Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 28 of 75
Found at i:8357532 original size:16 final size:15
Alignment explanation
Indices: 8357498--8357549 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
8357488 TTAAAAATCT
*
8357498 TAAACCCTAAAACTT
1 TAAACCCTAAAACTA
8357513 TAAAACCCTAAACAC-A
1 T-AAACCCTAAA-ACTA
* *
8357529 TAAACCCTTAACCTA
1 TAAACCCTAAAACTA
8357544 TAAACC
1 TAAACC
8357550 TTAACCCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.03
15 17 0.55
16 11 0.35
17 2 0.06
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCCTAAAACTA
Found at i:8357597 original size:14 final size:14
Alignment explanation
Indices: 8357580--8357647 Score: 50
Period size: 14 Copynumber: 4.7 Consensus size: 14
8357570 TTTAACTTAA
*
8357580 AAACCTTAAACTCT
1 AAACCTTAAACCCT
8357594 AAA-CTCTAAACCCT
1 AAACCT-TAAACCCT
* *
8357608 AAAACCCTAAACCAT
1 -AAACCTTAAACCCT
*
8357623 TAA-CTTAAAACCCT
1 AAACCTT-AAACCCT
8357637 AAATCCTTAAA
1 AAA-CCTTAAA
8357648 TTAATAACCC
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
13 4 0.10
14 20 0.49
15 13 0.32
16 4 0.10
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCTTAAACCCT
Found at i:8357611 original size:29 final size:30
Alignment explanation
Indices: 8357579--8357688 Score: 102
Period size: 29 Copynumber: 3.8 Consensus size: 30
8357569 CTTTAACTTA
8357579 AAAACCTTAAACTC-TAAACTCTAAACCCT
1 AAAACCTTAAACTCATAAACTCTAAACCCT
* *
8357608 AAAACCCTAAAC-CATTAACT-TAAAACCCT
1 AAAACCTTAAACTCATAAACTCT-AAACCCT
* * * * *
8357637 AAATCCTTAAATTAAT-AACCCTAAACCAT
1 AAAACCTTAAACTCATAAACTCTAAACCCT
* *
8357666 AAAACCTTAAAATCTTAAACTCT
1 AAAACCTTAAACTCATAAACTCT
8357689 TAACTTAAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
28 2 0.03
29 53 0.84
30 8 0.13
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.25
Consensus pattern (30 bp):
AAAACCTTAAACTCATAAACTCTAAACCCT
Found at i:8357661 original size:51 final size:52
Alignment explanation
Indices: 8357530--8357639 Score: 140
Period size: 50 Copynumber: 2.2 Consensus size: 52
8357520 CTAAACACAT
* * *
8357530 AAACCCTTAACCTATAAAC-CT-TAACCCT-AAACCCTAAACCTTTAACTTAA
1 AAACCC-TAAACTCTAAACTCTATAACCCTAAAACCCTAAACCATTAACTTAA
*
8357580 AAACCTTAAACTCTAAACTCTA-AACCCTAAAACCCTAAACCATTAACTT-A
1 AAACCCTAAACTCTAAACTCTATAACCCTAAAACCCTAAACCATTAACTTAA
8357630 AAACCCTAAA
1 AAACCCTAAA
8357640 TCCTTAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
49 10 0.19
50 23 0.44
51 19 0.37
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (52 bp):
AAACCCTAAACTCTAAACTCTATAACCCTAAAACCCTAAACCATTAACTTAA
Found at i:8357671 original size:51 final size:50
Alignment explanation
Indices: 8357530--8357675 Score: 135
Period size: 50 Copynumber: 2.9 Consensus size: 50
8357520 CTAAACACAT
* *
8357530 AAACCCTTAACCTATAAAC-CT-TAACCCTAAACCCTAAACCTTTAACTTAA
1 AAACCC-TAAACTCTAAACTCTATAACCCTAAACCCTAAACC-TTAACTTAA
*
8357580 AAACCTTAAACTCTAAACTCTA-AACCCTAAAACCCTAAACCATTAACTT-A
1 AAACCCTAAACTCTAAACTCTATAACCCT-AAACCCTAAACC-TTAACTTAA
*
8357630 AAACCCTAAA-TCCTTAAA-T-TAATAACCCTAAACCATAAAACCTTAA
1 AAACCCTAAACT-C-TAAACTCT-ATAACCCTAAACCCT-AAACCTTAA
8357676 AATCTTAAAC
Statistics
Matches: 82, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
49 12 0.15
50 36 0.44
51 34 0.41
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (50 bp):
AAACCCTAAACTCTAAACTCTATAACCCTAAACCCTAAACCTTAACTTAA
Found at i:8357774 original size:38 final size:38
Alignment explanation
Indices: 8357727--8357887 Score: 160
Period size: 38 Copynumber: 4.0 Consensus size: 38
8357717 TAAAAACCTT
* * *
8357727 AAACTCTAAAACCTTAAAAACCTTAATCCTTAAATTAA
1 AAACCCTAAAACCTTAAAAACCCTAACCCTTAAATTAA
8357765 AAACCCTAAAACCTTAAAAACCCTAACCCTTAAATTAA
1 AAACCCTAAAACCTTAAAAACCCTAACCCTTAAATTAA
* ** * *
8357803 AAACCCTAAACCCTTACTTTAAAACTGTAACCATTAAATAAA
1 AAACCCTAAAACCTTA----AAAACCCTAACCCTTAAATTAA
* *
8357845 AAACCCTAACACTTAACTTAAAAACCCTAACCCTTAACTTAA
1 AAACCCTAA-A---ACCTTAAAAACCCTAACCCTTAAATTAA
8357887 A
1 A
8357888 TATAATTTGA
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
38 50 0.50
42 45 0.45
43 1 0.01
46 4 0.04
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.25
Consensus pattern (38 bp):
AAACCCTAAAACCTTAAAAACCCTAACCCTTAAATTAA
Found at i:8357866 original size:41 final size:42
Alignment explanation
Indices: 8357756--8357869 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 42
8357746 ACCTTAATCC
* * ** *
8357756 TTAAATTAAAAACCCTAAA-AC---CTTAAAAACCCTAACCC
1 TTAAATAAAAAACCCTAAACACTTACTTTAAAACTGTAACCA
* *
8357794 TTAAATTAAAAACCCTAAACCCTTACTTTAAAACTGTAACCA
1 TTAAATAAAAAACCCTAAACACTTACTTTAAAACTGTAACCA
*
8357836 TTAAATAAAAAACCCT-AACACTTAACTTAAAAAC
1 TTAAATAAAAAACCCTAAACACTT-ACTTTAAAAC
8357870 CCTAACCCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
38 19 0.30
39 1 0.02
41 6 0.10
42 37 0.59
ACGTcount: A:0.50, C:0.25, G:0.01, T:0.25
Consensus pattern (42 bp):
TTAAATAAAAAACCCTAAACACTTACTTTAAAACTGTAACCA
Found at i:8357887 original size:84 final size:85
Alignment explanation
Indices: 8357687--8357887 Score: 227
Period size: 84 Copynumber: 2.4 Consensus size: 85
8357677 ATCTTAAACT
* * *
8357687 CTTAACTTAAAACCCCATAAACCCTTAAATTAAAAACCTTAAACTCTAAAACCTTAAAAACCTTA
1 CTTAACTTAAAAACCC-T-AACCCTTAAATTAAAAACCCTAAACCCT-AAACCTTAAAAACCTTA
*
8357752 ATCCTTAAATTAAAAACCCTAAA
63 ATCCTTAAATAAAAAACCCTAAA
* * *
8357775 ---ACCTTAAAAACCCTAACCCTTAAATTAAAAACCCTAAACCCT-TA-CTTTAAAA-CTGTAA-
1 CTTAACTTAAAAACCCTAACCCTTAAATTAAAAACCCTAAACCCTAAACCTTAAAAACCT-TAAT
8357833 CCATTAAATAAAAAACCCTAACA
65 CC-TTAAATAAAAAACCCTAA-A
*
8357856 CTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 CTTAACTTAAAAACCCTAACCCTTAAATTAAA
8357888 TATAATTTGA
Statistics
Matches: 98, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
79 4 0.04
80 27 0.28
81 2 0.02
83 26 0.27
84 28 0.29
85 11 0.11
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.25
Consensus pattern (85 bp):
CTTAACTTAAAAACCCTAACCCTTAAATTAAAAACCCTAAACCCTAAACCTTAAAAACCTTAATC
CTTAAATAAAAAACCCTAAA
Found at i:8359450 original size:313 final size:313
Alignment explanation
Indices: 8358869--8359491 Score: 1129
Period size: 313 Copynumber: 2.0 Consensus size: 313
8358859 GAAAACGGTC
8358869 TTTATTTATTTCATACCCTGCCAATATAAGTTCATAACGAATATTACATACCACTTCTACCAATA
1 TTTATTTATTTCATACCCTGCCAATATAAGTTCATAACGAATATTACATACCACTTCTACCAATA
8358934 AAACTAATTCAAATTGACAAACAAAATAACACAGATATAGACTAAATACCCATGTTGGTCACTTG
66 AAACTAATTCAAATTGACAAACAAAATAACACAGATATAGACTAAATACCCATGTTGGTCACTTG
8358999 TCGTTGTTCGCTCTTAGATGGATATTACCTGTAGTAGTTGGAAGCAACGTGTCTTAGGCAATATC
131 TCGTTGTTCGCTCTTAGATGGATATTACCTGTAGTAGTTGGAAGCAACGTGTCTTAGGCAATATC
** ***
8359064 GATGGTGTGTGTGCTGCCATAAGCTTCCCTGTCGATCAAATGCAGCTAGTATACCGATGTCCCGA
196 GATGGTGTGTGTGCTGCCATAAGCTTCCCTACCGATCAAATGCAGCTAGTATACCGACAACCCGA
* * **
8359129 TTTGAAATAACACAGATATTTGGTTGGGGGCACACATGCCTCCTTAACCTAGA
261 TCTGAAATAACACAAATATCAGGTTGGGGGCACACATGCCTCCTTAACCTAGA
* *
8359182 TTTATTTATTTCATACTCTGCCAATATAAGTTCATAGCGAATATTACATACCACTTCTACCAATA
1 TTTATTTATTTCATACCCTGCCAATATAAGTTCATAACGAATATTACATACCACTTCTACCAATA
8359247 AAACTAATTCAAATTGACAAACAAAATAACACAGATATAGACTAAATACCCATGTTGGTCACTTG
66 AAACTAATTCAAATTGACAAACAAAATAACACAGATATAGACTAAATACCCATGTTGGTCACTTG
8359312 TCGTTGTTCGCTCTTAGATGGATATTACCTGTAGTAGTTGGAAGCAACGTGTCTTAGGCAATATC
131 TCGTTGTTCGCTCTTAGATGGATATTACCTGTAGTAGTTGGAAGCAACGTGTCTTAGGCAATATC
* *
8359377 GATGGTGTGTGTGCTGCCATAAGCTTCCCTACCGATCAAATGTAGCTAGTATACCGACAACTCGA
196 GATGGTGTGTGTGCTGCCATAAGCTTCCCTACCGATCAAATGCAGCTAGTATACCGACAACCCGA
8359442 TCTGAAATAACACAAATATCAGGTTGGGGGCACACATGCCTCCTTAACCT
261 TCTGAAATAACACAAATATCAGGTTGGGGGCACACATGCCTCCTTAACCT
8359492 GGAGAGAAAG
Statistics
Matches: 297, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
313 297 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (313 bp):
TTTATTTATTTCATACCCTGCCAATATAAGTTCATAACGAATATTACATACCACTTCTACCAATA
AAACTAATTCAAATTGACAAACAAAATAACACAGATATAGACTAAATACCCATGTTGGTCACTTG
TCGTTGTTCGCTCTTAGATGGATATTACCTGTAGTAGTTGGAAGCAACGTGTCTTAGGCAATATC
GATGGTGTGTGTGCTGCCATAAGCTTCCCTACCGATCAAATGCAGCTAGTATACCGACAACCCGA
TCTGAAATAACACAAATATCAGGTTGGGGGCACACATGCCTCCTTAACCTAGA
Found at i:8361556 original size:126 final size:126
Alignment explanation
Indices: 8361315--8361854 Score: 721
Period size: 126 Copynumber: 4.3 Consensus size: 126
8361305 CCCAAACATG
* * * *
8361315 CTACTATAGCAAAATCGC-TCCACGTGGGCGTGATTTCACAAATTCTTCTCATAAAACATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
* * * * *
8361379 TAGAAGC--GATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAAGAC
66 TTGAAGCATTATTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* * * *
8361438 CTATTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCA-AATAGCATTCTA
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTA
* * * *
8361502 CTTGCAGCATTATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGAAGCATTATTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* *
8361564 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCGTCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
* *
8361629 TTGAAGCATTTTTTTAAACTATTTGCTCAGAAACGTCAATTCGAAATTATTTTTTCCAAGAC
66 TTGAAGCATTATTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTA-TTTTTCCAAGAC
* * * * * * * *
8361691 CAACTGTAGCAAAAGTGCGTCCACGAGGACGCGATTTCATAAGTTCTTCTCATAAAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
* * *
8361756 TTGAAGCGTT-TTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAAGAT
66 TTGAAGCATTATTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* *
8361816 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCA
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCA
8361855 AAAAGCCTTT
Statistics
Matches: 368, Mismatches: 43, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
123 17 0.05
124 45 0.12
125 44 0.12
126 184 0.50
127 78 0.21
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
TTGAAGCATTATTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
Found at i:8362858 original size:15 final size:16
Alignment explanation
Indices: 8362823--8362860 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
8362813 CCAATAAGCA
8362823 TAAATTATTTTTGAGT
1 TAAATTATTTTTGAGT
*
8362839 T-AATTATTTTTTA-T
1 TAAATTATTTTTGAGT
8362853 TAAATTAT
1 TAAATTAT
8362861 AGGTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 17 0.85
16 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
TAAATTATTTTTGAGT
Found at i:8364809 original size:9 final size:9
Alignment explanation
Indices: 8364797--8364851 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
8364787 AAATTACTCA
*
8364797 AATTACCCG
1 AATTAACCG
*
8364806 AATTACCCG
1 AATTAACCG
8364815 -ATTAACCG
1 AATTAACCG
8364823 AATTAACCG
1 AATTAACCG
*
8364832 AGTTAACCG
1 AATTAACCG
*
8364841 AATTACCCG
1 AATTAACCG
8364850 AA
1 AA
8364852 AATTACCCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
8 7 0.17
9 34 0.83
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:8364839 original size:18 final size:17
Alignment explanation
Indices: 8364798--8364850 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
8364788 AATTACTCAA
*
8364798 ATTACCCGAATTACCCG
1 ATTAACCGAATTACCCG
*
8364815 ATTAACCGAATTAACCG
1 ATTAACCGAATTACCCG
8364832 AGTTAACCGAATTACCCG
1 A-TTAACCGAATTACCCG
8364850 A
1 A
8364851 AAATTACCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (17 bp):
ATTAACCGAATTACCCG
Found at i:8365608 original size:32 final size:32
Alignment explanation
Indices: 8365572--8365635 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
8365562 ATAAAAGACT
8365572 GTTTTGATAACATTGCATTACATCCGTGATAA
1 GTTTTGATAACATTGCATTACATCCGTGATAA
8365604 GTTTTGATAACATTGCATTACATCCGTGATAA
1 GTTTTGATAACATTGCATTACATCCGTGATAA
8365636 ACATGACGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (32 bp):
GTTTTGATAACATTGCATTACATCCGTGATAA
Found at i:8369703 original size:44 final size:44
Alignment explanation
Indices: 8369631--8369871 Score: 221
Period size: 43 Copynumber: 5.6 Consensus size: 44
8369621 ATTACATGAT
* * * *
8369631 TTCGTATAAGACCATAGCTGGGCTA-TGGCATCGATATATGAGA
1 TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* * *
8369674 CTTTGTGTAAGACTATATATGGGATA-TGGCATCGATATATGTGA
1 -TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* * * *
8369718 TTACGTGTAAGACCATGTCTAGGACATTGGCATC--TTTATGTGA
1 TT-CGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* * *
8369761 TTTCGTGTAAGACTATGTCTGGGACATTGGCATCGATATA--TGA
1 -TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* *
8369804 TTCGTGTAAGACCATAGCTGGGCTATTGGCATCG--ATATGTGA
1 TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* *
8369846 TAACATGTAAGACCATATCT-GGATAT
1 T-TCGTGTAAGACCATATCTGGGATAT
8369872 AGCATTGTAT
Statistics
Matches: 163, Mismatches: 26, Indels: 18
0.79 0.13 0.09
Matches are distributed among these distances:
40 3 0.02
42 38 0.23
43 57 0.35
44 55 0.34
45 10 0.06
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (44 bp):
TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
Found at i:8369855 original size:85 final size:84
Alignment explanation
Indices: 8369626--8369867 Score: 249
Period size: 85 Copynumber: 2.8 Consensus size: 84
8369616 ATGGCATTAC
* * *
8369626 ATGATTTCGTATAAGACCATAGCTGGGCTA-TGGCATCGATATATGA-GACTTTGTGTAAGACTA
1 ATGA-TTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGTGATAAC---GTGTAAGACTA
* *
8369689 TATATGGGATATGGCATCGATAT
62 TATCTGGGACATGGCATCGATAT
* ** **
8369712 ATGTGATTACGTGTAAGACCAT-GTCTAGGAC-ATTGGCATCTTTATGTGATTTCGTGTAAGACT
1 A--TGATT-CGTGTAAGACCATAG-CT-GGGCTATTGGCATCGATATGTGATAACGTGTAAGACT
*
8369775 ATGTCTGGGACATTGGCATCGATAT
61 ATATCTGGGACA-TGGCATCGATAT
* *
8369800 ATGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGTGATAACATGTAAGACCATATC
1 ATGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGTGATAACGTGTAAGACTATATC
8369865 TGG
66 TGG
8369868 ATATAGCATT
Statistics
Matches: 128, Mismatches: 18, Indels: 21
0.77 0.11 0.13
Matches are distributed among these distances:
84 3 0.02
85 48 0.38
86 7 0.05
87 22 0.17
88 31 0.24
89 16 0.12
90 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (84 bp):
ATGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGTGATAACGTGTAAGACTATATC
TGGGACATGGCATCGATAT
Found at i:8371946 original size:15 final size:15
Alignment explanation
Indices: 8371926--8371955 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8371916 CATAACTCCT
8371926 TCTAACCCATAAATA
1 TCTAACCCATAAATA
8371941 TCTAACCCATAAATA
1 TCTAACCCATAAATA
8371956 AATAAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (15 bp):
TCTAACCCATAAATA
Found at i:8375099 original size:19 final size:20
Alignment explanation
Indices: 8375063--8375104 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
8375053 GGGGTCTTTT
8375063 ATAAAAATAATACAAAAA-A
1 ATAAAAATAATACAAAAATA
**
8375082 ATAAAAATAATATTAAAATA
1 ATAAAAATAATACAAAAATA
8375102 ATA
1 ATA
8375105 TAATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
ATAAAAATAATACAAAAATA
Found at i:8382403 original size:34 final size:34
Alignment explanation
Indices: 8382333--8382421 Score: 115
Period size: 34 Copynumber: 2.6 Consensus size: 34
8382323 TGCACATGGG
*
8382333 TATATATTTACAAAATAGAAAAAAATGTATAAGTA
1 TATATATTTACAATATA-AAAAAAATGTATAAGTA
* *
8382368 TATATATTTACAATATAAAAGAAATGTATATGTA
1 TATATATTTACAATATAAAAAAAATGTATAAGTA
* * *
8382402 TATATCTATAAAATATAAAA
1 TATATATTTACAATATAAAA
8382422 TATATAAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 32 0.67
35 16 0.33
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (34 bp):
TATATATTTACAATATAAAAAAAATGTATAAGTA
Found at i:8382533 original size:24 final size:24
Alignment explanation
Indices: 8382506--8382554 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8382496 GTTTATGGAT
*
8382506 ATATATATATGTATTAC-ATAAAAA
1 ATATATATAGGTA-TACTATAAAAA
*
8382530 ATATGTATAGGTATACTATAAAAA
1 ATATATATAGGTATACTATAAAAA
8382554 A
1 A
8382555 GATGCGTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (24 bp):
ATATATATAGGTATACTATAAAAA
Found at i:8383754 original size:34 final size:35
Alignment explanation
Indices: 8383716--8383785 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
8383706 GGCCAGGATG
* *
8383716 TTATTGGG-TTTGTTTATTGGTTTGGGCCCGGGCA
1 TTATTGGGTTTTGTATATTGATTTGGGCCCGGGCA
*
8383750 TTATTGGGTTTTGTATATTTATTTGGGCCCGGGCA
1 TTATTGGGTTTTGTATATTGATTTGGGCCCGGGCA
8383785 T
1 T
8383786 ATTTGGACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 8 0.25
35 24 0.75
ACGTcount: A:0.11, C:0.11, G:0.31, T:0.46
Consensus pattern (35 bp):
TTATTGGGTTTTGTATATTGATTTGGGCCCGGGCA
Found at i:8384151 original size:44 final size:44
Alignment explanation
Indices: 8384103--8384226 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 44
8384093 CTGTAACCTC
* * * *
8384103 AGGGAGGTAAAATCTGTCATCTTCGATCTACTCCACTACTGCCT
1 AGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACTGCCT
* * * *
8384147 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACTGCCT
* * * *
8384191 AGGAAGATAGAAT-TACT-AGCTTCAATGTACTCCACT
1 AGGGAGATAAAATCTA-TAATCTTCAATCTACTCCACT
8384227 GTAACCTCAG
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 18 0.28
44 47 0.72
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACTGCCT
Found at i:8385771 original size:89 final size:89
Alignment explanation
Indices: 8385620--8386219 Score: 907
Period size: 89 Copynumber: 6.7 Consensus size: 89
8385610 NNNNNNNNNN
* * *
8385620 GAAGACAAGATCTGTTTTCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
*
8385685 CGATCTACTTCGCCACCAGTATGG
66 CGATCTGCTTCGCCACCAGTATGG
* *
8385709 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTT
1 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
8385774 CGATCTGCTTCGCCACCAGTATGG
66 CGATCTGCTTCGCCACCAGTATGG
* * *
8385798 GAAGGCAAGATATGTTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
*
8385863 TGATCTGCTTCGCCACCAGTATGG
66 CGATCTGCTTCGCCACCAGTATGG
* * *
8385887 GAAGGCAAGACCTG-TATCTTTGATCTACTTTACGTCAGTACATGAAGACAAGATCTGTTTTTTC
1 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG--TTTT-
* *
8385951 CTTCGATATACTTCGCCACCAGTATGG
63 CTTCGATCTGCTTCGCCACCAGTATGG
* *
8385978 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGTTTTCTT
1 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
*
8386043 CAATCTGCTTCGCCACCAGTATGG
66 CGATCTGCTTCGCCACCAGTATGG
* * **
8386067 GAAGGCAAGATATGTTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTT
1 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
*
8386132 TGATCTGCTTCGCCACCAGTATGG
66 CGATCTGCTTCGCCACCAGTATGG
* * * * *
8386156 GAAGGCAAGACCTG-TATCTCTGATCTACTTTACGTCAGTACATGAAGACAAGATCTGTTATCTT
1 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
8386220 TCAACCTGCT
Statistics
Matches: 465, Mismatches: 42, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
88 85 0.18
89 297 0.64
90 7 0.02
91 36 0.08
92 40 0.09
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (89 bp):
GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
CGATCTGCTTCGCCACCAGTATGG
Found at i:8386113 original size:269 final size:268
Alignment explanation
Indices: 8385637--8386214 Score: 1052
Period size: 269 Copynumber: 2.2 Consensus size: 268
8385627 AGATCTGTTT
* ** *
8385637 TCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTG--TTTTCTTCGATCTACTTCGCCA
1 TCTTTGATCTACTTTACGTCAGTACATGAAGACAAGATCTGTTTTTTCTTCGATATACTTCGCCA
*
8385700 CCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
66 CCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATAAAGACAAGATC
*
8385765 TATTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATATGTTATCTCTGATCTACTTC
131 TATTTTCTTCAATCTGCTTCGCCACCAGTATGGGAAGGCAAGATATGTTATCTCTGATCTACTTC
*
8385830 ACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAA
196 ACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAA
8385895 GACCTGTA
261 GACCTGTA
8385903 TCTTTGATCTACTTTACGTCAGTACATGAAGACAAGATCTGTTTTTTCCTTCGATATACTTCGCC
1 TCTTTGATCTACTTTACGTCAGTACATGAAGACAAGATCTGTTTTTT-CTTCGATATACTTCGCC
8385968 ACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATAAAGACAAGAT
65 ACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATAAAGACAAGAT
*
8386033 CTGTTTTCTTCAATCTGCTTCGCCACCAGTATGGGAAGGCAAGATATGTTATCTCTGATCTACTT
130 CTATTTTCTTCAATCTGCTTCGCCACCAGTATGGGAAGGCAAGATATGTTATCTCTGATCTACTT
8386098 CACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCA
195 CACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCA
8386163 AGACCTGTA
260 AGACCTGTA
*
8386172 TCTCTGATCTACTTTACGTCAGTACATGAAGACAAGATCTGTT
1 TCTTTGATCTACTTTACGTCAGTACATGAAGACAAGATCTGTT
8386215 ATCTTTCAAC
Statistics
Matches: 300, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
266 38 0.13
268 4 0.01
269 258 0.86
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (268 bp):
TCTTTGATCTACTTTACGTCAGTACATGAAGACAAGATCTGTTTTTTCTTCGATATACTTCGCCA
CCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATAAAGACAAGATC
TATTTTCTTCAATCTGCTTCGCCACCAGTATGGGAAGGCAAGATATGTTATCTCTGATCTACTTC
ACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAA
GACCTGTA
Found at i:8387492 original size:7 final size:7
Alignment explanation
Indices: 8387476--8387538 Score: 91
Period size: 7 Copynumber: 9.7 Consensus size: 7
8387466 AGCCTCTCCA
8387476 TTTT-AT
1 TTTTCAT
8387482 TTTTCAT
1 TTTTCAT
8387489 TTTTCAT
1 TTTTCAT
8387496 TTTTCAT
1 TTTTCAT
8387503 TTTTCAT
1 TTTTCAT
8387510 TTTTCA-
1 TTTTCAT
8387516 TTTTCA-
1 TTTTCAT
8387522 TTTT--T
1 TTTTCAT
8387527 TTTTCAT
1 TTTTCAT
8387534 TTTTC
1 TTTTC
8387539 TACATCACTT
Statistics
Matches: 53, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
5 4 0.08
6 14 0.26
7 35 0.66
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTCAT
Found at i:8390376 original size:19 final size:20
Alignment explanation
Indices: 8390352--8390391 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8390342 AACTGTGTTT
* *
8390352 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATGAAATGA
8390371 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
8390391 A
1 A
8390392 TGCNNNNNNN
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:8390437 original size:13 final size:13
Alignment explanation
Indices: 8390419--8390443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8390409 NNNNNAATTT
8390419 TTTACTAGAAAAC
1 TTTACTAGAAAAC
8390432 TTTACTAGAAAA
1 TTTACTAGAAAA
8390444 AACAAATCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:8391939 original size:34 final size:34
Alignment explanation
Indices: 8391900--8391990 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
8391890 GAACCCAAGG
*
8391900 GTATATATTTACAAAATAGAAAAAAAATGTATAA
1 GTATATATTTACAAAATATAAAAAAAATGTATAA
* *
8391934 GTATATATATTTAC--AATATAAAAGAAATGTATAT
1 G--TATATATTTACAAAATATAAAAAAAATGTATAA
* *
8391968 GTATATATCTATAAAATATAAAA
1 GTATATATTTACAAAATATAAAA
8391991 TATATAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
32 9 0.19
34 28 0.58
36 11 0.23
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (34 bp):
GTATATATTTACAAAATATAAAAAAAATGTATAA
Found at i:8392102 original size:24 final size:24
Alignment explanation
Indices: 8392075--8392123 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8392065 GTTTATGGAT
*
8392075 ATATATATATGTATTAC-ATAAAAA
1 ATATATATAGGTA-TACTATAAAAA
*
8392099 ATATGTATAGGTATACTATAAAAA
1 ATATATATAGGTATACTATAAAAA
8392123 A
1 A
8392124 GATGCGTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (24 bp):
ATATATATAGGTATACTATAAAAA
Found at i:8393323 original size:34 final size:35
Alignment explanation
Indices: 8393285--8393354 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
8393275 GGCCAGGATG
* *
8393285 TTATTGGG-TTTGTTTATTGGTTTGGGCCCGGGCA
1 TTATTGGGTTTTGTATATTGATTTGGGCCCGGGCA
*
8393319 TTATTGGGTTTTGTATATTTATTTGGGCCCGGGCA
1 TTATTGGGTTTTGTATATTGATTTGGGCCCGGGCA
8393354 T
1 T
8393355 ATTTAGGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 8 0.25
35 24 0.75
ACGTcount: A:0.11, C:0.11, G:0.31, T:0.46
Consensus pattern (35 bp):
TTATTGGGTTTTGTATATTGATTTGGGCCCGGGCA
Found at i:8393585 original size:6 final size:6
Alignment explanation
Indices: 8393574--8393600 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8393564 CTACATTCAG
8393574 ATTTTA ATTTTA ATTTTA ATTTTA ATT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATT
8393601 ACTGGATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:8398119 original size:8 final size:8
Alignment explanation
Indices: 8398106--8398171 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
8398096 GTTAAAATAT
8398106 ATATTATA
1 ATATTATA
8398114 ATATTATA
1 ATATTATA
8398122 ATATTAT-
1 ATATTATA
*
8398129 ATCTTA-A
1 ATATTATA
*
8398136 TTATTA-A
1 ATATTATA
*
8398143 GTATATATATT
1 --ATAT-TATA
8398154 ATATTAT-
1 ATATTATA
8398161 ATATTATA
1 ATATTATA
8398169 ATA
1 ATA
8398172 AGTAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 17 0.36
8 21 0.45
9 7 0.15
10 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:8398156 original size:7 final size:7
Alignment explanation
Indices: 8398103--8398168 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
8398093 AAAGTTAAAA
8398103 TATATAT
1 TATATAT
8398110 TATAATAT
1 TAT-ATAT
8398118 TATAATAT
1 TAT-ATAT
*
8398126 TATATCT
1 TATATAT
8398133 TA-ATTAT
1 TATA-TAT
8398140 TAAGTATAT
1 T-A-TATAT
8398149 ATATTATAT
1 -TA-TATAT
8398158 TATATAT
1 TATATAT
8398165 TATA
1 TATA
8398169 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:8398181 original size:30 final size:32
Alignment explanation
Indices: 8398113--8398181 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
8398103 TATATATTAT
* *
8398113 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
8398146 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
8398176 AATATA
1 AATATA
8398182 ATAAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:8398901 original size:24 final size:24
Alignment explanation
Indices: 8398874--8398920 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8398864 ATTGAAATGG
8398874 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
8398898 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
8398921 GGTATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:8400460 original size:40 final size:40
Alignment explanation
Indices: 8400415--8400521 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
8400405 ATTTGCATAA
*
8400415 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTATA-T
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTA-AGG
* *
8400455 AAAACGCCGCTAAAGATCGAGCACTAGCGGCGCTTTAAGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAAGG
* * *
8400495 AAAACGCCACTAATAAT-GAGTATTAGC
1 AAAACGCCGCTAAAAATCGAGCATTAGC
8400522 AGCATTTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 9 0.16
40 49 0.84
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAAGG
Found at i:8400686 original size:42 final size:41
Alignment explanation
Indices: 8400583--8400699 Score: 200
Period size: 41 Copynumber: 2.9 Consensus size: 41
8400573 TTCTCACCTT
8400583 TCAGGGCTTTAGCGGCGTTTTTGTAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGTAGAAGCGCCGCTAATGC
*
8400624 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGTAGAAGCGCCGCTAATGC
*
8400665 TCAGGGGCTTTAGCGGCG-TTTTGTAAAAGCGCCGC
1 TCA-GGGCTTTAGCGGCGTTTTTGTAGAAGCGCCGC
8400700 AAAAACATTT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
41 58 0.81
42 14 0.19
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.27
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGTAGAAGCGCCGCTAATGC
Found at i:8401051 original size:7 final size:7
Alignment explanation
Indices: 8401019--8401236 Score: 129
Period size: 7 Copynumber: 31.0 Consensus size: 7
8401009 TAAGGTTTTT
8401019 GGTTTAG
1 GGTTTAG
* *
8401026 GGTATAT
1 GGTTTAG
*
8401033 GGTATAG
1 GGTTTAG
* *
8401040 AGTTTAA
1 GGTTTAG
*
8401047 GGTTTAT
1 GGTTTAG
*
8401054 GGATTATG
1 GGTTTA-G
8401062 GGTTTAG
1 GGTTTAG
* *
8401069 GGGTTAT
1 GGTTTAG
*
8401076 GGTTTAA
1 GGTTTAG
8401083 GGTTTAG
1 GGTTTAG
8401090 GGTTTAG
1 GGTTTAG
*
8401097 GGTTTAT
1 GGTTTAG
*
8401104 GGTTTAT
1 GGTTTAG
8401111 GGTTTAG
1 GGTTTAG
8401118 GGTTTAG
1 GGTTTAG
* *
8401125 GGGTTAC
1 GGTTTAG
*
8401132 GGTTTAT
1 GGTTTAG
*
8401139 GGTTTAA
1 GGTTTAG
8401146 GGTTATA-
1 GGTT-TAG
* *
8401153 GATTAAG
1 GGTTTAG
*
8401160 GG-TTGG
1 GGTTTAG
*
8401166 GGTTTAA
1 GGTTTAG
8401173 GGTTTAG
1 GGTTTAG
8401180 GAG-TTAG
1 G-GTTTAG
*
8401187 GGGTTAGG
1 GGTTTA-G
*
8401195 GGTTGAG
1 GGTTTAG
*
8401202 GGTTAAG
1 GGTTTAG
* *
8401209 AG-TCAGG
1 GGTTTA-G
8401216 GGTTTAG
1 GGTTTAG
*
8401223 GATTTAG
1 GGTTTAG
8401230 GGTTTAG
1 GGTTTAG
8401237 ATTTAATTTA
Statistics
Matches: 162, Mismatches: 40, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
6 8 0.05
7 139 0.86
8 15 0.09
ACGTcount: A:0.21, C:0.01, G:0.39, T:0.40
Consensus pattern (7 bp):
GGTTTAG
Found at i:8401061 original size:28 final size:28
Alignment explanation
Indices: 8401047--8401149 Score: 152
Period size: 28 Copynumber: 3.6 Consensus size: 28
8401037 TAGAGTTTAA
*
8401047 GGTTTATGGATTATGGGTTTAGGGGTTAT
1 GGTTTATGGTTTA-GGGTTTAGGGGTTAT
* *
8401076 GGTTTAAGGTTTAGGGTTTAGGGTTTAT
1 GGTTTATGGTTTAGGGTTTAGGGGTTAT
*
8401104 GGTTTATGGTTTAGGGTTTAGGGGTTAC
1 GGTTTATGGTTTAGGGTTTAGGGGTTAT
*
8401132 GGTTTATGGTTTAAGGTT
1 GGTTTATGGTTTAGGGTT
8401150 ATAGATTAAG
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
28 56 0.84
29 11 0.16
ACGTcount: A:0.17, C:0.01, G:0.37, T:0.46
Consensus pattern (28 bp):
GGTTTATGGTTTAGGGTTTAGGGGTTAT
Found at i:8401173 original size:27 final size:29
Alignment explanation
Indices: 8401111--8401198 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 29
8401101 TATGGTTTAT
* * * * *
8401111 GGTTTAGGGTTTAGGGGTTACGGTTTA-T
1 GGTTTAAGGTTTAGGAGTTAAGGGTTAGG
8401139 GGTTTAAGGTTATA-GA-TTAAGGGTT-GG
1 GGTTTAAGGTT-TAGGAGTTAAGGGTTAGG
*
8401166 GGTTTAAGGTTTAGGAGTTAGGGGTTAGG
1 GGTTTAAGGTTTAGGAGTTAAGGGTTAGG
8401195 GGTT
1 GGTT
8401199 GAGGGTTAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
26 2 0.04
27 20 0.41
28 19 0.39
29 8 0.16
ACGTcount: A:0.19, C:0.01, G:0.41, T:0.39
Consensus pattern (29 bp):
GGTTTAAGGTTTAGGAGTTAAGGGTTAGG
Found at i:8401309 original size:15 final size:14
Alignment explanation
Indices: 8401289--8401332 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8401279 AAGGTTTATA
8401289 GATTATGGAATTAAG
1 GATTATGG-ATTAAG
*
8401304 GATTATGGATTAGG
1 GATTATGGATTAAG
* *
8401318 GATTCTGGTTTAAG
1 GATTATGGATTAAG
8401332 G
1 G
8401333 GTTGTGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:8401485 original size:7 final size:7
Alignment explanation
Indices: 8401473--8401538 Score: 87
Period size: 7 Copynumber: 9.4 Consensus size: 7
8401463 TAAATAATGT
8401473 TTAGGGG
1 TTAGGGG
8401480 TTAGGGG
1 TTAGGGG
*
8401487 TTGGGGG
1 TTAGGGG
**
8401494 TTAGTAG
1 TTAGGGG
8401501 TTAGGGG
1 TTAGGGG
8401508 TTAGGGG
1 TTAGGGG
*
8401515 TTTGGGG
1 TTAGGGG
8401522 TTAGGGG
1 TTAGGGG
*
8401529 TTAGAGG
1 TTAGGGG
8401536 TTA
1 TTA
8401539 AGAGTTAGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:8401503 original size:21 final size:21
Alignment explanation
Indices: 8401473--8401546 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
8401463 TAAATAATGT
* *
8401473 TTAGGGGTTAGGGGTTGGGGG
1 TTAGGAGTTAGGGGTTAGGGG
*
8401494 TTAGTAGTTAGGGGTTAGGGG
1 TTAGGAGTTAGGGGTTAGGGG
* * *
8401515 TTTGGGGTTAGGGGTTAGAGG
1 TTAGGAGTTAGGGGTTAGGGG
*
8401536 TTAAGAGTTAG
1 TTAGGAGTTAG
8401547 TAATTTAGGG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (21 bp):
TTAGGAGTTAGGGGTTAGGGG
Found at i:8401531 original size:28 final size:28
Alignment explanation
Indices: 8401473--8401538 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
8401463 TAAATAATGT
*
8401473 TTAGGGGTTAGGGGTTGGGGGTTAGTAG
1 TTAGGGGTTAGGGGTTGGGGGTTAGGAG
* *
8401501 TTAGGGGTTAGGGGTTTGGGGTTAGGGG
1 TTAGGGGTTAGGGGTTGGGGGTTAGGAG
*
8401529 TTAGAGGTTA
1 TTAGGGGTTA
8401539 AGAGTTAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (28 bp):
TTAGGGGTTAGGGGTTGGGGGTTAGGAG
Found at i:8401663 original size:7 final size:7
Alignment explanation
Indices: 8401651--8401704 Score: 72
Period size: 7 Copynumber: 7.6 Consensus size: 7
8401641 ATTGTAAAAG
8401651 AGGGGTT
1 AGGGGTT
8401658 AGGGGTT
1 AGGGGTT
*
8401665 AGAGGTT
1 AGGGGTT
8401672 AGGGGTT
1 AGGGGTT
*
8401679 AAGGGTT
1 AGGGGTT
*
8401686 AGTGGTT
1 AGGGGTT
8401693 AGGGGTTT
1 AGGGG-TT
8401701 AGGG
1 AGGG
8401705 TTTATGTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
7 34 0.85
8 6 0.15
ACGTcount: A:0.19, C:0.00, G:0.52, T:0.30
Consensus pattern (7 bp):
AGGGGTT
Found at i:8401677 original size:21 final size:21
Alignment explanation
Indices: 8401651--8401704 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
8401641 ATTGTAAAAG
8401651 AGGGGTTAGGGGTTAGAGGTT
1 AGGGGTTAGGGGTTAGAGGTT
* *
8401672 AGGGGTTAAGGGTTAGTGGTT
1 AGGGGTTAGGGGTTAGAGGTT
8401693 AGGGGTTTAGGG
1 AGGGG-TTAGGG
8401705 TTTATGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.19, C:0.00, G:0.52, T:0.30
Consensus pattern (21 bp):
AGGGGTTAGGGGTTAGAGGTT
Found at i:8410988 original size:18 final size:19
Alignment explanation
Indices: 8410967--8411003 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
8410957 AAAGGAAGAC
8410967 AGAAAAAGA-AATCAAAAA
1 AGAAAAAGAGAATCAAAAA
*
8410985 AGAAAAAGAGAATGAAAAA
1 AGAAAAAGAGAATCAAAAA
8411004 GAGGAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05
Consensus pattern (19 bp):
AGAAAAAGAGAATCAAAAA
Found at i:8412799 original size:33 final size:34
Alignment explanation
Indices: 8412762--8412833 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
8412752 GAGTTAGTTT
*
8412762 ATTAAATTTAATTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAATTCAACTCAAATAAGTGTTAGTA
* * *
8412795 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAAATTTAATTCAACTCAAATAAGTGTTAGTA
8412829 ATTAA
1 ATTAA
8412834 TTTGTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 28 0.82
34 6 0.18
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAATTCAACTCAAATAAGTGTTAGTA
Found at i:8414792 original size:13 final size:12
Alignment explanation
Indices: 8414763--8414805 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
8414753 CTACTTCTAA
8414763 AGAAAACTCAAG
1 AGAAAACTCAAG
*
8414775 AGAAAATTCAAGG
1 AGAAAACTCAA-G
8414788 AGAAAAACTCAAAG
1 AG-AAAACTC-AAG
8414802 AGAA
1 AGAA
8414806 TTTTCAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 10 0.38
13 5 0.19
14 9 0.35
15 2 0.08
ACGTcount: A:0.60, C:0.12, G:0.19, T:0.09
Consensus pattern (12 bp):
AGAAAACTCAAG
Found at i:8418797 original size:15 final size:15
Alignment explanation
Indices: 8418752--8418817 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
8418742 TCACTCAATG
*
8418752 TTTCTTTTTCA-TCTT
1 TTTC-TTTTCATTCTC
*
8418767 TTTCTTTTC-TT-AC
1 TTTCTTTTCATTCTC
8418780 TTTCTTTTCATTCTC
1 TTTCTTTTCATTCTC
* *
8418795 TTT-TTTTGAATTTTC
1 TTTCTTTT-CATTCTC
8418810 TTTCTTTT
1 TTTCTTTT
8418818 TTTCATTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 9 0.22
14 12 0.29
15 16 0.39
16 4 0.10
ACGTcount: A:0.08, C:0.18, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTCTTTTCATTCTC
Found at i:8418815 original size:19 final size:20
Alignment explanation
Indices: 8418766--8418837 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 20
8418756 TTTTTCATCT
**
8418766 TTTTCTTTTCTTACTTTC--
1 TTTTCTTTTCTTTTTTTCAA
* *
8418784 TTTTCATTCTCTTTTTTTGAA
1 TTTTC-TTTTCTTTTTTTCAA
*
8418805 TTTTC-TTTCTTTTTTTCAT
1 TTTTCTTTTCTTTTTTTCAA
8418824 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
8418838 GTATTTTCGC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 5 0.12
19 25 0.58
20 8 0.19
21 5 0.12
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.75
Consensus pattern (20 bp):
TTTTCTTTTCTTTTTTTCAA
Found at i:8421072 original size:11 final size:11
Alignment explanation
Indices: 8421056--8421109 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 11
8421046 ACCGTATACA
8421056 AATTTTTTTTC
1 AATTTTTTTTC
8421067 AA--TTTTTT-
1 AATTTTTTTTC
*
8421075 GA-TTTTTTTC
1 AATTTTTTTTC
8421085 AAATTTTTTTTC
1 -AATTTTTTTTC
8421097 AACTTTTTTTTC
1 AA-TTTTTTTTC
8421109 A
1 A
8421110 CGAATCTACT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 1 0.03
9 12 0.33
11 5 0.14
12 18 0.50
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.69
Consensus pattern (11 bp):
AATTTTTTTTC
Found at i:8421092 original size:12 final size:12
Alignment explanation
Indices: 8421077--8421109 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8421067 AATTTTTTGA
8421077 TTTTTTTCAAAT
1 TTTTTTTCAAAT
*
8421089 TTTTTTTCAACT
1 TTTTTTTCAAAT
8421101 TTTTTTTCA
1 TTTTTTTCA
8421110 CGAATCTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTTTCAAAT
Found at i:8421401 original size:23 final size:23
Alignment explanation
Indices: 8421375--8421440 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
8421365 TCGGTTTAGG
*
8421375 TTTGTTACGAAATGGTAATGTGA
1 TTTGTTACGAAATGGTAATGCGA
* *
8421398 TTTGGTT-CGAAATGGTATTACGA
1 TTT-GTTACGAAATGGTAATGCGA
*
8421421 TTTGGTACGAAATGGTAATG
1 TTTGTTACGAAATGGTAATG
8421441 GTTCAAAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 2 0.06
23 30 0.86
24 3 0.09
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.38
Consensus pattern (23 bp):
TTTGTTACGAAATGGTAATGCGA
Found at i:8424319 original size:3 final size:3
Alignment explanation
Indices: 8424311--8424336 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8424301 TCTAGACATC
8424311 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
8424337 TTGGAATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8428935 original size:25 final size:28
Alignment explanation
Indices: 8428906--8428991 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
8428896 GGTCAAACAA
8428906 TAATTAG-ATA-T-TATTAAATATGTCC
1 TAATTAGTATAGTGTATTAAATATGTCC
* *
8428931 TAATTAGTTTAGGTGTTTTAAATATGTCC
1 TAATTAGTATA-GTGTATTAAATATGTCC
*
8428960 TAATTAGT-TCAAGTGTTTTAAATATGTCC
1 TAATTAGTAT--AGTGTATTAAATATGTCC
8428989 TAA
1 TAA
8428992 ACTAATACAT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
25 7 0.13
26 2 0.04
28 2 0.04
29 41 0.77
30 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (28 bp):
TAATTAGTATAGTGTATTAAATATGTCC
Found at i:8428961 original size:29 final size:29
Alignment explanation
Indices: 8428919--8428991 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
8428909 TTAGATATTA
* *
8428919 TTAAATATGTCCTAATTAGTTTAGGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
8428948 TTAAATATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
8428977 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
8428992 ACTAATACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:8430336 original size:13 final size:12
Alignment explanation
Indices: 8430318--8430372 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 12
8430308 AGTAGACTCG
8430318 TGAAAAAAAAATT
1 TGAAAAAAAAA-T
*
8430331 TGAAAATAAAAT
1 TGAAAAAAAAAT
*
8430343 CG-AAAAAAAAT
1 TGAAAAAAAAAT
8430354 T--AAAAAAAAT
1 TGAAAAAAAAAT
8430364 TGAAAAAAA
1 TGAAAAAAA
8430373 GAAAAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 10 0.28
11 8 0.22
12 8 0.22
13 10 0.28
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (12 bp):
TGAAAAAAAAAT
Found at i:8430351 original size:10 final size:10
Alignment explanation
Indices: 8430322--8430383 Score: 56
Period size: 10 Copynumber: 6.0 Consensus size: 10
8430312 GACTCGTGAA
8430322 AAAAAAATTTG
1 AAAAAAA-TTG
*
8430333 AAAATAAAATCG
1 -AAA-AAAATTG
*
8430345 AAAAAAAATTA
1 -AAAAAAATTG
8430356 AAAAAAATTG
1 AAAAAAATTG
8430366 AAAAAAA--G
1 AAAAAAATTG
8430374 AAAAAAATTG
1 AAAAAAATTG
8430384 TATACGGTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
8 8 0.19
10 17 0.40
11 5 0.12
12 9 0.21
13 4 0.09
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.18
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:8430352 original size:11 final size:11
Alignment explanation
Indices: 8430321--8430372 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
8430311 AGACTCGTGA
8430321 AAAAAAAATTTG
1 AAAAAAAA-TTG
*
8430333 AAAATAAAATCG
1 AAAA-AAAATTG
8430345 AAAAAAAATT-
1 AAAAAAAATTG
8430355 AAAAAAAATTG
1 AAAAAAAATTG
8430366 AAAAAAA
1 AAAAAAA
8430373 GAAAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
10 10 0.28
11 12 0.33
12 10 0.28
13 4 0.11
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:8444139 original size:9 final size:10
Alignment explanation
Indices: 8444125--8444157 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
8444115 AGACATCTTA
8444125 TTTTTTTCT-
1 TTTTTTTCTC
8444134 TTTTTTTCTC
1 TTTTTTTCTC
*
8444144 TTTTTTTTTC
1 TTTTTTTCTC
8444154 TTTT
1 TTTT
8444158 GGAATACCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:8444139 original size:11 final size:11
Alignment explanation
Indices: 8444120--8444157 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
8444110 ATTCTAGACA
*
8444120 TCTTATTTTTT
1 TCTTTTTTTTT
*
8444131 TCTTTTTTTTC
1 TCTTTTTTTTT
8444142 TC-TTTTTTTT
1 TCTTTTTTTTT
8444152 TCTTTT
1 TCTTTT
8444158 GGAATACCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:8452737 original size:14 final size:12
Alignment explanation
Indices: 8452713--8452746 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
8452703 TAGTAGTTTC
8452713 GAAAAAAAAATTT
1 GAAAAAAAAA-TT
8452726 GAAAAAAGAAATT
1 GAAAAAA-AAATT
8452739 GAAAAAAA
1 GAAAAAAA
8452747 TTTGTATACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 16 0.80
14 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAAAAAAATT
Found at i:8458958 original size:119 final size:119
Alignment explanation
Indices: 8458808--8459023 Score: 432
Period size: 119 Copynumber: 1.8 Consensus size: 119
8458798 AATAAAGAAT
8458808 CCAAATCAATAAAGAACAGCCAAGAATCAAAACACTTATGAATAGATGTTCTTGGAAGCCAAGAA
1 CCAAATCAATAAAGAACAGCCAAGAATCAAAACACTTATGAATAGATGTTCTTGGAAGCCAAGAA
8458873 CACGAAATTAAGCCCCAAGATTAACTTCCAATTAGATCTGGAAACTAAAAATCC
66 CACGAAATTAAGCCCCAAGATTAACTTCCAATTAGATCTGGAAACTAAAAATCC
8458927 CCAAATCAATAAAGAACAGCCAAGAATCAAAACACTTATGAATAGATGTTCTTGGAAGCCAAGAA
1 CCAAATCAATAAAGAACAGCCAAGAATCAAAACACTTATGAATAGATGTTCTTGGAAGCCAAGAA
8458992 CACGAAATTAAGCCCCAAGATTAACTTCCAAT
66 CACGAAATTAAGCCCCAAGATTAACTTCCAAT
8459024 CAGTCGAAAC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 97 1.00
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.20
Consensus pattern (119 bp):
CCAAATCAATAAAGAACAGCCAAGAATCAAAACACTTATGAATAGATGTTCTTGGAAGCCAAGAA
CACGAAATTAAGCCCCAAGATTAACTTCCAATTAGATCTGGAAACTAAAAATCC
Found at i:8485471 original size:142 final size:143
Alignment explanation
Indices: 8485161--8485531 Score: 566
Period size: 142 Copynumber: 2.6 Consensus size: 143
8485151 GATTGAAGTC
* * * *
8485161 ATTATGGTGAATCTTATCTTCCTGAAGTTACAGTGGAGTAGATTGAAGCTACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
** * * * *
8485226 CTAAAGTTGCAGCGGAGTAGACTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
66 CTAAAGTTGCAGCGGAACAGACTGAAGACACCAAATCTTATTTCCCTGGCGTTGCAGTGGAACAA
8485291 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* *
8485304 ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
*
8485369 CTAAAGTTACAGCGGAACAGACT-AAGACACCAAATCTTATTTCCCTGGCGTTGCAGTGGAACAA
66 CTAAAGTTGCAGCGGAACAGACTGAAGACACCAAATCTTATTTCCCTGGCGTTGCAGTGGAACAA
8485433 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * *
8485446 ATTATGGCGGGTCTTATCTTCCTGAAGTTTCAGTTGAGCAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
*
8485511 CTGAAA-TTGCAGTGGAACAGA
66 CT-AAAGTTGCAGCGGAACAGA
8485532 TTAAAGCTAC
Statistics
Matches: 208, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
142 126 0.61
143 82 0.39
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (143 bp):
ATTATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTAAAGTTGCAGCGGAACAGACTGAAGACACCAAATCTTATTTCCCTGGCGTTGCAGTGGAACAA
ATTAAAGCTACAA
Found at i:8485529 original size:98 final size:98
Alignment explanation
Indices: 8485419--8485610 Score: 303
Period size: 98 Copynumber: 2.0 Consensus size: 98
8485409 TTCCCTGGCG
* * * *
8485419 TTGCAGTGGAACAAATTAAAGCTACAAATTATGGCGGGTCTTATCTTCCTGAAGTTTCAGTTGAG
1 TTGCAGTGGAACAAATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTGGAG
*
8485484 CAGATTGAAGCCACCAGCCTTATCTCCCTGAAA
66 CACATTGAAGCCACCAGCCTTATCTCCCTGAAA
* * *
8485517 TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATTTTTCTAAAGTTGCAGTGGAG
1 TTGCAGTGGAACAAATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTGGAG
*
8485582 CACATTGAAGCCACCAGGCTTATCTCCCT
66 CACATTGAAGCCACCAGCCTTATCTCCCT
8485611 AAAGTTACAA
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (98 bp):
TTGCAGTGGAACAAATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTGGAG
CACATTGAAGCCACCAGCCTTATCTCCCTGAAA
Found at i:8485635 original size:98 final size:98
Alignment explanation
Indices: 8485435--8485635 Score: 262
Period size: 98 Copynumber: 2.1 Consensus size: 98
8485425 TGGAACAAAT
* * * * *
8485435 TAAAGCTACAAATTATGGCGGGTCTTATCTTCCTGAAGTTTCAGTTGAGCAGATTGAAGCCACCA
1 TAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTGGAGCACATTGAAGCCACCA
* ** *
8485500 GCCTTATCTCCCTGAAATTGCAGTGGAACAGAT
66 GCCTTATCTCCCTGAAATTACAGACGAACAGAC
* *
8485533 TAAAGCTACAAATTATGGCGGATCTTATTTTTCTAAAGTTGCAGTGGAGCACATTGAAGCCACCA
1 TAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTGGAGCACATTGAAGCCACCA
*
8485598 GGCTTATCTCCCT-AAAGTTACA-ACGAAGCAGAC
66 GCCTTATCTCCCTGAAA-TTACAGACGAA-CAGAC
8485631 TAAAG
1 TAAAG
8485636 ATAGCGTGAT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
97 6 0.07
98 83 0.93
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (98 bp):
TAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTGGAGCACATTGAAGCCACCA
GCCTTATCTCCCTGAAATTACAGACGAACAGAC
Found at i:8485901 original size:17 final size:17
Alignment explanation
Indices: 8485881--8485917 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
8485871 GCTTAAAAAC
8485881 AAGAATGAACCAACACT
1 AAGAATGAACCAACACT
8485898 AAGAATGAACCAACACT
1 AAGAATGAACCAACACT
8485915 AAG
1 AAG
8485918 GAAAATGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.22, G:0.14, T:0.11
Consensus pattern (17 bp):
AAGAATGAACCAACACT
Found at i:8486915 original size:21 final size:19
Alignment explanation
Indices: 8486872--8486916 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
8486862 GAGCTCAAAT
* *
8486872 GAGCTGAAATGAGTTCATG
1 GAGCTGAAATGAGCTAATG
8486891 GAGCTGGAAATGAGCTAATTG
1 GAGCT-GAAATGAGCTAA-TG
8486912 GAGCT
1 GAGCT
8486917 CAATGAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 10 0.45
21 7 0.32
ACGTcount: A:0.31, C:0.11, G:0.33, T:0.24
Consensus pattern (19 bp):
GAGCTGAAATGAGCTAATG
Found at i:8487359 original size:25 final size:25
Alignment explanation
Indices: 8487329--8487377 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
8487319 GACCCAATAC
*
8487329 CCAAACAGCCTAATACC-CAAACAAT
1 CCAAACAGCCCAA-ACCTCAAACAAT
8487354 CCAAACAGCCCAAACCTCAAACAA
1 CCAAACAGCCCAAACCTCAAACAA
8487378 CTCTGCCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.49, C:0.39, G:0.04, T:0.08
Consensus pattern (25 bp):
CCAAACAGCCCAAACCTCAAACAAT
Found at i:8506650 original size:14 final size:13
Alignment explanation
Indices: 8506628--8506665 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
8506618 CTGGCTGTAT
8506628 TAATTTTTTTATA
1 TAATTTTTTTATA
*
8506641 TTATTATTTTTATA
1 TAATT-TTTTTATA
8506655 TAATTTTTTTA
1 TAATTTTTTTA
8506666 AAAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TAATTTTTTTATA
Found at i:8506844 original size:19 final size:19
Alignment explanation
Indices: 8506822--8506894 Score: 57
Period size: 19 Copynumber: 4.1 Consensus size: 19
8506812 ACAATAAAAT
* *
8506822 AATAGCAAGATAATAGTAA
1 AATAGCAACAAAATAGTAA
*
8506841 AATAGTAACAAAATAGTAA
1 AATAGCAACAAAATAGTAA
* *
8506860 AA-A--AATAACA-AG-AA
1 AATAGCAACAAAATAGTAA
*
8506874 AATAGCAACAAAATAATAA
1 AATAGCAACAAAATAGTAA
8506893 AA
1 AA
8506895 AACAACAAGT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
14 4 0.10
15 3 0.07
16 5 0.12
17 5 0.12
18 2 0.05
19 22 0.54
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.16
Consensus pattern (19 bp):
AATAGCAACAAAATAGTAA
Found at i:8506853 original size:11 final size:11
Alignment explanation
Indices: 8506839--8506888 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
8506829 AGATAATAGT
*
8506839 AAAATAGTAAC
1 AAAATAGCAAC
* *
8506850 AAAATAGTAAA
1 AAAATAGCAAC
* *
8506861 AAAATAACAAG
1 AAAATAGCAAC
8506872 AAAATAGCAAC
1 AAAATAGCAAC
8506883 AAAATA
1 AAAATA
8506889 ATAAAAAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.70, C:0.08, G:0.08, T:0.14
Consensus pattern (11 bp):
AAAATAGCAAC
Found at i:8506875 original size:22 final size:22
Alignment explanation
Indices: 8506816--8506889 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
8506806 ATAATAACAA
* * *
8506816 TAAAATAATAGCAAGATAATAG
1 TAAAAAAATAACAAGAAAATAG
* *
8506838 TAAAATAGTAAC---AAAATAG
1 TAAAAAAATAACAAGAAAATAG
8506857 TAAAAAAATAACAAGAAAATAG
1 TAAAAAAATAACAAGAAAATAG
* *
8506879 CAACAAAATAA
1 TAAAAAAATAA
8506890 TAAAAAACAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 16 0.38
22 26 0.62
ACGTcount: A:0.66, C:0.07, G:0.09, T:0.18
Consensus pattern (22 bp):
TAAAAAAATAACAAGAAAATAG
Found at i:8509482 original size:3 final size:3
Alignment explanation
Indices: 8509474--8509538 Score: 103
Period size: 3 Copynumber: 21.7 Consensus size: 3
8509464 TGATATTGAA
8509474 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * *
8509522 GAA GAA GAT TAT GAT GA
1 GAT GAT GAT GAT GAT GA
8509539 GGTTTGACCT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:8511850 original size:26 final size:26
Alignment explanation
Indices: 8511820--8511869 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8511810 TAAAAAAAAA
8511820 ATTATT-TTATCCATTAATTTGTTTTT
1 ATTATTATTAT-CATTAATTTGTTTTT
* *
8511846 ATTATTATTATTATTATTTTGTTT
1 ATTATTATTATCATTAATTTGTTT
8511870 CGTTTAGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.68
Consensus pattern (26 bp):
ATTATTATTATCATTAATTTGTTTTT
Found at i:8518472 original size:27 final size:27
Alignment explanation
Indices: 8518441--8518610 Score: 220
Period size: 27 Copynumber: 6.3 Consensus size: 27
8518431 TAACTTACGA
*
8518441 CTCGATGGGTAAAATTACTGAAATACC
1 CTCGAAGGGTAAAATTACTGAAATACC
* *
8518468 CTCGAAAGGTAAAATTACCGAAATACC
1 CTCGAAGGGTAAAATTACTGAAATACC
*
8518495 CTCGAAGGTTAAAATTA-TCGAAATACC
1 CTCGAAGGGTAAAATTACT-GAAATACC
* *
8518522 CTCAAAGGGTAAAATTACTAAAATACC
1 CTCGAAGGGTAAAATTACTGAAATACC
* *
8518549 CTCTAAGGGTAAAATTACTAAAATACC
1 CTCGAAGGGTAAAATTACTGAAATACC
8518576 C-CTGAAGGGTAAAATTA-TCGAAATACC
1 CTC-GAAGGGTAAAATTACT-GAAATACC
8518603 CTCGAAGG
1 CTCGAAGG
8518611 ATACCAATTT
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
26 2 0.02
27 122 0.97
28 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (27 bp):
CTCGAAGGGTAAAATTACTGAAATACC
Found at i:8518583 original size:81 final size:81
Alignment explanation
Indices: 8518447--8518610 Score: 249
Period size: 81 Copynumber: 2.0 Consensus size: 81
8518437 ACGACTCGAT
* * *
8518447 GGGTAAAATTACTGAAATACCCTCGAAAGGTAAAATTACCGAAATACCCTCGAAGGTTAAAATTA
1 GGGTAAAATTACTAAAATACCCTCGAAAGGTAAAATTACCAAAATACCCTCGAAGGGTAAAATTA
8518512 TCGAAATACCCTCAAA
66 TCGAAATACCCTCAAA
* * *
8518528 GGGTAAAATTACTAAAATACCCTCTAAGGGTAAAATTACTAAAATACCC-CTGAAGGGTAAAATT
1 GGGTAAAATTACTAAAATACCCTCGAAAGGTAAAATTACCAAAATACCCTC-GAAGGGTAAAATT
*
8518592 ATCGAAATACCCTCGAA
65 ATCGAAATACCCTCAAA
8518609 GG
1 GG
8518611 ATACCAATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 74 0.99
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.23
Consensus pattern (81 bp):
GGGTAAAATTACTAAAATACCCTCGAAAGGTAAAATTACCAAAATACCCTCGAAGGGTAAAATTA
TCGAAATACCCTCAAA
Found at i:8518982 original size:33 final size:31
Alignment explanation
Indices: 8518907--8518983 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 31
8518897 ATAACTGTAT
*
8518907 TATACTGATTACTGTATTGGGCTAAGGCCCAC
1 TATACTG-TTACTGTACTGGGCTAAGGCCCAC
* * *
8518939 T-CACTGTTACTGTACTGGGTTTAGGCCCACAC
1 TATACTGTTACTGTACTGGGCTAAGG-CC-CAC
8518971 TATACTGTTACTG
1 TATACTGTTACTG
8518984 AATAGGGCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
30 16 0.43
31 6 0.16
32 5 0.14
33 10 0.27
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (31 bp):
TATACTGTTACTGTACTGGGCTAAGGCCCAC
Found at i:8521200 original size:137 final size:138
Alignment explanation
Indices: 8520818--8521366 Score: 851
Period size: 137 Copynumber: 4.0 Consensus size: 138
8520808 AGAAAAAAAG
* * * *
8520818 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAT
1 AATTATATTCTTTCCAAAAGAAGATTAATTTCCATATCGTTTATATTTTGATCGAAATTAATTAA
* * * *
8520883 TATAATTGTTTATATTAATAAATTCGGT--AATATATATAATTAATATTTTGTATGAATTAAATT
66 AATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
8520946 CATATATT
131 CATATATT
* * * * *
8520954 AATTATATTCTTTCC---AGAATATTAATTTCTATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAAGATTAATTTCCATATCGTTTATATTTTGATCGAAATTAATTAA
* * * * * *
8521016 TATAACTATTTTTATTAGTAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 AATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
8521081 CATATATT
131 CATATATT
*
8521089 AATTATATTCTTTCCAAAAGGAGATTAATTTCCA-ATCGTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAAGATTAATTTCCATATCGTTTATATTTTGATCGAAATTAATTAA
8521153 AATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 AATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
8521218 CATATATT
131 CATATATT
*
8521226 AATTATATTCTTTCCAAAAGGAGATTAATTTCCA-ATCGTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAAGATTAATTTCCATATCGTTTATATTTTGATCGAAATTAATTAA
8521290 AATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 AATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
8521355 CATAAATT
131 CATATATT
8521363 AATT
1 AATT
8521367 TTATCTATGT
Statistics
Matches: 384, Mismatches: 24, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
133 66 0.17
135 56 0.15
136 15 0.04
137 234 0.61
138 13 0.03
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAAGATTAATTTCCATATCGTTTATATTTTGATCGAAATTAATTAA
AATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:8521201 original size:67 final size:67
Alignment explanation
Indices: 8521130--8521341 Score: 184
Period size: 67 Copynumber: 3.1 Consensus size: 67
8521120 CCAATCGTTT
8521130 ATATTTTGATCGAAATTAATTAAAATAATTGTTTATATTAATAAATTCAGTAAAATATATACAAT
1 ATATTTTGATCGAAATTAATTAAAATAATTGTTTATATTAATAAATTCAGTAAAATATATACAAT
8521195 TA
66 TA
* * * ** ** * * * *
8521197 ATATTTTGTAT-G-AATCAAATTCATAT-ATTAATTATATTCTTTCCAAA---AGGAGATTAATT
1 ATATTTTG-ATCGAAAT-TAATTAAAATAATTGTTTATATT-AAT--AAATTCAGTAAAAT-ATA
* *
8521256 TCCAATCGTTT
60 TACAA---TTA
8521267 ATATTTTGATCGAAATTAATTAAAATAATTGTTTATATTAATAAATTCAGTAAAATATATACAAT
1 ATATTTTGATCGAAATTAATTAAAATAATTGTTTATATTAATAAATTCAGTAAAATATATACAAT
8521332 TA
66 TA
8521334 ATATTTTG
1 ATATTTTG
8521342 TATGAATCAA
Statistics
Matches: 104, Mismatches: 26, Indels: 30
0.65 0.16 0.19
Matches are distributed among these distances:
66 18 0.17
67 33 0.32
68 5 0.05
69 5 0.05
70 25 0.24
71 18 0.17
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (67 bp):
ATATTTTGATCGAAATTAATTAAAATAATTGTTTATATTAATAAATTCAGTAAAATATATACAAT
TA
Found at i:8521273 original size:70 final size:70
Alignment explanation
Indices: 8521060--8521274 Score: 196
Period size: 70 Copynumber: 3.1 Consensus size: 70
8521050 TATACAATTA
8521060 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGGAGATTAATTTCCAAT
1 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGGAGATTAATTTCCAAT
8521125 CGTTT
66 CGTTT
* * * ** ** * * * *
8521130 ATATTTTG-ATCGAAAT-TAATTAAAATAATTGTTTATATT-AAT--AAATTCAGTAAAAT-ATA
1 ATATTTTGTAT-G-AATCAAATTCATAT-ATTAATTATATTCTTTCCAAA---AGGAGATTAATT
* *
8521189 TACAA---TTA
60 TCCAATCGTTT
8521197 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGGAGATTAATTTCCAAT
1 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGGAGATTAATTTCCAAT
8521262 CGTTT
66 CGTTT
8521267 ATATTTTG
1 ATATTTTG
8521275 ATCGAAATTA
Statistics
Matches: 104, Mismatches: 26, Indels: 30
0.65 0.16 0.19
Matches are distributed among these distances:
66 18 0.17
67 25 0.24
68 5 0.05
69 5 0.05
70 33 0.32
71 18 0.17
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (70 bp):
ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGGAGATTAATTTCCAAT
CGTTT
Found at i:8522489 original size:15 final size:15
Alignment explanation
Indices: 8522469--8522498 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8522459 GGAGAAATTA
8522469 AAAAGGAAATGAGTG
1 AAAAGGAAATGAGTG
*
8522484 AAAAGGAGATGAGTG
1 AAAAGGAAATGAGTG
8522499 TTTTTACTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.37, T:0.13
Consensus pattern (15 bp):
AAAAGGAAATGAGTG
Found at i:8525253 original size:32 final size:32
Alignment explanation
Indices: 8525202--8525281 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
8525192 TTTTTTGTTA
8525202 CATGATTTTA-GAGTAAGTTAAGTGTTTGTGG
1 CATGATTTTAGGAGTAAGTTAAGTGTTTGTGG
8525233 CATGATTTTAGGAGTAAGTTAAGTGTTTGTGG
1 CATGATTTTAGGAGTAAGTTAAGTGTTTGTGG
*
8525265 TATGATTTTAGGAGTAA
1 CATGATTTTAGGAGTAA
8525282 TTTTAACAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 10 0.21
32 37 0.79
ACGTcount: A:0.28, C:0.03, G:0.29, T:0.41
Consensus pattern (32 bp):
CATGATTTTAGGAGTAAGTTAAGTGTTTGTGG
Found at i:8528724 original size:20 final size:18
Alignment explanation
Indices: 8528680--8528731 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
8528670 AAAAACCTAA
8528680 AAAATTATAAAAATTTTG
1 AAAATTATAAAAATTTTG
*
8528698 AAGAATTATTTAAAATTTTG
1 AA-AATTA-TAAAAATTTTG
8528718 TAAAATTA-AAAAAT
1 -AAAATTATAAAAAT
8528732 ATATATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 7 0.24
19 5 0.17
20 15 0.52
21 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
AAAATTATAAAAATTTTG
Found at i:8528857 original size:20 final size:20
Alignment explanation
Indices: 8528820--8528857 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8528810 TCCATTTTAT
*
8528820 AATTTTTTTGTATTTTCTTG
1 AATTTTTTTGTATCTTCTTG
8528840 AATTTTTTATGTA-CTTCT
1 AATTTTTT-TGTATCTTCT
8528858 ATTCAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.66
Consensus pattern (20 bp):
AATTTTTTTGTATCTTCTTG
Found at i:8529529 original size:9 final size:9
Alignment explanation
Indices: 8529512--8529548 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8529502 TGAGTTTTCG
8529512 AATTCGAAT
1 AATTCGAAT
*
8529521 AACTCGAAT
1 AATTCGAAT
*
8529530 AATTCAAAT
1 AATTCGAAT
8529539 AATTCGAAT
1 AATTCGAAT
8529548 A
1 A
8529549 TCANNNNNNN
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8530591 original size:5 final size:5
Alignment explanation
Indices: 8530581--8530606 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8530571 CTCGAAAATT
8530581 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
8530607 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:8534180 original size:17 final size:17
Alignment explanation
Indices: 8534141--8534200 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
8534131 AATTATTTTT
*
8534141 TTAAAAATTTTAAAATA
1 TTAAAAATTATAAAATA
* *
8534158 TATAAAAATTATGAATTA
1 T-TAAAAATTATAAAATA
8534176 TTAAAAA-TATAAAAATA
1 TTAAAAATTAT-AAAATA
8534193 TTAAAAAT
1 TTAAAAAT
8534201 GTTTTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.09
17 18 0.51
18 14 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TTAAAAATTATAAAATA
Found at i:8535446 original size:23 final size:22
Alignment explanation
Indices: 8535407--8535464 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
8535397 CTATTTTTTT
8535407 AACAAAAAAATGAAAATTTTAC
1 AACAAAAAAATGAAAATTTTAC
*
8535429 AACATAAATAAATGAAATTTTTAGC
1 AACA-AAA-AAATGAAAATTTTA-C
*
8535454 AAAAAAAAAAT
1 AACAAAAAAAT
8535465 TTCTTTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 4 0.13
23 7 0.23
24 16 0.52
25 4 0.13
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (22 bp):
AACAAAAAAATGAAAATTTTAC
Found at i:8535510 original size:25 final size:25
Alignment explanation
Indices: 8535482--8535532 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8535472 TGATGTAACC
* *
8535482 TATATGAACTATTTTATCTATTTTT
1 TATATGAACTAATTTATCCATTTTT
* *
8535507 TATATTAATTAATTTATCCATTTTT
1 TATATGAACTAATTTATCCATTTTT
8535532 T
1 T
8535533 GAATAGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (25 bp):
TATATGAACTAATTTATCCATTTTT
Found at i:8542370 original size:12 final size:12
Alignment explanation
Indices: 8542353--8542384 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
8542343 TGAGAAAATT
8542353 ATTTAATTGAAA
1 ATTTAATTGAAA
8542365 ATTTAATTGAAA
1 ATTTAATTGAAA
8542377 ATTTAATT
1 ATTTAATT
8542385 AATTTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (12 bp):
ATTTAATTGAAA
Found at i:8546320 original size:3 final size:3
Alignment explanation
Indices: 8546314--8546342 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8546304 CTTTTTTTCT
8546314 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8546343 TGTCTTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8550995 original size:27 final size:27
Alignment explanation
Indices: 8550964--8551050 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
8550954 TAATTCACTG
* *
8550964 CAAAGGCTTTTCTTTTATATTTTGCCA
1 CAAAGGCTTTTCTTTCATAGTTTGCCA
* * * *
8550991 TAAAGGTTTTTCTTTCATGGTTTGTCA
1 CAAAGGCTTTTCTTTCATAGTTTGCCA
* *
8551018 CAAAGGCTTTTGTTTCAT-GTTTTTCCA
1 CAAAGGCTTTTCTTTCATAG-TTTGCCA
8551045 CAAAGG
1 CAAAGG
8551051 TTATCATTGC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (27 bp):
CAAAGGCTTTTCTTTCATAGTTTGCCA
Found at i:8559739 original size:51 final size:51
Alignment explanation
Indices: 8559679--8559789 Score: 204
Period size: 51 Copynumber: 2.2 Consensus size: 51
8559669 AACCTAAAGG
8559679 TGTCGCGACATACCCATGAAGACGTCCTAGAGAAGAGCATACTGACTTCTA
1 TGTCGCGACATACCCATGAAGACGTCCTAGAGAAGAGCATACTGACTTCTA
*
8559730 TGTCGCGACATACCCATGAAGACGTCCTAGAGAAGAGCATACTGACTTTTA
1 TGTCGCGACATACCCATGAAGACGTCCTAGAGAAGAGCATACTGACTTCTA
*
8559781 TGTAGCGAC
1 TGTCGCGAC
8559790 TTAGGTCCTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (51 bp):
TGTCGCGACATACCCATGAAGACGTCCTAGAGAAGAGCATACTGACTTCTA
Found at i:8564767 original size:12 final size:12
Alignment explanation
Indices: 8564750--8564781 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
8564740 GAGGCCAAAA
8564750 GCTAGAGCACCC
1 GCTAGAGCACCC
8564762 GCTAGAGCACCC
1 GCTAGAGCACCC
8564774 GCTAGAGC
1 GCTAGAGC
8564782 TTATGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.38, G:0.28, T:0.09
Consensus pattern (12 bp):
GCTAGAGCACCC
Found at i:8583559 original size:36 final size:36
Alignment explanation
Indices: 8583489--8583559 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
8583479 ATGGAGTGCA
**
8583489 TGCCCAAACTTGATCAATTAAACCTGTGACAGCTTC
1 TGCCCAAACTTGATCAATTAAACCCATGACAGCTTC
* *
8583525 TGCCCAAACTTGTTCAATTAAACCCATGATAGCTT
1 TGCCCAAACTTGATCAATTAAACCCATGACAGCTT
8583560 ATTTAAACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.30
Consensus pattern (36 bp):
TGCCCAAACTTGATCAATTAAACCCATGACAGCTTC
Found at i:8585528 original size:25 final size:24
Alignment explanation
Indices: 8585490--8585537 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
8585480 ATCCAGGCAA
8585490 TATAATGGGAAGCTCACAAAGAGCC
1 TATAATGGGAAGCTC-CAAAGAGCC
*
8585515 TATAAT-GGATAGCTCCGAAGAGC
1 TATAATGGGA-AGCTCCAAAGAGC
8585538 ACTTAACGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (24 bp):
TATAATGGGAAGCTCCAAAGAGCC
Found at i:8592757 original size:28 final size:28
Alignment explanation
Indices: 8592725--8592778 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
8592715 ATGATGTCAG
8592725 AATTAAGACACATAATTTAAAGTGCAGT
1 AATTAAGACACATAATTTAAAGTGCAGT
8592753 AATTAAGACACATAATTTAAAGTGCA
1 AATTAAGACACATAATTTAAAGTGCA
8592779 ATATTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (28 bp):
AATTAAGACACATAATTTAAAGTGCAGT
Found at i:8592786 original size:28 final size:28
Alignment explanation
Indices: 8592725--8592786 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
8592715 ATGATGTCAG
*
8592725 AATTAAGACACATAATTTAAAGTGCAGT
1 AATTAAGACACATAATTTAAAGTGCAAT
8592753 AATTAAGACACATAATTTAAAGTGCAAT
1 AATTAAGACACATAATTTAAAGTGCAAT
*
8592781 ATTTAA
1 AATTAA
8592787 AAACTCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (28 bp):
AATTAAGACACATAATTTAAAGTGCAAT
Found at i:8592950 original size:18 final size:18
Alignment explanation
Indices: 8592929--8592986 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
8592919 TGCATGGAGC
*
8592929 GCATGGTTTGCATGAAAT
1 GCATAGTTTGCATGAAAT
** * *
8592947 GCATAGAATACATGAAGT
1 GCATAGTTTGCATGAAAT
* *
8592965 GCATATTTTGCATGGAAT
1 GCATAGTTTGCATGAAAT
8592983 GCAT
1 GCAT
8592987 GAGTGCATGC
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (18 bp):
GCATAGTTTGCATGAAAT
Found at i:8593047 original size:36 final size:36
Alignment explanation
Indices: 8592996--8593066 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
8592986 TGAGTGCATG
*
8592996 CCCAAACTTGATCAATTAAACCCGTGACAACTTCTA
1 CCCAAACTTGATCAATTAAACCCATGACAACTTCTA
* *
8593032 CCCAAACTTGTTCAATTAAACCCATGACAGCTTCT
1 CCCAAACTTGATCAATTAAACCCATGACAACTTCT
8593067 TTAAACTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.08, T:0.27
Consensus pattern (36 bp):
CCCAAACTTGATCAATTAAACCCATGACAACTTCTA
Found at i:8595301 original size:20 final size:21
Alignment explanation
Indices: 8595262--8595301 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8595252 TAATTAATAG
*
8595262 TAAATTTAGTATAATAAAACC
1 TAAATTAAGTATAATAAAACC
*
8595283 TAAATTAAGT-TAATTAAAC
1 TAAATTAAGTATAATAAAAC
8595302 AAGATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (21 bp):
TAAATTAAGTATAATAAAACC
Found at i:8604817 original size:10 final size:10
Alignment explanation
Indices: 8604799--8604828 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
8604789 GGCACTTAGA
*
8604799 TTGGGATGTT
1 TTGGTATGTT
8604809 TTGGTATGTT
1 TTGGTATGTT
8604819 TTGGTATGTT
1 TTGGTATGTT
8604829 GTAGACTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.33, T:0.57
Consensus pattern (10 bp):
TTGGTATGTT
Found at i:8606817 original size:21 final size:23
Alignment explanation
Indices: 8606793--8606838 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
8606783 TAAAATTTAA
8606793 TATAATAA-AATAAAATAA-AAT
1 TATAATAACAATAAAATAATAAT
* *
8606814 TATACTAACAATAAATTAATAAT
1 TATAATAACAATAAAATAATAAT
8606837 TA
1 TA
8606839 ATGAAATCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 9 0.43
23 5 0.24
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAATAACAATAAAATAATAAT
Found at i:8617131 original size:95 final size:96
Alignment explanation
Indices: 8616947--8617124 Score: 277
Period size: 95 Copynumber: 1.9 Consensus size: 96
8616937 AGAAGAGTAT
* * * *
8616947 GATTGATCTCTCACCTGTTGTGAAATGTTATTGGTGTAGTTTAAAAGATCATGAGGGTTCCCAAT
1 GATTGAGCTATCACCTGTTGTGAAATGTTATTGGTGTAGATTAAAAGATCATAAGGGTTCCCAAT
8617012 GTCCAATTAAATATCCAAATAGAGAGAATAA
66 GTCCAATTAAATATCCAAATAGAGAGAATAA
* * * *
8617043 GATTGAGCTATCACCTTTTGTGCAATGTTATTGGTGTA-ATTCAAAGATCATAAGGGTTTCCAAT
1 GATTGAGCTATCACCTGTTGTGAAATGTTATTGGTGTAGATTAAAAGATCATAAGGGTTCCCAAT
8617107 GTCCAATTAAATATCCAA
66 GTCCAATTAAATATCCAA
8617125 CAAGAGAAGA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 40 0.54
96 34 0.46
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (96 bp):
GATTGAGCTATCACCTGTTGTGAAATGTTATTGGTGTAGATTAAAAGATCATAAGGGTTCCCAAT
GTCCAATTAAATATCCAAATAGAGAGAATAA
Found at i:8620676 original size:20 final size:20
Alignment explanation
Indices: 8620556--8620676 Score: 118
Period size: 20 Copynumber: 6.0 Consensus size: 20
8620546 TTGTACAAGA
* *
8620556 TTGCACTTCGGTGCCTCAGT
1 TTGCACTTCGATGCCTCTGT
*
8620576 TTGCACTTCGATGCCTCTAT
1 TTGCACTTCGATGCCTCTGT
* * * *
8620596 TTACACTTCGGTGTCTCTAT
1 TTGCACTTCGATGCCTCTGT
* *
8620616 TTGCACTACGATGCCTCTGA
1 TTGCACTTCGATGCCTCTGT
*
8620636 TTGCACAATC-ATGCCTCTGT
1 TTGCAC-TTCGATGCCTCTGT
* *
8620656 TTGCACTTCGGTGCCTTTGT
1 TTGCACTTCGATGCCTCTGT
8620676 T
1 T
8620677 ACACATCTAT
Statistics
Matches: 81, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
19 2 0.02
20 78 0.96
21 1 0.01
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGCACTTCGATGCCTCTGT
Found at i:8621400 original size:18 final size:20
Alignment explanation
Indices: 8621370--8621406 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8621360 TTTAAGTAAG
8621370 TAATAATGTGTTTT-ATGTT
1 TAATAATGTGTTTTCATGTT
8621389 TAATAA-GTGTTTTCATGT
1 TAATAATGTGTTTTCATGT
8621407 GTTTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.03, G:0.16, T:0.54
Consensus pattern (20 bp):
TAATAATGTGTTTTCATGTT
Found at i:8630570 original size:15 final size:15
Alignment explanation
Indices: 8630550--8630580 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8630540 AATCTACCAT
*
8630550 CAAACTTCAAAAACA
1 CAAACTTAAAAAACA
8630565 CAAACTTAAAAAACA
1 CAAACTTAAAAAACA
8630580 C
1 C
8630581 TTTAAACTCA
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:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (15 bp):
CAAACTTAAAAAACA
Found at i:8633955 original size:14 final size:13
Alignment explanation
Indices: 8633931--8633965 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
8633921 TTCACTAAAC
8633931 CCTGATTTACTAA
1 CCTGATTTACTAA
8633944 CCTGATTCTACTAA
1 CCTGATT-TACTAA
*
8633958 CCTAATTT
1 CCTGATTT
8633966 TTGGGATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.40
Consensus pattern (13 bp):
CCTGATTTACTAA
Found at i:8634480 original size:27 final size:27
Alignment explanation
Indices: 8634450--8634511 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
8634440 TGTTAGGACG
* * *
8634450 GTAAACACAAGGTAGTCTACTGGGATA
1 GTAAACACAAGCTAGCCCACTGGGATA
* *
8634477 GTAAACACGAGCTAGCCCATTGGGATA
1 GTAAACACAAGCTAGCCCACTGGGATA
*
8634504 GAAAACAC
1 GTAAACAC
8634512 GGAGAGTCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (27 bp):
GTAAACACAAGCTAGCCCACTGGGATA
Found at i:8636313 original size:18 final size:18
Alignment explanation
Indices: 8636273--8636314 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
8636263 TAAAAAGTAT
**
8636273 TTTTTTTTAAACTAAATG
1 TTTTTTTTAAACTAAAAA
8636291 TTTTTTTTAAA-TAAAAA
1 TTTTTTTTAAACTAAAAA
8636308 TATTTTT
1 T-TTTTT
8636315 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTTTTTAAACTAAAAA
Found at i:8637513 original size:21 final size:21
Alignment explanation
Indices: 8637445--8637515 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
8637435 CTACTGTGGC
8637445 ACCACCATCACCTGCTAATAA
1 ACCACCATCACCTGCTAATAA
* * * * **
8637466 ATCACCCCCTCTCCTACT-ATGGC
1 A-C-CACCATCACCTGCTAAT-AA
8637489 ACCACCATCACCTGCTAATAA
1 ACCACCATCACCTGCTAATAA
8637510 ACCACC
1 ACCACC
8637516 TCCCTCTCCT
Statistics
Matches: 34, Mismatches: 12, Indels: 8
0.63 0.22 0.15
Matches are distributed among these distances:
21 17 0.50
22 6 0.18
23 11 0.32
ACGTcount: A:0.31, C:0.44, G:0.06, T:0.20
Consensus pattern (21 bp):
ACCACCATCACCTGCTAATAA
Found at i:8637536 original size:45 final size:45
Alignment explanation
Indices: 8637419--8637574 Score: 260
Period size: 45 Copynumber: 3.5 Consensus size: 45
8637409 ACACGCAACG
8637419 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
1 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
* *
8637464 AAATCACC-CCCTCTCCTACTATGGCACCACCATCACCTGCTAAT
1 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
* *
8637508 AAACCACCTCCCTCTCCTACTGCGGCACCACCATCACCTGCTACT
1 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
*
8637553 AAACCAGCTCCCTCTCCTACTG
1 AAACCACCTCCCTCTCCTACTG
8637575 GTACACCACC
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 42 0.41
45 61 0.59
ACGTcount: A:0.24, C:0.46, G:0.08, T:0.22
Consensus pattern (45 bp):
AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
Found at i:8643806 original size:20 final size:20
Alignment explanation
Indices: 8643783--8643820 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8643773 TGTAACCCCT
*
8643783 CACATGCCCGTGTGGACAGG
1 CACACGCCCGTGTGGACAGG
8643803 CACACGCCCGTGTGGACA
1 CACACGCCCGTGTGGACA
8643821 AAACTACTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.34, G:0.32, T:0.13
Consensus pattern (20 bp):
CACACGCCCGTGTGGACAGG
Found at i:8650681 original size:16 final size:16
Alignment explanation
Indices: 8650660--8650724 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
8650650 TTCACTGTAT
8650660 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
8650676 TGGAATAGAGGCATAA
1 TGGAATAGAGGCGTAA
* *
8650692 TGGAATAGAGGTGTAG
1 TGGAATAGAGGCGTAA
* *
8650708 TGGAATAAAGGTGTAA
1 TGGAATAGAGGCGTAA
8650724 T
1 T
8650725 AGCAAATCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.38, C:0.03, G:0.35, T:0.23
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:8650960 original size:18 final size:17
Alignment explanation
Indices: 8650939--8650973 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8650929 TTATTATTAA
*
8650939 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8650957 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8650974 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8651664 original size:20 final size:20
Alignment explanation
Indices: 8651639--8651680 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
8651629 AGAGGGTTTT
8651639 ATGAGTGTCAAATTAGTATC
1 ATGAGTGTCAAATTAGTATC
8651659 ATGAGTGTCAAATTAGTATC
1 ATGAGTGTCAAATTAGTATC
8651679 AT
1 AT
8651681 CTTTGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (20 bp):
ATGAGTGTCAAATTAGTATC
Found at i:8656884 original size:22 final size:22
Alignment explanation
Indices: 8656855--8656916 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
8656845 TACTGATTAT
8656855 TAGCACATTAGTGCTCTCCGT-
1 TAGCACATTAGTGCTCTCCGTA
** *
8656876 TGAGCACATTTTTGCTCTCTGTA
1 T-AGCACATTAGTGCTCTCCGTA
**
8656899 TAGCATTTTAGTGCTCTC
1 TAGCACATTAGTGCTCTC
8656917 TGTTTAATAG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCCGTA
Found at i:8657381 original size:51 final size:48
Alignment explanation
Indices: 8657253--8657445 Score: 188
Period size: 51 Copynumber: 3.9 Consensus size: 48
8657243 AAGTTGCTAG
* *
8657253 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATAATA
* * * * *
8657302 GGTCGCATATGTAGTACTATGTGTAGGCTACTATGCGTACCGGATAACTTCA
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAA--T-A
* * * * *
8657354 ATCACGTGTGTAGTACTATGTACAGGCTACTACGTGTATCGGATGGAAATG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT---AATA
* *
8657405 GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
8657446 AGTACCATTG
Statistics
Matches: 114, Mismatches: 23, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
49 3 0.03
50 36 0.32
51 71 0.62
52 2 0.02
54 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (48 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAATA
Done.