Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 143 of 211
Found at i:45078882 original size:14 final size:14
Alignment explanation
Indices: 45078863--45078889 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45078853 CCAGAAAAGT
45078863 AAATCATTTTTCAG
1 AAATCATTTTTCAG
45078877 AAATCATTTTTCA
1 AAATCATTTTTCA
45078890 AAAAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:45093348 original size:18 final size:18
Alignment explanation
Indices: 45093327--45093386 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 18
45093317 TTGACGACCA
45093327 TGATGATGAACTTGTATC
1 TGATGATGAACTTGTATC
*
45093345 ---TGATGAATTTGATGATC
1 TGATGATGAACTTG-T-ATC
*
45093362 TGGATGATGAGCTTGTATC
1 T-GATGATGAACTTGTATC
45093381 TGATGA
1 TGATGA
45093387 ATTTGATGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
15 10 0.30
16 1 0.03
17 3 0.09
18 5 0.15
19 4 0.12
20 1 0.03
21 9 0.27
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (18 bp):
TGATGATGAACTTGTATC
Found at i:45093408 original size:36 final size:36
Alignment explanation
Indices: 45093303--45093408 Score: 149
Period size: 36 Copynumber: 2.9 Consensus size: 36
45093293 CATTGGAAAG
* * * *
45093303 TGTATCTGATGAAGTTGACGACCATGATGATGAACT
1 TGTATCTGATGAATTTGATGACCAAGATGATGAGCT
* **
45093339 TGTATCTGATGAATTTGATGATCTGGATGATGAGCT
1 TGTATCTGATGAATTTGATGACCAAGATGATGAGCT
45093375 TGTATCTGATGAATTTGATGACCAAGATGATGAG
1 TGTATCTGATGAATTTGATGACCAAGATGATGAG
45093409 TTTGATGAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.34
Consensus pattern (36 bp):
TGTATCTGATGAATTTGATGACCAAGATGATGAGCT
Found at i:45100711 original size:28 final size:28
Alignment explanation
Indices: 45100658--45100711 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
45100648 TTTAAAATTA
* *
45100658 AATTTAGCATCATATTGTTCATTTTACC
1 AATTTAGCATAATATTGTTCAGTTTACC
45100686 AATTTAGCATAATA-TGTATCAGTTTA
1 AATTTAGCATAATATTGT-TCAGTTTA
45100712 TACAACTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (28 bp):
AATTTAGCATAATATTGTTCAGTTTACC
Found at i:45101847 original size:32 final size:35
Alignment explanation
Indices: 45101806--45101872 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
45101796 ATTAATCTTT
* *
45101806 ATATTATGCATAGA-TT-A-CAATTTTTGTTTTTA
1 ATATTATGCATAAATTTGATCAAATTTTGTTTTTA
45101838 ATATTATGCATAAATTTGATCAAATTTTGTTTTTA
1 ATATTATGCATAAATTTGATCAAATTTTGTTTTTA
45101873 GTCTGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 13 0.43
33 2 0.07
34 1 0.03
35 14 0.47
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (35 bp):
ATATTATGCATAAATTTGATCAAATTTTGTTTTTA
Found at i:45122493 original size:23 final size:23
Alignment explanation
Indices: 45122467--45122515 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
45122457 TCATTGTGTT
*
45122467 GTCGCGACGTCGCTTTTCTTCAC
1 GTCGCGACGTCACTTTTCTTCAC
*
45122490 GTCGCGATGTCACTTTTCTTCAC
1 GTCGCGACGTCACTTTTCTTCAC
45122513 GTC
1 GTC
45122516 ATCTATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.10, C:0.33, G:0.20, T:0.37
Consensus pattern (23 bp):
GTCGCGACGTCACTTTTCTTCAC
Found at i:45129773 original size:30 final size:30
Alignment explanation
Indices: 45129733--45129794 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
45129723 TTTTATAAAT
*
45129733 AATTAATA-TTTAT-TACTTAAAAATATTTAC
1 AATTAATATTTTATATA-TT-AAAATATTAAC
*
45129763 AATTTATATTTTATATATTAAAATATTAAC
1 AATTAATATTTTATATATTAAAATATTAAC
45129793 AA
1 AA
45129795 CAAGTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 19 0.68
31 7 0.25
32 2 0.07
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (30 bp):
AATTAATATTTTATATATTAAAATATTAAC
Found at i:45130765 original size:21 final size:20
Alignment explanation
Indices: 45130736--45130786 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
45130726 TATAGGTAGT
*
45130736 AATAGAATTTGTATTAAAATA
1 AATAAAATTT-TATTAAAATA
** *
45130757 AATAAAATTTTATTTTAATG
1 AATAAAATTTTATTAAAATA
45130777 AATAAAATTT
1 AATAAAATTT
45130787 CTTAATGATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (20 bp):
AATAAAATTTTATTAAAATA
Found at i:45132558 original size:20 final size:20
Alignment explanation
Indices: 45132533--45132592 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
45132523 CTTGTACGGG
45132533 ATTTGCACTTCGGTG-CCTCT
1 ATTTGCACTTCGGTGCCCT-T
*
45132553 ATTTGCACCTCGGTGCCCTT
1 ATTTGCACTTCGGTGCCCTT
* *
45132573 GTTTGCACTACGGTGCCCTT
1 ATTTGCACTTCGGTGCCCTT
45132593 GTTTTCACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 32 0.91
21 3 0.09
ACGTcount: A:0.10, C:0.32, G:0.22, T:0.37
Consensus pattern (20 bp):
ATTTGCACTTCGGTGCCCTT
Found at i:45133118 original size:13 final size:13
Alignment explanation
Indices: 45133100--45133137 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
45133090 ATGGTAAGAA
45133100 GAAATGCTTA-AGT
1 GAAATGCTTATA-T
*
45133113 GAAATGGTTATAT
1 GAAATGCTTATAT
45133126 GAAATGCTTATA
1 GAAATGCTTATA
45133138 AGGAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 21 0.95
14 1 0.05
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (13 bp):
GAAATGCTTATAT
Found at i:45143612 original size:12 final size:12
Alignment explanation
Indices: 45143597--45143621 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45143587 TTAATATTTG
45143597 TTCATTTTTTCA
1 TTCATTTTTTCA
45143609 TTCATTTTTTCA
1 TTCATTTTTTCA
45143621 T
1 T
45143622 GAAATACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCATTTTTTCA
Found at i:45148567 original size:18 final size:18
Alignment explanation
Indices: 45148544--45148581 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
45148534 TACTAAAAAA
45148544 GAATGAGAAGTTTGTGTG
1 GAATGAGAAGTTTGTGTG
*
45148562 GAATGAGAATTTTGTGTG
1 GAATGAGAAGTTTGTGTG
45148580 GA
1 GA
45148582 GCAACAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.34
Consensus pattern (18 bp):
GAATGAGAAGTTTGTGTG
Found at i:45152133 original size:31 final size:29
Alignment explanation
Indices: 45152076--45152133 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
45152066 CCGAACTTTG
45152076 GGGAAAAAATGTAATTATGCAAAAGTTTA
1 GGGAAAAAATGTAATTATGCAAAAGTTTA
* *
45152105 GGGACAAAATCGTAATTTTGTCAAAAGTT
1 GGGAAAAAAT-GTAATTATG-CAAAAGTT
45152134 GAGTCGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.36
30 8 0.32
31 8 0.32
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (29 bp):
GGGAAAAAATGTAATTATGCAAAAGTTTA
Found at i:45152682 original size:51 final size:51
Alignment explanation
Indices: 45152606--45152793 Score: 222
Period size: 51 Copynumber: 3.7 Consensus size: 51
45152596 GATGAACACG
*
45152606 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGTCACA
* * * *
45152657 TGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CCAAAAAGCT-TTGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA--TATTGGTCACA
* * * * *
45152708 TGTGTAGTACTATGTGGAGGCTACTACGTGGACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTGGTCACA
*
45152758 TATGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
45152794 ATGATAATAA
Statistics
Matches: 114, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
50 43 0.38
51 69 0.61
52 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGTCACA
Found at i:45152686 original size:26 final size:26
Alignment explanation
Indices: 45152606--45152688 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
45152596 GATGAACACG
*
45152606 TGTGTAGTACTATGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
* *
45152632 CGTGTA-T-CGATAAAT-AATGG-TCAC-A
1 TGTGTAGTAC--TAAGTGAA-GGCT-ACTA
45152657 TGTGTAGTACTAAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
45152683 TGTGTA
1 TGTGTA
45152689 CCAAAAAGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 18
0.65 0.08 0.27
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGAAGGCTACTA
Found at i:45152810 original size:101 final size:102
Alignment explanation
Indices: 45152606--45152826 Score: 232
Period size: 101 Copynumber: 2.2 Consensus size: 102
45152596 GATGAACACG
* * * *
45152606 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGGACCGATAAATAATGATCACATATGTAGTACTAAG
* * * ** *
45152671 TGAAGGCTACTATGTGTACCAAAAAGCTTTGGTCACA
66 TGAAGGCTACTACGTGTACCAAAAAGATATAATAACA
* * * *
45152708 TGTGTAGTACTATGTGGAGGCTACTACGTGGACCG-TAAA-ACTTGATCACGTATGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGGACCGATAAATA-ATGATCACATATGTAGTACTAA
* * *
45152771 GTGAAGGCTACTACGTGTATC-GAATGATAATAATAACA
65 GTGAAGGCTACTACGTGTACCAAAAAGAT-ATAATAACA
* *
45152809 TGGGTGGTACTATGTGAA
1 TGTGTAGTACTATGTGAA
45152827 AACCCCCAAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
100 5 0.05
101 60 0.62
102 32 0.33
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (102 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGGACCGATAAATAATGATCACATATGTAGTACTAAG
TGAAGGCTACTACGTGTACCAAAAAGATATAATAACA
Found at i:45163278 original size:5 final size:5
Alignment explanation
Indices: 45163268--45163294 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45163258 CTTTGATTAC
45163268 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
45163295 TAATATGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:45163871 original size:19 final size:18
Alignment explanation
Indices: 45163834--45163883 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
45163824 GGAAAAATAA
45163834 AATAAAATAA-AAAGACT
1 AATAAAATAATAAAGACT
*
45163851 AATAATAATAATAATGACT
1 AATAA-AATAATAAAGACT
45163870 AATAAAAATAATAA
1 AAT-AAAATAATAA
45163884 CAATAAACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.17
18 5 0.17
19 17 0.59
20 2 0.07
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.24
Consensus pattern (18 bp):
AATAAAATAATAAAGACT
Found at i:45165039 original size:5 final size:5
Alignment explanation
Indices: 45165031--45165061 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
45165021 ATTTGGTTTG
45165031 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
45165062 GTATGTGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:45166519 original size:618 final size:617
Alignment explanation
Indices: 45165334--45166574 Score: 2250
Period size: 618 Copynumber: 2.0 Consensus size: 617
45165324 GCCCTTACAG
*
45165334 CCAAATCAGTGGCATCGTACATAAGTTTGAAAGGTAGATTCCAATTTGGTGCTGTGACTAGCCGT
1 CCAAATCAGTGGCATCGTACATAAATTTGAAAGGTAGATTCCAATTTGGTGCTGTGACTAGCCGT
45165399 TTTTTCAACTCCTCAAATGCCTGTAAGCACTAATCATCAAAATTGAAAGGTCTGTTGTGTTCTAA
66 TTTTTCAACTCCTCAAATGCCTGTAAGCACTAATCATCAAAATTGAAAGGTCTGTTGTGTTCTAA
* *
45165464 CAGTGTACACGAGGTTTTGATATTTTGATAAATCCTTGTTGAATCGTCTGTAGAACCCCACACGG
131 CAGTGTACACGAGGTTTTGACATTTTGATAAATCCTTGTTGAATCGTCTATAGAACCCCACACGG
*
45165529 CCCAGAAAATTGCGAACACAATTAATTATAGAGGCTGGTGGCAATTTCTCAAGAACTTCAAGTTT
196 CCCAAAAAATTGCGAACACAATTAATTATAGAGGCTGGTGGCAATTTCTCAAGAACTTCAAGTTT
* *
45165594 TCCTTATCGACAGTAATTCCTTGTTGTGAAATTTTATGTCCCAAAACGATGCCTTCACGAACCAT
261 TCCTTATCGACAGTAATTCCTTGGTATGAAATTTTATGTCCCAAAACGATGCCTTCACGAACCAT
45165659 AAAGTGGAATTTCTCCCAATTTAGAGCAAGATTGGTTTCTTCAAATCGAGAAATAAATAATTCTA
326 AAAGTGGAATTTCTCCCAATTTAGAGCAAGATTGGTTTCTTCAAATCGAGAAATAAATAATTCTA
* *
45165724 TATTTTTGAACAATCTTCAAACGTATCACCAAACACTGAGAAATTGTCCATAAAAACTTCTAAGA
391 GATTTTTAAACAATCTTCAAACGTATCACCAAACACTGAGAAATTGTCCATAAAAACTTCTAAGA
* *
45165789 ATTTCTCCATTGTGTCCAAAAATATTGTCATCATGGAATGCTGAAATGTTGCAAAGGCATTGTAT
456 ATTTCTCCACTGTGTCCAAAAATATTGTCATCATGGAATGCTGAAATGTTGCAAAGGCATTGCAT
*
45165854 AATCCAAATGGCATTCATCGGAACGCAAAGGTTCCATAAGCACATGAGAATGTGGTCTTCTCTTG
521 AATCCAAATGGCATTCATCGGAACGCAAAAGTTCCATAAGCACATGAGAATGTGGTCTTCTCTTG
*
45165919 ATTAGTAGGAGCTATGGCAATCTAGTTATACC
586 ATCAGTAGGAGCTATGGCAATCTAGTTATACC
45165951 CCAAATCAGTGGCATCGTACATAAATTTGAAAGGTAGATTCCAATTTGGTGCTGTGACTAGCCGT
1 CCAAATCAGTGGCATCGTACATAAATTTGAAAGGTAGATTCCAATTTGGTGCTGTGACTAGCCGT
45166016 TTTTTCAACTCCTCAAATGCCTGTAAGCACTAATCATCAAAATTGAAAGGTCTGTTGTGTTCTAA
66 TTTTTCAACTCCTCAAATGCCTGTAAGCACTAATCATCAAAATTGAAAGGTCTGTTGTGTTCTAA
45166081 CAGTGTACACGAGGTTTTGACATTTTGATAAATCCTTGTTGAATCGTCTATAGAACCCCACACGG
131 CAGTGTACACGAGGTTTTGACATTTTGATAAATCCTTGTTGAATCGTCTATAGAACCCCACACGG
* ** * *
45166146 CCCAAAAAATTGCGAATACAATTAATTATAGAGTTTGGTGGCAATTTCTCAATAACTTCGAGTTT
196 CCCAAAAAATTGCGAACACAATTAATTATAGAGGCTGGTGGCAATTTCTCAAGAACTTCAAG-TT
45166211 TTCCTTATCGACAGTAATTCCTTGGTATGAAATTTTATGTCCCAAAACGATGCCTTCACGAACCA
260 TTCCTTATCGACAGTAATTCCTTGGTATGAAATTTTATGTCCCAAAACGATGCCTTCACGAACCA
* *
45166276 TAAAGTGGAATTTCTCCTAATTTAGAGCAAGATTGGTTTCTTCACATCGAGAAATAAATAATTCT
325 TAAAGTGGAATTTCTCCCAATTTAGAGCAAGATTGGTTTCTTCAAATCGAGAAATAAATAATTCT
45166341 AGATTTTTTAAACAATCTTCAAACGTATCACCAAACACTGAGAAATT-TCCATAAAAACTTCTAA
390 AGA-TTTTTAAACAATCTTCAAACGTATCACCAAACACTGAGAAATTGTCCATAAAAACTTCTAA
45166405 GAATTTCTCCACTGTGTCCAAAAATATTGTCATCATGGAATGCTGAAATGTTGCAAAGGCATTGC
454 GAATTTCTCCACTGTGTCCAAAAATATTGTCATCATGGAATGCTGAAATGTTGCAAAGGCATTGC
* * * *
45166470 ATAATCCAAATGGCATTCGTCGGAATGCAAAAGTTCCATAAGGACATGAGAATGTGGTTTTCTCT
519 ATAATCCAAATGGCATTCATCGGAACGCAAAAGTTCCATAAGCACATGAGAATGTGGTCTTCTCT
45166535 TGATCAGTAGGAGCTATGGCAATCTAGTTATACC
584 TGATCAGTAGGAGCTATGGCAATCTAGTTATACC
45166569 CCAAAT
1 CCAAAT
45166575 AACCATTTAA
Statistics
Matches: 599, Mismatches: 23, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
617 248 0.41
618 309 0.52
619 42 0.07
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (617 bp):
CCAAATCAGTGGCATCGTACATAAATTTGAAAGGTAGATTCCAATTTGGTGCTGTGACTAGCCGT
TTTTTCAACTCCTCAAATGCCTGTAAGCACTAATCATCAAAATTGAAAGGTCTGTTGTGTTCTAA
CAGTGTACACGAGGTTTTGACATTTTGATAAATCCTTGTTGAATCGTCTATAGAACCCCACACGG
CCCAAAAAATTGCGAACACAATTAATTATAGAGGCTGGTGGCAATTTCTCAAGAACTTCAAGTTT
TCCTTATCGACAGTAATTCCTTGGTATGAAATTTTATGTCCCAAAACGATGCCTTCACGAACCAT
AAAGTGGAATTTCTCCCAATTTAGAGCAAGATTGGTTTCTTCAAATCGAGAAATAAATAATTCTA
GATTTTTAAACAATCTTCAAACGTATCACCAAACACTGAGAAATTGTCCATAAAAACTTCTAAGA
ATTTCTCCACTGTGTCCAAAAATATTGTCATCATGGAATGCTGAAATGTTGCAAAGGCATTGCAT
AATCCAAATGGCATTCATCGGAACGCAAAAGTTCCATAAGCACATGAGAATGTGGTCTTCTCTTG
ATCAGTAGGAGCTATGGCAATCTAGTTATACC
Found at i:45175230 original size:45 final size:45
Alignment explanation
Indices: 45175166--45175253 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
45175156 TTTCTAACTC
* *
45175166 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCT
45175211 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
45175254 TCGGTTCACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCT
Found at i:45175322 original size:51 final size:50
Alignment explanation
Indices: 45175264--45175441 Score: 184
Period size: 51 Copynumber: 3.5 Consensus size: 50
45175254 TCGGTTCACA
*
45175264 TAGTAGCCTGCACATACTACTACACATTTGATCATTATCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATTTGATCA-TATCATCCGATACACG
* * * *
45175315 TAGTAGCCTGCACATAGTACTACACACGTTG-TCGA-AACTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACA-TTTGATC-ATATC-ATCCGA-TACACG
** * *
45175366 TAGTAGCCTGCACATAGTACTACACATGCGA-CCTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATTTGATCATATCA-TCCGATACACG
*
45175416 TAGTAGCCTACACATAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
45175442 CGTGACCATC
Statistics
Matches: 105, Mismatches: 14, Indels: 17
0.77 0.10 0.12
Matches are distributed among these distances:
49 1 0.01
50 39 0.37
51 61 0.58
52 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATTTGATCATATCATCCGATACACG
Found at i:45175438 original size:101 final size:102
Alignment explanation
Indices: 45175262--45175444 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 102
45175252 GTTCGGTTCA
** * *
45175262 CATAGTAGCCTGCACATACTACTACACATTTGATCATTATCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATACTACTACACATGCGATCACTATCATCCGATACACGTAGTAGCCTACA
45175327 CATAGTACTACACACGTTGTCGAAACTATCCAGTACG
66 CATAGTACTACACACGTTGTCGAAACTATCCAGTACG
* *
45175364 CATAGTAGCCTGCACATAGTACTACACATGCGA-C-CTATCATTCCGGTACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATACTACTACACATGCGATCACTATCA-TCCGATACACGTAGTAGCCTAC
45175427 ACATAGTACTACACACGT
65 ACATAGTACTACACACGT
45175445 GACCATCACT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 5 0.07
101 39 0.53
102 30 0.41
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATACTACTACACATGCGATCACTATCATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTTGTCGAAACTATCCAGTACG
Found at i:45177359 original size:15 final size:15
Alignment explanation
Indices: 45177339--45177369 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45177329 TTTTACTTAG
*
45177339 TAGTTTTATTTAATT
1 TAGTTTAATTTAATT
45177354 TAGTTTAATTTAATT
1 TAGTTTAATTTAATT
45177369 T
1 T
45177370 TTACAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TAGTTTAATTTAATT
Found at i:45189756 original size:36 final size:37
Alignment explanation
Indices: 45189684--45189756 Score: 130
Period size: 38 Copynumber: 2.0 Consensus size: 37
45189674 TTGGGATAAG
45189684 CACAATACTAGTAGTGTTTATAATGTCAATCTCCTTTA
1 CACAATACTAGTAGTGTTTATAA-GTCAATCTCCTTTA
45189722 CACAATACTAGTAGTGTTTATAA-TCAATCTCCTTT
1 CACAATACTAGTAGTGTTTATAAGTCAATCTCCTTT
45189757 CTTCTATTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 12 0.34
38 23 0.66
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.40
Consensus pattern (37 bp):
CACAATACTAGTAGTGTTTATAAGTCAATCTCCTTTA
Found at i:45196279 original size:13 final size:13
Alignment explanation
Indices: 45196263--45196328 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
45196253 TTTAAACCAA
45196263 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
45196276 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
45196289 ACTTTTC-CACGTC
1 ACTTTTCAAAAG-C
*
45196302 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
45196315 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
45196328 A
1 A
45196329 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 2 0.05
13 38 0.93
14 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:45202900 original size:61 final size:55
Alignment explanation
Indices: 45202833--45202961 Score: 161
Period size: 61 Copynumber: 2.2 Consensus size: 55
45202823 TATATTCCTA
*
45202833 AATATATACCTAAAAGATATA-CAATATATGTAGATATTCCTAAAAGACAATATCTCATAAT
1 AATATAT-CCTAAAAGATATATC-ATA-AT-AAGATATTCCTAAAAG---ATATCTCATAAT
*
45202894 AATATATTCCTAAAAGATATATCATAATAATATATTCCTAAAAGATATCTCATAAT
1 AATATA-TCCTAAAAGATATATCATAATAAGATATTCCTAAAAGATATCTCATAAT
45202950 AATATATCCTAA
1 AATATATCCTAA
45202962 CACCCCGCTC
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
55 6 0.09
56 18 0.28
59 14 0.22
60 2 0.03
61 22 0.34
62 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (55 bp):
AATATATCCTAAAAGATATATCATAATAAGATATTCCTAAAAGATATCTCATAAT
Found at i:45202904 original size:31 final size:28
Alignment explanation
Indices: 45202866--45202961 Score: 149
Period size: 28 Copynumber: 3.4 Consensus size: 28
45202856 ATATATGTAG
45202866 ATATTCCTAAAAGACAATATCTCATAATAAT
1 ATATTCCTAAAAG---ATATCTCATAATAAT
*
45202897 ATATTCCTAAAAGATATATCATAATAAT
1 ATATTCCTAAAAGATATCTCATAATAAT
45202925 ATATTCCTAAAAGATATCTCATAATAAT
1 ATATTCCTAAAAGATATCTCATAATAAT
45202953 ATA-TCCTAA
1 ATATTCCTAA
45202962 CACCCCGCTC
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
27 6 0.10
28 44 0.70
31 13 0.21
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (28 bp):
ATATTCCTAAAAGATATCTCATAATAAT
Found at i:45202913 original size:13 final size:13
Alignment explanation
Indices: 45202864--45202941 Score: 57
Period size: 14 Copynumber: 5.5 Consensus size: 13
45202854 CAATATATGT
45202864 AGATATTCCTAAA
1 AGATATTCCTAAA
*
45202877 AGACAATATCTCATAATA
1 AG---ATAT-TCCTAA-A
*
45202895 ATATATTCCTAAA
1 AGATATTCCTAAA
*
45202908 AGATATATCATAATA
1 AGATAT-TCCTAA-A
*
45202923 ATATATTCCTAAA
1 AGATATTCCTAAA
45202936 AGATAT
1 AGATAT
45202942 CTCATAATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
13 14 0.28
14 15 0.30
15 10 0.20
16 4 0.08
17 5 0.10
18 2 0.04
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (13 bp):
AGATATTCCTAAA
Found at i:45202922 original size:28 final size:28
Alignment explanation
Indices: 45202833--45202961 Score: 145
Period size: 28 Copynumber: 4.5 Consensus size: 28
45202823 TATATTCCTA
*
45202833 AATATATACCTAAAAGATATA-CAATATAT
1 AATATATTCCTAAAAGATATATC-ATA-AT
* * *
45202862 GTAGATATTCCTAAAAGACAATATCTCATAAT
1 -AATATATTCCTAAAAG---ATATATCATAAT
45202894 AATATATTCCTAAAAGATATATCATAAT
1 AATATATTCCTAAAAGATATATCATAAT
*
45202922 AATATATTCCTAAAAGATATCTCATAAT
1 AATATATTCCTAAAAGATATATCATAAT
45202950 AATATA-TCCTAA
1 AATATATTCCTAA
45202962 CACCCCGCTC
Statistics
Matches: 87, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
27 6 0.07
28 44 0.51
30 13 0.15
31 14 0.16
32 2 0.02
33 7 0.08
34 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (28 bp):
AATATATTCCTAAAAGATATATCATAAT
Found at i:45202956 original size:15 final size:15
Alignment explanation
Indices: 45202882--45202957 Score: 79
Period size: 14 Copynumber: 5.3 Consensus size: 15
45202872 CTAAAAGACA
45202882 ATATCTCATAATAAT
1 ATATCTCATAATAAT
* *
45202897 ATAT-TCCTAA-AAG
1 ATATCTCATAATAAT
*
45202910 ATATATCATAATAAT
1 ATATCTCATAATAAT
* *
45202925 ATAT-TCCTAA-AAG
1 ATATCTCATAATAAT
45202938 ATATCTCATAATAAT
1 ATATCTCATAATAAT
45202953 ATATC
1 ATATC
45202958 CTAACACCCC
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
13 12 0.24
14 20 0.41
15 17 0.35
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (15 bp):
ATATCTCATAATAAT
Found at i:45207660 original size:46 final size:46
Alignment explanation
Indices: 45207597--45207779 Score: 262
Period size: 46 Copynumber: 4.0 Consensus size: 46
45207587 ATGCTATAAT
* * * *
45207597 TCAGTATGGTTTCCTTCACTGAAATATCATACCTACTTTTCACAAC
1 TCAGTATCGTTTTCTTCACTGAAACACCATACCTACTTTTCACAAC
*
45207643 TCAGTATCGTTTTCTTCACTGAAACACCATACCTACTTTTCACAAT
1 TCAGTATCGTTTTCTTCACTGAAACACCATACCTACTTTTCACAAC
*
45207689 TCAGTA-CGGTTTTCTTCATTGAAACACCATACCTACTTTTCACAAC
1 TCAGTATC-GTTTTCTTCACTGAAACACCATACCTACTTTTCACAAC
* *
45207735 TCAGTATGGCTTTT-TTCACTGAAACACCATACCTGCTTTTCACAA
1 TCAGTATCG-TTTTCTTCACTGAAACACCATACCTACTTTTCACAA
45207780 TTTTTCCATG
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
45 1 0.01
46 119 0.96
47 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (46 bp):
TCAGTATCGTTTTCTTCACTGAAACACCATACCTACTTTTCACAAC
Found at i:45207753 original size:92 final size:92
Alignment explanation
Indices: 45207594--45207781 Score: 297
Period size: 92 Copynumber: 2.0 Consensus size: 92
45207584 ACAATGCTAT
* * *
45207594 AATTCAGTATGGTTTCCTTCACTGAAATATCATACCTACTTTTCACAACTCAGTATCGTTTTCTT
1 AATTCAGTACGGTTTCCTTCACTGAAACACCATACCTACTTTTCACAACTCAGTATCGTTTTCTT
45207659 CACTGAAACACCATACCTACTTTTCAC
66 CACTGAAACACCATACCTACTTTTCAC
* * *
45207686 AATTCAGTACGGTTTTCTTCATTGAAACACCATACCTACTTTTCACAACTCAGTATGGCTTTT-T
1 AATTCAGTACGGTTTCCTTCACTGAAACACCATACCTACTTTTCACAACTCAGTATCG-TTTTCT
*
45207750 TCACTGAAACACCATACCTGCTTTTCAC
65 TCACTGAAACACCATACCTACTTTTCAC
45207778 AATT
1 AATT
45207782 TTTCCATGGA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 84 0.95
93 4 0.05
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.37
Consensus pattern (92 bp):
AATTCAGTACGGTTTCCTTCACTGAAACACCATACCTACTTTTCACAACTCAGTATCGTTTTCTT
CACTGAAACACCATACCTACTTTTCAC
Found at i:45209024 original size:17 final size:17
Alignment explanation
Indices: 45209002--45209049 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
45208992 AAATTCTTTT
45209002 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
* * *
45209019 TAAATCACAGACTTCAT
1 TAAATCACAAAATTCAC
*
45209036 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
45209050 TTCTAAATTC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:45211390 original size:27 final size:27
Alignment explanation
Indices: 45211360--45211415 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
45211350 CATTTTTGAT
*
45211360 GAATAACGAAATAATAGCCACTGTGGC
1 GAATAACGAAAGAATAGCCACTGTGGC
* * **
45211387 GAATTATGAAAGAATAGCCTTTGTGGC
1 GAATAACGAAAGAATAGCCACTGTGGC
45211414 GA
1 GA
45211416 TCTGAAAGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (27 bp):
GAATAACGAAAGAATAGCCACTGTGGC
Found at i:45211428 original size:25 final size:25
Alignment explanation
Indices: 45211393--45211441 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
45211383 TGGCGAATTA
*
45211393 TGAAAGAATAGCCTTTGTGGCGATC
1 TGAAAGAATAGACTTTGTGGCGATC
* *
45211418 TGAAAGGATAGACTTTTTGGCGAT
1 TGAAAGAATAGACTTTGTGGCGAT
45211442 AAACTGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (25 bp):
TGAAAGAATAGACTTTGTGGCGATC
Found at i:45214863 original size:29 final size:29
Alignment explanation
Indices: 45214793--45214882 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 29
45214783 TATCGACGTT
*
45214793 ACACAG-TCGTGTGGTAGGTCATGT-GGATC
1 ACACAGCT-GTGTGGTAGGCCATGTAGG-TC
* **
45214822 ACACGGCCATGTGGTAGGCCATGTAGGTC
1 ACACAGCTGTGTGGTAGGCCATGTAGGTC
* * *
45214851 ACACAGCTGTGTGGCAAGCCGTGTAGGTC
1 ACACAGCTGTGTGGTAGGCCATGTAGGTC
45214880 ACA
1 ACA
45214883 TGATCGTGTG
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 47 0.96
30 2 0.04
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (29 bp):
ACACAGCTGTGTGGTAGGCCATGTAGGTC
Found at i:45215017 original size:29 final size:29
Alignment explanation
Indices: 45214936--45215017 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 29
45214926 TTGTTTTAGG
* * * *
45214936 CCATGTGGCTCAAACGGCCGTGTGGCAAA
1 CCATGTGGGTCACACAGCCATGTGGCAAA
** * * *
45214965 CCATGTGGGTCACATGGTCTTGTGGTAAA
1 CCATGTGGGTCACACAGCCATGTGGCAAA
*
45214994 CCGTGTGGGTCACACAGCCATGTG
1 CCATGTGGGTCACACAGCCATGTG
45215018 TCAGGCCATG
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (29 bp):
CCATGTGGGTCACACAGCCATGTGGCAAA
Found at i:45221892 original size:87 final size:87
Alignment explanation
Indices: 45221778--45222261 Score: 720
Period size: 87 Copynumber: 5.6 Consensus size: 87
45221768 TTAGGGAGAT
* * *
45221778 AAGATCTG-TCATCTTTAACTAGCTCCACTGCAACCGTTAGAGGCAAGGCTTTGTTTTCGATCTG
1 AAGATCTGCT-ATCTTTAACCAGCTCCACTACAACCGATAGAGGCAAGGCTTTGTTTTCGATCTG
* * *
45221842 CTTCGCTGTTAATGTAGGAAAGC
65 CTTCGCTGTTAACGCAGGAAGGC
* * *
45221865 AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACTTTG-TTTCTGATTTG
1 AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATAGAGGCAAGGCTTTGTTTTC-GATCTG
* * * *
45221929 CTTCGTTGTCAATGCATGAAGGC
65 CTTCGCTGTTAACGCAGGAAGGC
*
45221952 AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATAGAGGCAAGGCTTTGTTTTCGATCTGC
45222017 TTCGCTGTTAACGCAGGAAGGC
66 TTCGCTGTTAACGCAGGAAGGC
* * *
45222039 AAGATCTGCTATCTTTAACCAACTCCACTACAATCGATAGAGGCAAGGCCTTGTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATAGAGGCAAGGCTTTGTTTTCGATCTGC
*
45222104 TTTGCTGTTAACGCAGGAAGGC
66 TTCGCTGTTAACGCAGGAAGGC
* * * *
45222126 AAGATCTGCTATCTTTAACCAGCTCCACTATAACCGATGGAGGTAAGGCTTTGTTTTTGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATAGAGGCAAGGCTTTGTTTTCGATCTGC
* *
45222191 GTCACTGTTAACGCAGGAAGGC
66 TTCGCTGTTAACGCAGGAAGGC
45222213 AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATAGAGGCAAGGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATAGAGGCAAGGC
45222262 CTGTATCTTC
Statistics
Matches: 359, Mismatches: 35, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
86 4 0.01
87 350 0.97
88 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (87 bp):
AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATAGAGGCAAGGCTTTGTTTTCGATCTGC
TTCGCTGTTAACGCAGGAAGGC
Found at i:45223515 original size:7 final size:7
Alignment explanation
Indices: 45223498--45223537 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
45223488 TCCATTTTAC
45223498 TTTTCATT
1 TTTTCA-T
45223506 TTTTCAT
1 TTTTCAT
45223513 TTTTCA-
1 TTTTCAT
45223519 TTTTCAT
1 TTTTCAT
45223526 TTTTCAT
1 TTTTCAT
45223533 CTTTT
1 -TTTT
45223538 TTTTAACTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.20
7 14 0.47
8 10 0.33
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCAT
Found at i:45223522 original size:13 final size:13
Alignment explanation
Indices: 45223506--45223532 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45223496 ACTTTTCATT
45223506 TTTTCATTTTTCA
1 TTTTCATTTTTCA
45223519 TTTTCATTTTTCA
1 TTTTCATTTTTCA
45223532 T
1 T
45223533 CTTTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:45223522 original size:21 final size:19
Alignment explanation
Indices: 45223490--45223541 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
45223480 TTAGCCTCTC
*
45223490 CATTTTACTTTTCATTTTTT
1 CATTTTTCTTTTCA-TTTTT
45223510 CATTTTTCATTTTCATTTTT
1 CATTTTTC-TTTTCATTTTT
45223530 CATCTTTT-TTTT
1 CAT-TTTTCTTTT
45223542 AACTTCATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.14
20 15 0.52
21 10 0.34
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.71
Consensus pattern (19 bp):
CATTTTTCTTTTCATTTTT
Found at i:45224001 original size:12 final size:13
Alignment explanation
Indices: 45223978--45224007 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
45223968 TTTTCTTTTT
45223978 TTTTTGATTTTGA
1 TTTTTGATTTTGA
45223991 TTTTTGA-TTTGA
1 TTTTTGATTTTGA
45224003 TTTTT
1 TTTTT
45224008 TTTTGAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (13 bp):
TTTTTGATTTTGA
Found at i:45224008 original size:13 final size:14
Alignment explanation
Indices: 45223977--45224008 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
45223967 CTTTTCTTTT
45223977 TTTTTTGATTTTGA
1 TTTTTTGATTTTGA
45223991 -TTTTTGA-TTTGA
1 TTTTTTGATTTTGA
45224003 TTTTTT
1 TTTTTT
45224009 TTTGAATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.75
Consensus pattern (14 bp):
TTTTTTGATTTTGA
Found at i:45230895 original size:37 final size:36
Alignment explanation
Indices: 45230795--45230916 Score: 113
Period size: 37 Copynumber: 3.3 Consensus size: 36
45230785 AATCCATCCA
* *
45230795 AAAACATGCCAAATGCTCATAAGAGCTAATCCAA-CTG
1 AAAACACGCCAATTGCTCA-AAGAGCTAATCCAATC-G
* * *
45230832 -ATACAAGCCAATTGCTCGGAAGAGCTAATCCAATCG
1 AAAACACGCCAATTGCTC-AAAGAGCTAATCCAATCG
* * **
45230868 AAAACACGCCAATTGCTTCAAAAAGCTAGTCCAATTA
1 AAAACACGCCAATTGC-TCAAAGAGCTAATCCAATCG
45230905 AAAACACGCCAA
1 AAAACACGCCAA
45230917 AATAGGGAGT
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
36 29 0.41
37 39 0.56
38 2 0.03
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (36 bp):
AAAACACGCCAATTGCTCAAAGAGCTAATCCAATCG
Found at i:45233898 original size:20 final size:20
Alignment explanation
Indices: 45233875--45233913 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45233865 CAATTGTGTT
45233875 AAAATCATTAATTAAAATAA
1 AAAATCATTAATTAAAATAA
* **
45233895 AAAATTATTTTTTAAAATA
1 AAAATCATTAATTAAAATA
45233914 CTAATTACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATCATTAATTAAAATAA
Found at i:45234194 original size:13 final size:13
Alignment explanation
Indices: 45234173--45234234 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 13
45234163 TAAACAAAAT
*
45234173 TTTTTAAAAACAC
1 TTTTCAAAAACAC
* *
45234186 TTCTCAAAAATAC
1 TTTTCAAAAACAC
* * *
45234199 TTTTCCACAGCAC
1 TTTTCAAAAACAC
*
45234212 TTTTTAAAAACAC
1 TTTTCAAAAACAC
45234225 TTTTCAAAAA
1 TTTTCAAAAA
45234235 TAATAAAGAA
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:45242089 original size:85 final size:86
Alignment explanation
Indices: 45241997--45242170 Score: 323
Period size: 88 Copynumber: 2.0 Consensus size: 86
45241987 ATTAAACTCA
45241997 TGATAAAATTAAATATAGTAACATTAGATA-TTGTAATAATAAAATTAAAATTAGCACTAAGATA
1 TGATAAAATTAAATATAGTAACATTAGATATTTGTAATAATAAAATTAAAATTAGCACTAAGATA
45242061 TGTGTATAAATTCAATTGCAG
66 TGTGTATAAATTCAATTGCAG
45242082 TGATAAAATTAAATATAGTAACATTAGATATTTTTGTAATAATAAAATTAAAATTAGCACTAAGA
1 TGATAAAATTAAATATAGTAACATTAGATA--TTTGTAATAATAAAATTAAAATTAGCACTAAGA
45242147 TATGTGTATAAATTCAATTGCAG
64 TATGTGTATAAATTCAATTGCAG
45242170 T
1 T
45242171 AAATAGCGGT
Statistics
Matches: 86, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
85 30 0.35
88 56 0.65
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (86 bp):
TGATAAAATTAAATATAGTAACATTAGATATTTGTAATAATAAAATTAAAATTAGCACTAAGATA
TGTGTATAAATTCAATTGCAG
Found at i:45242241 original size:19 final size:19
Alignment explanation
Indices: 45242217--45242274 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 19
45242207 TTATATCAAT
45242217 ATTAAACAGTATATTATAA
1 ATTAAACAGTATATTATAA
*
45242236 ATTAAAACA--ATATT-TAT
1 ATT-AAACAGTATATTATAA
* *
45242253 ATTAAAAAGTA-ATTATGA
1 ATTAAACAGTATATTATAA
45242271 ATTA
1 ATTA
45242275 TTAAAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
16 4 0.13
17 8 0.26
18 11 0.35
19 3 0.10
20 5 0.16
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (19 bp):
ATTAAACAGTATATTATAA
Found at i:45242257 original size:36 final size:37
Alignment explanation
Indices: 45242215--45242307 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 37
45242205 AATTATATCA
*
45242215 ATATTAAACAGTATATTAT-AA-ATTAAAACAATATTT
1 ATATTAAAAAGTA-ATTATGAATATTAAAACAATATTT
**
45242251 ATATTAAAAAGTAATTATGAATTATTAAAATTATATTT
1 ATATTAAAAAGTAATTATGAA-TATTAAAACAATATTT
* *
45242289 ATATCAAAAAATAAATTAT
1 ATATTAAAAAGT-AATTAT
45242308 TAAAATTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
35 5 0.10
36 14 0.29
38 23 0.48
39 6 0.12
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (37 bp):
ATATTAAAAAGTAATTATGAATATTAAAACAATATTT
Found at i:45242287 original size:38 final size:37
Alignment explanation
Indices: 45242204--45242324 Score: 112
Period size: 32 Copynumber: 3.4 Consensus size: 37
45242194 ATAATAACTC
** *
45242204 AAATTATATCAATATTAAACAGTATATTATAA--ATTA
1 AAATTATATTTATATTAAAAAGTA-ATTATAATTATTA
**
45242240 AAACAATATTTATATTAAAAAGTAATTATGAATTATTA
1 AAATTATATTTATATTAAAAAGTAATTAT-AATTATTA
*
45242278 AAATTATATTTATA-TCAAAA--AA-TA-AATTATTA
1 AAATTATATTTATATTAAAAAGTAATTATAATTATTA
*
45242310 AAATTTTATTTATAT
1 AAATTATATTTATAT
45242325 CGATTAATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
32 21 0.29
34 2 0.03
35 7 0.10
36 21 0.29
37 5 0.07
38 16 0.22
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (37 bp):
AAATTATATTTATATTAAAAAGTAATTATAATTATTA
Found at i:45246009 original size:24 final size:24
Alignment explanation
Indices: 45245982--45246067 Score: 109
Period size: 24 Copynumber: 3.6 Consensus size: 24
45245972 AGAATTAATA
45245982 AAGATCATTCATGTATATTCAATC
1 AAGATCATTCATGTATATTCAATC
* * *
45246006 AAGACCAGTCATGTATATTCACTC
1 AAGATCATTCATGTATATTCAATC
* * *
45246030 AAGGTCATTCACGTATATTTAATC
1 AAGATCATTCATGTATATTCAATC
*
45246054 AAAATCATTCATGT
1 AAGATCATTCATGT
45246068 GTACTTGCAT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (24 bp):
AAGATCATTCATGTATATTCAATC
Found at i:45246274 original size:20 final size:20
Alignment explanation
Indices: 45246226--45246293 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
45246216 AGGCATTGAG
* *
45246226 GTGCAAAGAGAGACACCAAA
1 GTGCAAACAAAGACACCAAA
**
45246246 GTGTGAACAAAGACACCAAA
1 GTGCAAACAAAGACACCAAA
*
45246266 GTGCAAACAAAGGA-ACCGAA
1 GTGCAAACAAA-GACACCAAA
45246286 GTGCAAAC
1 GTGCAAAC
45246294 CCGTACAAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 38 0.95
21 2 0.05
ACGTcount: A:0.49, C:0.21, G:0.24, T:0.07
Consensus pattern (20 bp):
GTGCAAACAAAGACACCAAA
Found at i:45256888 original size:298 final size:298
Alignment explanation
Indices: 45256343--45257427 Score: 1708
Period size: 298 Copynumber: 3.6 Consensus size: 298
45256333 AGAAGAGGGC
* * * *
45256343 CAATAATGCCATTGATGCTTACTCTATTGTTGTTATCAAAGTTGGTCCATGTAGCTTACCGATGT
1 CAATAGTGGCATTGATGCTTACTCTATTGTTGTTATCAAAGCTAGTCCATGTAGCTTACCGATGT
* ** *
45256408 CTCGCAATGGAAGTTTTGGGAGTCAGCTCATTCTTCCCTTACCTCATACGATGAGCATGAAGAGG
66 CTCGCGATGGAAGTTTTGGGAGTCAATTCATTCTTCTCTTACCTCATACGATGAGCATGAAGAGG
* * *
45256473 TAAGAAACCAAAATTTGAACCTTCTGTCATTAGTGTTGTCAAATCATCGATATCAAATCTGACAT
131 TAAGAAACCAAAATTCGAACCTCCTGTCATCAGTGTTGTCAAATCATCGATATCAAATCTGACAT
*
45256538 CTCTAACTCCATTTCAGTAGCAAAGTGTAGGACTTTGAAGGACTCAAATGCTTAAGGCTAAGCAG
196 CTCTAACTCCATTTCAGTAGCAAAGTGTAGGACTTTGAAGGACTCAAATGCTTAAGGCTAAGTAG
**
45256603 TGCTTCAATGGTTAATTTTTTCTCGTTAATAGAAAACG
261 TGCTTCAATGGTCGATTTTTTCTCGTTAATAGAAAACG
*
45256641 TAATAGTGGCATTGATGCTTACTCTATTGTTGTTATCAAAGCTAGTCCATGTAGCTTACCGATGT
1 CAATAGTGGCATTGATGCTTACTCTATTGTTGTTATCAAAGCTAGTCCATGTAGCTTACCGATGT
45256706 CTCGCGATGGAAGTTTTGGGAGTCAATTCATTCTTC-CTTTACCTCATACGATGAGCATGAAGAG
66 CTCGCGATGGAAGTTTTGGGAGTCAATTCATTCTTCTC-TTACCTCATACGATGAGCATGAAGAG
* * *
45256770 GTAAGAAACCAAGATTCGAGCCTCCTGTCATCAATGTTGTCAAATCATCGATATCAAATCTGACA
130 GTAAGAAACCAAAATTCGAACCTCCTGTCATCAGTGTTGTCAAATCATCGATATCAAATCTGACA
*
45256835 TCTCTAACTCCATTTCAGTAGCAAAGTGTAGGACTTTGAAGGACTCAAATGCTTAAGGCTAAATA
195 TCTCTAACTCCATTTCAGTAGCAAAGTGTAGGACTTTGAAGGACTCAAATGCTTAAGGCTAAGTA
45256900 GTGCTTCAATGGTCGATTTTTTCTCGTTAATAGAAAACG
260 GTGCTTCAATGGTCGATTTTTTCTCGTTAATAGAAAACG
* * *
45256939 CAATAGTGGCATTGATGCTGACTCTATTGTTGTTATCAAAGCCAGTCCATGTAGCTTACTGATGT
1 CAATAGTGGCATTGATGCTTACTCTATTGTTGTTATCAAAGCTAGTCCATGTAGCTTACCGATGT
* * * * * *
45257004 CTTGTGGTGGAAGTTTTGGGAATCAGTCCATTCTTCTCTTACCTCATACGATGAGCATGAAGAGG
66 CTCGCGATGGAAGTTTTGGGAGTCAATTCATTCTTCTCTTACCTCATACGATGAGCATGAAGAGG
* *
45257069 TAAGAAACCAAAATGT-GAACCTCCTGTCATCAGTGTTGTCAAATCATCGGTATCAAATTTGACA
131 TAAGAAACCAAAAT-TCGAACCTCCTGTCATCAGTGTTGTCAAATCATCGATATCAAATCTGACA
* * ** * *
45257133 TCTTTGACTTTATTTCAGTAGCAAAGTGTATGACTTTGAAGGACTCAAATGCTTAAGGCCAAGTA
195 TCTCTAACTCCATTTCAGTAGCAAAGTGTAGGACTTTGAAGGACTCAAATGCTTAAGGCTAAGTA
* * *
45257198 GTGCTTCAATGGTCGATTTTTTCCCTTTAATAGAAAATG
260 GTGCTTCAATGGTCGATTTTTTCTCGTTAATAGAAAACG
* * *
45257237 CAATAGTGGCATTGATGCTTACTCTATTGTTGTTATCAAATC-CGATCTATGTAGCTTACCGATG
1 CAATAGTGGCATTGATGCTTACTCTATTGTTGTTATCAAAGCTAG-TCCATGTAGCTTACCGATG
* * *
45257301 TCTCGTGGTGGAAGTTTTGGGAGTCAAGTCATTCTTCTCTTACCTCATACGATGAGCATGAAGAG
65 TCTCGCGATGGAAGTTTTGGGAGTCAATTCATTCTTCTCTTACCTCATACGATGAGCATGAAGAG
*
45257366 GTAAGAAACCAAAATTCAAACCTCCTGTCATCAGTGTTGTCAAATCATCGATATCAAATCTG
130 GTAAGAAACCAAAATTCGAACCTCCTGTCATCAGTGTTGTCAAATCATCGATATCAAATCTG
45257428 TAACACCCTA
Statistics
Matches: 726, Mismatches: 56, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
297 3 0.00
298 721 0.99
299 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (298 bp):
CAATAGTGGCATTGATGCTTACTCTATTGTTGTTATCAAAGCTAGTCCATGTAGCTTACCGATGT
CTCGCGATGGAAGTTTTGGGAGTCAATTCATTCTTCTCTTACCTCATACGATGAGCATGAAGAGG
TAAGAAACCAAAATTCGAACCTCCTGTCATCAGTGTTGTCAAATCATCGATATCAAATCTGACAT
CTCTAACTCCATTTCAGTAGCAAAGTGTAGGACTTTGAAGGACTCAAATGCTTAAGGCTAAGTAG
TGCTTCAATGGTCGATTTTTTCTCGTTAATAGAAAACG
Found at i:45258491 original size:12 final size:12
Alignment explanation
Indices: 45258474--45258499 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45258464 CCAATCATTA
45258474 CATATGTTCTTC
1 CATATGTTCTTC
45258486 CATATGTTCTTC
1 CATATGTTCTTC
45258498 CA
1 CA
45258500 ATTTTCCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.27, G:0.08, T:0.46
Consensus pattern (12 bp):
CATATGTTCTTC
Found at i:45259250 original size:37 final size:37
Alignment explanation
Indices: 45259164--45259250 Score: 90
Period size: 37 Copynumber: 2.3 Consensus size: 37
45259154 AATGTACTAT
*
45259164 TTCATAATTTCACTTTTTCACTTTCAATCACAATTCAA
1 TTCA-AATTTCACTTTTCCACTTTCAATCACAATTCAA
* *
45259202 TTCAAAATTCACTTTTCCA-TTTCTAAGTCGATAA-TCAA
1 TTCAAATTTCACTTTTCCACTTTC-AA-TC-ACAATTCAA
45259240 TT-AAATTTCAC
1 TTCAAATTTCAC
45259251 ACCTATATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.10
37 23 0.55
38 12 0.29
39 3 0.07
ACGTcount: A:0.33, C:0.22, G:0.02, T:0.43
Consensus pattern (37 bp):
TTCAAATTTCACTTTTCCACTTTCAATCACAATTCAA
Found at i:45268401 original size:20 final size:20
Alignment explanation
Indices: 45268368--45268406 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45268358 ATCTTTTTAT
*
45268368 AATTTTATACTTTTTAAATA
1 AATTTAATACTTTTTAAATA
*
45268388 AATTTAATATTTTTTAAAT
1 AATTTAATACTTTTTAAAT
45268407 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTAATACTTTTTAAATA
Found at i:45270681 original size:18 final size:18
Alignment explanation
Indices: 45270658--45270693 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45270648 TAATTAGGTA
45270658 GGTACCATCATTAAACCT
1 GGTACCATCATTAAACCT
45270676 GGTACCATCATTAAACCT
1 GGTACCATCATTAAACCT
45270694 ATCGTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (18 bp):
GGTACCATCATTAAACCT
Found at i:45274002 original size:21 final size:21
Alignment explanation
Indices: 45273972--45274086 Score: 135
Period size: 21 Copynumber: 5.5 Consensus size: 21
45273962 AGCTCGAAAA
*
45273972 CTGAATAGAAGCTCATAAGAG
1 CTGAACAGAAGCTCATAAGAG
* *
45273993 TTGAACAGAAACTCATAAGAG
1 CTGAACAGAAGCTCATAAGAG
*
45274014 TTGAACAGAAGCTCATAAGAG
1 CTGAACAGAAGCTCATAAGAG
*
45274035 CTGAACAAAAGCTCGA-AAGAG
1 CTGAACAGAAGCTC-ATAAGAG
*
45274056 CTAAACAGAAGCTCGA-AAGAG
1 CTGAACAGAAGCTC-ATAAGAG
*
45274077 CTAAACAGAA
1 CTGAACAGAA
45274087 AGTAAAACAC
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
21 84 0.99
22 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (21 bp):
CTGAACAGAAGCTCATAAGAG
Found at i:45274040 original size:42 final size:43
Alignment explanation
Indices: 45273961--45274088 Score: 151
Period size: 42 Copynumber: 3.1 Consensus size: 43
45273951 ACGCCAACGG
* *
45273961 AAGCTCGAAA-A-CTGAATAGAAGCTCATAAGAGTTGAACAGA
1 AAGCTCGAAAGAGCTGAACAGAAGCTCATAAGAGCTGAACAGA
*
45274002 AA-CTC-ATAAGAGTTGAACAGAAGCTCATAAGAGCTGAACA-A
1 AAGCTCGA-AAGAGCTGAACAGAAGCTCATAAGAGCTGAACAGA
* *
45274043 AAGCTCGAAAGAGCTAAACAGAAGCTCGA-AAGAGCTAAACAGA
1 AAGCTCGAAAGAGCTGAACAGAAGCTC-ATAAGAGCTGAACAGA
45274086 AAG
1 AAG
45274089 TAAAACACGA
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 6 0.08
42 56 0.76
43 6 0.08
ACGTcount: A:0.48, C:0.16, G:0.22, T:0.14
Consensus pattern (43 bp):
AAGCTCGAAAGAGCTGAACAGAAGCTCATAAGAGCTGAACAGA
Found at i:45280864 original size:278 final size:278
Alignment explanation
Indices: 45280366--45280912 Score: 995
Period size: 278 Copynumber: 2.0 Consensus size: 278
45280356 CTTCTAGTTA
45280366 TATAAAAAGTGCTCATTCAGCCACATATACGAGTTCGTCGCCACGTCTTCGATAAATTGACAAGT
1 TATAAAAAGTGCTCATTCAGCCACATATACGAGTTCGTCGCCACGTCTTCGATAAATTGACAAGT
* *
45280431 TCACTCCTAAGTGTTATTTATGAAGGCCCTGACTGATGTGCCATCGAAGCTGAATTTTAAGCTCC
66 TCACTCCTAAGTGTTATTTATGAAGGCCCTGACTGATGTGCCATCGAAGCCGAATCTTAAGCTCC
*
45280496 CATCCAATCCATTATAAAATATTTGCAATTATAACTAGTGTGGTGTTGGCATTTCCTAAGTAACA
131 CATCCAATCCATTATAAAATATTTGCAATTATAACTAGTGTGGTGTGGGCATTTCCTAAGTAACA
* *
45280561 ACTTGAAGCATTCCCAAGCTTCGGATAAATTTTCACCTTTGAATTGCTTAAAATTAGCAATATCA
196 ACTTGAAGCATTCCCAAGATTCGGATAAACTTTCACCTTTGAATTGCTTAAAATTAGCAATATCA
45280626 CGCCTAAATATTATGAAG
261 CGCCTAAATATTATGAAG
*
45280644 TATAAAAAGTGCTCATTCAGCCACATATACGAGTTCGTCGCCATGTCTTCGATAAATTGACAAGT
1 TATAAAAAGTGCTCATTCAGCCACATATACGAGTTCGTCGCCACGTCTTCGATAAATTGACAAGT
* *
45280709 TCACTCCTAAGTGTTATTTATGAATGCCCTGACTGATGTGCCATTGAAGCCGAATCTTAAGCTCC
66 TCACTCCTAAGTGTTATTTATGAAGGCCCTGACTGATGTGCCATCGAAGCCGAATCTTAAGCTCC
* * *
45280774 CATCCAATCCATTATAACATATTTGCAATTGTAACTAGTGTGGTGTGGGCATTTCCTAAGTAACG
131 CATCCAATCCATTATAAAATATTTGCAATTATAACTAGTGTGGTGTGGGCATTTCCTAAGTAACA
45280839 ACTTGAAGCATTCCCAAGATTCGGATAAACTTTCACCTTTGAATTGCTTAAAATTAGCAATATCA
196 ACTTGAAGCATTCCCAAGATTCGGATAAACTTTCACCTTTGAATTGCTTAAAATTAGCAATATCA
45280904 CGCCTAAAT
261 CGCCTAAAT
45280913 TGGATGGTTC
Statistics
Matches: 258, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
278 258 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (278 bp):
TATAAAAAGTGCTCATTCAGCCACATATACGAGTTCGTCGCCACGTCTTCGATAAATTGACAAGT
TCACTCCTAAGTGTTATTTATGAAGGCCCTGACTGATGTGCCATCGAAGCCGAATCTTAAGCTCC
CATCCAATCCATTATAAAATATTTGCAATTATAACTAGTGTGGTGTGGGCATTTCCTAAGTAACA
ACTTGAAGCATTCCCAAGATTCGGATAAACTTTCACCTTTGAATTGCTTAAAATTAGCAATATCA
CGCCTAAATATTATGAAG
Found at i:45281286 original size:16 final size:16
Alignment explanation
Indices: 45281249--45281288 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
45281239 GAGAATTAAG
*
45281249 TAAAAATCAAATAAAC
1 TAAAAATCAAATAAAA
45281265 TAAAAATCAAATAAAAA
1 TAAAAATCAAAT-AAAA
45281282 TAAAAAT
1 TAAAAAT
45281289 TTTGTATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAAATCAAATAAAA
Found at i:45283061 original size:9 final size:9
Alignment explanation
Indices: 45283044--45283089 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
45283034 TGAGTTTTCG
45283044 AATTCGAAT
1 AATTCGAAT
*
45283053 AACTCGAAT
1 AATTCGAAT
45283062 AATTCGAAT
1 AATTCGAAT
*
45283071 AATTCAAAT
1 AATTCGAAT
45283080 AATTCGAAT
1 AATTCGAAT
45283089 A
1 A
45283090 TCAAACTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:45301646 original size:19 final size:19
Alignment explanation
Indices: 45301618--45301656 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
45301608 GCATGTCAGT
*
45301618 GCTCTTTGATTACTAGCAC
1 GCTCTCTGATTACTAGCAC
45301637 GCTCTCTGATTACTAGCAC
1 GCTCTCTGATTACTAGCAC
45301656 G
1 G
45301657 TTAGTGCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (19 bp):
GCTCTCTGATTACTAGCAC
Found at i:45301663 original size:44 final size:44
Alignment explanation
Indices: 45301543--45301680 Score: 132
Period size: 44 Copynumber: 3.0 Consensus size: 44
45301533 AGTTTAGCGT
* * * *
45301543 GCTCTTTGATTATTAGCACATCAGTGCTCTCTGATTATTAGTACATC
1 GCTCTCTGATTACTAGCACGTCAGTGCTCTCTGATTACTAG--CA-C
* * * *
45301590 AGTGCTCTCTGGTTATTAGCATGTCAGTGCTCTTTGATTACTAGCAC
1 ---GCTCTCTGATTACTAGCACGTCAGTGCTCTCTGATTACTAGCAC
* *
45301637 GCTCTCTGATTACTAGCACGTTAGTGCTCTCTGATTATTAGCAC
1 GCTCTCTGATTACTAGCACGTCAGTGCTCTCTGATTACTAGCAC
45301681 ATTGGTGCTA
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
44 38 0.50
47 1 0.01
48 2 0.03
50 35 0.46
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.38
Consensus pattern (44 bp):
GCTCTCTGATTACTAGCACGTCAGTGCTCTCTGATTACTAGCAC
Found at i:45301689 original size:25 final size:25
Alignment explanation
Indices: 45301541--45301682 Score: 152
Period size: 25 Copynumber: 5.9 Consensus size: 25
45301531 GGAGTTTAGC
*
45301541 GTGCTCTTTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
*
45301566 GTGCTCTCTGATTATTAGTACATCA
1 GTGCTCTCTGATTATTAGCACATCA
* **
45301591 GTGCTCTCTGGTTATTAGCATGTCA
1 GTGCTCTCTGATTATTAGCACATCA
* *
45301616 GTGCTCTTTGATTACTAG--CA-C-
1 GTGCTCTCTGATTATTAGCACATCA
* * *
45301637 --GCTCTCTGATTACTAGCACGTTA
1 GTGCTCTCTGATTATTAGCACATCA
45301660 GTGCTCTCTGATTATTAGCACAT
1 GTGCTCTCTGATTATTAGCACAT
45301683 TGGTGCTATC
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
19 15 0.16
21 1 0.01
22 1 0.01
25 78 0.82
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCA
Found at i:45301722 original size:22 final size:22
Alignment explanation
Indices: 45301650--45301739 Score: 65
Period size: 22 Copynumber: 4.0 Consensus size: 22
45301640 CTCTGATTAC
* *
45301650 TAGCACGTTAGTGCTCTCTGATTA
1 TAGCACATTTGTGCTCTCTG--TA
* * ** *
45301674 TTAGCACATTGGTGCTATCCATT
1 -TAGCACATTTGTGCTCTCTGTA
45301697 TAGCACATTTGTGCTCTCTGTA
1 TAGCACATTTGTGCTCTCTGTA
*
45301719 TAGCAC-TTTAGTGTTCTCTGT
1 TAGCACATTT-GTGCTCTCTGT
45301740 TTAATAGTGC
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
21 3 0.06
22 33 0.63
23 1 0.02
25 15 0.29
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (22 bp):
TAGCACATTTGTGCTCTCTGTA
Found at i:45311157 original size:50 final size:50
Alignment explanation
Indices: 45311102--45311286 Score: 155
Period size: 50 Copynumber: 3.7 Consensus size: 50
45311092 CATTGAGGTT
* * *
45311102 ATGAGAAGTCCCATGTAAGGCCATGTCTGGGACAT-GAAGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGAA-TGGGCACCAAG
* ** * * * *
45311152 ATGAGAGGTCCCCCGTAAGACCATGTTTGAGACATGGCATGGGCACCAAT
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGAATGGGCACCAAG
* * * * * *
45311202 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGAATGGGCA--CCAAG
45311254 A--A-ACA-TCCCATGTAAGACCATGTCTGGGACATG
1 ATGAGA-AGTCCCATGTAAGACCATGTCTGGGACATG
45311287 ACTTTGGCAT
Statistics
Matches: 108, Mismatches: 23, Indels: 9
0.77 0.16 0.06
Matches are distributed among these distances:
49 27 0.25
50 75 0.69
51 2 0.02
52 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (50 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGAATGGGCACCAAG
Found at i:45325110 original size:252 final size:252
Alignment explanation
Indices: 45324665--45325170 Score: 897
Period size: 252 Copynumber: 2.0 Consensus size: 252
45324655 AGAGAGCAAA
*
45324665 TACAAATTAACATTTCAAGCTTTGGGTTTTTGTAATATGGTACATCAAGAAGTGTTTACAGGCTC
1 TACAAATTAACATTTCAAGCTTTGGGTTTTTGTAATATGGTACATCAAGAAGTGTTTACAAGCTC
45324730 AAATTAGGTACTATGGGTGAATAAGTAGAGGTAAGCTTTTTGGTTATGGATATGTTCCAAACAAT
66 AAATTAGGTACTATGGGTGAATAAGTAGAGGTAAGCTTTTTGGTTATGGATATGTTCCAAACAAT
**
45324795 GCCTTAGGTTATCCCTTAAGCATATCAATATGCACAAATTTAATCAACCAAAAAAACTTAAATTA
131 GCCTTAGGTTATCCCTTAAAAATATCAATATGCACAAATTTAATCAACCAAAAAAACTTAAATTA
*
45324860 AACCATTTTTCATTCATACTAGCATGCTTGT-TTTCTTGTATTCCCTATATCATTTGG
196 AACCATTTTTCATTCATACTAGCATGCTT-TATTTCTTGTATTCCCTATATAATTTGG
* * *
45324917 TACAAATTAACATTTTAGGCTTTGGGTTTTTGTAATATGGTACATCAAGAAGTTTTTACAAGCTC
1 TACAAATTAACATTTCAAGCTTTGGGTTTTTGTAATATGGTACATCAAGAAGTGTTTACAAGCTC
*
45324982 AAATTAGGTACTATGGGTGAATAAGTAGAGGTAAGCTTTTTGTTTATGGATATGTTCCAAACAAT
66 AAATTAGGTACTATGGGTGAATAAGTAGAGGTAAGCTTTTTGGTTATGGATATGTTCCAAACAAT
* * *
45325047 GCCTTAGGTTATCCCTTAAAAATCTCAATATGCACAAATTTAATCAACCGAACAAACTTAAATTA
131 GCCTTAGGTTATCCCTTAAAAATATCAATATGCACAAATTTAATCAACCAAAAAAACTTAAATTA
45325112 AACCATTTTTCATTCATACTAGCATGCTTTATTTCTTGTATTCCCTATATAATTTGG
196 AACCATTTTTCATTCATACTAGCATGCTTTATTTCTTGTATTCCCTATATAATTTGG
45325169 TA
1 TA
45325171 TAGTTGATTG
Statistics
Matches: 242, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
251 1 0.00
252 241 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (252 bp):
TACAAATTAACATTTCAAGCTTTGGGTTTTTGTAATATGGTACATCAAGAAGTGTTTACAAGCTC
AAATTAGGTACTATGGGTGAATAAGTAGAGGTAAGCTTTTTGGTTATGGATATGTTCCAAACAAT
GCCTTAGGTTATCCCTTAAAAATATCAATATGCACAAATTTAATCAACCAAAAAAACTTAAATTA
AACCATTTTTCATTCATACTAGCATGCTTTATTTCTTGTATTCCCTATATAATTTGG
Found at i:45325616 original size:18 final size:18
Alignment explanation
Indices: 45325582--45325622 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
45325572 TCCTACATAG
45325582 AAAATCAAAAGAAAACTA
1 AAAATCAAAAGAAAACTA
45325600 CAAAA-CAAAA-AACAACTA
1 -AAAATCAAAAGAA-AACTA
45325618 AAAAT
1 AAAAT
45325623 TTATTTCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.30
18 10 0.50
19 4 0.20
ACGTcount: A:0.73, C:0.15, G:0.02, T:0.10
Consensus pattern (18 bp):
AAAATCAAAAGAAAACTA
Found at i:45326870 original size:225 final size:227
Alignment explanation
Indices: 45326469--45326907 Score: 695
Period size: 225 Copynumber: 1.9 Consensus size: 227
45326459 TACACTATAG
45326469 GAATTATTGTAGGCTCTTCAGACGACAAAAAAAAAATTGGTCCATTCTCTTTCTATTTTTGTTCT
1 GAATTATTGTAGGCTCTTCAGACG--AAAAAAAAAATTGGTCCATTCTCTTTCTATTTTTGTTCT
* **
45326534 CCCAAATTCCTTTACAATTCCTCATTAAAGGATCAAATTCCTACTCTTGAATAAAAGTATACGGC
64 CCAAAATTCCTTTACAATTCCTCATTAAAGGATCAAATTCCTACTCTTGAATAAAAGTATACAAC
* * *
45326599 TATAGTTGTGGCAAATATTTATCAATGTCGCTTTCCTGGGATTCAATTGATGGACTTGAAGTGCT
129 TATAGTTGTGGCAAATATTTATCAATGTCACTTTCCTGGAATTCAATTGATGAACTTGAAGTGCT
*
45326664 TACATTG-AACTTGCCATTGGAATTCAATTGATT
194 TACATTGAAACTCGCCATTGGAATTCAATTGATT
*
45326697 GAATTATTGTAGGCTCTTCAGACG-GAAAAAAAATTGGTCCATTCTCTTTCTATTTTTGTTCTCC
1 GAATTATTGTAGGCTCTTCAGACGAAAAAAAAAATTGGTCCATTCTCTTTCTATTTTTGTTCTCC
* * *
45326761 AAAATTCTTTTACAATTCCTCATTAAAGGATCAAA-TCCTTGCTCTTGGATAAAAGTATACAACT
66 AAAATTCCTTTACAATTCCTCATTAAAGGATCAAATTCC-TACTCTTGAATAAAAGTATACAACT
* * * *
45326825 ATAGTTGTTGTAAGTATTTATCAATGTCATTTTCCTGGAATTCAATTGATGAACTTGAAGTGCTT
130 ATAGTTGTGGCAAATATTTATCAATGTCACTTTCCTGGAATTCAATTGATGAACTTGAAGTGCTT
45326890 ACATTGAAACTCGCCATT
195 ACATTGAAACTCGCCATT
45326908 CAATAATCTA
Statistics
Matches: 194, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
224 3 0.02
225 157 0.81
226 10 0.05
228 24 0.12
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (227 bp):
GAATTATTGTAGGCTCTTCAGACGAAAAAAAAAATTGGTCCATTCTCTTTCTATTTTTGTTCTCC
AAAATTCCTTTACAATTCCTCATTAAAGGATCAAATTCCTACTCTTGAATAAAAGTATACAACTA
TAGTTGTGGCAAATATTTATCAATGTCACTTTCCTGGAATTCAATTGATGAACTTGAAGTGCTTA
CATTGAAACTCGCCATTGGAATTCAATTGATT
Found at i:45345478 original size:27 final size:27
Alignment explanation
Indices: 45345310--45345480 Score: 195
Period size: 27 Copynumber: 6.4 Consensus size: 27
45345300 AGAGACATGT
* *
45345310 GTAAAATAACCGAAATACCCCCGAAGG
1 GTAAAATGACCGAAATACCCTCGAAGG
* * * * * *
45345337 ATAATATAACCAAAATACTCTCGAATG
1 GTAAAATGACCGAAATACCCTCGAAGG
* *
45345364 GTAAAATGACCAAAATACCC-CTAAAGG
1 GTAAAATGACCGAAATACCCTC-GAAGG
45345391 GTAAAATGACCGAAATACCCTCGAAGG
1 GTAAAATGACCGAAATACCCTCGAAGG
* *
45345418 GTAAAATAACTGAAATACCC-CGAAGG
1 GTAAAATGACCGAAATACCCTCGAAGG
45345444 GTAAAATGACCGAAATACCCTC-ATAGG
1 GTAAAATGACCGAAATACCCTCGA-AGG
45345471 GTAAAATGAC
1 GTAAAATGAC
45345481 TTTTATACCT
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 26 0.21
27 95 0.78
28 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (27 bp):
GTAAAATGACCGAAATACCCTCGAAGG
Found at i:45346571 original size:17 final size:18
Alignment explanation
Indices: 45346551--45346587 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
45346541 TTTTGTGTGA
*
45346551 GAAAACT-GAGACTGTAG
1 GAAAACTAGACACTGTAG
45346568 G-AAACTAGACACTGTAG
1 GAAAACTAGACACTGTAG
45346585 GAA
1 GAA
45346588 GACCCCGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 5 0.29
17 11 0.65
18 1 0.06
ACGTcount: A:0.43, C:0.14, G:0.27, T:0.16
Consensus pattern (18 bp):
GAAAACTAGACACTGTAG
Found at i:45351826 original size:20 final size:20
Alignment explanation
Indices: 45351801--45351879 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
45351791 ATGTGACGTC
45351801 AGGGGCACTGAAGTGCAAAT
1 AGGGGCACTGAAGTGCAAAT
* * *
45351821 AGGGGCA-TAGATGTGTAAAC
1 AGGGGCACT-GAAGTGCAAAT
* *
45351841 AGGGGCAC-GAATGTGTAATT
1 AGGGGCACTGAA-GTGCAAAT
* *
45351861 AGGGGCACAGATGTGCAAA
1 AGGGGCACTGAAGTGCAAA
45351880 CAGTGATACC
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
19 3 0.07
20 41 0.89
21 2 0.04
ACGTcount: A:0.34, C:0.13, G:0.35, T:0.18
Consensus pattern (20 bp):
AGGGGCACTGAAGTGCAAAT
Found at i:45351830 original size:40 final size:40
Alignment explanation
Indices: 45351777--45351882 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
45351767 CATAGATGCA
* **
45351777 AAATAGGGACATAGATGTG-ACGTCAGGGGCACTGAA-GTGC
1 AAATAGGGGCATAGATGTGTA-AACAGGGGCAC-GAATGTGC
*
45351817 AAATAGGGGCATAGATGTGTAAACAGGGGCACGAATGTGT
1 AAATAGGGGCATAGATGTGTAAACAGGGGCACGAATGTGC
* * *
45351857 AATTAGGGGCACAGATGTGCAAACAG
1 AAATAGGGGCATAGATGTGTAAACAG
45351883 TGATACCGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.05
40 53 0.93
41 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.34, T:0.18
Consensus pattern (40 bp):
AAATAGGGGCATAGATGTGTAAACAGGGGCACGAATGTGC
Found at i:45358638 original size:10 final size:10
Alignment explanation
Indices: 45358623--45358647 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45358613 ATTGATCGAT
45358623 AAAAAAAGTG
1 AAAAAAAGTG
45358633 AAAAAAAGTG
1 AAAAAAAGTG
45358643 AAAAA
1 AAAAA
45358648 TTCCCGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (10 bp):
AAAAAAAGTG
Found at i:45358880 original size:101 final size:102
Alignment explanation
Indices: 45358757--45358941 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
45358747 AAAGTGATGG
* *
45358757 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGAT-A-GGCCACATGTGTAAT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CGGAATGATAATGGCCACATGTGTAAT
45358820 ACTATGTGCAGGCTACTATGCGTATCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTATCGGATAGTTTCGA
* * * * **
45358858 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATGGGATGGTAATGGTCACATGTGTGGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACGGAATGATAATGGCCACATGTGTAATA
*
45358923 CTATGTGCAGGTTACTATG
66 CTATGTGCAGGCTACTATG
45358942 TGAACCAAAC
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 6 0.08
101 36 0.49
102 31 0.42
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACGGAATGATAATGGCCACATGTGTAATA
CTATGTGCAGGCTACTATGCGTATCGGATAGTTTCGA
Found at i:45358885 original size:51 final size:51
Alignment explanation
Indices: 45358753--45358943 Score: 208
Period size: 51 Copynumber: 3.8 Consensus size: 51
45358743 AGTGAAAGTG
* * *
45358753 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTA
* * *
45358802 ATAGGCCACATGTGTAATACTATGTGCAGGCTACTATGCGTATCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTA
* * * * * * *
45358853 TTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATGGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTA
* *
45358905 ATGGTCACATGTGTGGTACTATGTGCAGGTTACTATGTG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
45358944 AACCAAACAT
Statistics
Matches: 115, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 72 0.63
52 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTA
Found at i:45359111 original size:38 final size:37
Alignment explanation
Indices: 45359069--45359141 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
45359059 AGGTGTGGAA
*
45359069 TTGAATTGAATATTGACTTAGAAA-TGGAAAAGTGAACT
1 TTGAATTGAATATTGA-TT-GAAAGTGAAAAAGTGAACT
*
45359107 TTGAATTGAATTTTGATTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATATTGATTGAAAGTGAAAAAGTGAA
45359142 ATTATGAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (37 bp):
TTGAATTGAATATTGATTGAAAGTGAAAAAGTGAACT
Found at i:45362494 original size:55 final size:55
Alignment explanation
Indices: 45362388--45362494 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 55
45362378 GGGCCATACC
* **
45362388 AATTTTGGTTTAATTCCCACCTTGATAACTTCCTAGGGTCGTCAAGTCTAAGGTT
1 AATTTTGGTTTAATTCCCACATTGATAACTTCCTAGGGTCGTCAAACCTAAGGTT
* **
45362443 AATTTTGGTTTAATTCCCACATTGATAACTTCCTAGGTTTTTCAAACCTAAG
1 AATTTTGGTTTAATTCCCACATTGATAACTTCCTAGGGTCGTCAAACCTAAG
45362495 TTTATTCTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (55 bp):
AATTTTGGTTTAATTCCCACATTGATAACTTCCTAGGGTCGTCAAACCTAAGGTT
Found at i:45389244 original size:16 final size:16
Alignment explanation
Indices: 45389223--45389256 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
45389213 CGTAAGTATA
45389223 GGGAAGGGCATTGTGT
1 GGGAAGGGCATTGTGT
45389239 GGGAAGGGCATTGTGT
1 GGGAAGGGCATTGTGT
45389255 GG
1 GG
45389257 CGGATGCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.06, G:0.53, T:0.24
Consensus pattern (16 bp):
GGGAAGGGCATTGTGT
Found at i:45392321 original size:32 final size:32
Alignment explanation
Indices: 45392275--45392342 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 32
45392265 CATCTTTTGT
45392275 TTAATTAACATTTAACATAATTATCA-AATTAC-
1 TTAATTAACATTTAA-A-AATTATCATAATTACA
*
45392307 TTAATTAACCTTTAAAAATTATCATAATTACA
1 TTAATTAACATTTAAAAATTATCATAATTACA
45392339 TTAA
1 TTAA
45392343 AACCTATCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
30 8 0.24
31 7 0.21
32 18 0.55
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (32 bp):
TTAATTAACATTTAAAAATTATCATAATTACA
Found at i:45392537 original size:13 final size:13
Alignment explanation
Indices: 45392503--45392535 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
45392493 ACTTAAACAT
45392503 CAAAATTTCTTAA
1 CAAAATTTCTTAA
45392516 CAAAATTTCTTAA
1 CAAAATTTCTTAA
45392529 -AAAATTT
1 CAAAATTT
45392536 TCAATATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
CAAAATTTCTTAA
Found at i:45396516 original size:50 final size:50
Alignment explanation
Indices: 45396403--45396602 Score: 206
Period size: 50 Copynumber: 3.9 Consensus size: 50
45396393 ACATTAAGGG
* **
45396403 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGA
1 GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA
* * *
45396454 GGTTATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCGTTGGCACCGA
1 -G--ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * *
45396507 GATGAGAGGTCCCCCGTAAGACTATGTCTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * *
45396557 TATGAGAACTCCCACGTAAGACCATATCTGGGATATGGCATTGGCA
1 GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
45396603 GTACAAGAAA
Statistics
Matches: 126, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
50 81 0.64
52 2 0.02
53 3 0.02
54 6 0.05
56 34 0.27
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:45401835 original size:20 final size:19
Alignment explanation
Indices: 45401810--45401849 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
45401800 TATTAATTAA
*
45401810 AATAAAACATATTAAATGAT
1 AATAAAACACATTAAA-GAT
*
45401830 AATAAAATACATTAAAGAT
1 AATAAAACACATTAAAGAT
45401849 A
1 A
45401850 TCATCTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (19 bp):
AATAAAACACATTAAAGAT
Found at i:45402789 original size:25 final size:25
Alignment explanation
Indices: 45402761--45402810 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
45402751 ATGAGATTGT
45402761 CGTTATTCAACTCGGAGGAGCTTAC
1 CGTTATTCAACTCGGAGGAGCTTAC
* *
45402786 CGTTATTCAGCTCGGAGGAGTTTAC
1 CGTTATTCAACTCGGAGGAGCTTAC
45402811 TGTTTACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (25 bp):
CGTTATTCAACTCGGAGGAGCTTAC
Found at i:45416583 original size:9 final size:10
Alignment explanation
Indices: 45416569--45416635 Score: 58
Period size: 9 Copynumber: 7.4 Consensus size: 10
45416559 TTTGGTTAAA
45416569 AATTAACT-G
1 AATTAACTCG
45416578 AATTAA-TCG
1 AATTAACTCG
45416587 AATT-ACTCG
1 AATTAACTCG
45416596 AATTAAC-CG
1 AATTAACTCG
*
45416605 AATT-ACCCG
1 AATTAACTCG
* *
45416614 AATTGAC-CA
1 AATTAACTCG
45416623 AATTAAC-CG
1 AATTAACTCG
45416632 AATT
1 AATT
45416636 GAATCACTAC
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
8 4 0.08
9 42 0.84
10 4 0.08
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (10 bp):
AATTAACTCG
Found at i:45416598 original size:18 final size:18
Alignment explanation
Indices: 45416577--45416635 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
45416567 AAAATTAACT
* *
45416577 GAATTAATCGAATTACTC
1 GAATTAACCGAATTACCC
45416595 GAATTAACCGAATTACCC
1 GAATTAACCGAATTACCC
* * *
45416613 GAATTGACCAAATTAACC
1 GAATTAACCGAATTACCC
45416631 GAATT
1 GAATT
45416636 GAATCACTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (18 bp):
GAATTAACCGAATTACCC
Found at i:45416600 original size:27 final size:27
Alignment explanation
Indices: 45416568--45416640 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
45416558 TTTTGGTTAA
*
45416568 AAATTAACTGAATTAATCGAATT-ACTC
1 AAATTAACCGAATTAATCGAATTGAC-C
* **
45416595 GAATTAACCGAATTACCCGAATTGACC
1 AAATTAACCGAATTAATCGAATTGACC
45416622 AAATTAACCGAATTGAATC
1 AAATTAACCGAATT-AATC
45416641 ACTACATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 33 0.89
28 4 0.11
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTAACCGAATTAATCGAATTGACC
Found at i:45416751 original size:19 final size:18
Alignment explanation
Indices: 45416699--45416761 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
45416689 TATTAAATTA
*
45416699 TTTA-TTTAGACTTTTAGAC
1 TTTATTTTAGA-TTTTAG-T
45416718 TTTAGTTTTAG-TTTTAGT
1 TTTA-TTTTAGATTTTAGT
*
45416736 TTTATTTTAGAATTTTATT
1 TTTATTTTAG-ATTTTAGT
45416755 TTTATTT
1 TTTATTT
45416762 ATTAAATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 6 0.16
18 4 0.11
19 23 0.61
21 5 0.13
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTATTTTAGATTTTAGT
Found at i:45416753 original size:13 final size:11
Alignment explanation
Indices: 45416718--45416756 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
45416708 ACTTTTAGAC
45416718 TTTAGTTTTAGT
1 TTTAGTTTTA-T
45416730 TTTAGTTTTAT
1 TTTAGTTTTAT
45416741 TTTAGAATTTTAT
1 TTTAG--TTTTAT
45416754 TTT
1 TTT
45416757 TATTTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.24
12 10 0.40
13 9 0.36
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (11 bp):
TTTAGTTTTAT
Found at i:45416810 original size:18 final size:18
Alignment explanation
Indices: 45416787--45416829 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
45416777 TTTTTTATGA
45416787 TTGGGTTGGGTTGGATAC
1 TTGGGTTGGGTTGGATAC
45416805 TTGGGTTGGGTTGGATAC
1 TTGGGTTGGGTTGGATAC
45416823 TTGGGTT
1 TTGGGTT
45416830 TGGATTAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.09, C:0.05, G:0.44, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTTGGATAC
Found at i:45418683 original size:14 final size:14
Alignment explanation
Indices: 45418661--45418699 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
45418651 TAGTCCATTC
* *
45418661 TTATTATTATTTTA
1 TTATTATTATATCA
*
45418675 TTATCATTATATCA
1 TTATTATTATATCA
45418689 TTATTATTATA
1 TTATTATTATA
45418700 CTGTTTGCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATTATTATATCA
Found at i:45418848 original size:15 final size:15
Alignment explanation
Indices: 45418828--45418856 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45418818 TTCGCATACA
45418828 TACTCTTTTTTTTTT
1 TACTCTTTTTTTTTT
45418843 TACTCTTTTTTTTT
1 TACTCTTTTTTTTT
45418857 CATACTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (15 bp):
TACTCTTTTTTTTTT
Found at i:45425607 original size:26 final size:25
Alignment explanation
Indices: 45425538--45425618 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 25
45425528 TTTTATTTAT
* *
45425538 TTAGGGTTTAAAAATTTTAAAAAATAAA
1 TTAGGGTTT-AGAGTTTT-AAAAA-AAA
*
45425566 TCAGGGTTTAGAGTTTTAAAAAAAA
1 TTAGGGTTTAGAGTTTTAAAAAAAA
* * * *
45425591 TTAGGTTTTAGGGGTTTAAAATAAA
1 TTAGGGTTTAGAGTTTTAAAAAAAA
45425616 TTA
1 TTA
45425619 ATTAAATTAG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
25 26 0.58
26 5 0.11
27 6 0.13
28 8 0.18
ACGTcount: A:0.44, C:0.01, G:0.17, T:0.37
Consensus pattern (25 bp):
TTAGGGTTTAGAGTTTTAAAAAAAA
Found at i:45425628 original size:34 final size:34
Alignment explanation
Indices: 45425588--45425669 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
45425578 GTTTTAAAAA
* *
45425588 AAATTAGGTTTTAG-GGGTTTAAAATAAATTAATT
1 AAATTAGGATTTAGAGAGTTTAAAA-AAATTAATT
* *
45425622 AAATTAGGATTTAGAGATTTTAAGAAAATTAATT
1 AAATTAGGATTTAGAGAGTTTAAAAAAATTAATT
*
45425656 AAATTAGGGTTTAG
1 AAATTAGGATTTAG
45425670 TTTTTTTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (34 bp):
AAATTAGGATTTAGAGAGTTTAAAAAAATTAATT
Found at i:45426000 original size:126 final size:127
Alignment explanation
Indices: 45425775--45426162 Score: 565
Period size: 126 Copynumber: 3.1 Consensus size: 127
45425765 GTTTTATTTG
* * * *
45425775 CTACAGTAGTT-TCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAAATAATGTCAAAAACGC
1 CTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACGC
* *
45425839 TTCAAGCAGGATGTACTGTCAGCAAAATTACTGAAAAAAGCTCT-CATATGGACGCTCCTTTT
65 TTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTACATATGGACGCTCTTTTT
45425901 CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACGCT
1 CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACGCT
*
45425966 TCAATCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACATA--GACGCTCTTTTT
66 TCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCT-CTACATATGGACGCTCTTTTT
* * * *
45426027 CTATAGTAGTTCCT-AAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTAAAAAATGCT
1 CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACGCT
* * * * *
45426091 TTAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCT-TCCATGTGGACACT-TTTTT
66 TCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTACATATGGACGCTCTTTTT
45426151 CTACAGTAGTTC
1 CTACAGTAGTTC
45426163 CTGCTTGGCC
Statistics
Matches: 239, Mismatches: 18, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
123 4 0.02
124 16 0.07
125 91 0.38
126 121 0.51
127 3 0.01
128 4 0.02
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (127 bp):
CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACGCT
TCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTACATATGGACGCTCTTTTT
Found at i:45432535 original size:19 final size:19
Alignment explanation
Indices: 45432504--45432541 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
45432494 TACATACAAT
*
45432504 TGTACAAAATTAAATTTTA
1 TGTACAAAATTAAAATTTA
45432523 TGTA-AAAATTTAAAATTTA
1 TGTACAAAA-TTAAAATTTA
45432542 CCAGATTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
TGTACAAAATTAAAATTTA
Found at i:45441421 original size:17 final size:16
Alignment explanation
Indices: 45441401--45441434 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
45441391 TTTAAGATTG
45441401 AAAAGGAAAGAAGAAGA
1 AAAAGGAAAGAA-AAGA
*
45441418 AAAAGGAGAGAAAAGA
1 AAAAGGAAAGAAAAGA
45441434 A
1 A
45441435 TAAACATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AAAAGGAAAGAAAAGA
Found at i:45451857 original size:54 final size:53
Alignment explanation
Indices: 45451791--45451907 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 53
45451781 GGTTACATGT
* *
45451791 TCTAAGACCGTGTGAAA-ATTTGAAGCCATGTAAGGTGGAGTCACACAGTCGTGTA
1 TCTAA-ACCGTGT-AAATA-TTGAAGCCATATAAGCTGGAGTCACACAGTCGTGTA
* * * *
45451846 TCTAAACCGTGTAACTCATTGAAGCCATATAAGCTGGAGTTATACGGTCGTGTA
1 TCTAAACCGTGTAAAT-ATTGAAGCCATATAAGCTGGAGTCACACAGTCGTGTA
*
45451900 TCCAAACC
1 TCTAAACC
45451908 ATATAACTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
53 2 0.04
54 45 0.85
55 6 0.11
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (53 bp):
TCTAAACCGTGTAAATATTGAAGCCATATAAGCTGGAGTCACACAGTCGTGTA
Found at i:45451915 original size:54 final size:54
Alignment explanation
Indices: 45451810--45451917 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
45451800 GTGTGAAAAT
* * * * *
45451810 TTGAAGCCATGTAAGGTGGAGTCACACAGTCGTGTATCTAAACCGTGTAACTCA
1 TTGAAGCCATATAAGCTGGAGTCACACAGTCGTGTATCCAAACCATATAACTCA
* * *
45451864 TTGAAGCCATATAAGCTGGAGTTATACGGTCGTGTATCCAAACCATATAACTCA
1 TTGAAGCCATATAAGCTGGAGTCACACAGTCGTGTATCCAAACCATATAACTCA
45451918 CTAAAGTTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (54 bp):
TTGAAGCCATATAAGCTGGAGTCACACAGTCGTGTATCCAAACCATATAACTCA
Found at i:45454649 original size:23 final size:24
Alignment explanation
Indices: 45454618--45454662 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
45454608 ATTATACCAT
45454618 ATTACT-AAATTCACATTTAAAAAA
1 ATTACTAAAATTCA-ATTTAAAAAA
*
45454642 ATTA-TAAAATTTAATTTAAAA
1 ATTACTAAAATTCAATTTAAAA
45454663 TTATTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTACTAAAATTCAATTTAAAAAA
Found at i:45454731 original size:17 final size:19
Alignment explanation
Indices: 45454703--45454743 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
45454693 ATTTTACAAC
45454703 AATTATACATTTAA-AAAT
1 AATTATACATTTAATAAAT
45454721 AATTATA-ATTTAATAAAT
1 AATTATACATTTAATAAAT
45454739 -ATTAT
1 AATTAT
45454744 GATAATTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTATACATTTAATAAAT
Found at i:45454769 original size:27 final size:26
Alignment explanation
Indices: 45454719--45454770 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
45454709 ACATTTAAAA
*
45454719 ATAATTATAATTTAATAAATATTATG
1 ATAATTACAATTTAATAAATATTATG
45454745 ATAATTACATATTTAA-AAATAATTAT
1 ATAATTACA-ATTTAATAAAT-ATTAT
45454771 AATTATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
ATAATTACAATTTAATAAATATTATG
Found at i:45455670 original size:10 final size:10
Alignment explanation
Indices: 45455655--45455679 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45455645 CATTTTTAAT
45455655 ATTTTCTATA
1 ATTTTCTATA
45455665 ATTTTCTATA
1 ATTTTCTATA
45455675 ATTTT
1 ATTTT
45455680 AATAATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTCTATA
Found at i:45460971 original size:13 final size:13
Alignment explanation
Indices: 45460953--45460979 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45460943 TATGGACTGG
45460953 TTGGCTTTAAATT
1 TTGGCTTTAAATT
45460966 TTGGCTTTAAATT
1 TTGGCTTTAAATT
45460979 T
1 T
45460980 ATGGATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (13 bp):
TTGGCTTTAAATT
Found at i:45462879 original size:26 final size:25
Alignment explanation
Indices: 45462792--45462916 Score: 169
Period size: 26 Copynumber: 4.9 Consensus size: 25
45462782 AAAGTCTTTT
** * *
45462792 CAGAGAATTTGCCACAAAGTCTTTA
1 CAGAGAATTCACCACAAAGGCTTCA
*
45462817 CAGAGAGTTCACCACAAAGGCTTCA
1 CAGAGAATTCACCACAAAGGCTTCA
* *
45462842 CAGAGCATTCACTACAAAGGCTTCA
1 CAGAGAATTCACCACAAAGGCTTCA
45462867 CTAGAGAATTCACCACAAAGGCTTCA
1 C-AGAGAATTCACCACAAAGGCTTCA
45462893 CTAGAGAATTCACCACAAAGGCTT
1 C-AGAGAATTCACCACAAAGGCTT
45462917 GGTTTGGTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 43 0.48
26 46 0.52
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (25 bp):
CAGAGAATTCACCACAAAGGCTTCA
Found at i:45462933 original size:52 final size:51
Alignment explanation
Indices: 45462792--45462916 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 51
45462782 AAAGTCTTTT
** * * *
45462792 CAGAGAATTTGCCACAAAGTCTTTAC-AGAGAGTTCACCACAAAGGCTTCA
1 CAGAGAATTCACCACAAAGGCTTCACTAGAGAATTCACCACAAAGGCTTCA
* *
45462842 CAGAGCATTCACTACAAAGGCTTCACTAGAGAATTCACCACAAAGGCTTCA
1 CAGAGAATTCACCACAAAGGCTTCACTAGAGAATTCACCACAAAGGCTTCA
45462893 CTAGAGAATTCACCACAAAGGCTT
1 C-AGAGAATTCACCACAAAGGCTT
45462917 GGTTTGGTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 20 0.31
51 24 0.38
52 20 0.31
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (51 bp):
CAGAGAATTCACCACAAAGGCTTCACTAGAGAATTCACCACAAAGGCTTCA
Found at i:45463324 original size:27 final size:22
Alignment explanation
Indices: 45463266--45463312 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
45463256 TGGATAGTTT
45463266 TCACCCATACCCTTAACGAAAA
1 TCACCCATACCCTTAACGAAAA
45463288 TCACCCATACCCTTAACGAAAA
1 TCACCCATACCCTTAACGAAAA
45463310 TCA
1 TCA
45463313 TACTTCCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.36, G:0.04, T:0.19
Consensus pattern (22 bp):
TCACCCATACCCTTAACGAAAA
Found at i:45464628 original size:20 final size:21
Alignment explanation
Indices: 45464584--45464629 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
45464574 TAGTTCCAAA
* *
45464584 TTTATATATTATTTTAATATT
1 TTTATATATTAATTCAATATT
*
45464605 TTTATGTATTAATTCAAT-TT
1 TTTATATATTAATTCAATATT
45464625 TTTAT
1 TTTAT
45464630 TTTCATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTATATATTAATTCAATATT
Found at i:45466093 original size:12 final size:12
Alignment explanation
Indices: 45466029--45466096 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
45466019 CCTACTACAT
45466029 TATATA-ATAT-
1 TATATACATATA
45466039 TATAT-CATATCA
1 TATATACATAT-A
*
45466051 TATAGTATATA-A
1 TATA-TACATATA
* *
45466063 TATATAAATAGTT
1 TATATACATA-TA
45466076 TATATACATATA
1 TATATACATATA
45466088 TATATACAT
1 TATATACAT
45466097 CAATGATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 9 0.20
11 5 0.11
12 19 0.41
13 10 0.22
14 3 0.07
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (12 bp):
TATATACATATA
Found at i:45466426 original size:16 final size:16
Alignment explanation
Indices: 45466390--45466422 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45466380 ATAATCTTTA
45466390 ATATAATAATAGTTAT
1 ATATAATAATAGTTAT
*
45466406 ATATAATACTAG-TAT
1 ATATAATAATAGTTAT
45466421 AT
1 AT
45466423 TATACATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (16 bp):
ATATAATAATAGTTAT
Found at i:45466482 original size:254 final size:251
Alignment explanation
Indices: 45465926--45466934 Score: 976
Period size: 251 Copynumber: 4.1 Consensus size: 251
45465916 GTAATGCATA
* * * * * *
45465926 ATATATTAATTATTATCATA-TATT-ATTGTTTATTATATTGGTTGAAATATGCTCTAAGTCTCA
1 ATATATTAATTATTAT-ATATTATTGTTTG-TTATTATACTAGTTGAAATATGTTCTAAGTCCCT
* * *
45465989 ATACTTTTCCTACATTTGAAAGTTAGTC-CTCCTACTACATTATATAATATTATATCATATCATA
64 ATACTTTTCGTACATTTGAAAGTTAG-CACTCCTACTATATTATATAAT-GTATAT--TATCATA
* * * * * *
45466053 TAGTATATAATATATAAATAGTTTATATACATATATATATACATCAATGATTAAACATTATAATA
125 T--CATATAGTATATAAATA--TTA-ATA-GTTTATATATGCATTAATGATTAAACATTATAATA
* * * *
45466118 TCAAGAAATACTATATCTTTTA-T-T-A--TGT--TCT-AT-A-A--TATA-AT-A-A-TAGTAC
184 TCATGTAATACTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTAC
45466167 ATT
249 ATT
* *
45466170 ACATATTAATTATTATATATTATTGTTTGTTATTATA-TTGATTGAAATATGTTCTAAGTCCCTA
1 ATATATTAATTATTATATATTATTGTTTGTTATTATACTAG-TTGAAATATGTTCTAAGTCCCTA
** ** *
45466234 TACTTTTTATACATTTGAAAGTTAGTTCTCCTTCTATATTATATAATGCTATATCTATCATATCA
65 TACTTTTCGTACATTTGAAAGTTAGCACTCCTACTATATTATATAATG-TATAT-TATCATATCA
* *
45466299 TGTAGTATATAACATATTAATAGTTTATATATGCATTAATGATTAAACATTATAATATCATGCAA
128 TATAGTATATAA-ATATTAATAGTTTATATATGCATTAATGATTAAACATTATAATATCATGTAA
* * * *
45466364 TACTATATGTTTTATTATAATCTTTAATATAATAATAGTTATATATAATACTAGTATATT
192 TACTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTACATT
* * * *
45466424 ATACATTAATTATTATATATTATTGTTTGTTATTGTACTAGTTGAATTATGGTCTAAGTCCCTAT
1 ATATATTAATTATTATATATTATTGTTTGTTATTATACTAGTTGAAATATGTTCTAAGTCCCTAT
* * * * * *
45466489 -C--TTCGTGCATTTGAAAGCTAGCCCTCCCACTATACTATATAATAT-TA-TATCATATCATAT
66 ACTTTTCGTACATTTGAAAGTTAGCACTCCTACTATATTATATAATGTATATTATCATATCATAT
* *
45466549 AGTATATAATATATTAATAGTTCATATATATATGCATTAATGATTAAACATTATAACATTATGTA
131 AGTATATAA-ATATTAATAG-T--T-TATATATGCATTAATGATTAAACATTATAATATCATGTA
** * *
45466614 ATGTTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAATACGTT
191 ATACTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTACATT
** * * **
45466675 ATATATTACA-TATTGCATATTATTTTTTATTATTATACTAGTTGAAATATGTTCTAAGTTACTA
1 ATATATTA-ATTATTATATATTATTGTTTGTTATTATACTAGTTGAAATATGTTCTAAGTCCCTA
* *
45466739 AACTTTTCGCACATTTGAAAGTTAGCACTCCTACTATATTATATAATGT-TA-TATCATATCATA
65 TACTTTTCGTACATTTGAAAGTTAGCACTCCTACTATATTATATAATGTATATTATCATATCATA
* * *
45466802 TAGTA-AT-AGT-TT-ATA---TAT-T-TGCATAAATGATTAAATATTATAATATCATGTAATAC
130 TAGTATATAAATATTAATAGTTTATATATGCATTAATGATTAAACATTATAATATCATGTAATAC
* * * * *
45466858 TATATCTTTTATTATAACCAATATTATAATACTAGTTATGTATAATAGTAGTACATT
195 TATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTACATT
*
45466915 ATATATTACTTATTATATAT
1 ATATATTAATTATTATATAT
45466935 ATTATTACTT
Statistics
Matches: 643, Mismatches: 90, Indels: 68
0.80 0.11 0.08
Matches are distributed among these distances:
238 50 0.08
239 4 0.01
240 101 0.16
241 13 0.02
242 6 0.01
243 15 0.02
244 93 0.14
245 5 0.01
246 2 0.00
247 32 0.05
248 2 0.00
249 5 0.01
250 8 0.01
251 177 0.28
252 4 0.01
253 4 0.01
254 120 0.19
255 2 0.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (251 bp):
ATATATTAATTATTATATATTATTGTTTGTTATTATACTAGTTGAAATATGTTCTAAGTCCCTAT
ACTTTTCGTACATTTGAAAGTTAGCACTCCTACTATATTATATAATGTATATTATCATATCATAT
AGTATATAAATATTAATAGTTTATATATGCATTAATGATTAAACATTATAATATCATGTAATACT
ATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTACATT
Found at i:45466659 original size:19 final size:21
Alignment explanation
Indices: 45466637--45466679 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
45466627 TATTATAATC
45466637 TATAAT-ATAATAATA-GTTA
1 TATAATAATAATAATACGTTA
*
45466656 TAT-ATAATAGTAATACGTTA
1 TATAATAATAATAATACGTTA
45466676 TATA
1 TATA
45466680 TTACATATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 2 0.10
19 11 0.55
20 7 0.35
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (21 bp):
TATAATAATAATAATACGTTA
Found at i:45466942 original size:19 final size:18
Alignment explanation
Indices: 45466914--45466949 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
45466904 AGTAGTACAT
45466914 TATATATTACTTATTATA
1 TATATATTACTTATTATA
45466932 TATATTATTACTTATTAT
1 TATA-TATTACTTATTAT
45466950 TTGTAATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATATTACTTATTATA
Found at i:45467349 original size:19 final size:20
Alignment explanation
Indices: 45467315--45467355 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
45467305 CTACCGTTTC
45467315 TTTTCCCTTTCCTTCC-TTT
1 TTTTCCCTTTCCTTCCATTT
**
45467334 TTTTCCCTTTTTTTCCATTT
1 TTTTCCCTTTCCTTCCATTT
45467354 TT
1 TT
45467356 CTTTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTCCCTTTCCTTCCATTT
Found at i:45472049 original size:3 final size:3
Alignment explanation
Indices: 45472038--45472131 Score: 100
Period size: 3 Copynumber: 30.0 Consensus size: 3
45472028 TATTTAGCTA
* *
45472038 ATT AGTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTC
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
45472084 ATT ATT ATT -GT ATTT ATT ATT ATT ACTT ACCTT ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT A-TT A--TT ATT ATT ATT ATT ATT
45472132 GACCCATTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
2 1 0.01
3 65 0.83
4 8 0.10
5 4 0.05
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:45472245 original size:27 final size:29
Alignment explanation
Indices: 45472194--45472250 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
45472184 TTTTTTAGAC
* *
45472194 TTTATAATTTATATATGTATGCATATTTT
1 TTTATAATATATATATGTATACATATTTT
45472223 TTTATAATATATATATG-A-ACATATTTT
1 TTTATAATATATATATGTATACATATTTT
45472250 T
1 T
45472251 AAATTTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 9 0.35
28 1 0.04
29 16 0.62
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (29 bp):
TTTATAATATATATATGTATACATATTTT
Found at i:45474825 original size:30 final size:28
Alignment explanation
Indices: 45474768--45474874 Score: 85
Period size: 30 Copynumber: 3.8 Consensus size: 28
45474758 ATCATATATT
*
45474768 TTAT-TATAATTTATATTATAATAATAG
1 TTATATATTATTTATATTATAATAATAG
* *
45474795 TTATATATGTATTTATATTTTTAGTAATAG
1 TTATATAT-TATTTATA-TTATAATAATAG
*
45474825 TTATATATTATATTAT-TAATAATATATTAG
1 TTATATATTAT-TTATATTATAATA-A-TAG
* * *
45474855 TAATATACTAATT-TATTATA
1 TTATATATTATTTATATTATA
45474875 TCAATTTAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
27 4 0.06
28 9 0.14
29 17 0.27
30 33 0.52
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (28 bp):
TTATATATTATTTATATTATAATAATAG
Found at i:45474851 original size:19 final size:18
Alignment explanation
Indices: 45474827--45474875 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
45474817 AGTAATAGTT
45474827 ATATATTATATTATTAATA
1 ATATATTATATTA-TAATA
* *
45474846 ATATATTAGTAATATACTA
1 ATATATTA-TATTATAATA
*
45474865 ATTTATTATAT
1 ATATATTATAT
45474876 CAATTTAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 2 0.08
19 19 0.76
20 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
ATATATTATATTATAATA
Done.