Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 174 of 235
Found at i:59082910 original size:43 final size:43
Alignment explanation
Indices: 59082863--59082956 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
59082853 TCTGGGATGT
** *
59082863 TGGCATCAACTTGAGA-TATCGTGTAAGACCGTGTTTGGGACAC
1 TGGCATCAACTAAAGATTA-CGTGTAAGACCATGTTTGGGACAC
** *
59082906 TGGCATTGACTAAAGATTACGTGTAAGACCATGTTTGGGACAT
1 TGGCATCAACTAAAGATTACGTGTAAGACCATGTTTGGGACAC
59082949 TGGCATCA
1 TGGCATCA
59082957 TTTTTAATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 40 0.95
44 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
TGGCATCAACTAAAGATTACGTGTAAGACCATGTTTGGGACAC
Found at i:59085601 original size:36 final size:36
Alignment explanation
Indices: 59085515--59085613 Score: 93
Period size: 36 Copynumber: 2.8 Consensus size: 36
59085505 TTTTAATGAC
59085515 CAATTAAACCTC-ATTT-AACTATG-ATTAATTGACAT
1 CAATTAAACCTCAATTTCAA-T-TGAATTAATTGACAT
* *
59085550 --ATATATACACACAATTTCAATTGAATTAATTGACAT
1 CAAT-TAAAC-CTCAATTTCAATTGAATTAATTGACAT
*
59085586 CAATTAAACCTCAA-TTCAATAGAATTAA
1 CAATTAAACCTCAATTTCAATTGAATTAA
59085614 GCAATTAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
33 2 0.04
34 4 0.08
35 17 0.33
36 21 0.40
37 6 0.12
38 2 0.04
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.34
Consensus pattern (36 bp):
CAATTAAACCTCAATTTCAATTGAATTAATTGACAT
Found at i:59087277 original size:42 final size:42
Alignment explanation
Indices: 59087154--59087299 Score: 111
Period size: 43 Copynumber: 3.4 Consensus size: 42
59087144 TTTCGTCATG
* *
59087154 TGATTTCGTGTAAGACCAC-GTCTAGGAC-GTTGGCATC-AACTTT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGTA--TT
* * * **
59087197 TGTTTTACGTGTAATACCATGTCTGGGACA-TCAACATCGTATT
1 TGATTT-CGTGTAAGACCCTGTCTGGGACAGT-GGCATCGTATT
*
59087240 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATGTT
1 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-TATT
* *
59087283 TGATTACATGTAAGACC
1 TGATTTCGTGTAAGACC
59087300 ACTCTGGGAC
Statistics
Matches: 81, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
42 26 0.32
43 32 0.40
44 22 0.27
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGTATT
Found at i:59090206 original size:47 final size:47
Alignment explanation
Indices: 59090043--59090208 Score: 162
Period size: 47 Copynumber: 3.6 Consensus size: 47
59090033 CGCCCATAAG
* * * * *
59090043 CGAAATCAAACTCAACTCAACGAGCTCGGATGCCTAATTACATTTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
* * *
59090090 CGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCATCCATAA
1 CGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA
* * *
59090135 GTGAACTCGGATTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 -CGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
59090183 CGAACTCAGACTCAACTCAACGAGTT
1 CGAACTCAGACTCAACTCAACGAGTT
59090209 TGGACGCACA
Statistics
Matches: 95, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 28 0.29
47 49 0.52
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (47 bp):
CGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59095750 original size:46 final size:46
Alignment explanation
Indices: 59095588--59095753 Score: 131
Period size: 46 Copynumber: 3.6 Consensus size: 46
59095578 TGTAACCCGC
** *
59095588 CCATAAGCGAACTCGGACTCAACTCAATAAGTTCAGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACAT
* ** * * * *
59095634 CCATAAGTGAACTTAGACTCAACTCAACGAGCTCGGATGCCTAATTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGA--CGT--TCACAT
* * * * *
59095684 --TTCA-CAAACTCGGGCTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACAT
*
59095727 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGCGAACTCGGACTCAACTCAA
59095754 TGAGCTCGGA
Statistics
Matches: 86, Mismatches: 27, Indels: 14
0.68 0.21 0.11
Matches are distributed among these distances:
43 4 0.05
45 4 0.05
46 46 0.53
47 23 0.27
48 4 0.05
50 5 0.06
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACAT
Found at i:59095759 original size:93 final size:93
Alignment explanation
Indices: 59095597--59095806 Score: 312
Period size: 93 Copynumber: 2.3 Consensus size: 93
59095587 CCCATAAGCG
** * *
59095597 AACTCGGACTCAACTCAATAAGTTCAGGCGTTCACATCCATAAGTGAACTTAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACGTTCACATCCATAAGTGAACTCAGACTCAACTCAAC
*
59095662 GAGCTCGGATGCCTAATTACATTTCACA
66 GAGCTCGGATGCCTAATTACATCTCACA
* * * *
59095690 AACTCGGGCTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGTTCAGACGTTCACATCCATAAGTGAACTCAGACTCAACTCAAC
* **
59095755 GAGCTCGGATGCCTAGTTACATCTCATG
66 GAGCTCGGATGCCTAATTACATCTCACA
59095783 AACTCGGACTCAACTCAACGAGTT
1 AACTCGGACTCAACTCAACGAGTT
59095807 TGGACGCCCA
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 104 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCAGACGTTCACATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAATTACATCTCACA
Found at i:59095790 original size:47 final size:47
Alignment explanation
Indices: 59095649--59095804 Score: 151
Period size: 47 Copynumber: 3.3 Consensus size: 47
59095639 AGTGAACTTA
* * **
59095649 GACTCAACTCAACGAGCTCGGATGCCTAATTACATTTCACAAACTCG
1 GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCATGAACTCG
* * * * *
59095696 GGCTCAACTCAACGAGTTC--A-GAC--GTTCGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-TGAACTCG
*
59095742 GACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCATGAACTCG
1 GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCATGAACTCG
59095789 GACTCAACTCAACGAG
1 GACTCAACTCAACGAG
59095805 TTTGGACGCC
Statistics
Matches: 84, Mismatches: 16, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.04
44 2 0.02
45 3 0.04
46 22 0.26
47 40 0.48
48 3 0.04
49 3 0.04
50 3 0.04
51 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (47 bp):
GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCATGAACTCG
Found at i:59098722 original size:42 final size:42
Alignment explanation
Indices: 59098676--59098829 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
59098666 TAGGACTACG
* * * *
59098676 TGTAAAACCATATCTAGGATATGACATCAATATGAGACTTCG
1 TGTAAAACCATATCTGGGATATGGCATCGATATGAGACTTCA
59098718 TGTAAAACCATATCTGGGATATGGCATCGATATGAGACTTCA
1 TGTAAAACCATATCTGGGATATGGCATCGATATGAGACTTCA
* * * *
59098760 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGA-TTACA
1 TGTAAAACCATATCTGGGATA-TGGCATCGATATGAGACTT-CA
*
59098803 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAAACCATATCTGGGATATGGCAT
59098830 TGGTACGGTA
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
42 64 0.64
43 36 0.36
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (42 bp):
TGTAAAACCATATCTGGGATATGGCATCGATATGAGACTTCA
Found at i:59116889 original size:12 final size:12
Alignment explanation
Indices: 59116872--59116896 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59116862 TGAGCCACGT
59116872 AACTCCAAATTA
1 AACTCCAAATTA
59116884 AACTCCAAATTA
1 AACTCCAAATTA
59116896 A
1 A
59116897 GATCCTCTAA
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:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (12 bp):
AACTCCAAATTA
Found at i:59117733 original size:51 final size:51
Alignment explanation
Indices: 59117640--59117736 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
59117630 CTACCTTCTT
* * *
59117640 CACAAAGTGGCTTTCACATAGTACCACACTTATGACCAAAGCTATCTTTAA
1 CACAAAGTGACTTGCACATAGTACCACACATATGACCAAAGCTATCTTTAA
* * * * *
59117691 CACATAGTGACTTGCACTTAGTACCACACATGTGATCGAAGCTATC
1 CACAAAGTGACTTGCACATAGTACCACACATATGACCAAAGCTATC
59117737 GGGTACGCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (51 bp):
CACAAAGTGACTTGCACATAGTACCACACATATGACCAAAGCTATCTTTAA
Found at i:59117814 original size:50 final size:51
Alignment explanation
Indices: 59117744--59117875 Score: 169
Period size: 50 Copynumber: 2.6 Consensus size: 51
59117734 ATCGGGTACG
*
59117744 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AACCA-TCTAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACCATTCTAAT-CA
* * * *
59117794 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAATCA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AAACCATTCTAATCA
* *
59117846 CATAGTAGCCTACACATAGTACTACACATG
1 CATAGTAGCCTGCACTTAGTACTACACATG
59117876 TGTTCTCACA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 33 0.47
52 33 0.47
53 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACCATTCTAATCA
Found at i:59119340 original size:20 final size:20
Alignment explanation
Indices: 59119317--59119354 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
59119307 AAACAGTAGC
59119317 TCATCCATATAAACAATAAT
1 TCATCCATATAAACAATAAT
59119337 TCATCCATATAAACAATA
1 TCATCCATATAAACAATA
59119355 TTTATACCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (20 bp):
TCATCCATATAAACAATAAT
Found at i:59119543 original size:47 final size:47
Alignment explanation
Indices: 59119482--59119583 Score: 123
Period size: 47 Copynumber: 2.2 Consensus size: 47
59119472 ATCTCTATTG
* * ** * *
59119482 AGCTTAAACGGTAAGCTCTGACGAGCTGAAAATAGTAAGCTTTTACA
1 AGCTGAAACAGTAAGCTCCAACGAGCTGAAAACAGTAAGCTCTTACA
* **
59119529 AGCTGAAACAGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTTATG
1 AGCTGAAACAGTAAGCTCCAACGAGCTGAAAACAGTAAGCTCTTACA
59119576 AGCTGAAA
1 AGCTGAAA
59119584 TATCGATAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.23
Consensus pattern (47 bp):
AGCTGAAACAGTAAGCTCCAACGAGCTGAAAACAGTAAGCTCTTACA
Found at i:59119545 original size:23 final size:23
Alignment explanation
Indices: 59119482--59119571 Score: 72
Period size: 24 Copynumber: 3.8 Consensus size: 23
59119472 ATCTCTATTG
* * *
59119482 AGCTTAAACGGTAAGCTCTGACG
1 AGCTGAAACAGTAAGCTCTGACA
* * *
59119505 AGCTGAAAATAGTAAGCTTTTACA
1 AGCTG-AAACAGTAAGCTCTGACA
** **
59119529 AGCTGAAACAGTAAGCTCCAATG
1 AGCTGAAACAGTAAGCTCTGACA
59119552 AGCTGAAAACAGTAAGCTCT
1 AGCTG-AAACAGTAAGCTCT
59119572 TATGAGCTGA
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
23 21 0.40
24 31 0.60
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (23 bp):
AGCTGAAACAGTAAGCTCTGACA
Found at i:59119566 original size:24 final size:24
Alignment explanation
Indices: 59119529--59119583 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
59119519 AGCTTTTACA
59119529 AGCTG-AAACAGTAAGCTCCAATG
1 AGCTGAAAACAGTAAGCTCCAATG
**
59119552 AGCTGAAAACAGTAAGCTCTTATG
1 AGCTGAAAACAGTAAGCTCCAATG
59119576 AGCTGAAA
1 AGCTGAAA
59119584 TATCGATAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (24 bp):
AGCTGAAAACAGTAAGCTCCAATG
Found at i:59129758 original size:22 final size:21
Alignment explanation
Indices: 59129701--59129758 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
59129691 TATAATATAT
* *
59129701 AATATGAAAGTATATATGTAAA
1 AATAT-AAAGAATATATATAAA
* *
59129723 AATAATATATAATATATATAAA
1 AAT-ATAAAGAATATATATAAA
59129745 GAATATAAAGAATA
1 -AATATAAAGAATA
59129759 CGTAATACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (21 bp):
AATATAAAGAATATATATAAA
Found at i:59129785 original size:3 final size:3
Alignment explanation
Indices: 59129777--59129892 Score: 59
Period size: 3 Copynumber: 39.0 Consensus size: 3
59129767 AAGTAAAAAT
* * * *
59129777 ATA ATA ATA ATA TATAA ATA ATA AT- GTA A-A ATA ATA ATA GTTT GTA
1 ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
59129823 A-A A-A ATA ATA TATA ATAA ATA ATA ATA AT- ATA A-A ATA ATGT ATA
1 ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA
*
59129867 ATA A-A ATA ATT AT- ATA ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA
59129893 TAAAGATATA
Statistics
Matches: 89, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
2 15 0.17
3 57 0.64
4 16 0.18
5 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:59129813 original size:30 final size:31
Alignment explanation
Indices: 59129777--59129905 Score: 108
Period size: 30 Copynumber: 4.2 Consensus size: 31
59129767 AAGTAAAAAT
*
59129777 ATAATAATAATATATA-AATAATAATGTAAA
1 ATAATAATAATATATATAATAATAATATAAA
* * * * *
59129807 ATAATAATAGTTTGTA-AAAAATAATATATA
1 ATAATAATAATATATATAATAATAATATAAA
* *
59129837 ATAAATAATAATA-ATATAA-AATAATGTATA
1 AT-AATAATAATATATATAATAATAATATAAA
59129867 ATAA-AATAAT-TATATAATATATAATATAAA
1 ATAATAATAATATATATAATA-ATAATATAAA
59129897 GATATATAA
1 -ATA-ATAA
59129906 ACATTATGTG
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
28 12 0.15
29 3 0.04
30 48 0.61
31 13 0.16
32 1 0.01
33 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (31 bp):
ATAATAATAATATATATAATAATAATATAAA
Found at i:59129815 original size:50 final size:50
Alignment explanation
Indices: 59129718--59129861 Score: 127
Period size: 50 Copynumber: 2.8 Consensus size: 50
59129708 AAGTATATAT
* * *
59129718 GTAAAAATAATATATAAT-ATATATAAAGAAT-ATAAAGAATACGTAATA-CAA
1 GTAAAAAT-ATA-ATAATAATATATAAATAATAATTAA-AATA-ATAATAGCAA
***
59129769 GTAAAAATATAATAATAATATATAAATAATAATGTAAAATAATAATAGTTT
1 GTAAAAATATAATAATAATATATAAATAATAAT-TAAAATAATAATAGCAA
*
59129820 GTAAAAA-ATAATATATAATAAAT-AATAATAATATAAAATAAT
1 GTAAAAATATAATA-ATAATATATAAATAATAAT-TAAAATAAT
59129862 GTATAATAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
49 5 0.06
50 44 0.55
51 29 0.36
52 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (50 bp):
GTAAAAATATAATAATAATATATAAATAATAATTAAAATAATAATAGCAA
Found at i:59129890 original size:15 final size:14
Alignment explanation
Indices: 59129775--59129905 Score: 63
Period size: 14 Copynumber: 8.9 Consensus size: 14
59129765 ACAAGTAAAA
59129775 ATATAATA-ATAAT
1 ATATAATATATAAT
59129788 ATATAA-ATAATAAT
1 ATATAATAT-ATAAT
* *
59129802 GTAAAATA-ATAAT
1 ATATAATATATAAT
* * *
59129815 AGTTTGTAAAAAATAAT
1 A---TATAATATATAAT
*
59129832 ATATAATAAATAAT
1 ATATAATATATAAT
59129846 A-ATAATATAAAATAAT
1 ATATAATAT---ATAAT
* *
59129862 GTATAATAAAATAATT
1 ATATAAT-ATATAA-T
59129878 ATATAATATATAAT
1 ATATAATATATAAT
*
59129892 ATAAAGATATATAA
1 ATATA-ATATATAA
59129906 ACATTATGTG
Statistics
Matches: 90, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
12 1 0.01
13 17 0.19
14 26 0.29
15 18 0.20
16 16 0.18
17 11 0.12
18 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (14 bp):
ATATAATATATAAT
Found at i:59129895 original size:20 final size:19
Alignment explanation
Indices: 59129673--59129895 Score: 73
Period size: 20 Copynumber: 11.8 Consensus size: 19
59129663 AAAAGATGAC
*
59129673 ATAATAATATAAAATAAT-T
1 ATAAT-ATATAATATAATAT
59129692 ATAATATATAATATGAA-AGT
1 ATAATATATAATAT-AATA-T
* *
59129712 AT-ATATGTAAAAATAATAT
1 ATAATATAT-AATATAATAT
* *
59129731 ATAATATATATAAAGAATAT
1 ATAATATATA-ATATAATAT
* *
59129751 A-AAGAATACGTAATACAAGTA-
1 ATAA-TATA--TAATATAA-TAT
59129772 A-AA-ATATAATAATAATAT
1 ATAATATATAAT-ATAATAT
*
59129790 ATAA-ATAATAATGTAA-A-
1 ATAATAT-ATAATATAATAT
* * * *
59129807 ATAATA-ATAGTTTGTAAAAA
1 ATAATATATA--ATATAATAT
59129827 ATAATATATAATA-AATA-
1 ATAATATATAATATAATAT
* *
59129844 ATAATAATATAAAATAATGT
1 ATAAT-ATATAATATAATAT
*
59129864 ATAATA-A-AATA-ATTAT
1 ATAATATATAATATAATAT
59129880 ATAATATATAATATAA
1 ATAATATATAATATAA
59129896 AGATATATAA
Statistics
Matches: 157, Mismatches: 20, Indels: 54
0.68 0.09 0.23
Matches are distributed among these distances:
16 12 0.08
17 19 0.12
18 34 0.22
19 37 0.24
20 41 0.26
21 10 0.06
22 4 0.03
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.34
Consensus pattern (19 bp):
ATAATATATAATATAATAT
Found at i:59131040 original size:15 final size:15
Alignment explanation
Indices: 59131020--59131054 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
59131010 TAGTGTGCCG
59131020 ATCACGGATCCTGGA
1 ATCACGGATCCTGGA
59131035 ATCACGGATCCTGGA
1 ATCACGGATCCTGGA
59131050 ATCAC
1 ATCAC
59131055 AACGCTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (15 bp):
ATCACGGATCCTGGA
Found at i:59132115 original size:204 final size:205
Alignment explanation
Indices: 59131634--59132216 Score: 963
Period size: 205 Copynumber: 2.8 Consensus size: 205
59131624 AAATATGCTT
* *
59131634 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCAACTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
59131699 GTGAAAGCCAAATCGGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * * *
59131764 GGATCTTCTTCAGAATAAACATCTGAAGGTGAGATCTGTTGTGTATCTGCTCTCCGTCGAAGTGG
131 GGATCTCCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGG
59131829 AGATGCCAGA
196 AGATGCCAGA
59131839 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * *
59131904 ATGAAAGCCAAATTAGCTATGTCTTCGATTCACTCCTTGTAAGCACAAGAATGCCAAATCATCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
*
59131969 GGATCTCCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTAT-TTCTCCCCGTCGAAGTGG
131 GGATCTCCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGG
59132033 AGATGCCAGA
196 AGATGCCAGA
*
59132043 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAAAAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * *
59132108 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
*
59132173 GGATCTTGCTTCAGTATAAACATCTGAAGGCT-AGATCTGCTATG
131 GGATC-TCCTTCAGTATAAACATCTGAAGG-TGAGATCTGCTATG
59132217 CTGCGGCCTA
Statistics
Matches: 352, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
204 152 0.43
205 199 0.57
206 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTCCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGG
AGATGCCAGA
Found at i:59148625 original size:50 final size:49
Alignment explanation
Indices: 59148455--59148688 Score: 279
Period size: 49 Copynumber: 4.7 Consensus size: 49
59148445 CCAAAGCTAT
* * * *
59148455 TGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATC
* *
59148504 CGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATC
* * **
59148553 TGGTACACGTAATAGCCTGCACTTAGTACTACACACGCGACCTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC
* * * *
59148603 TGATACACGTAGTAGCCTGCACTTAGTACTACACAAGTGATCACAGTTTTC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATC
* * * *
59148654 AGGTACGCATAGTGGCCTGCACTTAGTACTACACA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACA
59148689 TGCGACCTCA
Statistics
Matches: 157, Mismatches: 25, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
49 81 0.52
50 41 0.26
51 34 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATC
Found at i:59148695 original size:101 final size:99
Alignment explanation
Indices: 59148456--59148696 Score: 315
Period size: 101 Copynumber: 2.4 Consensus size: 99
59148446 CAAAGCTATT
* * ** *
59148456 GGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-AATTATCCGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAGC
*
59148520 CTGCACTTAGTACTACACACATGACCAATTATCT
66 CTGCACTTAGTACTACACACATGACCAATTATCA
* * * * *
59148554 GGTACACGTAATAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAGC
* *
59148619 CTGCACTTAGTACTACACA-AGTGATCACAGTTTTCA
66 CTGCACTTAGTACTACACACA-TGA-C-CAATTATCA
*
59148655 GGTACGCATAGTGGCCTGCACTTAGTACTACACATGCGACCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
59148697 CACAATAGAT
Statistics
Matches: 121, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
98 36 0.30
99 41 0.34
100 1 0.01
101 43 0.36
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAGC
CTGCACTTAGTACTACACACATGACCAATTATCA
Found at i:59156724 original size:40 final size:40
Alignment explanation
Indices: 59156669--59157580 Score: 1707
Period size: 40 Copynumber: 22.8 Consensus size: 40
59156659 ATTTGAATAC
59156669 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
59156709 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
59156749 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG--ATAT
*
59156791 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59156831 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59156871 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59156911 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59156951 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59156991 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59157031 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59157071 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59157111 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59157151 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59157191 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59157231 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59157271 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59157311 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59157351 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59157391 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
59157431 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
59157471 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * * *
59157511 ATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
59157551 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
59157581 TTGTGGTTAT
Statistics
Matches: 857, Mismatches: 13, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
40 817 0.95
42 40 0.05
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:59160132 original size:21 final size:22
Alignment explanation
Indices: 59160106--59160147 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
59160096 GTGTATTTTA
59160106 ATGTTTAATGG-TAGA-AAATGC
1 ATGTTT-ATGGTTAGAGAAATGC
59160127 ATGTTTATGGTTAGAGAAATG
1 ATGTTTATGGTTAGAGAAATG
59160148 ACTTTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (22 bp):
ATGTTTATGGTTAGAGAAATGC
Found at i:59162911 original size:40 final size:40
Alignment explanation
Indices: 59162833--59163056 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
59162823 ACCCAAGTAT
* *
59162833 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
59162872 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
59162912 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
59162952 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
59162995 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
59163035 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
59163057 CATCCGAATA
Statistics
Matches: 163, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 115 0.71
41 1 0.01
43 35 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:59163029 original size:83 final size:80
Alignment explanation
Indices: 59162833--59163056 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
59162823 ACCCAAGTAT
* * * *
59162833 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
59162897 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
59162912 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
59162976 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
59162995 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
59163057 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.39
83 65 0.51
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:59165787 original size:28 final size:28
Alignment explanation
Indices: 59165747--59165805 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
59165737 CACATAAAAG
*
59165747 TGAGCTCATGTGACATAGATCTATTGTA
1 TGAGCTCATGTGACATAGATATATTGTA
59165775 TGAGCTCATGTGACATAGATATATTGTA
1 TGAGCTCATGTGACATAGATATATTGTA
59165803 TGA
1 TGA
59165806 TTTCACATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.36
Consensus pattern (28 bp):
TGAGCTCATGTGACATAGATATATTGTA
Found at i:59166262 original size:47 final size:47
Alignment explanation
Indices: 59166191--59166507 Score: 571
Period size: 47 Copynumber: 6.7 Consensus size: 47
59166181 CCCTTCGGGA
* * * * * *
59166191 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59166238 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59166285 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59166332 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59166379 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59166426 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59166473 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
59166508 AGAATCCTAA
Statistics
Matches: 262, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 262 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59183958 original size:46 final size:46
Alignment explanation
Indices: 59183883--59184057 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
59183873 TGTAACCCGC
*
59183883 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCACAT
*
59183929 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACAT
* * * * * * *
59183979 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
59184022 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
59184058 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 57 0.54
47 26 0.25
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
Found at i:59184049 original size:93 final size:93
Alignment explanation
Indices: 59183890--59184061 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
59183880 CGCCCATAAG
* * * * *
59183890 CGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCACATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTTAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
59183955 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
59183983 CGAACTCGGACTCAACTCAACAAG-TTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTT-AGACATTCACATCCATAAGTGAACTCGGACTCAACTC
59184047 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
59184062 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTTAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59203752 original size:85 final size:85
Alignment explanation
Indices: 59203649--59203997 Score: 671
Period size: 85 Copynumber: 4.1 Consensus size: 85
59203639 GGCCGGCCAT
*
59203649 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGGAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
59203714 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
59203734 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
59203799 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
59203819 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
59203884 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
59203904 GAGCATGGGTTGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
59203969 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
59203989 GGGCATGGG
1 GAGCATGGG
59203998 CAATAAAATA
Statistics
Matches: 261, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 261 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:59206228 original size:47 final size:47
Alignment explanation
Indices: 59206177--59206273 Score: 158
Period size: 47 Copynumber: 2.1 Consensus size: 47
59206167 TTAGGATTTT
*
59206177 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGAATATATGAGATAAGGCCGAATGGCCA
* * *
59206224 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGAATATATGAGATAAGGCCGAATGGCCA
59206271 ATG
1 ATG
59206274 CGAAACGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGAATATATGAGATAAGGCCGAATGGCCA
Found at i:59206336 original size:46 final size:46
Alignment explanation
Indices: 59206247--59206337 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
59206237 GAACATGAAT
* * * *
59206247 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
59206293 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
59206338 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:59207847 original size:40 final size:40
Alignment explanation
Indices: 59207788--59207915 Score: 204
Period size: 40 Copynumber: 3.2 Consensus size: 40
59207778 CCTTCGAGAT
*
59207788 TTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGAAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGAAC
*
59207827 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGAAC
* *
59207867 TTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGAAC
*
59207907 TTAGTCCGG
1 TTAGCCCGG
59207916 TTATCATCCG
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 4 0.05
40 78 0.95
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGAAC
Found at i:59212200 original size:28 final size:28
Alignment explanation
Indices: 59212168--59212223 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
59212158 CGAATTCGCA
59212168 ACTGATAATAGCCCGATCTCAAATCTAT
1 ACTGATAATAGCCCGATCTCAAATCTAT
59212196 ACTGATAATAGCCCGATCTCAAATCTAT
1 ACTGATAATAGCCCGATCTCAAATCTAT
59212224 CTTTGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.29
Consensus pattern (28 bp):
ACTGATAATAGCCCGATCTCAAATCTAT
Found at i:59216751 original size:40 final size:40
Alignment explanation
Indices: 59215859--59216743 Score: 1628
Period size: 40 Copynumber: 22.1 Consensus size: 40
59215849 AACCCAAGTA
* *
59215859 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59215898 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59215938 CCTTCGGAACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59215978 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59216018 CCTTCGAGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59216058 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59216098 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59216138 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59216178 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59216218 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59216258 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59216298 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59216338 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59216378 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59216418 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59216458 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59216498 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59216538 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59216578 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59216618 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59216658 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59216698 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59216738 CCTTCG
1 CCTTCG
59216744 AATCTTAGTC
Statistics
Matches: 819, Mismatches: 26, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
39 12 0.01
40 807 0.99
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59220258 original size:47 final size:45
Alignment explanation
Indices: 59220204--59220330 Score: 159
Period size: 47 Copynumber: 2.8 Consensus size: 45
59220194 GATGATGATA
*
59220204 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGACATGT
* *
59220249 GAGAT-AGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGACATGT
1 --G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGACATGT
* * *
59220296 GTCAGTGTAAAACC-TGTCTGGGACACGACATCGAC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
59220331 ACAGATGAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
44 18 0.26
45 11 0.16
47 40 0.57
48 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (45 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGACATGT
Found at i:59229278 original size:33 final size:33
Alignment explanation
Indices: 59229236--59229319 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
59229226 ATCCAATCAG
*
59229236 ATGTTTACTATCCCAGTGGAT-TATTTCTATTCT
1 ATGTTTACTATCCCAAT-GATCTATTTCTATTCT
*
59229269 ATGTTTACTATCCTAATGATCTATTTCTATTCT
1 ATGTTTACTATCCCAATGATCTATTTCTATTCT
* * *
59229302 GTGTTTATTGTCCCAATG
1 ATGTTTACTATCCCAATG
59229320 GAAAATTTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
32 3 0.07
33 41 0.93
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (33 bp):
ATGTTTACTATCCCAATGATCTATTTCTATTCT
Found at i:59232846 original size:27 final size:27
Alignment explanation
Indices: 59232794--59232882 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 27
59232784 GTGATAGAGT
59232794 CACCAAATACAGATATTTTGTGGCAGTGC
1 CACCAAA-ACAGATA-TTTGTGGCAGTGC
* *
59232823 CACCAAAACAGATATATGTGGCAGGGC
1 CACCAAAACAGATATTTGTGGCAGTGC
* *
59232850 CACCAGAACAAATAATTTGTGGCA-TAGC
1 CACCAAAACAGAT-ATTTGTGGCAGT-GC
59232878 CACCA
1 CACCA
59232883 GGACGCTCCC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
27 22 0.42
28 23 0.44
29 7 0.13
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (27 bp):
CACCAAAACAGATATTTGTGGCAGTGC
Found at i:59232879 original size:28 final size:26
Alignment explanation
Indices: 59232810--59232883 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
59232800 ATACAGATAT
* *
59232810 TTTGTGGCAGTGCCACCAAAACAGATA
1 TTTGTGGCA-TGCCACCAGAACAAATA
* *
59232837 TATGTGGCAGGGCCACCAGAACAAATAA
1 TTTGTGGCA-TGCCACCAGAACAAAT-A
59232865 TTTGTGGCATAGCCACCAG
1 TTTGTGGCAT-GCCACCAG
59232884 GACGCTCCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (26 bp):
TTTGTGGCATGCCACCAGAACAAATA
Found at i:59233035 original size:27 final size:28
Alignment explanation
Indices: 59232989--59233052 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
59232979 AAATTAACCC
*
59232989 TAGGGGTATAAAGGTCATTTT-CATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
59233016 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
59233044 TAGGGGTAT
1 TAGGGGTAT
59233053 TCTAGCACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 19 0.56
28 15 0.44
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:59240526 original size:55 final size:56
Alignment explanation
Indices: 59240461--59240575 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
59240451 AGCATGGCTG
* * *
59240461 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAAATAATTTGTGGCA-TAGCCA
* * *
59240517 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAAATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAAATAATTTGTGGCATAGCCA
59240572 CCAG
1 CCAG
59240576 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.55
56 22 0.43
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAAATAATTTGTGGCATAGCCA
Found at i:59240538 original size:27 final size:27
Alignment explanation
Indices: 59240486--59240575 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
59240476 GTGACAGAGT
59240486 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
59240515 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
59240542 CACCAGAACAAATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
59240570 CACCAG
1 CACCAG
59240576 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:59240571 original size:28 final size:27
Alignment explanation
Indices: 59240486--59240575 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
59240476 GTGACAGAGT
*
59240486 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
59240515 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
59240542 CACCAGAACAAATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
59240570 CACCAG
1 CACCAG
59240576 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:59240728 original size:28 final size:28
Alignment explanation
Indices: 59240681--59240745 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
59240671 AAATTAACCC
*
59240681 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
59240709 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
59240737 TATGGGTAT
1 TAGGGGTAT
59240746 TCTAGTACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:59246891 original size:40 final size:40
Alignment explanation
Indices: 59246808--59247028 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
59246798 ACCCAAGTAT
** * *
59246808 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
59246846 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
59246886 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
59246926 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
59246966 CTTCAGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
* *
59247007 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
59247029 CATTCGAATA
Statistics
Matches: 152, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 96 0.63
41 29 0.19
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:59249704 original size:57 final size:56
Alignment explanation
Indices: 59249616--59249808 Score: 228
Period size: 57 Copynumber: 3.4 Consensus size: 56
59249606 ATCGTATTAC
* * *
59249616 AGGATTACCAGTTCAAGCTAAATCCATTATGTAACGTATGCTCAAAAGAGCTCAATT
1 AGGATTACCAGTTCAGGCTAAATCCATTATGTGACGTACGCTCAAAA-AGCTCAATT
* * * *
59249673 AGGATTACTAGTTCAGGCTAAATCTATTATGTGATGTACGCGCATAAAAGCTCAATT
1 AGGATTACCAGTTCAGGCTAAATCCATTATGTGACGTACGCTCA-AAAAGCTCAATT
* * *
59249730 AGGATTACCAATCCAGGCTAAATCCATAAT-TGGACGTACGCTCAAAAAAGCTCAATT
1 AGGATTACCAGTTCAGGCTAAATCCATTATGT-GACGTACGCTC-AAAAAGCTCAATT
*
59249787 AGGGTTACCAG-TCTAGGCTAAA
1 AGGATTACCAGTTC-AGGCTAAA
59249809 CACTAATTGT
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
56 2 0.02
57 109 0.95
58 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (56 bp):
AGGATTACCAGTTCAGGCTAAATCCATTATGTGACGTACGCTCAAAAAGCTCAATT
Found at i:59251441 original size:15 final size:15
Alignment explanation
Indices: 59251421--59251451 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59251411 TAATTTGATG
59251421 TTTAAGAGAGGAATA
1 TTTAAGAGAGGAATA
*
59251436 TTTAAGGGAGGAATA
1 TTTAAGAGAGGAATA
59251451 T
1 T
59251452 GAATGTTTGT
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:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
TTTAAGAGAGGAATA
Found at i:59252942 original size:96 final size:96
Alignment explanation
Indices: 59252776--59252969 Score: 316
Period size: 96 Copynumber: 2.0 Consensus size: 96
59252766 GTGTCCGAGG
* * * * *
59252776 AAGTCTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
59252841 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
*
59252872 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* *
59252937 TAAAGCCGAAGCCAAGAGGGCTAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
59252968 AA
1 AA
59252970 AAAGAAGCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.35, C:0.18, G:0.35, T:0.12
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:59258108 original size:9 final size:9
Alignment explanation
Indices: 59258093--59258314 Score: 121
Period size: 9 Copynumber: 25.6 Consensus size: 9
59258083 TGATATAAAT
59258093 TTATGTAAG
1 TTATGTAAG
*
59258102 GTATGTAAG
1 TTATGTAAG
59258111 TTATGTAAG
1 TTATGTAAG
59258120 TTATGTAAG
1 TTATGTAAG
*
59258129 TTATGATATG
1 TTATG-TAAG
* * *
59258139 ATATAT-AT
1 TTATGTAAG
59258147 TTATGT-A-
1 TTATGTAAG
59258154 TTATGTAAG
1 TTATGTAAG
59258163 TTATGTAAG
1 TTATGTAAG
59258172 TTAT-TATA-
1 TTATGTA-AG
* * *
59258180 TGATATATAT
1 TTATGTA-AG
59258190 TTATGT-A-
1 TTATGTAAG
59258197 TTATGTAAG
1 TTATGTAAG
*
59258206 TTATGATAAA
1 TTATG-TAAG
* * *
59258216 ATATAT-AT
1 TTATGTAAG
59258224 TTATGT-A-
1 TTATGTAAG
59258231 TTATGTAAG
1 TTATGTAAG
*
59258240 TTTTGTAAG
1 TTATGTAAG
*
59258249 TTATGTAAT
1 TTATGTAAG
59258258 TTATG-ATA-
1 TTATGTA-AG
* * *
59258266 TCATATATAT
1 TTATGTA-AG
59258276 TTATGT-A-
1 TTATGTAAG
59258283 TTATGTAAG
1 TTATGTAAG
*
59258292 TTTTGTAAG
1 TTATGTAAG
*
59258301 TTGTGTAAG
1 TTATGTAAG
59258310 TTATG
1 TTATG
59258315 ATATCATGTA
Statistics
Matches: 169, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
7 24 0.14
8 26 0.15
9 99 0.59
10 20 0.12
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:59258111 original size:54 final size:52
Alignment explanation
Indices: 59258039--59258175 Score: 211
Period size: 54 Copynumber: 2.6 Consensus size: 52
59258029 TCAAGTGTAT
* * *
59258039 ATTTATGTATTATGTAAGTTAAGTAAGTTTTGTAAGTTATGATATGATATAA
1 ATTTATGTAGTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATAA
*
59258091 ATTTATGTAAGGTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATAT
1 ATTTATGT-A-GTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATAA
*
59258145 ATTTATGTATTATGTAAGTTATGTAAGTTAT
1 ATTTATGTAGTATGTAAGTTATGTAAGTTAT
59258176 TATATGATAT
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
52 29 0.37
53 2 0.03
54 47 0.60
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (52 bp):
ATTTATGTAGTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATAA
Found at i:59258114 original size:18 final size:18
Alignment explanation
Indices: 59258048--59258314 Score: 141
Period size: 18 Copynumber: 15.3 Consensus size: 18
59258038 TATTTATGTA
*
59258048 TTATGTAAGTTAAGTAAG
1 TTATGTAAGTTATGTAAG
* *
59258066 TTTTGTAAGTTATGATATG
1 TTATGTAAGTTATG-TAAG
* * *
59258085 ATAT-AAATTTATGTAAG
1 TTATGTAAGTTATGTAAG
*
59258102 GTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG
*
59258120 TTATGTAAGTTATGATATG
1 TTATGTAAGTTATG-TAAG
* * *
59258139 ATATAT-ATTTATGT-A-
1 TTATGTAAGTTATGTAAG
59258154 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG
* * *
59258172 TTAT-TATA-TGATATATAT
1 TTATGTA-AGTTATGTA-AG
59258190 TTATGT-A-TTATGTAAG
1 TTATGTAAGTTATGTAAG
** * *
59258206 TTATGATAAAATATAT-AT
1 TTATG-TAAGTTATGTAAG
59258224 TTATGT-A-TTATGTAAG
1 TTATGTAAGTTATGTAAG
* *
59258240 TTTTGTAAGTTATGTAAT
1 TTATGTAAGTTATGTAAG
* * *
59258258 TTATG-ATA-TCATATATAT
1 TTATGTA-AGTTATGTA-AG
59258276 TTATGT-A-TTATGTAAG
1 TTATGTAAGTTATGTAAG
* *
59258292 TTTTGTAAGTTGTGTAAG
1 TTATGTAAGTTATGTAAG
59258310 TTATG
1 TTATG
59258315 ATATCATGTA
Statistics
Matches: 186, Mismatches: 43, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
15 8 0.04
16 26 0.14
17 37 0.20
18 98 0.53
19 17 0.09
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATGTAAG
Found at i:59258163 original size:34 final size:34
Alignment explanation
Indices: 59258111--59258241 Score: 145
Period size: 34 Copynumber: 3.5 Consensus size: 34
59258101 GGTATGTAAG
59258111 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGT-A-TTATGTAAGTTATGATATGATATATAT
59258147 TTATGTATTATGTAAGTTATGTAAGTTATTATATGATATATAT
1 TTATGTATTATGTAAGTTA--T--G-----ATATGATATATAT
**
59258190 TTATGTATTATGTAAGTTATGATAAAATATATAT
1 TTATGTATTATGTAAGTTATGATATGATATATAT
59258224 TTATGTATTATGTAAGTT
1 TTATGTATTATGTAAGTT
59258242 TTGTAAGTTA
Statistics
Matches: 84, Mismatches: 2, Indels: 20
0.79 0.02 0.19
Matches are distributed among these distances:
34 41 0.49
35 1 0.01
36 7 0.08
38 1 0.01
39 1 0.01
41 1 0.01
43 32 0.38
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.50
Consensus pattern (34 bp):
TTATGTATTATGTAAGTTATGATATGATATATAT
Found at i:59258169 original size:43 final size:43
Alignment explanation
Indices: 59258111--59258302 Score: 255
Period size: 43 Copynumber: 4.5 Consensus size: 43
59258101 GGTATGTAAG
59258111 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
*
59258154 TTATGTAAGTTATGTAAGTTATTATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
** * *
59258197 TTATGTAAGTTATGATAAAATAT-ATAT-TTATGTA-TTATGTAA
1 TTATGTAAGTTATG-TAAGTTATGATATGATATATATTTATGT-A
* * *
59258239 GTTTTGTAAGTTATGTAATTTATGATATCATATATATTTATGTA
1 -TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
*
59258283 TTATGTAAGTTTTGTAAGTT
1 TTATGTAAGTTATGTAAGTT
59258303 GTGTAAGTTA
Statistics
Matches: 130, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
41 6 0.05
42 12 0.09
43 94 0.72
44 12 0.09
45 6 0.05
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.51
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:59258260 original size:34 final size:34
Alignment explanation
Indices: 59258041--59258262 Score: 141
Period size: 34 Copynumber: 6.4 Consensus size: 34
59258031 AAGTGTATAT
* *
59258041 TTATGTA-TTATGTAAGTTAAGTAAGTTTTGTAAG
1 TTATGTATTTATGT-AGTTATGTAAGTTATGTAAG
* ** * *
59258075 TTATGATATGATATAAATTTATGTAAGGTATGTAAG
1 TTATG-TAT-TTATGTAGTTATGTAAGTTATGTAAG
* * * * *
59258111 TTATGTAAGTTATGTAAGTTATGATATGATATAT-AT
1 TTATGT-ATTTATGT-AGTTATG-TAAGTTATGTAAG
59258147 TTATGTA-TTATGTAAGTTATGTAAGTTAT-TATATG
1 TTATGTATTTATGT-AGTTATGTAAGTTATGTA-A-G
* * *
59258182 ATATATATTTATGTA-TTATGTAAGTTATGATAAA
1 TTATGTATTTATGTAGTTATGTAAGTTATG-TAAG
* * *
59258216 ATATATATTTATGTA-TTATGTAAGTTTTGTAAG
1 TTATGTATTTATGTAGTTATGTAAGTTATGTAAG
59258249 TTATGTAATTTATG
1 TTATGT-ATTTATG
59258263 ATATCATATA
Statistics
Matches: 149, Mismatches: 26, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
32 1 0.01
33 13 0.09
34 68 0.46
35 14 0.09
36 43 0.29
37 10 0.07
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (34 bp):
TTATGTATTTATGTAGTTATGTAAGTTATGTAAG
Found at i:59258318 original size:52 final size:52
Alignment explanation
Indices: 59258197--59258321 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
59258187 TATTTATGTA
**
59258197 TTATGTAAGTTATGATAAAATATATATTTATGTATTATGTAAGTTTTGTAAG
1 TTATGTAAGTTATGATATCATATATATTTATGTATTATGTAAGTTTTGTAAG
*
59258249 TTATGTAATTTATGATATCATATATATTTATGTATTATGTAAGTTTTGTAAG
1 TTATGTAAGTTATGATATCATATATATTTATGTATTATGTAAGTTTTGTAAG
*
59258301 TTGTGTAAGTTATGATATCAT
1 TTATGTAAGTTATGATATCAT
59258322 GTATTTAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.50
Consensus pattern (52 bp):
TTATGTAAGTTATGATATCATATATATTTATGTATTATGTAAGTTTTGTAAG
Found at i:59259740 original size:42 final size:42
Alignment explanation
Indices: 59259681--59259763 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
59259671 CTCAGCTTGC
*
59259681 TTAATTGGAGATTGAAACTAAACTTAGTAACTAAATAGTATA
1 TTAATTGGAGACTGAAACTAAACTTAGTAACTAAATAGTATA
59259723 TTAATTGGAGACTGAAACTAAACTTAGTAACTAAATAGTAT
1 TTAATTGGAGACTGAAACTAAACTTAGTAACTAAATAGTAT
59259764 GTTTTGAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (42 bp):
TTAATTGGAGACTGAAACTAAACTTAGTAACTAAATAGTATA
Found at i:59260806 original size:18 final size:19
Alignment explanation
Indices: 59260767--59260810 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
59260757 GGCAGCAACG
* *
59260767 GAGAGAAGAGGCTGTGACA
1 GAGAGAAGAGGATGTCACA
59260786 GAGAGAAGAGGATG-CACA
1 GAGAGAAGAGGATGTCACA
59260804 GAGAGAA
1 GAGAGAA
59260811 AAGGGATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.43, C:0.09, G:0.41, T:0.07
Consensus pattern (19 bp):
GAGAGAAGAGGATGTCACA
Found at i:59261008 original size:70 final size:71
Alignment explanation
Indices: 59260880--59261015 Score: 211
Period size: 70 Copynumber: 1.9 Consensus size: 71
59260870 GAAAAATAAT
* *
59260880 TTGGGAAAGATGCAGTTAGGGAAAATGAGAGAAAAGAAATTGGGAAATTGGGGGAATGAAATCGG
1 TTGGGAAAGACGCAGTTAAGGAAAATGAGAG-AAAGAAATTGGGAAATTGGGGGAATGAAATCGG
59260945 GTTTAAC
65 GTTTAAC
* * *
59260952 TTGGGGAAGACGCAGTTAAGGAAAATTAGAG-AAGAAATTGGGAAATTGGTGGAATGAAATCGGG
1 TTGGGAAAGACGCAGTTAAGGAAAATGAGAGAAAGAAATTGGGAAATTGGGGGAATGAAATCGGG
59261016 GTAATCTGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 32 0.54
72 27 0.46
ACGTcount: A:0.40, C:0.04, G:0.35, T:0.21
Consensus pattern (71 bp):
TTGGGAAAGACGCAGTTAAGGAAAATGAGAGAAAGAAATTGGGAAATTGGGGGAATGAAATCGGG
TTTAAC
Found at i:59261388 original size:115 final size:116
Alignment explanation
Indices: 59261158--59261605 Score: 371
Period size: 115 Copynumber: 3.9 Consensus size: 116
59261148 ACAATCGATA
* * * ** ** * *
59261158 TTTGCGGCGTTTTA---AAAAAAGCCACTAAAAGT-AGATAAAAACGACAATGTTTTGAACAGTC
1 TTTGCGGCGTTTTAGTTAAAAACGCCACTAATAGTCAGACAAAAAATACAGCGTTTTGCACACTC
* * * ** * * *
59261219 GTAAAACATTTTTGTGGGGTTTTA-AGAGAAAACGCTACTAAAGGATATCCT
66 TTAAAACATATTTGCGGCATTTTATA-AGAAAACGCCACTAAAGGCTATCTT
* *
59261270 TTTGCGGCGTTTTAG-TAAAAACACCACTAATAGGCAGACAAAAAATACAGCGTTTTGCACACTC
1 TTTGCGGCGTTTTAGTTAAAAACGCCACTAATAGTCAGACAAAAAATACAGCGTTTTGCACACTC
* * *
59261334 TTAAAATATTTTTCGCGGCATTTTATAAGAAAACGCCGCTAAAGGCT-TCTT
66 TTAAAACATATTT-GCGGCATTTTATAAGAAAACGCCACTAAAGGCTATCTT
* ** * * * * *
59261385 TTTGCGGCG-TTTGGTTAAAAACGCCACTAATAGTCAGACAAAAACGACACCGATTTCCATACAC
1 TTTGCGGCGTTTTAGTTAAAAACGCCACTAATAGTCAGACAAAAAATACAGCGTTTTGCACACTC
* * * ** * *
59261449 TTAAAACATATTTGCGACTTTTTTTTTGTGAAAACGCCAC-AAAAGCTATCTG
66 TTAAAACATATTTGCGGC--ATTTTATAAGAAAACGCCACTAAAGGCTATCTT
* *
59261501 TTTGCGGCGTTTTTGTTAAAAACGCCACTAATAGTTAG--AAAAAATGACAGCGTTTTGCACACT
1 TTTGCGGCGTTTTAGTTAAAAACGCCACTAATAGTCAGACAAAAAAT-ACAGCGTTTTGCACACT
* * ** *
59261564 TTTAAAACATATTTGCGGCGTTTT-TGTGAAAATGCCACTAAA
65 CTTAAAACATATTTGCGGCATTTTATAAGAAAACGCCACTAAA
59261606 AACAAAGCTT
Statistics
Matches: 271, Mismatches: 53, Indels: 22
0.78 0.15 0.06
Matches are distributed among these distances:
112 14 0.05
113 13 0.05
114 29 0.11
115 107 0.39
116 81 0.30
117 27 0.10
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (116 bp):
TTTGCGGCGTTTTAGTTAAAAACGCCACTAATAGTCAGACAAAAAATACAGCGTTTTGCACACTC
TTAAAACATATTTGCGGCATTTTATAAGAAAACGCCACTAAAGGCTATCTT
Found at i:59261569 original size:116 final size:114
Alignment explanation
Indices: 59261158--59261606 Score: 335
Period size: 116 Copynumber: 3.9 Consensus size: 114
59261148 ACAATCGATA
* * * ** * *
59261158 TTTGCGGCGTTTTA---AAAAAAGCCACTAAAAGT-AGATAAAAACGACAATGTTTTGAACAGTC
1 TTTGCGGCGTTTTAGTTAAAAACGCCACTAATAGTCAGA-AAAAATGACAGCGTTTTGCACACTC
* * * *** * * *
59261219 GTAAAACATTTTTGTGGGGTTTTA-AGAGAAAACGCTACTAAAGGATATCCT-
65 TTAAAACATATTTGCGACATTTTATA-AGAAAACGCCACTAAAAGCT-T-CTG
* *
59261270 TTTGCGGCGTTTTAG-TAAAAACACCACTAATAGGCAGACAAAAAAT-ACAGCGTTTTGCACACT
1 TTTGCGGCGTTTTAGTTAAAAACGCCACTAATAGTCAG--AAAAAATGACAGCGTTTTGCACACT
* * * * * *
59261333 CTTAAAATATTTTTCGCGGCATTTTATAAGAAAACGCCGCTAAAGGCTTCTT
64 CTTAAAACATATTT-GCGACATTTTATAAGAAAACGCCACTAAAAGCTTCTG
* * * * * * *
59261385 TTTGCGGCG-TTTGGTTAAAAACGCCACTAATAGTCAGACAAAAACGACACCGATTTCCATACAC
1 TTTGCGGCGTTTTAGTTAAAAACGCCACTAATAGTCAGA-AAAAATGACAGCGTTTTGCACACTC
* * **
59261449 TTAAAACATATTTGCGACTTTTTTTTTGTGAAAACGCCAC-AAAAGCTATCTG
65 TTAAAACATATTTGCGAC--ATTTTATAAGAAAACGCCACTAAAAGCT-TCTG
* * *
59261501 TTTGCGGCGTTTTTGTTAAAAACGCCACTAATAGTTAGAAAAAATGACAGCGTTTTGCACACTTT
1 TTTGCGGCGTTTTAGTTAAAAACGCCACTAATAGTCAGAAAAAATGACAGCGTTTTGCACACTCT
* * ** *
59261566 TAAAACATATTTGCGGCGTTTT-TGTGAAAATGCCACTAAAA
66 TAAAACATATTTGCGACATTTTATAAGAAAACGCCACTAAAA
59261607 ACAAAGCTTA
Statistics
Matches: 273, Mismatches: 48, Indels: 30
0.78 0.14 0.09
Matches are distributed among these distances:
112 14 0.05
113 14 0.05
114 37 0.14
115 87 0.32
116 92 0.34
117 29 0.11
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (114 bp):
TTTGCGGCGTTTTAGTTAAAAACGCCACTAATAGTCAGAAAAAATGACAGCGTTTTGCACACTCT
TAAAACATATTTGCGACATTTTATAAGAAAACGCCACTAAAAGCTTCTG
Found at i:59261949 original size:7 final size:7
Alignment explanation
Indices: 59261934--59261987 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
59261924 TTTTTAAGAT
59261934 TTTAAGG
1 TTTAAGG
*
59261941 TTTATGG
1 TTTAAGG
59261948 TTTAAGAG
1 TTTAAG-G
59261956 TTT-AGG
1 TTTAAGG
*
59261962 ATTTAGGG
1 -TTTAAGG
*
59261970 TTTAAAG
1 TTTAAGG
59261977 TTTAAGG
1 TTTAAGG
59261984 TTTA
1 TTTA
59261988 GGATTTAGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 1 0.03
7 31 0.82
8 6 0.16
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (7 bp):
TTTAAGG
Found at i:59261951 original size:14 final size:13
Alignment explanation
Indices: 59261934--59261994 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 13
59261924 TTTTTAAGAT
59261934 TTTAAGGTTTATGG
1 TTTAAGGTTTA-GG
59261948 TTTAAGAGTTTAGG
1 TTTAAG-GTTTAGG
* *
59261962 ATTTAGGGTTTAAAG
1 -TTTAAGGTTT-AGG
59261977 TTTAAGGTTTAGG
1 TTTAAGGTTTAGG
59261990 ATTTA
1 -TTTA
59261995 GGGTCTATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.05
14 25 0.64
15 12 0.31
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (13 bp):
TTTAAGGTTTAGG
Found at i:59261952 original size:22 final size:22
Alignment explanation
Indices: 59261926--59261994 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
59261916 GAAATTTATT
* *
59261926 TTTAAGATTTTAAGGTTTATGG
1 TTTAAGAGTTTAAGGTTTAGGG
59261948 TTTAAGAGTTT-AGGATTTAGGG
1 TTTAAGAGTTTAAGG-TTTAGGG
*
59261970 TTTAA-AGTTTAAGGTTTAGGA
1 TTTAAGAGTTTAAGGTTTAGGG
59261991 TTTA
1 TTTA
59261995 GGGTCTATAG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 18 0.43
22 24 0.57
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (22 bp):
TTTAAGAGTTTAAGGTTTAGGG
Found at i:59261980 original size:21 final size:22
Alignment explanation
Indices: 59261935--59261994 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
59261925 TTTTAAGATT
*
59261935 TTAAGGTTTATGGTTTAAGAGT
1 TTAAGGTTTAGGGTTTAAGAGT
59261957 TT-AGGATTTAGGGTTTAA-AGT
1 TTAAGG-TTTAGGGTTTAAGAGT
*
59261978 TTAAGGTTTAGGATTTA
1 TTAAGGTTTAGGGTTTA
59261995 GGGTCTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 18 0.53
22 16 0.47
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (22 bp):
TTAAGGTTTAGGGTTTAAGAGT
Found at i:59261995 original size:28 final size:28
Alignment explanation
Indices: 59261947--59262018 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
59261937 AAGGTTTATG
*
59261947 GTTTAAGAGTTTAGGATTTAGGGTTTAAA
1 GTTTAAG-GTTTAGGATTTAGGGTCTAAA
*
59261976 GTTTAAGGTTTAGGATTTAGGGTCTATA
1 GTTTAAGGTTTAGGATTTAGGGTCTAAA
*
59262004 GTTTATGGGTTTAGG
1 GTTTA-AGGTTTAGG
59262019 GGTTAAAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 24 0.62
29 15 0.38
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.43
Consensus pattern (28 bp):
GTTTAAGGTTTAGGATTTAGGGTCTAAA
Found at i:59262044 original size:14 final size:14
Alignment explanation
Indices: 59262027--59262062 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
59262017 GGGGTTAAAA
59262027 GTTAGGGTTAATGG
1 GTTAGGGTTAATGG
* *
59262041 GTTAGGATTTATGG
1 GTTAGGGTTAATGG
59262055 GTTAGGGT
1 GTTAGGGT
59262063 CAAGGGTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (14 bp):
GTTAGGGTTAATGG
Found at i:59264198 original size:27 final size:26
Alignment explanation
Indices: 59264162--59264244 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
59264152 GTCGTTAAGA
*
59264162 CCCCAGTTTGTAAGATTATCAAAATAC
1 CCCCAGTTTGTAAAATTA-CAAAATAC
* *
59264189 CCCCAGTTTGTAAAATTACCGAAATAG
1 CCCCAGTTTGTAAAATTA-CAAAATAC
*
59264216 CCCCAATTTGTAAAATTACAGAAATAC
1 CCCCAGTTTGTAAAATTACA-AAATAC
59264243 CC
1 CC
59264245 TTGTAGTGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (26 bp):
CCCCAGTTTGTAAAATTACAAAATAC
Found at i:59264244 original size:54 final size:54
Alignment explanation
Indices: 59264162--59264268 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
59264152 GTCGTTAAGA
* * *
59264162 CCCCAGTTTGTAAGATTATCAAAATACCCCCAGT-TTGTAAAATTACCGAAATAG
1 CCCCAATTTGTAAAATTATCAAAATA-CCCCAGTAGTGTAAAATTACCGAAATAG
**
59264216 CCCCAATTTGTAAAATTA-CAGAAATACCCTTGTAGTGTAAAATTACCGAAATA
1 CCCCAATTTGTAAAATTATCA-AAATACCCCAGTAGTGTAAAATTACCGAAATA
59264269 CCCTTGTAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 7 0.15
54 39 0.85
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (54 bp):
CCCCAATTTGTAAAATTATCAAAATACCCCAGTAGTGTAAAATTACCGAAATAG
Found at i:59264254 original size:27 final size:27
Alignment explanation
Indices: 59264224--59264285 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
59264214 AGCCCCAATT
59264224 TGTAAAATTACAGAAATACCCTTGTAG
1 TGTAAAATTACAGAAATACCCTTGTAG
*
59264251 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACAGAAATACCCTTGTAG
*
59264278 GGTAAAAT
1 TGTAAAAT
59264286 GATTGTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACAGAAATACCCTTGTAG
Found at i:59264809 original size:32 final size:31
Alignment explanation
Indices: 59264712--59264874 Score: 209
Period size: 32 Copynumber: 5.2 Consensus size: 31
59264702 TATTTACCAG
* * *
59264712 TGGCTTGGTGACGATTATATTACAGTACTGA
1 TGGCTTTGTGCCGATCATATTACAGTACTGA
*
59264743 TGGCTTTGTGTCGATCATATTACAGTACTGA
1 TGGCTTTGTGCCGATCATATTACAGTACTGA
59264774 TGGCTTTGTGCCGATCATATTACAGCTACTGA
1 TGGCTTTGTGCCGATCATATTACAG-TACTGA
* * *
59264806 TGGCTTTGTACCGATCATATTATAGTTACTGT
1 TGGCTTTGTGCCGATCATATTACAG-TACTGA
* **
59264838 TGGCTTTCTGCCGATCATATTATTGGTACTGA
1 TGGCTTTGTGCCGATCATATTA-CAGTACTGA
59264870 TGGCT
1 TGGCT
59264875 GTAAGCTGTG
Statistics
Matches: 118, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
31 52 0.44
32 64 0.54
33 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (31 bp):
TGGCTTTGTGCCGATCATATTACAGTACTGA
Found at i:59264939 original size:26 final size:26
Alignment explanation
Indices: 59264887--59264939 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
59264877 AAGCTGTGTA
* **
59264887 TATTTCTGGCAGCTTTGCTGCGTTAT
1 TATTTCTGGCAGCTATGCTGCAATAT
59264913 TATTTCTGGCAGCTATGCTGCAATAT
1 TATTTCTGGCAGCTATGCTGCAATAT
59264939 T
1 T
59264940 GGTGTGCTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (26 bp):
TATTTCTGGCAGCTATGCTGCAATAT
Found at i:59265024 original size:10 final size:10
Alignment explanation
Indices: 59265009--59265035 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
59264999 GTGTGTTGGC
59265009 TGGATTGGGA
1 TGGATTGGGA
59265019 TGGATTGGGA
1 TGGATTGGGA
59265029 TGGATTG
1 TGGATTG
59265036 CATTACTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.33
Consensus pattern (10 bp):
TGGATTGGGA
Found at i:59267960 original size:46 final size:46
Alignment explanation
Indices: 59267901--59268120 Score: 248
Period size: 46 Copynumber: 4.7 Consensus size: 46
59267891 ACATATCCGT
* * *
59267901 GCCGATGCATGTCCTAGACATGTCTTACGCTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGAG
*
59267947 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGAG
* * * * *
59267993 GCTGATGCATGTCCCAGGCATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAG
* * * * *
59268039 GTCGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGAG
59268087 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
59268121 ACGCACACAT
Statistics
Matches: 147, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
46 97 0.66
47 26 0.18
48 23 0.16
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAG
Found at i:59268098 original size:94 final size:93
Alignment explanation
Indices: 59267867--59268120 Score: 282
Period size: 94 Copynumber: 2.7 Consensus size: 93
59267857 TCCATGTCGT
* * * *
59267867 AGACATGGTCTTACACTGGTTCTCACATATCCGT-GCCGATGCATGTCCTAGACATGTCTTACGC
1 AGACATGGTCTTACACTGGCTCTCATA-AT--GTGGCCGATGCATGTCCCAGACATGTCTTACAC
* *
59267931 TGGCTTACATCTCGAGGCCGATGCATGTCCC
63 TAGCTTACATCTCAAGGCCGATGCATGTCCC
* ** * * *
59267962 AGACAT-GTCTTACACTAGCT-TACATCTTGAGGCTGATGCATGTCCCAGGCATGTCTTACACTA
1 AGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTA
* * *
59268025 GCTCT-CGTCTCAATGTCGATGCCATGTCCC
65 GCT-TACATCTCAAGGCCGATG-CATGTCCC
*
59268055 ATACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTAG
1 AGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTAG
59268120 C
66 C
59268121 ACGCACACAT
Statistics
Matches: 131, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
91 1 0.01
92 42 0.32
93 16 0.12
94 65 0.50
95 7 0.05
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (93 bp):
AGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTAG
CTTACATCTCAAGGCCGATGCATGTCCC
Found at i:59268141 original size:94 final size:93
Alignment explanation
Indices: 59267851--59268144 Score: 233
Period size: 94 Copynumber: 3.1 Consensus size: 93
59267841 AGGGTATAAT
* ** * *
59267851 GCCGATTCCATGTCGTAGACATGGTCTTACACTGGTTCTCACATATCCGT-GCCGATGCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGGCCGATGCATGTCC
* * * *** * *
59267915 TAGACATGTCTTACGCTGGCTTACATCTCGA-G
63 CAGACATGTCTTACACTAGCACGCA-CAC-ATC
* ** * *
59267947 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTTGAGGCTGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCA
* * *
59268009 GGCATGTCTTACACTAGCTCTCGTCTCA-AT-
65 GACATGTCTTACACTAG--CACG-CACACATC
* *
59268039 GTCGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
59268104 ACATGTCTTACACTAGCACGCACACATC
66 ACATGTCTTACACTAGCACGCACACATC
*
59268132 GCCCAATGCCATG
1 G-CCGATGCCATG
59268145 GCATGAATAT
Statistics
Matches: 156, Mismatches: 30, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
91 4 0.03
92 40 0.26
93 16 0.10
94 76 0.49
95 14 0.09
96 6 0.04
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACGCACACATC
Found at i:59274729 original size:74 final size:74
Alignment explanation
Indices: 59274621--59274789 Score: 257
Period size: 74 Copynumber: 2.3 Consensus size: 74
59274611 ACAGCCATGT
**
59274621 CACACGCCCGTGTGCTAGGCCGTGTGGTTAATTAAATTATTTTGAAATTAGGTATAGGTTTCACA
1 CACACGCCCGTGTGCTAGGCCGTGTGGTTAATTAAATTATTTCAAAATTAGGTATAGGTTTCACA
*
59274686 CTGCCAAGA
66 CGGCCAAGA
* * * * *
59274695 CACACTCCCATGTGCTAGGCTGTGTGGTTAATTAAATTCTTTCAAAATTAGGTGTAGGTTTCACA
1 CACACGCCCGTGTGCTAGGCCGTGTGGTTAATTAAATTATTTCAAAATTAGGTATAGGTTTCACA
59274760 CGGCCAAGA
66 CGGCCAAGA
*
59274769 CACACGCCCGTGTTCTAGGCC
1 CACACGCCCGTGTGCTAGGCC
59274790 ATCTAGCACA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 83 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (74 bp):
CACACGCCCGTGTGCTAGGCCGTGTGGTTAATTAAATTATTTCAAAATTAGGTATAGGTTTCACA
CGGCCAAGA
Found at i:59280475 original size:27 final size:27
Alignment explanation
Indices: 59280445--59280536 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
59280435 ATTACCAAAG
* *
59280445 TACCCTCGATTTATAGAATCACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
59280472 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
59280499 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
59280526 TACCCTCGATT
1 TACCCTCGATT
59280537 GTGAAATTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:59280593 original size:27 final size:27
Alignment explanation
Indices: 59280563--59280691 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 27
59280553 ACCTCTATAG
*
59280563 TGTAGAATTACCAAAATACCCCTAGTT
1 TGTAAAATTACCAAAATACCCCTAGTT
* *
59280590 TGTAAAATTACCAAAATACCACTGGTT
1 TGTAAAATTACCAAAATACCCCTAGTT
* * * *
59280617 TGTGAAATTACCGAAATACCCTTAATT
1 TGTAAAATTACCAAAATACCCCTAGTT
59280644 TGTAAAATTACCAAAATACCCCT-GATT
1 TGTAAAATTACCAAAATACCCCTAG-TT
**
59280671 TAAAAAATTA-CAGAAATACCC
1 TGTAAAATTACCA-AAATACCC
59280692 TTGACTTTCT
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.02
27 83 0.98
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCCTAGTT
Found at i:59280678 original size:81 final size:81
Alignment explanation
Indices: 59280535--59280690 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 81
59280525 TTACCCTCGA
* * **
59280535 TTGTGAAATTACTGAAATACCTCTATAGTGTAGAATTACCAAAATACCCCTAGTTTGTAAAATTA
1 TTGTGAAATTACCGAAATACCTCTATAGTGTAAAATTACCAAAATACCCCTAGTTTAAAAAATTA
59280600 CCA-AAATACCACTGGT
66 -CAGAAATACCACTGGT
*
59280616 TTGTGAAATTACCGAAATACC-CT-TAATTTGTAAAATTACCAAAATACCCCT-GATTTAAAAAA
1 TTGTGAAATTACCGAAATACCTCTAT-A-GTGTAAAATTACCAAAATACCCCTAG-TTTAAAAAA
59280678 TTACAGAAATACC
63 TTACAGAAATACC
59280691 CTTGACTTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
79 1 0.02
80 6 0.09
81 59 0.89
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (81 bp):
TTGTGAAATTACCGAAATACCTCTATAGTGTAAAATTACCAAAATACCCCTAGTTTAAAAAATTA
CAGAAATACCACTGGT
Found at i:59280679 original size:54 final size:54
Alignment explanation
Indices: 59280568--59280774 Score: 200
Period size: 54 Copynumber: 3.8 Consensus size: 54
59280558 TATAGTGTAG
* * * ***
59280568 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTTAAAA
* *
59280622 AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATTTAAAA
1 AATTACCGAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTTAAAA
* * * * ** *
59280676 AATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCTTTGGTTTACAA
1 AATTACCGAAATACCCTT-AGTTTGT-AAAATTACCA-AAATACCCCTGGTTTAAAA
* * * * *
59280732 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 AATTACCGAAATACCCTTAGTTTGTAAAATTACCAAAATACCC
59280775 TTGTAGGATG
Statistics
Matches: 124, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
54 74 0.60
55 11 0.09
56 39 0.31
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACCGAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTTAAAA
Found at i:59280742 original size:27 final size:27
Alignment explanation
Indices: 59280657--59280754 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
59280647 AAAATTACCA
* * * *
59280657 AAATACCCCTGATTTAAAAAATTACAG
1 AAATACCCTTGGTTTACAAAATTATAG
*
59280684 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTG-GTTTAC--AAAATTATAG
*
59280713 AAATACCTTTGGTTTACAAAATTACT-G
1 AAATACCCTTGGTTTACAAAATTA-TAG
59280740 AAATACCCTTGGTTT
1 AAATACCCTTGGTTT
59280755 GTAGATTTAC
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
27 32 0.54
28 7 0.12
29 20 0.34
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATACCCTTGGTTTACAAAATTATAG
Found at i:59281751 original size:24 final size:24
Alignment explanation
Indices: 59281680--59281762 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 24
59281670 AGGAAGTGCT
* * *
59281680 AAAAGGGTTATGCCTCAGTTTACCGA
1 AAAAGGCTT-TGCCCCAGTTTATC-A
59281706 AAAAGGCTTTGCCCCAGTTTATCA
1 AAAAGGCTTTGCCCCAGTTTATCA
* *
59281730 AAAAGGGCTTTTCCCCAG-TTATTA
1 AAAA-GGCTTTGCCCCAGTTTATCA
59281754 AAAGAGGCT
1 AAA-AGGCT
59281763 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 17 0.34
25 25 0.50
26 8 0.16
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (24 bp):
AAAAGGCTTTGCCCCAGTTTATCA
Found at i:59288885 original size:33 final size:33
Alignment explanation
Indices: 59288843--59288908 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
59288833 TGGCTTGGGG
*
59288843 GGAAGGTGTCTACGGAAGGGGAATACCAATTTT
1 GGAAGGTGTCTACGGAAGGGCAATACCAATTTT
59288876 GGAAGGTGTCTACGGAAGGGCAATACCAATTTT
1 GGAAGGTGTCTACGGAAGGGCAATACCAATTTT
59288909 AGGTTAATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (33 bp):
GGAAGGTGTCTACGGAAGGGCAATACCAATTTT
Found at i:59290550 original size:23 final size:24
Alignment explanation
Indices: 59290506--59290552 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
59290496 GAATCCAAAT
*
59290506 CTTTTATTTATGTATAATATGCTA
1 CTTTTATTTATGTATAAAATGCTA
59290530 CTTTTATTT-T-TAATAAAATGCTA
1 CTTTTATTTATGT-ATAAAATGCTA
59290553 TTAAACAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 11 0.52
24 9 0.43
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (24 bp):
CTTTTATTTATGTATAAAATGCTA
Found at i:59291086 original size:47 final size:48
Alignment explanation
Indices: 59291033--59291126 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
59291023 TTTACCTGTG
59291033 GTTATGTGGAC-ATT-ATCAGCAAT-TATGTGGTGGCTTGTCCACAAATT
1 GTTATGTGG-CTATTAATC-GCAATGTATGTGGTGGCTTGTCCACAAATT
**
59291080 GTTATGTGGCTATTAATCGGTATGTATGTGGTGGCTTGTCCACAAAT
1 GTTATGTGGCTATTAATCGCAATGTATGTGGTGGCTTGTCCACAAAT
59291127 GACGTGTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
46 1 0.02
47 15 0.36
48 26 0.62
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (48 bp):
GTTATGTGGCTATTAATCGCAATGTATGTGGTGGCTTGTCCACAAATT
Found at i:59291506 original size:9 final size:9
Alignment explanation
Indices: 59291492--59291524 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
59291482 GATTTGGGAC
59291492 TTTTATGGA
1 TTTTATGGA
59291501 TTTTAT-GA
1 TTTTATGGA
59291509 TTTTTATGGA
1 -TTTTATGGA
59291519 TTTTAT
1 TTTTAT
59291525 TATGGACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (9 bp):
TTTTATGGA
Found at i:59295123 original size:10 final size:10
Alignment explanation
Indices: 59295108--59295140 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
59295098 ACTATGACTA
59295108 TACCATCGAG
1 TACCATCGAG
59295118 TACCATCGAG
1 TACCATCGAG
59295128 TACCATCTGAG
1 TACCATC-GAG
59295139 TA
1 TA
59295141 ATACTAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (10 bp):
TACCATCGAG
Found at i:59304526 original size:43 final size:44
Alignment explanation
Indices: 59304460--59304547 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 44
59304450 ATTTTAAGAC
* *
59304460 CTTTCAAAGATCACCGATGCTTTAA-ACA-TCTGCACACTTAGTG
1 CTTTCAAAGATCACCGAAGCTTTAACA-ATTCCGCACACTTAGTG
*
59304503 CTTT-AAAGATTAGCCGAAGCTTTAACAATTCCGCACACTTAGTG
1 CTTTCAAAGATCA-CCGAAGCTTTAACAATTCCGCACACTTAGTG
59304547 C
1 C
59304548 CATCTCAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
42 7 0.18
43 16 0.41
44 16 0.41
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (44 bp):
CTTTCAAAGATCACCGAAGCTTTAACAATTCCGCACACTTAGTG
Found at i:59313257 original size:19 final size:19
Alignment explanation
Indices: 59313232--59313271 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59313222 AAAAATTGAA
*
59313232 AAAAAAACTACTAACGTGAG
1 AAAAAAA-TACGAACGTGAG
*
59313252 AAAAAAATAGGAACGTGAG
1 AAAAAAATACGAACGTGAG
59313271 A
1 A
59313272 GGAGTTCTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.57, C:0.10, G:0.20, T:0.12
Consensus pattern (19 bp):
AAAAAAATACGAACGTGAG
Found at i:59320882 original size:60 final size:60
Alignment explanation
Indices: 59320789--59320908 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
59320779 GATGAATGTC
* *
59320789 TAAAATGTGTTGTATCTTTGTTGCGAGACTCAGCCTACTATTGGTGGAGGACCTTGATTT
1 TAAAATGTGCTGTATCTTTGTTGCGAGACTCAGCCTACTATTGGTGGAGGACATTGATTT
59320849 TAAAATGTGCTGTATCTTTGTTGCGAGACTCAGCCTACTATTGGTGGAGGACATTGATTT
1 TAAAATGTGCTGTATCTTTGTTGCGAGACTCAGCCTACTATTGGTGGAGGACATTGATTT
59320909 CCATAGTCCC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.38
Consensus pattern (60 bp):
TAAAATGTGCTGTATCTTTGTTGCGAGACTCAGCCTACTATTGGTGGAGGACATTGATTT
Found at i:59328250 original size:27 final size:27
Alignment explanation
Indices: 59328220--59328397 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
59328210 ATATTGAGCC
* *
59328220 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
59328247 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
59328274 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
59328302 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
59328329 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
59328356 CGCACACTTAGTACAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
59328383 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59328398 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:59328359 original size:82 final size:81
Alignment explanation
Indices: 59328241--59328396 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
59328231 TGCTATATAA
* * * *
59328241 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTACAACATAGTC-GAATCGCA
59328306 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59328323 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTACAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTACAACATAGTCGAATCGCA
59328387 CACTTAGTGC
65 CACTTAGTGC
59328397 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTACAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59331183 original size:39 final size:40
Alignment explanation
Indices: 59331088--59331349 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
59331078 TTGAATGATG
*
59331088 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
59331126 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
59331167 TCCGGGCTAAG-CCCGAATGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
59331206 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59331245 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
59331284 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
59331323 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59331350 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 15, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
39 128 0.64
40 59 0.30
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:59331380 original size:79 final size:79
Alignment explanation
Indices: 59331117--59331382 Score: 233
Period size: 78 Copynumber: 3.4 Consensus size: 79
59331107 GCTTGTGCTA
* * *
59331117 AGTGAC-AATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCC
1 AGTGACTAA-ATCCGGATTAA-ATCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCC
* **
59331180 CGAATGCATTTGTGCG
64 CGAAGGCATTTGAACG
* ** * *
59331196 AGAT-ACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCC
1 AG-TGACTAAATCCGGATTAAATCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCC
**
59331259 GAAGGCATTTGTGCG
65 GAAGGCATTTGAACG
* * * * *
59331274 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 AGTGACTAAATCCGGATTAAATCCCGAAGGCATTTGTACGAGA-TACTAAT-ACCGGGCTAAG-C
59331337 CCGAAGGCATTTGAACG
63 CCGAAGGCATTTGAACG
* *
59331354 AG-GAGCTATATCC-GATTAAATTCCGAAGG
1 AGTGA-CTAAATCCGGATTAAATCCCGAAGG
59331383 TACGTGATTT
Statistics
Matches: 159, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
77 2 0.01
78 72 0.45
79 57 0.36
80 28 0.18
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (79 bp):
AGTGACTAAATCCGGATTAAATCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCG
AAGGCATTTGAACG
Found at i:59333987 original size:52 final size:52
Alignment explanation
Indices: 59333906--59334007 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
59333896 TCACAACTCG
* * *
59333906 AAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCCCATCTACA
1 AAAATCAGTTCCGTAATTTTTCCCAGAAACTAGACTCATATGCCCATCTACA
*
59333958 AAAATCAGTTCCGTAATTTTTCCCAGAAACTAGACTCATGTGCCCATCTA
1 AAAATCAGTTCCGTAATTTTTCCCAGAAACTAGACTCATATGCCCATCTA
59334008 TGTAATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (52 bp):
AAAATCAGTTCCGTAATTTTTCCCAGAAACTAGACTCATATGCCCATCTACA
Found at i:59335192 original size:27 final size:27
Alignment explanation
Indices: 59335162--59335339 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
59335152 ATATTGAGCC
* *
59335162 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
59335189 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
59335216 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
59335244 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
59335271 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
59335298 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
59335325 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59335340 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:59335301 original size:82 final size:81
Alignment explanation
Indices: 59335188--59335338 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
59335178 TATAATCAAC
* *
59335188 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGCACACTT
59335253 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
59335270 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCACACTT
59335334 AGTGC
65 AGTGC
59335339 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:59335901 original size:13 final size:13
Alignment explanation
Indices: 59335883--59335907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59335873 TACTAAATTT
59335883 TCATGGATTCAAG
1 TCATGGATTCAAG
59335896 TCATGGATTCAA
1 TCATGGATTCAA
59335908 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:59340987 original size:9 final size:10
Alignment explanation
Indices: 59340961--59341001 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
59340951 CAATTAAGGT
59340961 TAGTTAATTA
1 TAGTTAATTA
59340971 TAGTTAATTA
1 TAGTTAATTA
*
59340981 -GGTTAATTA
1 TAGTTAATTA
*
59340990 TAATTAATTA
1 TAGTTAATTA
59341000 TA
1 TA
59341002 AATTAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (10 bp):
TAGTTAATTA
Found at i:59340987 original size:19 final size:19
Alignment explanation
Indices: 59340938--59340999 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
59340928 ATGCTCACTA
*
59340938 AATT-GGTTAATTACAATT
1 AATTAGGTTAATTATAATT
*
59340956 AAGGTTA-GTTAATTATAGTT
1 AA--TTAGGTTAATTATAATT
59340976 AATTAGGTTAATTATAATT
1 AATTAGGTTAATTATAATT
59340995 AATTA
1 AATTA
59341000 TAAATTAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.14
19 17 0.46
20 15 0.41
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (19 bp):
AATTAGGTTAATTATAATT
Found at i:59341783 original size:12 final size:11
Alignment explanation
Indices: 59341755--59341787 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
59341745 GGGACCTAAT
59341755 TGTAAAATG-G
1 TGTAAAATGTG
59341765 TGTAAAATGTG
1 TGTAAAATGTG
59341776 TGGTAAAATGTG
1 T-GTAAAATGTG
59341788 AATAAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.43
11 2 0.10
12 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (11 bp):
TGTAAAATGTG
Found at i:59344883 original size:48 final size:48
Alignment explanation
Indices: 59344798--59345072 Score: 290
Period size: 48 Copynumber: 5.7 Consensus size: 48
59344788 TAAAGTACTA
* * *
59344798 ATGCCATGTCCCCGACATGGTCTTACA-T-GAATCCACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCAACGCTG
* * * * *
59344846 ATGCCATTTCCCTGACATGGTCTTACACTGGCACACATATAAACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTG
* * *
59344894 ATGCCATGTCCCAAACATGGTCTTACATTGGCACACATATCAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTG
* ** *
59344942 ATGCCAAGTCTTAGACATGGTCTTACACTGGCACACTTATCAACG-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCT-G
* **
59344990 ATGCCATGTCCCAG--ATCGAGTCTTACACAGGCACACATATCAACGCCA
1 ATGCCATGTCCCAGACAT-G-GTCTTACACTGGCACACATATCAACGCTG
* *
59345038 ATGCCATGTCCCAGGCATGGTCTTACACAGGCACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACA
59345073 TTTAGCACGG
Statistics
Matches: 190, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 180 0.95
49 2 0.01
50 4 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTG
Found at i:59352167 original size:63 final size:63
Alignment explanation
Indices: 59352100--59352224 Score: 214
Period size: 63 Copynumber: 2.0 Consensus size: 63
59352090 ATCATACTAT
*
59352100 ACACATGAACGTAGTAAAAATTGACATTAAATATCATTAAATATCAAGCTTATCTTACTCCTC
1 ACACATGAACGTAGTAAAAATTGACATTAAATATCATTAAACATCAAGCTTATCTTACTCCTC
* * *
59352163 ACACATGAACGTAGTCAAAATTGACATTAAATGTCATTAAACATCAAGCTTATGTTACTCCT
1 ACACATGAACGTAGTAAAAATTGACATTAAATATCATTAAACATCAAGCTTATCTTACTCCT
59352225 TTCTACTCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (63 bp):
ACACATGAACGTAGTAAAAATTGACATTAAATATCATTAAACATCAAGCTTATCTTACTCCTC
Found at i:59352467 original size:48 final size:48
Alignment explanation
Indices: 59352398--59352995 Score: 676
Period size: 48 Copynumber: 12.6 Consensus size: 48
59352388 TAAAGTACCA
* * * * *
59352398 ATGCCATGTCCCCGACATGGTCTTACA-AGACTCCACATATCATCGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC-ACACATATCATCGTCG
*
59352446 ATGCCATGTCCCAGACATGGTCTTACA-T-GAATCCACATATCATCG-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGTC-G
*
59352494 ATGCCATGTCCCAGACATGGTCTTACA-T-GAATCCACATATCATCG-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGTC-G
*
59352542 ATGCCATGTCCCAGACATGGTCTTACA-T-GAATCCACATATCATCG-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGTC-G
*
59352590 ATGCCATGTCCCAGACATGGTCTTACA-T-GAATCCACATATCATCG-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGTC-G
* *
59352638 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACATCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* * *
59352686 ATGCCATG-CCTAGACATGGTCTTACACTGGCACACATATCAACATCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* * *
59352733 ATGCCATG-CCTAGACATGGTCTTACACTGGCACACATATCAACATCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* * *
59352780 ATGCCATG-CCTAGACATGGTCTTACACTGGCACACATATCAACATCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* * *
59352827 ATGCCATG-CCTAGACATGGTCTTACACTGGCACACATATCAACATC-
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* * *
59352873 ATGGCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* *
59352921 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* *
59352969 ATGCCA-ATCCCAGACATGTTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
59352996 ATGCACATTT
Statistics
Matches: 521, Mismatches: 21, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
46 7 0.01
47 231 0.44
48 279 0.54
49 2 0.00
50 2 0.00
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
Found at i:59353422 original size:47 final size:48
Alignment explanation
Indices: 59353245--59353558 Score: 429
Period size: 48 Copynumber: 6.6 Consensus size: 48
59353235 GCCATATACA
* * *
59353245 ATGCCATGTCCCAGACATGGTCTTACA-T-GAATCCACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCAACGCCG
* *
59353293 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACAAATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
*
59353341 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
* **
59353389 ATGCCATG-CCTAGACATGGTCTTACACTGGCACACATATCAACATCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
* *
59353436 ATGCCATG-CCTAGACATGGTCTTACACTGGTACACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
* * * * *
59353483 ATGCCATATCCCAAACAGGGTCTTACACAGGCACACATATCAACGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
*
59353531 ATGCCATGTCCCATACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
59353559 CAGTACATTT
Statistics
Matches: 241, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
47 88 0.37
48 150 0.62
49 1 0.00
50 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
Found at i:59356665 original size:42 final size:42
Alignment explanation
Indices: 59356561--59356672 Score: 109
Period size: 42 Copynumber: 2.7 Consensus size: 42
59356551 TACCGTGTCA
* * * *
59356561 ATGCCATATCCCGAATATGGTCTTACATGAAATATCATATCG
1 ATGCCATATCCCAAATATGGTCTTATACGAAATATCATACCG
* * * ****
59356603 ACGCCATGTCTCTTGCATGGTCTTATACGAAATCAT-ATACCG
1 ATGCCATATCCCAAATATGGTCTTATACGAAAT-ATCATACCG
59356645 ATGCCATATCCCAAATATGGTCTTATAC
1 ATGCCATATCCCAAATATGGTCTTATAC
59356673 AGAATCTCGG
Statistics
Matches: 52, Mismatches: 17, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
42 50 0.96
43 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTATACGAAATATCATACCG
Found at i:59357222 original size:26 final size:25
Alignment explanation
Indices: 59357174--59357224 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
59357164 TAACTCATAA
59357174 ATTTCACATTTCACAAATTAGTCCCC
1 ATTTCACATTTCACAAA-TAGTCCCC
59357200 ATTTCACATTTTCATCAAA-AGTCCC
1 ATTTCACA-TTTCA-CAAATAGTCCC
59357225 TTAACAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 14 0.61
27 5 0.22
28 4 0.17
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.35
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGTCCCC
Found at i:59363956 original size:101 final size:99
Alignment explanation
Indices: 59363778--59363961 Score: 253
Period size: 101 Copynumber: 1.8 Consensus size: 99
59363768 GTACGCATAG
* * * *
59363778 TAGCCTGCACTTAGTACTACACATGCGACCAACAGTTTGGTACACGTAGGAGCTTGCACTTAGTA
1 TAGCCTACACTTAGTACTACACACGCGACCAACAGTTTGGTACACATAGGAGCCTGCACTTAGTA
59363843 CTACACACGTGACCTCACCATCTAATACACGTAA
66 CTACACACGTGACCTCACCATCTAATACACGTAA
* * * *
59363877 TAGCCTACACTTAGTACTACACACGTGATC-ACAGTTTTCAGGTACGCATAGTAGCCTGCACTTA
1 TAGCCTACACTTAGTACTACACACGCGACCAACAG-TTT--GGTACACATAGGAGCCTGCACTTA
*
59363941 GTACTACACATGTGACCTCAC
63 GTACTACACACGTGACCTCAC
59363962 AATAGATCAT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
98 4 0.05
99 29 0.40
101 40 0.55
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGCCTACACTTAGTACTACACACGCGACCAACAGTTTGGTACACATAGGAGCCTGCACTTAGTA
CTACACACGTGACCTCACCATCTAATACACGTAA
Found at i:59366148 original size:15 final size:15
Alignment explanation
Indices: 59366091--59366156 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
59366081 TAAAGATAAC
*
59366091 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
59366105 AAGAAATCACA-AGATA
1 AAGAAATC-CAGA-ATA
*
59366121 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
59366136 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
59366151 AAGAAA
1 AAGAAA
59366157 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
14 9 0.21
15 24 0.56
16 8 0.19
17 2 0.05
ACGTcount: A:0.64, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:59369207 original size:49 final size:49
Alignment explanation
Indices: 59369135--59369328 Score: 185
Period size: 49 Copynumber: 3.9 Consensus size: 49
59369125 GCCGAAGCTA
* * *
59369135 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACCCATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* *
59369184 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACATCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGAC--CAACAG
* ** ** * *
59369234 TTTAATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * * *
59369282 TTTTCGGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
59369329 TCACAATAGA
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 39 0.34
50 37 0.32
51 37 0.32
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:59375117 original size:40 final size:40
Alignment explanation
Indices: 59375073--59375230 Score: 262
Period size: 40 Copynumber: 4.0 Consensus size: 40
59375063 GAAAAAAAAA
* *
59375073 TATAACCAGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
59375113 TATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
59375153 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
59375193 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
59375231 GTTACATCCG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:59375254 original size:80 final size:80
Alignment explanation
Indices: 59375088--59375256 Score: 221
Period size: 80 Copynumber: 2.1 Consensus size: 80
59375078 CCAGGTTAAG
59375088 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTAT
* * ** *
59375153 TATAACCGGGTTAAG
66 TACAACCGAGCCAAA
* * * * * *
59375168 TCCCGAAGGCATTCGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTAT
*
59375233 TACATCCGAGCCAAA
66 TACAACCGAGCCAAA
*
59375248 TTCCGAAGG
1 TCCCGAAGG
59375257 TATTTATGTT
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTAT
TACAACCGAGCCAAA
Found at i:59377310 original size:21 final size:21
Alignment explanation
Indices: 59377273--59377332 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
59377263 TCCCTAAAAT
*
59377273 AGGGCAAC-CGCCTGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
59377293 AGGGCAACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
59377314 AGGGCAGCACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
59377333 ACCAACTCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
20 8 0.22
21 29 0.78
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:59378569 original size:46 final size:46
Alignment explanation
Indices: 59378519--59378646 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 46
59378509 CTCGTAGCTA
* * *
59378519 ATGCATGTCCCAAACATGTCTTACACTGGCT-TACGTCCCGAGGTCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCCCAAGGACG
* * ** *
59378565 ATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTTAATGACG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCCCAAGGACG
59378611 ATGCCATGTCCCAGACATCGTCTTACACTGGCTCTC
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC
59378647 ATAATTTGGC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 39 0.57
47 14 0.20
48 16 0.23
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCCCAAGGACG
Found at i:59378661 original size:48 final size:45
Alignment explanation
Indices: 59378563--59378690 Score: 141
Period size: 47 Copynumber: 2.8 Consensus size: 45
59378553 GTCCCGAGGT
* *
59378563 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTTAATGA
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATATT-ATGA
* * *
59378609 CGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCATAATT-TGGC
1 CGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCAT-ATTAT-GA
* *
59378657 CGATGCATGTTCTAAACATGTCTTACACTAGCTC
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTC
59378691 ACAAACAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
46 19 0.28
47 25 0.36
48 23 0.33
49 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (45 bp):
CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATATTATGA
Found at i:59380238 original size:20 final size:20
Alignment explanation
Indices: 59380202--59380240 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59380192 TCAAATAACC
*
59380202 AGTAGTTCATCCGTATAAAT
1 AGTAGTTCATCCATATAAAT
*
59380222 AGTAGTTCATCTATATAAA
1 AGTAGTTCATCCATATAAA
59380241 CACATATCTT
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:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (20 bp):
AGTAGTTCATCCATATAAAT
Done.