATATATTATATGCA
17239479 TTAGGCTATTACTAGTTC
66 TTAGGCTATTACTAGTTC
17239497 GGTTAATT
1 GGTTAATT
17239505 TAGTTAATCC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 85 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (83 bp):
GGTTAATTCGGTTCAAAATCGATTAATTAACCGAACTTAATAAATAATAGTATATATTATATGCA
TTAGGCTATTACTAGTTC
Found at i:17240738 original size:3 final size:3
Alignment explanation
Indices: 17240725--17240756 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
17240715 GAAACCATTT
*
17240725 ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
17240757 AATTCTTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:17266850 original size:27 final size:27
Alignment explanation
Indices: 17266763--17266858 Score: 90
Period size: 27 Copynumber: 3.5 Consensus size: 27
17266753 AAAGGTATAT
17266763 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
* * * *
17266790 TTTCTGGGT---TAGTTCCTTTATGTTATTGG
1 TTTCT-TGTCCATAG-T--TTTGTG-AATCGG
17266819 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
17266846 TTTCTTGTCCATA
1 TTTCTTGTCCATA
17266859 ATTAGAAAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 22 0.42
28 14 0.26
29 9 0.17
30 1 0.02
31 3 0.06
ACGTcount: A:0.14, C:0.15, G:0.21, T:0.51
Consensus pattern (27 bp):
TTTCTTGTCCATAGTTTTGTGAATCGG
Found at i:17268682 original size:26 final size:26
Alignment explanation
Indices: 17268650--17268721 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
17268640 CATCCTCAAA
17268650 CTATAATCTAGATATTGAATTGGTCT
1 CTATAATCTAGATATTGAATTGGTCT
* * *
17268676 CTCTAATCTAGATTTTAAATTGGTCT
1 CTATAATCTAGATATTGAATTGGTCT
* *
17268702 CTATAAATTTTGATATTGAA
1 CTAT-AATCTAGATATTGAA
17268722 AATTATAACT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
26 26 0.70
27 11 0.30
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.44
Consensus pattern (26 bp):
CTATAATCTAGATATTGAATTGGTCT
Found at i:17268996 original size:32 final size:33
Alignment explanation
Indices: 17268960--17269035 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
17268950 AACTTTTCCG
* * *
17268960 GAAAATATTTT-CAGGAAA-TCTACCAAACAGCA
1 GAAAATATTTTACA-CAAATTCAACCAAACACCA
*
17268992 GAAAATATTTTACACAAATTCAATCAAACACCA
1 GAAAATATTTTACACAAATTCAACCAAACACCA
17269025 GAAAATATTTT
1 GAAAATATTTT
17269036 TTAGTAAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 14 0.37
33 24 0.63
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACACAAATTCAACCAAACACCA
Found at i:17269063 original size:20 final size:20
Alignment explanation
Indices: 17269038--17269077 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17269028 AATATTTTTT
*
17269038 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
17269058 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
17269078 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:17270975 original size:27 final size:26
Alignment explanation
Indices: 17270921--17270975 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
17270911 TTATACACAT
*
17270921 TTATATATTTTTATATTTTTTAAAAA
1 TTATATATTTTTATATTTTCTAAAAA
*
17270947 TTAT-TATTTTTATAGATTTTCTAATAA
1 TTATATATTTTTAT--ATTTTCTAAAAA
17270974 TT
1 TT
17270976 TTTAGTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.36
26 4 0.16
27 12 0.48
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
TTATATATTTTTATATTTTCTAAAAA
Found at i:17275094 original size:21 final size:21
Alignment explanation
Indices: 17275064--17275118 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
17275054 AAAATATTAT
17275064 AAAA-TATAAAA-ATATAGAAA
1 AAAATTATAAAATATATA-AAA
17275084 AAAATTATAAAGATATATAAAA
1 AAAATTATAAA-ATATATAAAA
*
17275106 AAAATCATAAAAT
1 AAAATTATAAAAT
17275119 GTGTTCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 4 0.13
21 8 0.26
22 14 0.45
23 5 0.16
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAATTATAAAATATATAAAA
Found at i:17275335 original size:48 final size:47
Alignment explanation
Indices: 17275281--17275392 Score: 147
Period size: 48 Copynumber: 2.4 Consensus size: 47
17275271 GAAAATTTAT
* *
17275281 TAAAAATTTTAGAAAAAATATAAAAATATAAAAAATTATTATA-AGTA
1 TAAAAATTATAGAAAAAATATAAAAATAT-AAAAATTATTATAGAATA
* **
17275328 TAGAAAATTATAGAAAAAATATTAATGTATAAAAATTATTATAGAATA
1 TA-AAAATTATAGAAAAAATATAAAAATATAAAAATTATTATAGAATA
17275376 TAAAAA-TATAGAAAAAA
1 TAAAAATTATAGAAAAAA
17275393 AATTTCAACA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
46 11 0.19
47 19 0.33
48 28 0.48
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.30
Consensus pattern (47 bp):
TAAAAATTATAGAAAAAATATAAAAATATAAAAATTATTATAGAATA
Found at i:17275357 original size:29 final size:28
Alignment explanation
Indices: 17275299--17275366 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
17275289 TTAGAAAAAA
*
17275299 TATAAAAA-TATAAAAAATTATTATAAG
1 TATAAAAATTATAAAAAAATATTATAAG
*
17275326 TATAGAAAATTATAGAAAAAATATTA-ATG
1 TATA-AAAATTATA-AAAAAATATTATAAG
17275355 TATAAAAATTAT
1 TATAAAAATTAT
17275367 TATAGAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 4 0.11
28 12 0.33
29 10 0.28
30 10 0.28
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (28 bp):
TATAAAAATTATAAAAAAATATTATAAG
Found at i:17282467 original size:51 final size:51
Alignment explanation
Indices: 17282334--17282517 Score: 212
Period size: 51 Copynumber: 3.6 Consensus size: 51
17282324 AGTGAAAGTG
* *
17282334 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * **
17282383 ATAGGTCGCATGTGTAGTATTATGTGCAGGCTACTATGCATACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * *
17282434 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
*
17282486 ATGGTCACATGTATAGTACTATGTGCAGGCTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTA
17282518 TTATGTGAAC
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 38 0.35
51 68 0.62
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:17282580 original size:45 final size:45
Alignment explanation
Indices: 17282526--17282620 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
17282516 TATTATGTGA
* *
17282526 ACCGAACATCATTAATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
* *
17282571 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
17282616 ACCGA
1 ACCGA
17282621 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:17284169 original size:21 final size:20
Alignment explanation
Indices: 17284119--17284174 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 20
17284109 ATTAAATGGA
17284119 AATTGCAAATGATATGATTTG
1 AATTG-AAATGATATGATTTG
*
17284140 AATT-AAATGA-ATTATTGTG
1 AATTGAAATGATATGATT-TG
17284159 ATATTGAAATGTATAT
1 A-ATTGAAATG-ATAT
17284175 TGGATTGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 5 0.17
19 9 0.31
20 3 0.10
21 9 0.31
22 1 0.03
23 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (20 bp):
AATTGAAATGATATGATTTG
Found at i:17289446 original size:46 final size:46
Alignment explanation
Indices: 17289372--17289754 Score: 574
Period size: 46 Copynumber: 8.6 Consensus size: 46
17289362 TACGTATGAT
* *
17289372 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17289416 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17289462 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
17289508 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGTTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17289554 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
17289600 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17289646 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17289682 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
17289728 CACTTATCACTTTATCTCTTAATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
17289755 AGTACTCAAA
Statistics
Matches: 315, Mismatches: 12, Indels: 22
0.90 0.03 0.06
Matches are distributed among these distances:
36 28 0.09
38 2 0.01
39 1 0.00
40 3 0.01
42 3 0.01
43 1 0.00
44 12 0.04
45 5 0.02
46 260 0.83
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:17289687 original size:36 final size:36
Alignment explanation
Indices: 17289646--17289718 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
17289636 CTAAAGCTAC
*
17289646 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
17289682 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
17289718 C
1 C
17289719 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:17289694 original size:82 final size:82
Alignment explanation
Indices: 17289600--17289754 Score: 283
Period size: 82 Copynumber: 1.9 Consensus size: 82
17289590 CTAAAGCTAA
*
17289600 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
*
17289665 TGATCAGATAAGTGTAG
66 TAATCAGATAAGTGTAG
*
17289682 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
17289747 TAATCAGA
66 TAATCAGA
17289755 AGTACTCAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
TAATCAGATAAGTGTAG
Found at i:17301778 original size:24 final size:24
Alignment explanation
Indices: 17301751--17301799 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
17301741 CAATTTTATT
*
17301751 TTATATAATATACATAATTCATAC
1 TTATATAATATACATAATCCATAC
*
17301775 TTATATAATATACATGATCCATAC
1 TTATATAATATACATAATCCATAC
17301799 T
1 T
17301800 AAAAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (24 bp):
TTATATAATATACATAATCCATAC
Found at i:17304087 original size:37 final size:37
Alignment explanation
Indices: 17304043--17304116 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
17304033 ATGTAAGAAA
17304043 CTAATGCTTAATAAGCTCGTATAAAGAACTTAAACTT
1 CTAATGCTTAATAAGCTCGTATAAAGAACTTAAACTT
17304080 CTAATGCTTAATAAGCTCGTATAAAGAACTTAAACTT
1 CTAATGCTTAATAAGCTCGTATAAAGAACTTAAACTT
17304117 ACCAAATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (37 bp):
CTAATGCTTAATAAGCTCGTATAAAGAACTTAAACTT
Found at i:17307417 original size:41 final size:41
Alignment explanation
Indices: 17307339--17307436 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
17307329 ATAAAGCCTA
*
17307339 CTAGGCATAAAGCCTGATAATATACACCGACACGAAGCCCG
1 CTAGGCACAAAGCCTGATAATATACACCGACACGAAGCCCG
* * ** * * **
17307380 CTAGGCACAAAGCTTGATAATCTACATTGGCATGAAGCTTG
1 CTAGGCACAAAGCCTGATAATATACACCGACACGAAGCCCG
17307421 CTAGGCACAAAGCCTG
1 CTAGGCACAAAGCCTG
17307437 CTAGGTACAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (41 bp):
CTAGGCACAAAGCCTGATAATATACACCGACACGAAGCCCG
Found at i:17307433 original size:16 final size:16
Alignment explanation
Indices: 17307414--17307452 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
17307404 CATTGGCATG
*
17307414 AAGCTTGCTAGGCACA
1 AAGCCTGCTAGGCACA
*
17307430 AAGCCTGCTAGGTACA
1 AAGCCTGCTAGGCACA
17307446 AAGCCTG
1 AAGCCTG
17307453 GTAATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.18
Consensus pattern (16 bp):
AAGCCTGCTAGGCACA
Found at i:17312142 original size:41 final size:41
Alignment explanation
Indices: 17312085--17312241 Score: 179
Period size: 41 Copynumber: 3.8 Consensus size: 41
17312075 TTTTGTAAGT
* *
17312085 TCAGGCTTTGTGCCTAGCAGGCTTTATGCCAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
**
17312126 TCAGGCTTTATGCCTAGCAGGCTTTATATCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* * * * * * * *
17312167 TAAGACTTTATGTCTAGCAGGCTTTGTTCTGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* * *
17312208 TCGGGCTTTGTGCCTAGTAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTG
17312242 TTTTATACAA
Statistics
Matches: 94, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.36
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
Found at i:17313041 original size:18 final size:17
Alignment explanation
Indices: 17313013--17313049 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
17313003 TTCGAAAGTA
17313013 ATATGTGTATTATATAT
1 ATATGTGTATTATATAT
*
17313030 ATATGATGTATTATGTAT
1 ATATG-TGTATTATATAT
17313048 AT
1 AT
17313050 GCTGCCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (17 bp):
ATATGTGTATTATATAT
Found at i:17313131 original size:69 final size:69
Alignment explanation
Indices: 17313041--17313446 Score: 596
Period size: 69 Copynumber: 5.9 Consensus size: 69
17313031 TATGATGTAT
* * * *
17313041 TATGTATATGCTGCCTCTTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
17313106 TTGG
66 TTGG
* * * *
17313110 TATGTATATGTTGCCTATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
17313175 TTGG
66 TTGG
* * *
17313179 TATGTATATGCTGCCTATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCGGTTAAAT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
17313244 TTGG
66 TTGG
* * *
17313248 TATGTATATGTTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGTTGTTAAAT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
17313313 TTGG
66 TTGG
* * * *
17313317 TATGTATATACTACCTATTTGCTGTATATATGCTATTAAATTTTGGTGTAAAAGTGCTGTTAAAT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
17313382 TTGG
66 TTGG
* * * * *
17313386 TATGTATATGCTGCCTATTTGCTGTATATAAGCTGTCCAAATTTTGTTCTATAAATGCTGT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGT-TAAATTTTGGTGTAAAAATGCTGT
17313447 CCACATTGAT
Statistics
Matches: 311, Mismatches: 25, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
69 292 0.94
70 19 0.06
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (69 bp):
TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
TTGG
Found at i:17313152 original size:45 final size:45
Alignment explanation
Indices: 17313082--17313290 Score: 129
Period size: 45 Copynumber: 4.6 Consensus size: 45
17313072 GCTGTTAAAT
* * * * * *
17313082 TTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGTTGCCTA
1 TTTGGTGTATATATGCTGTTAAATTTGGTATATATATGCTGCCTA
* * * * *
17313127 TTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAA
1 TTTGGTGTATATATGCTGTTAAA-TTTGGTATATATATGCTGC-CTA
* * * * * *
17313174 TTTGGTATGTATATGCTGCCT--ATTTGTTGTATATATGCTG-TTAAA
1 TTTGGTGTATATATGCTG-TTAAATTTGGTATATATATGCTGCCT--A
* * * *
17313219 TTTTGGTGTA-AAAGTGCGGTTAAATTTGGTATGTATATGTTGCCTA
1 -TTTGGTGTATATA-TGCTGTTAAATTTGGTATATATATGCTGCCTA
*
17313265 TTTGCTGTATATATGCTGTTAAATTT
1 TTTGGTGTATATATGCTGTTAAATTT
17313291 TGGTGTAAAA
Statistics
Matches: 120, Mismatches: 33, Indels: 22
0.69 0.19 0.13
Matches are distributed among these distances:
45 57 0.47
46 29 0.24
47 32 0.27
48 2 0.02
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.46
Consensus pattern (45 bp):
TTTGGTGTATATATGCTGTTAAATTTGGTATATATATGCTGCCTA
Found at i:17315192 original size:20 final size:20
Alignment explanation
Indices: 17315167--17315206 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17315157 AATATTTTCC
*
17315167 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
17315187 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
17315207 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:17315208 original size:34 final size:35
Alignment explanation
Indices: 17315155--17315221 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
17315145 CAAACACCAC
*
17315155 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
17315190 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
17315222 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:17315213 original size:14 final size:14
Alignment explanation
Indices: 17315190--17315229 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
17315180 ACAGAAAAGT
*
17315190 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
17315204 AAATCATTTTACGG
1 AAAACATTTTACAG
17315218 AAAACATTTTAC
1 AAAACATTTTAC
17315230 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:17319715 original size:6 final size:6
Alignment explanation
Indices: 17319704--17319731 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17319694 ATATTCTTAA
17319704 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
17319732 TTCAGGTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:17323944 original size:123 final size:123
Alignment explanation
Indices: 17323791--17324035 Score: 393
Period size: 123 Copynumber: 2.0 Consensus size: 123
17323781 TACAAGTTAC
* * *
17323791 CTAATATAATACACTGGCACAAAGCCTGCTAGACTCAATGCCTAATAATATACACCGACTCGAAG
1 CTAATATAATACACTGGCACAAAGCCTGCTAGACACAAAGCCTAATAATATACACCGACACGAAG
*
17323856 CCTGCTAGGCACAAAGCCTGATAATCTACACCAGCACGAAGCCTGCAAGGCACAAAGG
66 CCTGCTAGGCACAAAGCCTGATAATATACACCAGCACGAAGCCTGCAAGGCACAAAGG
* * *
17323914 CTAATA-ATATACACTGGCACGAAGCCTGCTAGGCACAAAGCCTAATAATATACACCGGCACGAA
1 CTAATATA-ATACACTGGCACAAAGCCTGCTAGACACAAAGCCTAATAATATACACCGACACGAA
* *
17323978 GCCTGCTAGGCACAAAGCCTGATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
65 GCCTGCTAGGCACAAAGCCTGATAATATACACCAGCACGAAGCCTGCAAGGCACAAAG
17324036 CCTGTGAGGA
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
122 1 0.01
123 111 0.99
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.16
Consensus pattern (123 bp):
CTAATATAATACACTGGCACAAAGCCTGCTAGACACAAAGCCTAATAATATACACCGACACGAAG
CCTGCTAGGCACAAAGCCTGATAATATACACCAGCACGAAGCCTGCAAGGCACAAAGG
Found at i:17324039 original size:41 final size:41
Alignment explanation
Indices: 17323790--17324038 Score: 356
Period size: 41 Copynumber: 6.1 Consensus size: 41
17323780 ATACAAGTTA
* * * * *
17323790 CCTAAT-ATAATACACTGGCACAAAGCCTGCTAGACTCAATG
1 CCTAATAAT-ATACACCGGCACGAAGCCTGCTAGGCACAAAG
* *
17323831 CCTAATAATATACACCGACTCGAAGCCTGCTAGGCACAAAG
1 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
* * * *
17323872 CCTGATAATCTACACCAGCACGAAGCCTGCAAGGCACAAAG
1 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
* *
17323913 GCTAATAATATACACTGGCACGAAGCCTGCTAGGCACAAAG
1 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
17323954 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
1 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
*
17323995 CCTGATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
1 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
17324036 CCT
1 CCT
17324039 GTGAGGATAC
Statistics
Matches: 185, Mismatches: 22, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
41 183 0.99
42 2 0.01
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (41 bp):
CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
Found at i:17343861 original size:64 final size:64
Alignment explanation
Indices: 17343782--17343913 Score: 264
Period size: 64 Copynumber: 2.1 Consensus size: 64
17343772 CCAACTGAAT
17343782 AGTACATACACTAATATGGACAATATCAACATTCCTTAATCATATCCTAATTCCTAAAATTACC
1 AGTACATACACTAATATGGACAATATCAACATTCCTTAATCATATCCTAATTCCTAAAATTACC
17343846 AGTACATACACTAATATGGACAATATCAACATTCCTTAATCATATCCTAATTCCTAAAATTACC
1 AGTACATACACTAATATGGACAATATCAACATTCCTTAATCATATCCTAATTCCTAAAATTACC
17343910 AGTA
1 AGTA
17343914 ACAACAAAGC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (64 bp):
AGTACATACACTAATATGGACAATATCAACATTCCTTAATCATATCCTAATTCCTAAAATTACC
Found at i:17348569 original size:5 final size:5
Alignment explanation
Indices: 17348552--17348586 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
17348542 TTAGAAATTG
17348552 GTGGA GT-GA GTGGA GTGGA GTGGA GTGGA GTGGA G
1 GTGGA GTGGA GTGGA GTGGA GTGGA GTGGA GTGGA G
17348587 ACAAAAATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.20, C:0.00, G:0.60, T:0.20
Consensus pattern (5 bp):
GTGGA
Found at i:17350872 original size:17 final size:17
Alignment explanation
Indices: 17350850--17350883 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17350840 TTATGATAAG
17350850 TCTAATCTGAATATGTT
1 TCTAATCTGAATATGTT
17350867 TCTAATCTGAATATGTT
1 TCTAATCTGAATATGTT
17350884 ATAAAAGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TCTAATCTGAATATGTT
Found at i:17357069 original size:17 final size:18
Alignment explanation
Indices: 17357034--17357069 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17357024 AATAAGTAGC
17357034 AAAAATTTTAAAATGAAA
1 AAAAATTTTAAAATGAAA
17357052 AAAAATTTTAAAAT-AAA
1 AAAAATTTTAAAATGAAA
17357069 A
1 A
17357070 TGCAAAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAAATTTTAAAATGAAA
Found at i:17358234 original size:16 final size:13
Alignment explanation
Indices: 17358192--17358233 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
17358182 CTAATCAAGG
17358192 TTAAAAGATATTA
1 TTAAAAGATATTA
17358205 TTAAAAGATATTA
1 TTAAAAGATATTA
*
17358218 TTAAAAGATATGA
1 TTAAAAGATATTA
17358231 TTA
1 TTA
17358234 TGGGTTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (13 bp):
TTAAAAGATATTA
Found at i:17358743 original size:5 final size:4
Alignment explanation
Indices: 17358713--17358752 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
17358703 AAGTCAAACA
17358713 AAAT AAAT AAAT AAGAT AAAT AAAT AGAAT -AAT AAAT AAA
1 AAAT AAAT AAAT AA-AT AAAT AAAT A-AAT AAAT AAAT AAA
17358753 AGATTAGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.09
4 23 0.70
5 7 0.21
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:17358748 original size:12 final size:13
Alignment explanation
Indices: 17358715--17358751 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
17358705 GTCAAACAAA
17358715 ATAAATAAATAAG
1 ATAAATAAATAAG
17358728 ATAAATAAAT-AG
1 ATAAATAAATAAG
17358740 A-ATAATAAATAA
1 ATA-AATAAATAA
17358752 AAGATTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.05
12 10 0.45
13 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (13 bp):
ATAAATAAATAAG
Found at i:17360101 original size:5 final size:4
Alignment explanation
Indices: 17360077--17360121 Score: 56
Period size: 4 Copynumber: 10.8 Consensus size: 4
17360067 AAGTCAAACA
17360077 AAAT AAAT AAAT AAAT AAGAT AAGAT AAAT AAAT AGAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AA-AT AA-AT AAAT AAAT A-AAT AAAT AAA
17360122 GAAGATAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 3 0.08
4 23 0.61
5 12 0.32
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:17360117 original size:18 final size:16
Alignment explanation
Indices: 17360077--17360121 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
17360067 AAGTCAAACA
17360077 AAATAAATAAATAAAT
1 AAATAAATAAATAAAT
17360093 AAGATAAGATAAATAAAT
1 AA-ATAA-ATAAATAAAT
17360111 AGAAT-AATAAA
1 A-AATAAATAAA
17360122 GAAGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.27
17 5 0.19
18 13 0.50
19 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (16 bp):
AAATAAATAAATAAAT
Found at i:17362113 original size:48 final size:48
Alignment explanation
Indices: 17362046--17362216 Score: 164
Period size: 48 Copynumber: 3.4 Consensus size: 48
17362036 TATTAAATAT
**
17362046 TTTAAAATTTTTAAAATAATATTATTTCAAACATAGATTATTTATAAA
1 TTTAAAATAATTAAAATAATATTATTTCAAACATAGATTATTTATAAA
* ** * **
17362094 TTTAAAATAATTAAAATAATTAATTTTATTATTAATTATTAAAATTATATTATTTA
1 TTTAAAATAATTAAAATAA-T-A--TTATT-TCAAACA-T-AGATTAT-TTATAAA
**
17362150 -TTAAAATTTTTAAAATAATATTATTTCAAACATAGATTATTTATAAA
1 TTTAAAATAATTAAAATAATATTATTTCAAACATAGATTATTTATAAA
*
17362197 TTTAAAAAAATTAAAATAAT
1 TTTAAAATAATTAAAATAAT
17362217 TAATTTTATT
Statistics
Matches: 95, Mismatches: 19, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
47 5 0.05
48 39 0.41
49 2 0.02
50 5 0.05
51 5 0.05
52 5 0.05
53 5 0.05
54 2 0.02
55 22 0.23
56 5 0.05
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.46
Consensus pattern (48 bp):
TTTAAAATAATTAAAATAATATTATTTCAAACATAGATTATTTATAAA
Found at i:17362138 original size:28 final size:25
Alignment explanation
Indices: 17362095--17362168 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 25
17362085 ATTTATAAAT
*
17362095 TTAAAATAATTAAAATAATTAATTTTA
1 TTAAAATTATTAAAATAATT-A-TTTA
*
17362122 TTATTAATTATTAAAATTATATTATTTA
1 TTA-AAATTATTAAAA-TA-ATTATTTA
*
17362150 TTAAAATTTTTAAAATAAT
1 TTAAAATTATTAAAATAAT
17362169 ATTATTTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 13 0.32
28 17 0.43
29 3 0.08
30 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAAAATTATTAAAATAATTATTTA
Found at i:17362139 original size:21 final size:20
Alignment explanation
Indices: 17362115--17362159 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
17362105 TAAAATAATT
17362115 AATTTTATTATTAATTATTAA
1 AATTTTA-TATTAATTATTAA
*
17362136 AA--TTATATTATTTATTAA
1 AATTTTATATTAATTATTAA
17362154 AATTTT
1 AATTTT
17362160 TAAAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 14 0.67
19 3 0.14
20 2 0.10
21 2 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATTTTATATTAATTATTAA
Found at i:17362150 original size:18 final size:18
Alignment explanation
Indices: 17362123--17362157 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17362113 TTAATTTTAT
17362123 TATTAATTATTAAAATTA
1 TATTAATTATTAAAATTA
*
17362141 TATTATTTATTAAAATT
1 TATTAATTATTAAAATT
17362158 TTTAAAATAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTAATTATTAAAATTA
Found at i:17362157 original size:103 final size:103
Alignment explanation
Indices: 17362047--17362234 Score: 367
Period size: 103 Copynumber: 1.8 Consensus size: 103
17362037 ATTAAATATT
*
17362047 TTAAAATTTTTAAAATAATATTATTTCAAACATAGATTATTTATAAATTTAAAATAATTAAAATA
1 TTAAAATTTTTAAAATAATATTATTTCAAACATAGATTATTTATAAATTTAAAAAAATTAAAATA
17362112 ATTAATTTTATTATTAATTATTAAAATTATATTATTTA
66 ATTAATTTTATTATTAATTATTAAAATTATATTATTTA
17362150 TTAAAATTTTTAAAATAATATTATTTCAAACATAGATTATTTATAAATTTAAAAAAATTAAAATA
1 TTAAAATTTTTAAAATAATATTATTTCAAACATAGATTATTTATAAATTTAAAAAAATTAAAATA
17362215 ATTAATTTTATTATTAATTA
66 ATTAATTTTATTATTAATTA
17362235 AATTTATATA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 84 1.00
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (103 bp):
TTAAAATTTTTAAAATAATATTATTTCAAACATAGATTATTTATAAATTTAAAAAAATTAAAATA
ATTAATTTTATTATTAATTATTAAAATTATATTATTTA
Found at i:17362165 original size:27 final size:28
Alignment explanation
Indices: 17362098--17362175 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 28
17362088 TATAAATTTA
* *
17362098 AAATAATTAAAATAAT-TAATTTTATTAT
1 AAATTATTAAAATAATATTA-TTTATTAT
* *
17362126 TAATTATTAAAATTATATTATTTATTA-
1 AAATTATTAAAATAATATTATTTATTAT
*
17362153 AAATTTTTAAAATAATATTATTT
1 AAATTATTAAAATAATATTATTT
17362176 CAAACATAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 20 0.48
28 20 0.48
29 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
AAATTATTAAAATAATATTATTTATTAT
Found at i:17362240 original size:48 final size:49
Alignment explanation
Indices: 17362085--17362242 Score: 126
Period size: 48 Copynumber: 3.1 Consensus size: 49
17362075 AACATAGATT
*
17362085 ATTTATAAATTTAAAATAATTAAAATAATTAATTTTATTATTAATTATTAA
1 ATTTATAAATTTAAAAAAATTAAAATAATTAATTTTATTATT-A-TATTAA
* * ** * * * * *
17362136 AATTATATTATTTATTAAAATTTTTAAAATAATATTATTTCA-AACATAGATT--
1 ATTTATA-AATTTA--AAAA-AATTAAAATAAT-TAATTTTATTA-TTATATTAA
17362188 ATTTATAAATTTAAAAAAATTAAAATAATTAATTTTATTATTA-ATTAA
1 ATTTATAAATTTAAAAAAATTAAAATAATTAATTTTATTATTATATTAA
17362236 ATTTATA
1 ATTTATA
17362243 TAGGTGAAGA
Statistics
Matches: 80, Mismatches: 18, Indels: 21
0.67 0.15 0.18
Matches are distributed among these distances:
46 3 0.04
47 8 0.10
48 18 0.22
49 4 0.05
51 11 0.14
52 11 0.14
54 6 0.08
55 12 0.15
56 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (49 bp):
ATTTATAAATTTAAAAAAATTAAAATAATTAATTTTATTATTATATTAA
Found at i:17364083 original size:28 final size:27
Alignment explanation
Indices: 17363996--17364095 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 27
17363986 GAAAACTAGT
* * *
17363996 GTGCTTATCGTATTATTTCGCACTTCA
1 GTGCTTATCTTATTATTTTGCACTTCG
** * *
17364023 GTGCTTATCGTTGTAAAAATTTGCACTTTG
1 GTGCTTATC--T-TATTATTTTGCACTTCG
17364053 GTGCTTATCATTATTATTTTGCACTTCG
1 GTGCTTATC-TTATTATTTTGCACTTCG
17364081 GTGCTTATCGTTATT
1 GTGCTTATC-TTATT
17364096 TGCACTTTGT
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
27 9 0.16
28 27 0.47
29 1 0.02
30 20 0.35
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (27 bp):
GTGCTTATCTTATTATTTTGCACTTCG
Found at i:17364101 original size:52 final size:53
Alignment explanation
Indices: 17363995--17364109 Score: 137
Period size: 58 Copynumber: 2.1 Consensus size: 53
17363985 GGAAAACTAG
17363995 TGTGCTTATCGTATTATTTCGCACTTCAGTGCTTATCGTTGTAAAAATTTGCACTT
1 TGTGCTTATCGTATTATTTCGCACTTCAGTGCTTATCGTTGT---AATTTGCACTT
* * *
17364051 TGGTGCTTATCATTATTATTTTGCACTTCGGTGCTTATCG-T-T-ATTTGCACTT
1 T-GTGCTTATC-GTATTATTTCGCACTTCAGTGCTTATCGTTGTAATTTGCACTT
17364103 TGTGCTT
1 TGTGCTT
17364110 GGTGATATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
51 6 0.11
52 11 0.20
56 2 0.04
57 10 0.19
58 25 0.46
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (53 bp):
TGTGCTTATCGTATTATTTCGCACTTCAGTGCTTATCGTTGTAATTTGCACTT
Found at i:17371383 original size:18 final size:17
Alignment explanation
Indices: 17371360--17371404 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
17371350 AAACATAAAT
*
17371360 AAATAAAATTGAAATTTA
1 AAATAAAATT-AAAATTA
17371378 AAATAAAAATTAAAATTA
1 AAAT-AAAATTAAAATTA
17371396 AAA-AAAATT
1 AAATAAAATT
17371405 CTTTTTAGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 6 0.24
18 13 0.52
19 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAATAAAATTAAAATTA
Found at i:17388608 original size:14 final size:14
Alignment explanation
Indices: 17388589--17388629 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
17388579 AAAGACAAAA
*
17388589 AAAAAAAGAGGAAGG
1 AAAAAAA-AGGAAAG
*
17388604 GAAAAAAAGGAAAG
1 AAAAAAAAGGAAAG
17388618 AAAAAAAAGGAA
1 AAAAAAAAGGAA
17388630 TATTGTAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGGAAAG
Found at i:17390429 original size:26 final size:26
Alignment explanation
Indices: 17390394--17390453 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
17390384 ACACGTCAGA
* * *
17390394 AAATAGAAGCCTTTGTGGCGTATCTG
1 AAATGGAAGCCTTAGTGGCGTAACTG
17390420 AAATGGAAGCCTTAGTGGCGTAACTG
1 AAATGGAAGCCTTAGTGGCGTAACTG
17390446 AAATGGAA
1 AAATGGAA
17390454 ACCATTGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.25
Consensus pattern (26 bp):
AAATGGAAGCCTTAGTGGCGTAACTG
Found at i:17391948 original size:21 final size:22
Alignment explanation
Indices: 17391923--17391966 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
17391913 ATTTAAAAAG
17391923 TTAA-TTTAATCCTACACTGAC
1 TTAATTTTAATCCTACACTGAC
17391944 TTAATTTTAATCCTACACTGAC
1 TTAATTTTAATCCTACACTGAC
17391966 T
1 T
17391967 AGAAAGCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.41
Consensus pattern (22 bp):
TTAATTTTAATCCTACACTGAC
Found at i:17392117 original size:70 final size:70
Alignment explanation
Indices: 17392013--17392187 Score: 203
Period size: 71 Copynumber: 2.5 Consensus size: 70
17392003 TAAGTGACAA
** * * * *
17392013 TTTCTTCACCGTTTCCATTAAAAAGTTAATTTTAATC-CATATTGACTAGAGAACACTCTCATAG
1 TTTCTTCACTATTTTCATTAAAAAGTTAATTTTAATCTCAAATTGACTAGAGAACACTCCCATAA
*
17392077 TTCAC
66 CTCAC
* * *
17392082 -TTCTTCACTATTTTTATTAAAAAAAGTTAATTTTAATCTTAAATTGACTAGAGAATACTCCCAT
1 TTTCTTCACTATTTTCATT--AAAAAGTTAATTTTAATCTCAAATTGACTAGAGAACACTCCCAT
17392146 AACTCAC
64 AACTCAC
* *
17392153 TTTTTTTACTATTTTCATTAAAAA-TTAATTTTAAT
1 TTTCTTCACTATTTTCATTAAAAAGTTAATTTTAAT
17392188 TCCTTAAAAC
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
68 14 0.16
69 11 0.12
70 23 0.26
71 26 0.29
72 15 0.17
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.43
Consensus pattern (70 bp):
TTTCTTCACTATTTTCATTAAAAAGTTAATTTTAATCTCAAATTGACTAGAGAACACTCCCATAA
CTCAC
Found at i:17402436 original size:18 final size:19
Alignment explanation
Indices: 17402395--17402440 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
17402385 TATTTCTCAC
* *
17402395 AAAAAAATATTGAAAAAGT
1 AAAAAAATATAGAAAAAAT
*
17402414 GAAAAAA-ATAGAAAAAAT
1 AAAAAAATATAGAAAAAAT
17402432 AAAAAAATA
1 AAAAAAATA
17402441 ATCTGTGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (19 bp):
AAAAAAATATAGAAAAAAT
Found at i:17404749 original size:40 final size:40
Alignment explanation
Indices: 17404705--17404782 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
17404695 TGAAGTGTTT
*
17404705 ATATGAATCAGTTATATAAAAATAGATAGATGGAATGGTA
1 ATATGAATCAGTTATATAAAAATAGATAGATGAAATGGTA
* ** *
17404745 ATATGAATCGGTTATATGGAAATAGATATATGAAATGG
1 ATATGAATCAGTTATATAAAAATAGATAGATGAAATGG
17404783 AACATTTGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.31
Consensus pattern (40 bp):
ATATGAATCAGTTATATAAAAATAGATAGATGAAATGGTA
Found at i:17408659 original size:25 final size:25
Alignment explanation
Indices: 17408559--17408678 Score: 84
Period size: 25 Copynumber: 4.8 Consensus size: 25
17408549 ACGGACACAC
* *
17408559 CACAGCTTGTATGAGC-TAACTGATT
1 CACAGCTCGTATGAGCAT-ACCGATT
* * *
17408584 TACAGCTCGTGA-GAGCTTATCGATT
1 CACAGCTCGT-ATGAGCATACCGATT
* * * *
17408609 CTCAGTTCATATGAGCTTACCGATT
1 CACAGCTCGTATGAGCATACCGATT
*
17408634 CACAGCTCGTGA-GAGCATACCAATT
1 CACAGCTCGT-ATGAGCATACCGATT
* *
17408659 CATAGCTTGTATGAGCATAC
1 CACAGCTCGTATGAGCATAC
17408679 ATGTATATGA
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
24 2 0.03
25 69 0.93
26 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (25 bp):
CACAGCTCGTATGAGCATACCGATT
Found at i:17408672 original size:50 final size:50
Alignment explanation
Indices: 17408561--17408674 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 50
17408551 GGACACACCA
* * * * *
17408561 CAGCTTGTATGAGCTAACTGATTTACAGCTCGTGAGAGCTTATCGATTCT
1 CAGCTTGTATGAGCTAACCGATTCACAGCTCGTGAGAGCATACCAATTCT
* *
17408611 CAG-TTCATATGAGCTTACCGATTCACAGCTCGTGAGAGCATACCAATTCAT
1 CAGCTT-GTATGAGCTAACCGATTCACAGCTCGTGAGAGCATACCAATTC-T
17408662 -AGCTTGTATGAGC
1 CAGCTTGTATGAGC
17408675 ATACATGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
49 2 0.04
50 48 0.91
51 3 0.06
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
CAGCTTGTATGAGCTAACCGATTCACAGCTCGTGAGAGCATACCAATTCT
Found at i:17419215 original size:12 final size:12
Alignment explanation
Indices: 17419200--17419233 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
17419190 TTCTTTTACC
17419200 ATATTTATTATT
1 ATATTTATTATT
17419212 ATATTTATTATT
1 ATATTTATTATT
17419224 ACTATTTATT
1 A-TATTTATT
17419234 TATGTATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTTATTATT
Found at i:17420767 original size:24 final size:24
Alignment explanation
Indices: 17420692--17420772 Score: 68
Period size: 24 Copynumber: 3.6 Consensus size: 24
17420682 TGTTCAACCA
*
17420692 TTCACCTTTCATTTTCCTTAACAT-
1 TTCACCTTTCATCTTCCTTAAC-TC
*
17420716 TCCACCTTTCA---T-CTT-AC-C
1 TTCACCTTTCATCTTCCTTAACTC
*
17420734 TTCTATCTTTCATCTTCCTTAACTC
1 TTC-ACCTTTCATCTTCCTTAACTC
17420759 TTCACCTTTCATCT
1 TTCACCTTTCATCT
17420773 CTTGGTAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
18 2 0.04
19 9 0.20
20 3 0.07
21 1 0.02
22 1 0.02
23 3 0.07
24 22 0.49
25 4 0.09
ACGTcount: A:0.17, C:0.35, G:0.00, T:0.48
Consensus pattern (24 bp):
TTCACCTTTCATCTTCCTTAACTC
Found at i:17421348 original size:25 final size:26
Alignment explanation
Indices: 17421296--17421342 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
17421286 CTTTTTGTAC
17421296 TTTAAAAGAAGTTATTTACAGTTTAA
1 TTTAAAAGAAGTTATTTACAGTTTAA
17421322 TTTAAAA-AA-TTATTTA-AGTTT
1 TTTAAAAGAAGTTATTTACAGTTT
17421343 TTAATTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 7 0.33
25 2 0.10
26 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (26 bp):
TTTAAAAGAAGTTATTTACAGTTTAA
Found at i:17422608 original size:20 final size:20
Alignment explanation
Indices: 17422585--17422630 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
17422575 CAAAAAAAAA
*
17422585 TCAAATAATTT-TCAAAATTT
1 TCAAAT-ATTTATAAAAATTT
17422605 TCAAATATTTATAAAAATTT
1 TCAAATATTTATAAAAATTT
*
17422625 TAAAAT
1 TCAAAT
17422631 TGATATCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
TCAAATATTTATAAAAATTT
Found at i:17426168 original size:45 final size:45
Alignment explanation
Indices: 17426119--17426240 Score: 172
Period size: 45 Copynumber: 2.7 Consensus size: 45
17426109 TCCTCTGTCC
17426119 ATATCCTGTTGCTAGCATCAAGGAAACTCCTTATTTCCCATATCT
1 ATATCCTGTTGCTAGCATCAAGGAAACTCCTTATTTCCCATATCT
* * * *
17426164 ATATCCTGTTGCTAGCATCAACGAAACTTCTTGTTTCCTATATCT
1 ATATCCTGTTGCTAGCATCAAGGAAACTCCTTATTTCCCATATCT
** * *
17426209 ATATCCTGTTTATGGCACCAAGGAAACTCCTT
1 ATATCCTGTTGCTAGCATCAAGGAAACTCCTT
17426241 GATTCCTGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.36
Consensus pattern (45 bp):
ATATCCTGTTGCTAGCATCAAGGAAACTCCTTATTTCCCATATCT
Found at i:17426293 original size:44 final size:44
Alignment explanation
Indices: 17426186--17426339 Score: 191
Period size: 45 Copynumber: 3.5 Consensus size: 44
17426176 TAGCATCAAC
* * * ** *
17426186 GAAACTTCTTGTTTCCTATATCTATATCCTGTTTATGGCACCAAG
1 GAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTCCGGCTCC-AG
* * *
17426231 GAAACTCCTTGATTCCTGTATCCATAGCATGTTTCCGGCTCCAG
1 GAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTCCGGCTCCAG
* *
17426275 GAGACTTCTTGTTTCCTGTATCCATAGCCTGTTTCCGGCTTCATG
1 GAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTCCGGCTCCA-G
17426320 GAAACTTCTTGTTTCCTGTA
1 GAAACTTCTTGTTTCCTGTA
17426340 CCTGTAGTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
44 40 0.43
45 53 0.57
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.38
Consensus pattern (44 bp):
GAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTCCGGCTCCAG
Found at i:17428738 original size:6 final size:6
Alignment explanation
Indices: 17428727--17428757 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
17428717 TTTCATGATT
17428727 CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA C
1 CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA C
17428758 ATCAGCTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (6 bp):
CTCAAA
Found at i:17429113 original size:9 final size:9
Alignment explanation
Indices: 17429057--17429120 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
17429047 CTCACATCCT
17429057 ATTCTCTCA
1 ATTCTCTCA
* *
17429066 AATCTCTCT
1 ATTCTCTCA
17429075 ATTCTCTCA
1 ATTCTCTCA
* *
17429084 ACTCTCTTA
1 ATTCTCTCA
* *
17429093 ACTCTCTAA
1 ATTCTCTCA
17429102 ATTCTCTCA
1 ATTCTCTCA
*
17429111 ATTTTCTCA
1 ATTCTCTCA
17429120 A
1 A
17429121 GCTCTTGTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTCTCTCA
Found at i:17435207 original size:20 final size:20
Alignment explanation
Indices: 17435178--17435217 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17435168 CCAATTCAAC
*
17435178 AAATACAAATAAAATAAAAG
1 AAATAAAAATAAAATAAAAG
*
17435198 AAATAAAAATAAATTAAAAG
1 AAATAAAAATAAAATAAAAG
17435218 TTCAATAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAATAAAAG
Found at i:17437201 original size:51 final size:51
Alignment explanation
Indices: 17437067--17437253 Score: 227
Period size: 51 Copynumber: 3.7 Consensus size: 51
17437057 AGTGAAAGTG
* * *
17437067 ATGGTCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGG--AATG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAATA
* *
17437116 ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAAT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAATA
* * ** * **
17437167 TTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAATA
17437219 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
17437254 TATGAACCGA
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 71 0.61
52 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAATA
Found at i:17437315 original size:45 final size:45
Alignment explanation
Indices: 17437259--17437353 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
17437249 TACTATATGA
* * *
17437259 ACCGAACATCATTGTTTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
17437304 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
17437349 ACCGA
1 ACCGA
17437354 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:17437423 original size:23 final size:22
Alignment explanation
Indices: 17437397--17437440 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
17437387 AATTGACTAA
17437397 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
17437420 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
17437441 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:17439811 original size:17 final size:17
Alignment explanation
Indices: 17439767--17439819 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
17439757 TTTTTATATA
*
17439767 TTATTTTAAAA-TTTGT
1 TTATTTTAAAATTTTTT
17439783 TTATCTTT--AATTTTTT
1 TTAT-TTTAAAATTTTTT
*
17439799 TTATTTTAAAATTTTTC
1 TTATTTTAAAATTTTTT
17439816 TTAT
1 TTAT
17439820 ATATATTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 5 0.16
16 12 0.39
17 14 0.45
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (17 bp):
TTATTTTAAAATTTTTT
Found at i:17439813 original size:16 final size:16
Alignment explanation
Indices: 17439767--17439819 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
17439757 TTTTTATATA
*
17439767 TTATTTTAAAATTTGT
1 TTATTTTAAAATTTTT
*
17439783 TTATCTTT-AATTTTTT
1 TTAT-TTTAAAATTTTT
17439799 TTATTTTAAAATTTTT
1 TTATTTTAAAATTTTT
17439815 CTTAT
1 -TTAT
17439820 ATATATTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 3 0.10
16 21 0.68
17 7 0.23
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (16 bp):
TTATTTTAAAATTTTT
Found at i:17439875 original size:26 final size:27
Alignment explanation
Indices: 17439846--17439907 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
17439836 TTTTATATGA
17439846 TTATTTTAACTTGCTTTGTAAATTA-T
1 TTATTTTAACTTGCTTTGTAAATTATT
* * **
17439872 TTATGTTAAGTTGCTTTGTGTATTATT
1 TTATTTTAACTTGCTTTGTAAATTATT
17439899 TTATTTTAA
1 TTATTTTAA
17439908 ATTATTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.60
Consensus pattern (27 bp):
TTATTTTAACTTGCTTTGTAAATTATT
Found at i:17439928 original size:16 final size:15
Alignment explanation
Indices: 17439893--17439932 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
17439883 TGCTTTGTGT
* *
17439893 ATTATTTTATTTTAA
1 ATTATTTTATATAAA
17439908 ATTATTTTATATAATA
1 ATTATTTTATATAA-A
17439924 ATTATTTTA
1 ATTATTTTA
17439933 AAATTATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTTTATATAAA
Found at i:17440478 original size:17 final size:18
Alignment explanation
Indices: 17440440--17440483 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
17440430 ATTATTGCTC
* *
17440440 TTATGTGTATTGTATTAC
1 TTATTTGTATTGTATTAA
17440458 TTATTTGTATT-TATTAA
1 TTATTTGTATTGTATTAA
17440475 TTATTTGTA
1 TTATTTGTA
17440484 GTTCATTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.61
Consensus pattern (18 bp):
TTATTTGTATTGTATTAA
Found at i:17447349 original size:51 final size:51
Alignment explanation
Indices: 17447290--17448047 Score: 668
Period size: 51 Copynumber: 15.7 Consensus size: 51
17447280 TCATTATGGT
*
17447290 GAATCTTTTTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * *
17447341 GAATCTTTTTTCCCTGGCATTACAGT-----AGATTAAAGCTGAAGGCAAC
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * * * * *
17447387 AAATCTTATTTCCCTAGCGTTGTAGAGGAATAGGTTAAAGCTGAAGGCAGC
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * ** *
17447438 AAATCCTTTTTCCCTGGCATTATAGTGGAAC-------A---GAAGGCAGT
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * *
17447479 GAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGT
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * *
17447530 GAATCTTATTTCCCTGGCGTTGTAGT-----AGATTAAAGCTGAAGGGAGC
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* *
17447576 GGATCTTTTTTCCCTGGCGTTGGAGTGGAACAGATTAAAGCTGAAGGCAGC
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * *
17447627 GAATCTTATTTCCCTAGCATT--AGTGGAACAGATTAAAGCTGAAGGCAGT
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* *
17447676 GAATCTTATTTCCCTGGCGTTGCAGTGGGACAGATTAAAGCTGAAGGCAGC
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * *
17447727 GAATCTTTTTTTTCCTTGGCGTTGCAGT-----AGATTAAAACTAAAGGCAGC
1 GAATC--TTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
*
17447775 GAATCTTTTTTCCCTGGCGTTGCAGTAGAACAGATTAAAGCTGAAGGCAGC
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * * *
17447826 GAATC-TTTTTCTCTTGGCATTGTAGTGG---A-A-T--A---GAAGGTAGA
1 GAATCTTTTTTC-CCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * *
17447867 GAATTTTTTTTCCCTGGCGTTGTAGTGGAACAAATTAAAGCTGAAGGCAAC
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* *
17447918 GAATC-TTTTTCCCTAGCGTTGCAGT-----AGATTAAAGCTGAAGGTAGC
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * ** ** * * *
17447963 GAATCTTATTTCCCTGGTGTTATAAAGGAACATATTAAAGCTGAATGCAGG
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* *
17448014 GAATTTTTTTTCCCTGGCATTGCAGTGGAACAGA
1 GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGA
17448048 AGGCCACAAA
Statistics
Matches: 572, Mismatches: 88, Indels: 94
0.76 0.12 0.12
Matches are distributed among these distances:
41 57 0.10
42 6 0.01
44 3 0.01
45 23 0.04
46 114 0.20
47 1 0.00
48 26 0.05
49 46 0.08
50 24 0.04
51 253 0.44
53 19 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (51 bp):
GAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
Found at i:17447457 original size:97 final size:96
Alignment explanation
Indices: 17447290--17448039 Score: 800
Period size: 97 Copynumber: 7.8 Consensus size: 96
17447280 TCATTATGGT
* *
17447290 GAATCTTTTTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC-TTTTTCCC
* *
17447355 TGGCATTACAGTAGATTAAAGCTGAAGGCAAC
65 TGGCATTGCAGTAGATTAAAGCTGAAGGCAGC
* * * * * * *
17447387 AAATCTTATTTCCCTAGCGTTGTAGAGGAATAGGTTAAAGCTGAAGGCAGCAAATCCTTTTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAAT-CTTTTTCCC
** * *
17447452 TGGCATT--A-TAG-TGGAA-CAGAAGGCAGT
65 TGGCATTGCAGTAGATTAAAGCTGAAGGCAGC
* *
17447479 GAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTT-TTTCCC
* * *
17447544 TGGCGTTGTAGTAGATTAAAGCTGAAGGGAGC
65 TGGCATTGCAGTAGATTAAAGCTGAAGGCAGC
* * *
17447576 GGATCTTTTTTCCCTGGCGTTGGAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTT-TTTCCC
* * ** *
17447641 TAGCATTAGTGGAACAGATTAAAGCTGAAGGCAGT
65 TGGCA-T--TGCAGTAGATTAAAGCTGAAGGCAGC
*
17447676 GAATCTTATTTCCCTGGCGTTGCAGTGGGACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTTTC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC---TTTTTC
* * * *
17447741 CTTGGCGTTGCAGTAGATTAAAACTAAAGGCAGC
63 CCTGGCATTGCAGTAGATTAAAGCTGAAGGCAGC
* * *
17447775 GAATCTTTTTTCCCTGGCGTTGCAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTCTCT
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTC-CC
* * * * *
17447840 TGGCATTGTAGTGGA--ATA---GAAGGTAGA
65 TGGCATTGCAGTAGATTAAAGCTGAAGGCAGC
* * * * *
17447867 GAATTTTTTTTCCCTGGCGTTGTAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTTTTTCCCT
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTCCCT
* * *
17447932 AGCGTTGCAGTAGATTAAAGCTGAAGGTAGC
66 GGCATTGCAGTAGATTAAAGCTGAAGGCAGC
* ** ** * * * *
17447963 GAATCTTATTTCCCTGGTGTTATAAAGGAACATATTAAAGCTGAATGCAGGGAATTTTTTTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAA-TCTTTTTCCC
17448028 TGGCATTGCAGT
65 TGGCATTGCAGT
17448040 GGAACAGAAG
Statistics
Matches: 544, Mismatches: 89, Indels: 40
0.81 0.13 0.06
Matches are distributed among these distances:
91 15 0.03
92 129 0.24
93 5 0.01
94 4 0.01
95 6 0.01
96 61 0.11
97 165 0.30
98 2 0.00
99 73 0.13
100 73 0.13
101 1 0.00
102 8 0.01
103 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (96 bp):
GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTCCCT
GGCATTGCAGTAGATTAAAGCTGAAGGCAGC
Found at i:17447491 original size:41 final size:41
Alignment explanation
Indices: 17447429--17447512 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
17447419 GGTTAAAGCT
*
17447429 GAAGGCAGCAAATCCTTTTTCCCTGGCATTATAGTGGAACA
1 GAAGGCAGCAAATCCTTTTTCCCTGGCATTACAGTGGAACA
** * * *
17447470 GAAGGCAGTGAAT-CTTATTTCCTTGGCGTTGCAGTGGAACA
1 GAAGGCAGCAAATCCTT-TTTCCCTGGCATTACAGTGGAACA
17447511 GA
1 GA
17447513 TTAAAGCTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
40 3 0.08
41 33 0.92
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (41 bp):
GAAGGCAGCAAATCCTTTTTCCCTGGCATTACAGTGGAACA
Found at i:17447616 original size:189 final size:188
Alignment explanation
Indices: 17447288--17448051 Score: 929
Period size: 189 Copynumber: 4.0 Consensus size: 188
17447278 AGTCATTATG
* *
17447288 GTGAATCTTTTTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTC
1 GTGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTC
* * * * * *
17447353 CCTGGCATTACAGTAGATTAAAGCTGAAGGCAACAAATCTTATTTCCCTAGCGTTGTAGAGGAAT
66 CCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGAGGAAC
* *
17447418 AGGTTAAAGCTGAAGGCAGCAAATCCTTTTTCCCTGGCATTATAGTGGAACAGAAGGCA
131 AGATTAAAGCTGAAGGCAGCGAAT-CTTTTTCCCTGGCATTATAGTGGAACAGAAGGCA
* * *
17447477 GTGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATTTC
1 GTGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTC
* * * * * *
17447542 CCTGGCGTTGTAGTAGATTAAAGCTGAAGGGAGCGGATCTTTTTTCCCTGGCGTTGGAGTGGAAC
66 CCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGAGGAAC
* ** *
17447607 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCATTAGTGGAACAGATTAAAGCTGAAGG
131 AGATTAAAGCTGAAGGCAGCGAATCTT-TTTCCCTGGCATTA-T-----AG-TGGAA-CAGAAGG
17447672 CA
187 CA
*
17447674 GTGAATCTTATTTCCCTGGCGTTGCAGTGGGACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTT
1 GTGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC--TTTTT
* * * * *
17447739 TCCTTGGCGTTGCAGTAGATTAAAACTAAAGGCAGCGAATCTTTTTTCCCTGGCGTTGCAGTA-G
64 TCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAG-AGG
* * * *
17447803 AACAGATTAAAGCTGAAGGCAGCGAATCTTTTTCTCTTGGCATTGTAGTGGAATAGAAGGTA
128 AACAGATTAAAGCTGAAGGCAGCGAATCTTTTTC-CCTGGCATTATAGTGGAACAGAAGGCA
* * * * * *
17447865 GAGAATTTTTTTTCCCTGGCGTTGTAGTGGAACAAATTAAAGCTGAAGGCAACGAATC-TTTTTC
1 GTGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTC
* * * * *
17447929 CCTAGCGTTGCAGTAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCCTGGTGTTATAAAGGAAC
66 CCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGAGGAAC
* * * * **
17447994 ATATTAAAGCTGAATGCAGGGAATTTTTTTTCCCTGGCATTGCAGTGGAACAGAAGGC
131 AGATTAAAGCTGAAGGCAGCGAA-TCTTTTTCCCTGGCATTATAGTGGAACAGAAGGC
17448052 CACAAACCTT
Statistics
Matches: 492, Mismatches: 68, Indels: 31
0.83 0.12 0.05
Matches are distributed among these distances:
187 1 0.00
188 104 0.21
189 155 0.32
190 1 0.00
191 57 0.12
192 3 0.01
193 2 0.00
195 2 0.00
196 3 0.01
197 63 0.13
198 5 0.01
199 96 0.20
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (188 bp):
GTGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTC
CCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGAGGAAC
AGATTAAAGCTGAAGGCAGCGAATCTTTTTCCCTGGCATTATAGTGGAACAGAAGGCA
Found at i:17447876 original size:41 final size:41
Alignment explanation
Indices: 17447817--17447896 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
17447807 GATTAAAGCT
* *
17447817 GAAGGCAGCGAATC-TTTTTCTCTTGGCATTGTAGTGGAATA
1 GAAGGCAGAGAATCTTTTTTC-CCTGGCATTGTAGTGGAATA
* * *
17447858 GAAGGTAGAGAATTTTTTTTCCCTGGCGTTGTAGTGGAA
1 GAAGGCAGAGAATCTTTTTTCCCTGGCATTGTAGTGGAA
17447897 CAAATTAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 27 0.82
42 6 0.18
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (41 bp):
GAAGGCAGAGAATCTTTTTTCCCTGGCATTGTAGTGGAATA
Found at i:17448307 original size:142 final size:142
Alignment explanation
Indices: 17448090--17448412 Score: 457
Period size: 142 Copynumber: 2.3 Consensus size: 142
17448080 TGGAGTGGAC
* * *
17448090 TGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGAAACAGATTAAAGCTACAAATTATGACG
1 TGAAGATAGCGAATCTTA-TTCCCTGACGTTGCAGTGGAACAGATTAAAGCTACAAATTATGACG
* * * *
17448155 GATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTTCTTAAAGTTG
65 GATCTTATCTTCCTGAAGATGCAGTGGAGCAGATCGAAGCCACCAGCCTTATCTCCATAAAGTTG
*
17448220 CAGCGGAACAGAG
130 CAGCGGAACAGAA
* * *
17448233 TGAAGATAGCAAATCTTATTCCCTGACGTTGCAGTGGAACAGATTAAAGCTACAAGTTATGGCGG
1 TGAAGATAGCGAATCTTATTCCCTGACGTTGCAGTGGAACAGATTAAAGCTACAAATTATGACGG
* **
17448298 ATCTTATCTTCCTGAAGATGCAGTGGAGCAGATCGAAGCCACTAGCCTTATCTCCATGGAGTTGC
66 ATCTTATCTTCCTGAAGATGCAGTGGAGCAGATCGAAGCCACCAGCCTTATCTCCATAAAGTTGC
* *
17448363 AGTGGAGCAGAA
131 AGCGGAACAGAA
* * *
17448375 TGAAGATAGCGAATCCTATTCCTCTGAAGATGCAGTGG
1 TGAAGATAGCGAATCTTATTCC-CTGACGTTGCAGTGG
17448413 GTTAGAACGA
Statistics
Matches: 159, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
142 130 0.82
143 29 0.18
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (142 bp):
TGAAGATAGCGAATCTTATTCCCTGACGTTGCAGTGGAACAGATTAAAGCTACAAATTATGACGG
ATCTTATCTTCCTGAAGATGCAGTGGAGCAGATCGAAGCCACCAGCCTTATCTCCATAAAGTTGC
AGCGGAACAGAA
Found at i:17448604 original size:20 final size:20
Alignment explanation
Indices: 17448575--17448614 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17448565 CCAATTCAAC
*
17448575 AAATACAAATAAAATAAAAG
1 AAATAAAAATAAAATAAAAG
*
17448595 AAATAAAAATAAATTAAAAG
1 AAATAAAAATAAAATAAAAG
17448615 TCCAAGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAATAAAAG
Found at i:17449977 original size:26 final size:28
Alignment explanation
Indices: 17449948--17450009 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
17449938 TTTTATATGA
17449948 TTATTTTAAC-TTGCTTTGTAAATTA-T
1 TTATTTTAACGTTGCTTTGTAAATTATT
* * *
17449974 TTATGTT-ACGTTTCTTTGTATATTATT
1 TTATTTTAACGTTGCTTTGTAAATTATT
17450001 TTATTTTAA
1 TTATTTTAA
17450010 ATTATTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 19 0.66
27 7 0.24
28 1 0.03
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.61
Consensus pattern (28 bp):
TTATTTTAACGTTGCTTTGTAAATTATT
Found at i:17450030 original size:16 final size:15
Alignment explanation
Indices: 17449995--17450034 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
17449985 TTCTTTGTAT
17449995 ATTATTTTATTTTAA
1 ATTATTTTATTTTAA
17450010 ATTATTTTATATATT-A
1 ATTATTTTAT-T-TTAA
17450026 ATTATTTTA
1 ATTATTTTA
17450035 AAATGATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.43
16 11 0.48
17 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTATTTTATTTTAA
Found at i:17464812 original size:14 final size:16
Alignment explanation
Indices: 17464793--17464825 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
17464783 ATAATATGCA
17464793 TGATATGT-GATAT-G
1 TGATATGTGGATATAG
17464807 TGATATGTGGATATAG
1 TGATATGTGGATATAG
17464823 TGA
1 TGA
17464826 CTATTGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 5 0.29
16 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.39
Consensus pattern (16 bp):
TGATATGTGGATATAG
Found at i:17468855 original size:22 final size:21
Alignment explanation
Indices: 17468830--17468870 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
17468820 TGTATGGTAT
* *
17468830 GATTTGGTTTTGGTATTATATA
1 GATTCGGTTATGGT-TTATATA
17468852 GATTCGGTTATGGTTTATA
1 GATTCGGTTATGGTTTATA
17468871 AGTATAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.51
Consensus pattern (21 bp):
GATTCGGTTATGGTTTATATA
Found at i:17484460 original size:131 final size:131
Alignment explanation
Indices: 17484302--17484545 Score: 348
Period size: 131 Copynumber: 1.9 Consensus size: 131
17484292 TTAAGTTGTG
* * * *
17484302 ATCGTAAATCAATGAGCCTTAATAATATCAGCTATTATCTTAAATCAA-CGAGCTATTTGGAGTA
1 ATCGTAAATCAACGAGCCTTAATAATATCAGCTATGATATTAAAT-AAGCGACCTATTTGGAGT-
* * *
17484366 G-CAATAGTAAATCAACTAACTTAGAGAACATTGTTCATGATAGTAAATCAAATGAATTTAGGCT
64 GCCAATAGTAAATCAACTAACTTAGAGAAAATGGTTCATGACAGTAAATCAAATGAATTTAGGCT
17484430 GTA
129 GTA
* * * *
17484433 ATCGTAAATCAGCGAGCCTTAATAATATTAGTTGTGATATTAAATAAGCGACCTATTTGGAGTGC
1 ATCGTAAATCAACGAGCCTTAATAATATCAGCTATGATATTAAATAAGCGACCTATTTGGAGTGC
*
17484498 CGATAGTAAATCAACTAACTTAGAGAAAATGGTTCATGACAGTAAATC
66 CAATAGTAAATCAACTAACTTAGAGAAAATGGTTCATGACAGTAAATC
17484546 GAAAATCATT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
130 3 0.03
131 96 0.97
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (131 bp):
ATCGTAAATCAACGAGCCTTAATAATATCAGCTATGATATTAAATAAGCGACCTATTTGGAGTGC
CAATAGTAAATCAACTAACTTAGAGAAAATGGTTCATGACAGTAAATCAAATGAATTTAGGCTGT
A
Found at i:17486929 original size:21 final size:23
Alignment explanation
Indices: 17486887--17486939 Score: 83
Period size: 21 Copynumber: 2.3 Consensus size: 23
17486877 ATATGCATAT
17486887 TTATTTTTTTTAAATATAATGTAA
1 TTATTTTTTTT-AATATAATGTAA
17486911 TTATTTTTTTT-ATAT-ATGTAA
1 TTATTTTTTTTAATATAATGTAA
17486932 TTATTTTT
1 TTATTTTT
17486940 ATAATCTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 14 0.48
22 4 0.14
24 11 0.38
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
TTATTTTTTTTAATATAATGTAA
Found at i:17499437 original size:132 final size:132
Alignment explanation
Indices: 17499200--17499796 Score: 915
Period size: 132 Copynumber: 4.6 Consensus size: 132
17499190 CCGACAGCGA
* * * *
17499200 AGCAGATCGAAGACGGCCAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
*
17499265 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCTTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
17499330 GG
131 GG
* **
17499332 AGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGTTACCAAGC
1 AGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* * * *
17499397 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGC
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
17499462 GG
131 GG
* * *
17499464 AGCAAATCGAAGACGACCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* * *
17499529 CTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTTAAAATTGTTGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
17499594 GG
131 GG
* *
17499596 AGCAGATCAAAGACG-----GC----CTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
*
17499652 CTGGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
17499717 GG
131 GG
* * *
17499719 AGCAGATCAAAGACGGCAAATCTTATCTTTCCAATATAGTGGGAAGCAGATTTAAACCACCAAGC
1 AGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
17499784 CTTGTCTCCCTGA
66 CTTGTCTCCCTGA
17499797 AGTTGCAGAG
Statistics
Matches: 418, Mismatches: 38, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
123 116 0.28
127 1 0.00
128 1 0.00
132 300 0.72
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (132 bp):
AGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:17499760 original size:255 final size:260
Alignment explanation
Indices: 17499195--17499796 Score: 935
Period size: 255 Copynumber: 2.3 Consensus size: 260
17499185 CTATACCGAC
* *
17499195 AGCGAAGCAGATCGAAGACGGCCAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGCGGAGCAGATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
17499260 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCTTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCA
* * **
17499325 GTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGTT
131 GTAGTGGAGCAGATCAAAGATGAC-AAGC---TCTTTCCAAGATAGTGAGAAGCAGATTTAAGCC
* * *
17499390 ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTTCCTAAG
192 ACCAAGCCTGGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
17499455 CAGT
257 CAGT
* *
17499459 AGCGGAGCAAATCGAAGACGACCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGCGGAGCAGATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
17499524 CAAGCCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTTAAAATTGTTGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCA
*
17499589 GTAGTGGAGCAGATC-AA-A-GAC-GGC-CTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACCA
131 GTAGTGGAGCAGATCAAAGATGACAAGCTCTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACCA
*
17499649 AGCCTGGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGT
196 AGCCTGGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGT
* * * * *
17499714 AGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAATATAGTGGGAAGCAGATTTAAACCAC
1 AGCGGAGCAGATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
17499779 CAAGCCTTGTCTCCCTGA
66 CAAGCCTTGTCTCCCTGA
17499797 AGTTGCAGAG
Statistics
Matches: 313, Mismatches: 25, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
255 169 0.54
259 1 0.00
261 3 0.01
262 1 0.00
263 2 0.01
264 137 0.44
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (260 bp):
AGCGGAGCAGATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCAAAGATGACAAGCTCTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACCA
AGCCTGGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGT
Found at i:17501292 original size:21 final size:20
Alignment explanation
Indices: 17501268--17501314 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
17501258 ATATTTATGT
*
17501268 TTTTTAAATATAATGTAATTA
1 TTTTTAAATAT-ACGTAATTA
**
17501289 TTTTTTTATATACGTAATTA
1 TTTTTAAATATACGTAATTA
17501309 TTTTTA
1 TTTTTA
17501315 TAATCTATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTTAAATATACGTAATTA
Found at i:17501647 original size:14 final size:14
Alignment explanation
Indices: 17501624--17501663 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
17501614 ATGGATTATT
17501624 GTTT-TTTATTTTC
1 GTTTATTTATTTTC
17501637 GTTTATTTA-TTT-
1 GTTTATTTATTTTC
17501649 GTTTATATTATTTTC
1 GTTTAT-TTATTTTC
17501664 ATGCCATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 7 0.30
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.72
Consensus pattern (14 bp):
GTTTATTTATTTTC
Found at i:17501692 original size:15 final size:15
Alignment explanation
Indices: 17501669--17501701 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17501659 TTTTCATGCC
17501669 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
17501684 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
17501699 ATT
1 ATT
17501702 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:17505690 original size:13 final size:13
Alignment explanation
Indices: 17505653--17505712 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
17505643 TTAATATAAA
*
17505653 AAATAAATTTTAT
1 AAATAAATTTTAC
*
17505666 ATATTCAAATTTTAC
1 A-AAT-AAATTTTAC
17505681 AAATAAATTTTGA-
1 AAATAAATTTT-AC
*
17505694 TAATAAATTTTAC
1 AAATAAATTTTAC
17505707 AAATAA
1 AAATAA
17505713 TTAATAGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 1 0.03
13 23 0.61
14 5 0.13
15 9 0.24
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (13 bp):
AAATAAATTTTAC
Found at i:17505708 original size:26 final size:28
Alignment explanation
Indices: 17505653--17505712 Score: 90
Period size: 26 Copynumber: 2.2 Consensus size: 28
17505643 TTAATATAAA
17505653 AAATAAATTTTATATATTCAAATTTTAC
1 AAATAAATTTTATATATTCAAATTTTAC
17505681 AAATAAATTTTGATA-A-T-AAATTTTAC
1 AAATAAATTTT-ATATATTCAAATTTTAC
17505707 AAATAA
1 AAATAA
17505713 TTAATAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 15 0.48
27 1 0.03
28 12 0.39
29 3 0.10
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (28 bp):
AAATAAATTTTATATATTCAAATTTTAC
Found at i:17507642 original size:42 final size:42
Alignment explanation
Indices: 17507582--17507671 Score: 137
Period size: 42 Copynumber: 2.1 Consensus size: 42
17507572 TTATCGATTT
*
17507582 CCACACGGGCGTGTGCCTTTG-ACACACAACCGTGCCCCTTAG
1 CCACACGGGCGTATGCC-TTGAACACACAACCGTGCCCCTTAG
* *
17507624 TCACACGGGCGTATGCCTTGAACACACAACCGTGTCCCTTAG
1 CCACACGGGCGTATGCCTTGAACACACAACCGTGCCCCTTAG
17507666 CCACAC
1 CCACAC
17507672 AGGCATGTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 3 0.07
42 40 0.93
ACGTcount: A:0.22, C:0.38, G:0.21, T:0.19
Consensus pattern (42 bp):
CCACACGGGCGTATGCCTTGAACACACAACCGTGCCCCTTAG
Found at i:17509903 original size:25 final size:25
Alignment explanation
Indices: 17509839--17509912 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 25
17509829 GTTTCGACCC
*
17509839 ATAGCTCTAGAGAGCATACCGATTT
1 ATAGCTCAAGAGAGCATACCGATTT
* * ** *
17509864 ACAACTCGCGAGAGCATACTGATTT
1 ATAGCTCAAGAGAGCATACCGATTT
* *
17509889 ATAGCTCAAGTGAGCGTACCGATT
1 ATAGCTCAAGAGAGCATACCGATT
17509913 CACAGCTCGT
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
ATAGCTCAAGAGAGCATACCGATTT
Found at i:17511388 original size:21 final size:22
Alignment explanation
Indices: 17511362--17511415 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 22
17511352 CCTGCAGTTG
*
17511362 AAAATTTTCAATG-TTTTCTGA
1 AAAATTTTCAATGAGTTTCTGA
*
17511383 AAAATTCTC--TGAGTTTCTGA
1 AAAATTTTCAATGAGTTTCTGA
17511403 AAAATTTTCAATG
1 AAAATTTTCAATG
17511416 GTATGATTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 2 0.07
20 15 0.56
21 8 0.30
22 2 0.07
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
AAAATTTTCAATGAGTTTCTGA
Found at i:17512025 original size:664 final size:664
Alignment explanation
Indices: 17510748--17512066 Score: 2097
Period size: 664 Copynumber: 2.0 Consensus size: 664
17510738 CTAGTGGTTG
* * *
17510748 AATGGAATTATTAGTATCATTTGGTATATTTTGGCAAGTAAATGACATGATATGTATTGATGCAA
1 AATGGAATGATTAGTACCATTTGATATATTTTGGCAAGTAAATGACATGATATGTATTGATGCAA
*
17510813 ATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATACATGGTTAGACATATTTATATATT
66 ATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATACATGGTTAGACATATTTAGATATT
*
17510878 GTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTATACCATATGTATAGAACTTTCTT
131 GTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTATACCATATGTATAGAACTTGCTT
* *
17510943 ATGCTTGATTTGGATGCCTTGTTATGGCTTATATATATGTGCATTTTTGGTTATAGTTATATGCC
196 ATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGCATTTTTGGTTATAGGTATATGCC
*
17511008 TTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCATCCACACAGGCAGAGACACAGAC
261 TTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCACCCACACAGGCAGAGACACAGAC
* * * * *
17511073 GTGTGTCTCAGCCGTGTATGACACACGGCCAGGCGACATGGCCCTGAGTCCCCTTTAGCTTTCAA
326 ATGTGTCTCAGCCGTGTATGACACACGGCCAGGCGAAACGACCCTGAGTCCCCTGTAGCTTTCAA
*
17511138 AGGGTTGCAAATCAGACTATTACACCGCCGAGCACACGGCTTGGTACACAGGCGTGTGAGGTTAC
391 AGGGTTGCAAATCAGACTATTACACAGCCGAGCACACGGCTTGGTACACAGGCGTGTGAGGTTAC
* * * *
17511203 TTCGAAGGGTGCAGAGCCTAGCACACGGGCGTGTGGCTTGGCCGTGGGAGCCAAGTTAGTGAGTT
456 TTCGAAGGGTACACAGCCTAGCACACGGGCGTGTGGCTTGGCCGTGGGACCCAAGTCAGTGAGTT
* * *
17511268 ATACGGGCATGGACACGGGCTGGGACGCGGCCCTGTGTCCCTGCTTTGAATGCCCACACGGCCTG
521 ACACGGGCATGGACACGGGCTGGGACACGGCCCTGTGTCCCTACTTTGAATGCCCACACGGCCTG
17511333 GTCACACGTCTGTGTGACCCCTGCAGTTGAAAATTTTCAATGTTTTCTGAAAAATTCTCTGAGTT
586 GTCACACGTCTGTGTGACCCCTGCAGTTGAAAATTTTCAATGTTTTCTGAAAAATTCTCTGAGTT
17511398 TCTGAAAAATTTTC
651 TCTGAAAAATTTTC
* * *
17511412 AATGGTATGATTAGTACCATTTGATATATTTTGGTAAGTAAATTACATGATATGTATTGATGCAA
1 AATGGAATGATTAGTACCATTTGATATATTTTGGCAAGTAAATGACATGATATGTATTGATGCAA
* *
17511477 ATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATACATGGTTAGACATGTTTAGGTATT
66 ATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATACATGGTTAGACATATTTAGATATT
* * *
17511542 GTTATTTGAGGTGCCTAAGGGCATGTTGGTTGTATGATGTTATACCATATGTATAGGACTTGCTT
131 GTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTATACCATATGTATAGAACTTGCTT
17511607 ATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGCATTTTTGGTTATAGGTATATGCC
196 ATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGCATTTTTGGTTATAGGTATATGCC
* * * * *
17511672 TTGATGGGTGAGAAAAATGGCTTGTAAAATGGCTTATTTTCGCCCACACGGGCAGAGACAC-GAG
261 TTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCACCCACACAGGCAGAGACACAGA-
* * * * *
17511736 CATGTGTCTTCA-CCGTGTGTGACACACGGCGAGGCGAAACGACCGTGAGTTCTCTGTAGCTTTC
325 CATGTGTC-TCAGCCGTGTATGACACACGGCCAGGCGAAACGACCCTGAGTCCCCTGTAGCTTTC
* * * * *
17511800 AAAGGGTTGCAAGTCAGGCTGTTACACAGCCTAGCACACGGAC-TGGTACACGGGCGTGTGAGGT
389 AAAGGGTTGCAAATCAGACTATTACACAGCCGAGCACACGG-CTTGGTACACAGGCGTGTGAGGT
* * * *
17511864 TACTTCGAAGGGTACACAGCCTGGCACACGGGTGTGTGGCTTGGTCGTGTGACCCAAGTCAGTGA
453 TACTTCGAAGGGTACACAGCCTAGCACACGGGCGTGTGGCTTGGCCGTGGGACCCAAGTCAGTGA
* * * *
17511929 GTTACATGGGCATGGACACGGGCTGGGACACGGCTCTGTGTCCCTACTTTTAATGCCCATACGGC
518 GTTACACGGGCATGGACACGGGCTGGGACACGGCCCTGTGTCCCTACTTTGAATGCCCACACGGC
*
17511994 CTGGTCACACG-CATGTGTGATCCCTGCAGTTGAAAATTTTCAATGTTTTCTGAAAAATTCTCTG
583 CTGGTCACACGTC-TGTGTGACCCCTGCAGTTGAAAATTTTCAATGTTTTCTGAAAAATTCTCTG
17512058 AGTTTCTGA
647 AGTTTCTGA
17512067 TTTGATCCTG
Statistics
Matches: 598, Mismatches: 53, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
663 3 0.01
664 591 0.99
665 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (664 bp):
AATGGAATGATTAGTACCATTTGATATATTTTGGCAAGTAAATGACATGATATGTATTGATGCAA
ATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATACATGGTTAGACATATTTAGATATT
GTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTATACCATATGTATAGAACTTGCTT
ATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGCATTTTTGGTTATAGGTATATGCC
TTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCACCCACACAGGCAGAGACACAGAC
ATGTGTCTCAGCCGTGTATGACACACGGCCAGGCGAAACGACCCTGAGTCCCCTGTAGCTTTCAA
AGGGTTGCAAATCAGACTATTACACAGCCGAGCACACGGCTTGGTACACAGGCGTGTGAGGTTAC
TTCGAAGGGTACACAGCCTAGCACACGGGCGTGTGGCTTGGCCGTGGGACCCAAGTCAGTGAGTT
ACACGGGCATGGACACGGGCTGGGACACGGCCCTGTGTCCCTACTTTGAATGCCCACACGGCCTG
GTCACACGTCTGTGTGACCCCTGCAGTTGAAAATTTTCAATGTTTTCTGAAAAATTCTCTGAGTT
TCTGAAAAATTTTC
Found at i:17517354 original size:25 final size:25
Alignment explanation
Indices: 17517326--17517408 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
17517316 TCTTGAGAGT
17517326 ATACCGATTTACAGCTCAAGTGAGC
1 ATACCGATTTACAGCTCAAGTGAGC
* ** *
17517351 ATACCAATTTACAGCTCGTGAGAGC
1 ATACCGATTTACAGCTCAAGTGAGC
* * *
17517376 ATACTGATTTACAACTCAAGTAAGC
1 ATACCGATTTACAGCTCAAGTGAGC
17517401 ATACCGAT
1 ATACCGAT
17517409 CACATCTTGT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (25 bp):
ATACCGATTTACAGCTCAAGTGAGC
Found at i:17523312 original size:17 final size:17
Alignment explanation
Indices: 17523290--17523339 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
17523280 ATATCACCCT
17523290 TCTATTCCATTCAATGA
1 TCTATTCCATTCAATGA
* *
17523307 TCTATTCCATTCCCACG-
1 TCTATTCCATT-CAATGA
17523324 T-TATTCCATTCAATGA
1 TCTATTCCATTCAATGA
17523340 GCCAAATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 3 0.11
16 9 0.33
17 12 0.44
18 3 0.11
ACGTcount: A:0.26, C:0.28, G:0.06, T:0.40
Consensus pattern (17 bp):
TCTATTCCATTCAATGA
Found at i:17529716 original size:27 final size:27
Alignment explanation
Indices: 17529682--17529887 Score: 245
Period size: 27 Copynumber: 7.6 Consensus size: 27
17529672 TAAATTGTAC
17529682 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
17529709 AGCACTAAGTGTGCGATTTGACTATTGT
1 AGCACTAAGTGTGCGATTTGACTA-TGT
* ** *
17529737 TGCACTAAGTGTGCGAAGATGA-AATG-
1 AGCACTAAGTGTGCG-ATTTGACTATGT
* *
17529763 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17529791 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17529819 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17529846 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17529873 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17529888 GACTCAATAT
Statistics
Matches: 155, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.03
27 105 0.68
28 42 0.27
29 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17529748 original size:55 final size:54
Alignment explanation
Indices: 17529682--17529887 Score: 254
Period size: 55 Copynumber: 3.8 Consensus size: 54
17529672 TAAATTGTAC
*
17529682 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATTGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACTA-TGT
* * * * *
17529737 TGCACTAAGTGTGCGAAGATGA-AATG-ATGCACTAAGTGTGCGAATTGACCATGT
1 AGCACTAAGTGTGCG-AGTTGACTATGTA-GCACTAAGTGTGCGATTTGACTATGT
* * *
17529791 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
* * *
17529846 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
17529888 GACTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
53 2 0.02
54 43 0.33
55 79 0.61
56 5 0.04
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
Found at i:17529824 original size:82 final size:82
Alignment explanation
Indices: 17529683--17529834 Score: 252
Period size: 82 Copynumber: 1.9 Consensus size: 82
17529673 AAATTGTACA
* * *
17529683 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATTGTTGCACTAAGTG
1 GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGATTTGACTATTGTAGCACTAAGTG
17529748 TGCGAAGATGAAATGAT
66 TGCGAAGATGAAATGAT
*
17529765 GCACTAAGTGTGCGAATTGACCATGTGGCACTAAGTGTGCGAGTTTGACTA-TGTAGCACTAAGT
1 GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGA-TTTGACTATTGTAGCACTAAGT
17529829 GTGCGA
65 GTGCGA
17529835 TTTGATTACG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
82 57 0.88
83 8 0.12
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (82 bp):
GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGATTTGACTATTGTAGCACTAAGTG
TGCGAAGATGAAATGAT
Found at i:17529851 original size:82 final size:81
Alignment explanation
Indices: 17529682--17529887 Score: 245
Period size: 82 Copynumber: 2.5 Consensus size: 81
17529672 TAAATTGTAC
* * *
17529682 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATTGTTGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGATTTGACTATTGTAGCACTAAGT
17529747 GTGCGAAGATGAAATG
66 GTGCGAAGATGAAATG
*
17529763 ATGCACTAAGTGTGCGAATTGACCATGTGGCACTAAGTGTGCGAGTTTGACTA-TGTAGCACTAA
1 A-GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGA-TTTGACTATTGTAGCACTAA
** * *
17529827 GTGTGCG-ATTTGATTACG
64 GTGTGCGAAGATGA-AATG
* ** * *
17529845 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCG
17529888 GACTCAATAT
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
81 5 0.05
82 93 0.87
83 9 0.08
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (81 bp):
AGCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGATTTGACTATTGTAGCACTAAGT
GTGCGAAGATGAAATG
Found at i:17537830 original size:27 final size:27
Alignment explanation
Indices: 17537772--17537948 Score: 205
Period size: 27 Copynumber: 6.5 Consensus size: 27
17537762 AGTTGTACAG
*
17537772 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-ATTGACTATGTA
* *
17537800 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTA
* **
17537827 GCACTAAGTGTGCGAAATGAAAATG-A
1 GCACTAAGTGTGCGAATTGACTATGTA
*
17537853 TGCACTAAGTGTGCGAATTGACCATGT-
1 -GCACTAAGTGTGCGAATTGACTATGTA
*
17537880 GCACTAAGTGTGCGAGATTGATTATGTA
1 GCACTAAGTGTGCGA-ATTGACTATGTA
* * *
17537908 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTA
*
17537935 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
17537949 GACTCAATAT
Statistics
Matches: 131, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.11
27 86 0.66
28 30 0.23
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTA
Found at i:17540446 original size:55 final size:55
Alignment explanation
Indices: 17540386--17540498 Score: 208
Period size: 55 Copynumber: 2.1 Consensus size: 55
17540376 CCATTACTTA
* *
17540386 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGGTTTAGTTCCATATTTTGTT
1 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
17540441 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
1 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
17540496 CAT
1 CAT
17540499 CCTCTAATTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (55 bp):
CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
Found at i:17542236 original size:23 final size:23
Alignment explanation
Indices: 17542213--17542258 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17542203 TTTTTCTATT
*
17542213 ATCAAAATATAATTTATTTAATTA
1 ATCAAAATA-AATTTAGTTAATTA
* *
17542237 ATTAATATAAATTTAGTTAATT
1 ATCAAAATAAATTTAGTTAATT
17542259 TACTCAATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
ATCAAAATAAATTTAGTTAATTA
Found at i:17544110 original size:30 final size:30
Alignment explanation
Indices: 17544075--17544136 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
17544065 CAAGTTACAC
17544075 AAAATGGTAACTACAAGAAACAAAAAACGA
1 AAAATGGTAACTACAAGAAACAAAAAACGA
17544105 AAAATGGTAACTACAAGAAACAAAAAACGA
1 AAAATGGTAACTACAAGAAACAAAAAACGA
17544135 AA
1 AA
17544137 CAAAGTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.65, C:0.13, G:0.13, T:0.10
Consensus pattern (30 bp):
AAAATGGTAACTACAAGAAACAAAAAACGA
Found at i:17547152 original size:37 final size:39
Alignment explanation
Indices: 17547102--17547174 Score: 132
Period size: 37 Copynumber: 1.9 Consensus size: 39
17547092 CACCAGAAAC
17547102 TAAAACTCAAAATGGGTA-TT-TTTTTTAGGTCTTTCTT
1 TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTTCTT
17547139 TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTT
1 TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTT
17547175 TAAAAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
37 18 0.53
38 2 0.06
39 14 0.41
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (39 bp):
TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTTCTT
Found at i:17547187 original size:36 final size:36
Alignment explanation
Indices: 17547110--17547187 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 36
17547100 ACTAAAACTC
***
17547110 AAAATGGGTATTTTTTTTAGGTCTTTCTTTAAAACTC
1 AAAATGGGTATTTTTTTTAGGTC-TTCTTTAAAAAGA
17547147 AAAATGGGTAGTTGTTTTTTAGGTC-T-TTTAAAAAGA
1 AAAATGGGTA-TT-TTTTTTAGGTCTTCTTTAAAAAGA
17547183 AAAAT
1 AAAAT
17547188 CATTTTTCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 12 0.33
37 11 0.31
38 2 0.06
39 11 0.31
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (36 bp):
AAAATGGGTATTTTTTTTAGGTCTTCTTTAAAAAGA
Found at i:17552303 original size:39 final size:39
Alignment explanation
Indices: 17552256--17552451 Score: 223
Period size: 39 Copynumber: 5.0 Consensus size: 39
17552246 ATTCACTTTT
* * * *
17552256 AAGCATATATCATATTACACATATAATCACCTAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * * * *
17552295 AAGTATATATCACAATA-TACATATAATCTCTTGACATTT
1 AAGCATATATCACAATACT-CATATAATCACATAACATTC
* *
17552334 AAGCATATATCACAATACTCGTATAATCACATAACATCC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
17552373 AAGCATATAACACAATACTCATATAATCGCATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
17552412 AAGCATATGTTACAATACTCGTATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
17552451 A
1 A
17552452 CAATTTTAAG
Statistics
Matches: 129, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 128 0.99
40 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:17552343 original size:78 final size:78
Alignment explanation
Indices: 17552253--17552451 Score: 265
Period size: 78 Copynumber: 2.6 Consensus size: 78
17552243 CATATTCACT
* * * * * * *
17552253 TTTAAGCATATATCATATTACACATATAATCACCTAACATTCAAGTATATATCACAATA-TACAT
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCAAGCATATAACACAATACT-CAT
* * *
17552317 ATAATCTCTTGACA
65 ATAATCGCATAACA
*
17552331 TTTAAGCATATATCACAATACTCGTATAATCACATAACATCCAAGCATATAACACAATACTCATA
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCAAGCATATAACACAATACTCATA
17552396 TAATCGCATAACA
66 TAATCGCATAACA
* *
17552409 TTTAAGCATATGTTACAATACTCGTATAATCACATAACATTCA
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCA
17552452 CAATTTTAAG
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 105 0.99
79 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.32
Consensus pattern (78 bp):
TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCAAGCATATAACACAATACTCATA
TAATCGCATAACA
Found at i:17554306 original size:2 final size:2
Alignment explanation
Indices: 17554301--17554344 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
17554291 ATTTTTTTGA
17554301 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
17554343 AC
1 AC
17554345 CGTTATACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:17558572 original size:23 final size:24
Alignment explanation
Indices: 17558530--17558574 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
17558520 GTTACGATTT
17558530 TATTTTCTTCTTTGCTTTTACTAA
1 TATTTTCTTCTTTGCTTTTACTAA
17558554 TATTTTC-TCTTTG-TGTTTACT
1 TATTTTCTTCTTTGCT-TTTACT
17558575 GTATGACTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 12 0.60
24 7 0.35
ACGTcount: A:0.13, C:0.16, G:0.07, T:0.64
Consensus pattern (24 bp):
TATTTTCTTCTTTGCTTTTACTAA
Found at i:17562827 original size:30 final size:30
Alignment explanation
Indices: 17562791--17563009 Score: 234
Period size: 30 Copynumber: 7.4 Consensus size: 30
17562781 TGGTTGACAC
* *
17562791 ATCCCTTTTCATAATTCGATAACCGAAGTT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
* * *
17562821 ATCCCTTTTCATAGTTCGACAACCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
*
17562851 ATCCCTTTTCATAATTTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
* *
17562881 ATCCTTTTTCATAGA-TCGATAGCCGAAGCC
1 ATCCCTTTTCATA-ATTCGATAGCCGAAGCT
* * *
17562911 ATCCCTTTTCATATTTCGAT-GTC-ATCA-CC
1 ATCCCTTTTCATAATTCGATAGCCGA--AGCT
*
17562940 ATCCCTTTTCATAA-TCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
* *
17562969 ATCCATTTTCGT-ATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
*
17562998 ATCCATTTTCAT
1 ATCCCTTTTCAT
17563010 TCATCGATGA
Statistics
Matches: 162, Mismatches: 19, Indels: 17
0.82 0.10 0.09
Matches are distributed among these distances:
28 8 0.05
29 56 0.35
30 97 0.60
31 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGCCGAAGCT
Found at i:17568084 original size:10 final size:10
Alignment explanation
Indices: 17568069--17568096 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
17568059 AGCACTTACC
17568069 ATTTCAATGT
1 ATTTCAATGT
17568079 ATTTCAATGT
1 ATTTCAATGT
17568089 ATTTCAAT
1 ATTTCAAT
17568097 CATAAACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (10 bp):
ATTTCAATGT
Found at i:17568621 original size:29 final size:29
Alignment explanation
Indices: 17568530--17568638 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
17568520 CTTATCAGGT
* * *
17568530 CATCCCTTTTCATATTCGATTGTCATCAC
1 CATCCCTTTTCATAATCGATGGTCGTCAC
* * * **
17568559 CATGCCTTTTCATAATCTATGATCGAAAC
1 CATCCCTTTTCATAATCGATGGTCGTCAC
* * *
17568588 AATCCCCTTTCATATTCGATGGTCGTCAC
1 CATCCCTTTTCATAATCGATGGTCGTCAC
17568617 CATCCCTTTTCATTAATCGATG
1 CATCCCTTTTCA-TAATCGATG
17568639 CCCGTCGATA
Statistics
Matches: 60, Mismatches: 19, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
29 52 0.87
30 8 0.13
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.38
Consensus pattern (29 bp):
CATCCCTTTTCATAATCGATGGTCGTCAC
Found at i:17583645 original size:25 final size:25
Alignment explanation
Indices: 17583606--17583670 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
17583596 TGACCCGTAG
* * *
17583606 CTCGTGAGAGCATACCGATTTACAT
1 CTCGTGTGAGCATACCAATTTACAA
*
17583631 CTTGTGTGAGCATACCAATTTACAA
1 CTCGTGTGAGCATACCAATTTACAA
*
17583656 CTCGTGTTAGCATAC
1 CTCGTGTGAGCATAC
17583671 ATTACAAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (25 bp):
CTCGTGTGAGCATACCAATTTACAA
Found at i:17589718 original size:30 final size:29
Alignment explanation
Indices: 17589682--17589755 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
17589672 TGATAATTAT
* *
17589682 TTTAAAATTCGTTATCTCCTAATCTAGCAG
1 TTTAAAATTCATCATCTCCTAAT-TAGCAG
17589712 TTTAAAATATTCATCATCTCCTAATTAGCAG
1 TTT-AAA-ATTCATCATCTCCTAATTAGCAG
17589743 TTTTAAATATTCA
1 -TTTAAA-ATTCA
17589756 AGGAAAAACC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 3 0.08
31 18 0.46
32 18 0.46
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.42
Consensus pattern (29 bp):
TTTAAAATTCATCATCTCCTAATTAGCAG
Found at i:17589744 original size:31 final size:32
Alignment explanation
Indices: 17589695--17589755 Score: 106
Period size: 31 Copynumber: 1.9 Consensus size: 32
17589685 AAAATTCGTT
17589695 ATCTCCTAATCTAGCAGTTTAAAATATTCATC
1 ATCTCCTAATCTAGCAGTTTAAAATATTCATC
*
17589727 ATCTCCTAAT-TAGCAGTTTTAAATATTCA
1 ATCTCCTAATCTAGCAGTTTAAAATATTCA
17589756 AGGAAAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (32 bp):
ATCTCCTAATCTAGCAGTTTAAAATATTCATC
Done.