Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 22 of 207
Found at i:6523964 original size:22 final size:22
Alignment explanation
Indices: 6523936--6524011 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
6523926 AAGTGTATAT
6523936 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
6523958 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
6523982 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
6524005 ATGTGAT
1 ATGTGAT
6524012 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:6524052 original size:190 final size:190
Alignment explanation
Indices: 6523729--6524276 Score: 965
Period size: 190 Copynumber: 2.9 Consensus size: 190
6523719 TATTTGAATA
6523729 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
6523794 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
6523859 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
6523919 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
6523984 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
*
6524049 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
6524109 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * *
6524174 TGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
* * * * *
6524237 GGCCAACGTTATGGATGTGAAAGTGTATAAATGTGATAAG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
6524277 TCCCGAAGGG
Statistics
Matches: 343, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
188 54 0.16
190 289 0.84
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:6526080 original size:84 final size:85
Alignment explanation
Indices: 6525940--6526142 Score: 383
Period size: 85 Copynumber: 2.4 Consensus size: 85
6525930 CAAACTTGCT
6525940 ACTGTAGCGAAATCGCGTCCACGA-GGCGCGATTTGACACTATTTGCTCAGAAACGTC-AAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
6526003 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
*
6526023 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
6526088 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
6526108 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
6526143 CACAATTTCT
Statistics
Matches: 116, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
83 23 0.20
84 33 0.28
85 60 0.52
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (85 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
AATTATTTCCTACATGACCA
Found at i:6526275 original size:124 final size:125
Alignment explanation
Indices: 6526051--6526331 Score: 372
Period size: 124 Copynumber: 2.3 Consensus size: 125
6526041 CCACGAGGGC
*
6526051 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* * *
6526116 GAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCATGGTATCA
66 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCATGGTATCA
* *
6526176 GCGATTTTATACTATTTCCTCAGAAAACGTC-AAAAAAAATTATTT-CTCACATGACC-ACTGTA
1 GCGATTTGACACTATTTCCTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTA
* * * * **
6526238 GCGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
64 GCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCATGGTATCA
** *
6526300 GCGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 GCGATTTGACACTATTT-CCTCAGAAACGTCAA
6526332 CTCGAAAAAA
Statistics
Matches: 136, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
123 7 0.05
124 79 0.58
125 43 0.32
126 7 0.05
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (125 bp):
GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCATGGTATCA
Found at i:6527161 original size:31 final size:31
Alignment explanation
Indices: 6527126--6527198 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
6527116 AAGGTAACTT
*
6527126 AATAACTTAGTAACTTAAATAAAAACTCTTG
1 AATAATTTAGTAACTTAAATAAAAACTCTTG
* * *
6527157 AATAATTTAGTTACTTAAATGAAAACTTTTG
1 AATAATTTAGTAACTTAAATAAAAACTCTTG
6527188 AATAATTTAGT
1 AATAATTTAGT
6527199 GATCATTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (31 bp):
AATAATTTAGTAACTTAAATAAAAACTCTTG
Found at i:6527791 original size:15 final size:13
Alignment explanation
Indices: 6527767--6527803 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
6527757 ATATATATTT
6527767 AAAAATT-ATAT-
1 AAAAATTAATATA
6527778 AAAAATATAATATA
1 AAAAAT-TAATATA
6527792 AAAAATTAATAT
1 AAAAATTAATAT
6527804 GGGCGAGCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.26
12 1 0.04
13 10 0.43
14 6 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAATTAATATA
Found at i:6527913 original size:13 final size:13
Alignment explanation
Indices: 6527895--6527929 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
6527885 GGGCTGGACC
6527895 CAGGCCTAACAAA
1 CAGGCCTAACAAA
6527908 CAGGCCTAACAAA
1 CAGGCCTAACAAA
*
6527921 TAGGCCTAA
1 CAGGCCTAA
6527930 ATTTTTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.17, T:0.11
Consensus pattern (13 bp):
CAGGCCTAACAAA
Found at i:6533857 original size:6 final size:6
Alignment explanation
Indices: 6533846--6533873 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6533836 GAGTCGTTAC
6533846 AATTAT AATTAT AATTAT AATTAT AATT
1 AATTAT AATTAT AATTAT AATTAT AATT
6533874 CTGTGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTAT
Found at i:6539072 original size:16 final size:15
Alignment explanation
Indices: 6539047--6539080 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
6539037 ATGCAAACAT
6539047 AATAAATTAAATATAA
1 AATAAATT-AATATAA
*
6539063 AATAATTTAATATAA
1 AATAAATTAATATAA
6539078 AAT
1 AAT
6539081 TATATATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAATTAATATAA
Found at i:6539074 original size:15 final size:15
Alignment explanation
Indices: 6539051--6539080 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6539041 AAACATAATA
6539051 AATTAAATATAAAAT
1 AATTAAATATAAAAT
*
6539066 AATTTAATATAAAAT
1 AATTAAATATAAAAT
6539081 TATATATTTC
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTAAATATAAAAT
Found at i:6546654 original size:12 final size:12
Alignment explanation
Indices: 6546634--6546665 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6546624 AATTTGGAGA
*
6546634 AATAAAATAAAG
1 AATATAATAAAG
6546646 AATATAATAAAG
1 AATATAATAAAG
6546658 AATATAAT
1 AATATAAT
6546666 GAAAAGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (12 bp):
AATATAATAAAG
Found at i:6546910 original size:32 final size:32
Alignment explanation
Indices: 6546873--6546949 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
6546863 ATGCATGTGT
* * **
6546873 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
6546905 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
6546937 GTAACTTTTCATA
1 GTAACTTTTCATA
6546950 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:6550924 original size:29 final size:30
Alignment explanation
Indices: 6550866--6550922 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
6550856 TCCGAGCCTT
*
6550866 GGGCAAAAATGTAATTATGTAAAAGTTTAG
1 GGGCAAAAATGTAATTATGAAAAAGTTTAG
* *
6550896 GGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGCAAAAATGTAATTATGAAAAAGTT
6550923 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.32
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGAAAAAGTTTAG
Found at i:6551152 original size:13 final size:13
Alignment explanation
Indices: 6551134--6551165 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6551124 TTTCCAGCAA
6551134 TTATGAATTTATT
1 TTATGAATTTATT
6551147 TTATGAATTTATT
1 TTATGAATTTATT
*
6551160 TGATGA
1 TTATGA
6551166 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6551373 original size:50 final size:50
Alignment explanation
Indices: 6551260--6551501 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
6551250 ATTTGGGTAA
* * *
6551260 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
6551316 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6551366 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6551416 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
6551466 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
6551502 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:6551449 original size:100 final size:103
Alignment explanation
Indices: 6551260--6551509 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
6551250 ATTTGGGTAA
6551260 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
6551325 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
6551366 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
6551428 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
6551466 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
6551510 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:6558511 original size:29 final size:30
Alignment explanation
Indices: 6558452--6558509 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6558442 TCCGAGCCTT
*
6558452 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
6558482 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
6558510 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:6558738 original size:13 final size:13
Alignment explanation
Indices: 6558720--6558751 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6558710 TTTCCAGCAA
6558720 TTATGAATTTATT
1 TTATGAATTTATT
6558733 TTATGAATTTATT
1 TTATGAATTTATT
*
6558746 TGATGA
1 TTATGA
6558752 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6558959 original size:50 final size:50
Alignment explanation
Indices: 6558846--6559087 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
6558836 ATTTGGGTAA
* * *
6558846 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
6558902 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6558952 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6559002 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
6559052 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
6559088 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:6559035 original size:100 final size:103
Alignment explanation
Indices: 6558846--6559095 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
6558836 ATTTGGGTAA
6558846 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
6558911 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
6558952 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
6559014 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
6559052 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
6559096 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:6560706 original size:29 final size:30
Alignment explanation
Indices: 6560648--6560704 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
6560638 TCCGAGCCTT
*
6560648 GGGCAAAAATGTAATTATGTAAAAGTTTAG
1 GGGCAAAAATGTAATTATGAAAAAGTTTAG
* *
6560678 GGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGCAAAAATGTAATTATGAAAAAGTT
6560705 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.32
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGAAAAAGTTTAG
Found at i:6560935 original size:13 final size:13
Alignment explanation
Indices: 6560917--6560948 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6560907 TTTCCAGCAA
6560917 TTATGAATTTATT
1 TTATGAATTTATT
6560930 TTATGAATTTATT
1 TTATGAATTTATT
*
6560943 TGATGA
1 TTATGA
6560949 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6561236 original size:100 final size:103
Alignment explanation
Indices: 6561045--6561292 Score: 335
Period size: 100 Copynumber: 2.4 Consensus size: 103
6561035 ATTTGGGTAA
*
6561045 AGAGATCCCATGCAAACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAAGGTCCCCT
1 AGAGATCCCATGTAAACCATGTCTGGGACATGGCATTGGCATCC-TAAGATCATGAAGGTCCCCT
* *
6561110 GTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
65 ATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * * *
6561149 AGAGGTCCCAATGTAAACCATGTCTGGGACATGGCGTTGGCA-CC-GAGATGA-G-AGGTCCCCT
1 AGAGATCCC-ATGTAAACCATGTCTGGGACATGGCATTGGCATCCTAAGATCATGAAGGTCCCCT
6561210 ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
65 ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
6561249 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAA-ACCATGTCTGGGACATGGCATTGGCAT
6561293 GTTATTATCA
Statistics
Matches: 129, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
99 1 0.01
100 52 0.40
101 31 0.24
102 5 0.04
104 10 0.08
105 30 0.23
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAACCATGTCTGGGACATGGCATTGGCATCCTAAGATCATGAAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:6561283 original size:51 final size:50
Alignment explanation
Indices: 6561045--6561284 Score: 254
Period size: 50 Copynumber: 4.7 Consensus size: 50
6561035 ATTTGGGTAA
* * * *
6561045 AGAGATCCCATGCAA-ACCATGTCTGGGACATGGCATTGGCATCCTTAAGATC-
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-CG
*
6561097 ATGAAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 A-G-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6561149 AGAGGTCCCAATGTAA-ACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCC-ATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6561199 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
6561249 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
6561285 TTTGGCATGT
Statistics
Matches: 161, Mismatches: 19, Indels: 17
0.82 0.10 0.09
Matches are distributed among these distances:
49 5 0.03
50 77 0.48
51 36 0.22
52 5 0.03
53 1 0.01
54 12 0.07
55 25 0.16
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:6568300 original size:29 final size:30
Alignment explanation
Indices: 6568241--6568298 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6568231 TCCGAGCCTT
*
6568241 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
6568271 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
6568299 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:6568528 original size:13 final size:13
Alignment explanation
Indices: 6568510--6568541 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6568500 TTTCCAGCAA
6568510 TTATGAATTTATT
1 TTATGAATTTATT
6568523 TTATGAATTTATT
1 TTATGAATTTATT
*
6568536 TGATGA
1 TTATGA
6568542 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6568749 original size:50 final size:50
Alignment explanation
Indices: 6568636--6568877 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
6568626 ATTTGGGTAA
* * *
6568636 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
6568692 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6568742 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6568792 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
6568842 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
6568878 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:6568825 original size:100 final size:103
Alignment explanation
Indices: 6568636--6568885 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
6568626 ATTTGGGTAA
6568636 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
6568701 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
6568742 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
6568804 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
6568842 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
6568886 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:6571512 original size:39 final size:36
Alignment explanation
Indices: 6571431--6571512 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
6571421 GAGTTGTAAG
* * * *
6571431 TGACTATTCATCTATATCACTAAATACTAGGAGTTG
1 TGACTATTCATCTACATAACTAAATACTAAGAGTTA
*
6571467 TGACTATTCATTTACATAACTTAAATACTATAAGAGTTA
1 TGACTATTCATCTACATAAC-TAAATAC--TAAGAGTTA
6571506 TGACTAT
1 TGACTAT
6571513 CCATGCATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
36 17 0.45
37 7 0.18
39 14 0.37
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (36 bp):
TGACTATTCATCTACATAACTAAATACTAAGAGTTA
Found at i:6571562 original size:32 final size:32
Alignment explanation
Indices: 6571525--6571601 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
6571515 ATGCATGTGT
* * **
6571525 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
6571557 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
6571589 GTAACTTTTCATA
1 GTAACTTTTCATA
6571602 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:6572445 original size:42 final size:43
Alignment explanation
Indices: 6572370--6572453 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 43
6572360 ATTTTAAGAT
6572370 AAATAATAACTAACTAAAATAATAAATATATATCAATTATTTA
1 AAATAATAACTAACTAAAATAATAAATATATATCAATTATTTA
* *
6572413 AAATAATAATTAATTAAAA-AATAAATATATATCAATTATTT
1 AAATAATAACTAACTAAAATAATAAATATATATCAATTATTT
6572454 TGAAAATTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 22 0.56
43 17 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (43 bp):
AAATAATAACTAACTAAAATAATAAATATATATCAATTATTTA
Found at i:6573072 original size:17 final size:16
Alignment explanation
Indices: 6573032--6573075 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
6573022 AATTTATTAT
*
6573032 ATAAATTTATTTAATAC
1 ATAAATTT-TTTAATAA
6573049 A-AAATTTTTTAATAGA
1 ATAAATTTTTTAATA-A
6573065 ATAAATTTTTT
1 ATAAATTTTTT
6573076 TATTTATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 7 0.29
17 10 0.42
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
ATAAATTTTTTAATAA
Found at i:6573241 original size:34 final size:34
Alignment explanation
Indices: 6573198--6573269 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
6573188 TACCTGATTC
6573198 ATGTTTTATTGTTTAGGATCCATGTCCTGCATAT
1 ATGTTTTATTGTTTAGGATCCATGTCCTGCATAT
6573232 ATGTTTTATTGTTTAGGATCCATGTCCTGCATAT
1 ATGTTTTATTGTTTAGGATCCATGTCCTGCATAT
6573266 ATGT
1 ATGT
6573270 GATTGGTGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (34 bp):
ATGTTTTATTGTTTAGGATCCATGTCCTGCATAT
Found at i:6584987 original size:24 final size:24
Alignment explanation
Indices: 6584955--6585002 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6584945 AACTGTAAGT
6584955 CCAAAGCAATCTTGTTGAAAACGA
1 CCAAAGCAATCTTGTTGAAAACGA
6584979 CCAAAGCAATCTTGTTGAAAACGA
1 CCAAAGCAATCTTGTTGAAAACGA
6585003 TTACAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (24 bp):
CCAAAGCAATCTTGTTGAAAACGA
Found at i:6585152 original size:57 final size:57
Alignment explanation
Indices: 6585043--6585152 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
6585033 TAAGTTTTTT
* * *
6585043 AATGTAATTTTCTCTAATTTAAGTTAATCCAACTCGACTCATGAACAACTCTATTTG
1 AATGTAATTTTCTCTAATTCAAGTCAATCCAACTCGACTCATGAAAAACTCTATTTG
** *
6585100 AATGTAATTTTCTCTAATTCGGGTCGATCCAACTCGACTCAT-AAAAAGCTCTA
1 AATGTAATTTTCTCTAATTCAAGTCAATCCAACTCGACTCATGAAAAA-CTCTA
6585153 ATTACTGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 4 0.09
57 42 0.91
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (57 bp):
AATGTAATTTTCTCTAATTCAAGTCAATCCAACTCGACTCATGAAAAACTCTATTTG
Found at i:6591086 original size:20 final size:20
Alignment explanation
Indices: 6591043--6591086 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6591033 TTAAGATACT
* *
6591043 TTTAAAATAATTTTTTTATT
1 TTTAAAATAATTTTTTAATG
6591063 TTTAAAATAATTTTTTAATG
1 TTTAAAATAATTTTTTAATG
6591083 TTTA
1 TTTA
6591087 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTAAAATAATTTTTTAATG
Found at i:6605534 original size:20 final size:20
Alignment explanation
Indices: 6605493--6605534 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
6605483 CTCTTTGAGA
* *
6605493 AGTGAAACTGTAGGAGAAAG
1 AGTGAAACTGGAGGAAAAAG
6605513 AGTGAAA-TGGAGGAAAACAG
1 AGTGAAACTGGAGGAAAA-AG
6605533 AG
1 AG
6605535 GCTTTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.48, C:0.05, G:0.36, T:0.12
Consensus pattern (20 bp):
AGTGAAACTGGAGGAAAAAG
Found at i:6605631 original size:13 final size:13
Alignment explanation
Indices: 6605613--6605637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6605603 TGTTTATATG
6605613 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
6605626 TTTTTCTTTTTT
1 TTTTTCTTTTTT
6605638 AAATTTCTCG
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:6616396 original size:51 final size:51
Alignment explanation
Indices: 6616312--6616408 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
6616302 CTTATAACAT
*** * *
6616312 ATTTTAACCTACAATATAATGTGTAAATCTTAATTTGATACAATTATATGC
1 ATTTTAACCTACAATATAACACGTAAATATTAATTTAATACAATTATATGC
* * *
6616363 ATTTTAACCTATAATATAACACGTGAATATTAATTTAATGCAATTA
1 ATTTTAACCTACAATATAACACGTAAATATTAATTTAATACAATTA
6616409 AACATTTAAC
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:0.41, C:0.11, G:0.07, T:0.40
Consensus pattern (51 bp):
ATTTTAACCTACAATATAACACGTAAATATTAATTTAATACAATTATATGC
Found at i:6627977 original size:16 final size:17
Alignment explanation
Indices: 6627958--6627991 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6627948 ATTGTTTTCA
*
6627958 TATTTTCTTTAT-TCTT
1 TATTTTCTCTATCTCTT
6627974 TATTTTCTCTATCTCTT
1 TATTTTCTCTATCTCTT
6627991 T
1 T
6627992 TTATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTCTCTATCTCTT
Found at i:6654097 original size:19 final size:20
Alignment explanation
Indices: 6654055--6654105 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
6654045 AAAATAACTA
* *
6654055 AAATAAGAAAT-TTAAGAAT
1 AAATAATAAATATTAAAAAT
6654074 AAATAATAAATATTAAAAAT
1 AAATAATAAATATTAAAAAT
6654094 -AATAACTAAATA
1 AAATAA-TAAATA
6654106 AAGAAACGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AAATAATAAATATTAAAAAT
Found at i:6655423 original size:18 final size:17
Alignment explanation
Indices: 6655402--6655437 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
6655392 TTATTACTAT
*
6655402 TATTATTTTCTTTATATA
1 TATTATTTTATTT-TATA
6655420 TATTATTTTATTTTATA
1 TATTATTTTATTTTATA
6655437 T
1 T
6655438 TTTTCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTTTATTTTATA
Found at i:6658995 original size:7 final size:7
Alignment explanation
Indices: 6658973--6659065 Score: 73
Period size: 7 Copynumber: 12.7 Consensus size: 7
6658963 CTTTTTTTAA
6658973 AAAAAAG
1 AAAAAAG
6658980 AAAAGAAAG
1 -AAA-AAAG
6658989 AAAAAAG
1 AAAAAAG
6658996 AAACAAAAAG
1 --A-AAAAAG
6659006 AAAAAAAG
1 -AAAAAAG
*
6659014 TAAAAAG
1 AAAAAAG
6659021 AAAAAAG
1 AAAAAAG
*
6659028 GAAAAAG
1 AAAAAAG
*
6659035 AAAGAAG
1 AAAAAAG
*
6659042 AAAGAAG
1 AAAAAAG
*
6659049 -AAGAAG
1 AAAAAAG
6659055 -AAAAAG
1 AAAAAAG
6659061 AAAAA
1 AAAAA
6659066 GGAGAGGCCA
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
6 11 0.15
7 38 0.51
8 12 0.16
9 7 0.09
10 6 0.08
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:6659003 original size:10 final size:9
Alignment explanation
Indices: 6658971--6659059 Score: 60
Period size: 9 Copynumber: 9.6 Consensus size: 9
6658961 CACTTTTTTT
6658971 AAAAAAAAG
1 AAAAAAAAG
*
6658980 AAAAGAAAG
1 AAAAAAAAG
6658989 --AAAAAAG
1 AAAAAAAAG
6658996 AAACAAAAAG
1 AAA-AAAAAG
6659006 -AAAAAAAG
1 AAAAAAAAG
6659014 TAAAAAGAAA-
1 -AAAAA-AAAG
6659024 AAAGGAAAAAG
1 AAA--AAAAAG
6659035 AAAGAAGAAAG
1 AAA-AA-AAAG
* *
6659046 AAGAAGAAG
1 AAAAAAAAG
6659055 AAAAA
1 AAAAA
6659060 GAAAAAGGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
7 6 0.09
8 6 0.09
9 21 0.32
10 18 0.28
11 14 0.22
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.01
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:6659018 original size:26 final size:25
Alignment explanation
Indices: 6658974--6659047 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 25
6658964 TTTTTTTAAA
6658974 AAAAAGAAAAGAAAGAAAAAAGAAAC
1 AAAAAGAAAAGAAAG-AAAAAGAAAC
6659000 AAAAAGAAAA-AAAGTAAAAAG-AA-
1 AAAAAGAAAAGAAAG-AAAAAGAAAC
*
6659023 AAAAGGAAAAAGAAAGAAGAAAGAA
1 AAAAAG-AAAAGAAAGAA-AAAGAA
6659048 GAAGAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 5 0.12
24 8 0.19
25 18 0.43
26 11 0.26
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.01
Consensus pattern (25 bp):
AAAAAGAAAAGAAAGAAAAAGAAAC
Found at i:6659024 original size:6 final size:6
Alignment explanation
Indices: 6658974--6659066 Score: 77
Period size: 6 Copynumber: 15.0 Consensus size: 6
6658964 TTTTTTTAAA
*
6658974 AAAAAG -AAAAG AAAGA- AAAAAG AAACAA- AAAGAA- AAAAAG TAAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG AAA-AAG AAAAAG -AAAAAG
*
6659021 AAAAAAGG AAAAAG AAAGAAG AAAGAAG AAGAAG AAAAAG AAAAAG
1 -AAAAA-G AAAAAG AAA-AAG AAA-AAG AAAAAG AAAAAG AAAAAG
6659067 GAGAGGCCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
5 11 0.15
6 32 0.43
7 30 0.41
8 1 0.01
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:6660031 original size:44 final size:44
Alignment explanation
Indices: 6659992--6661366 Score: 317
Period size: 44 Copynumber: 30.4 Consensus size: 44
6659982 CCTTATTCTT
*
6659992 CTAAAGTTGCAGTAGAGCAGGTTGAA-ATTACAAGTCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGA-TACAAGTCTTATCTCC
** **
6660036 CTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAACCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAGTCTTATCTCC
* * *
6660081 TTGAAGTTGCAGTGGAGTAGGTTGAAGATACAAGTCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCC
* *** * *
6660125 CTGAAGTTGCAGTGGAGCAAACTGAAGGTAGCGAA-TCTTATCTCT
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATA-C-AAGTCTTATCTCC
* * * * * *
6660170 CTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCT
1 CTAAAGTTGCAGTGGAGCAGGTTGAAG--AT--A-CA-AG-TCTTATCTCC
* * * * * **
6660221 CTGAAGTTGCAGTAGAGCA-GAT-CATAT-CAAACCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCC
* * * *
6660262 TTGAAGTTGCAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCC
* * * *
6660306 CTGAAGTTGCAGTGGAGTAGATTGAAGATAGCGAA-TCTTATTTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATA-C-AAGTCTTATCTCC
* * ** * *
6660351 CTGAAGTTGCAGTGGAACATATTAAAGTTATAAATAACATA-TCTTATCTCT
1 CTAAAGTTGCAGTGGAGCAGGTT---G--A-AGAT-ACA-AGTCTTATCTCC
* * ** * * * *
6660402 GT-GAGATTAAAGTAGAGCA-GAT-CATAT-CAAGTCTTATCTCC
1 CTAAAG-TTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCC
* * ** * *
6660443 CTGAAGTTGCAATGGAGCAGACTAAAGATAGCGAA-TCTTATTTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATA-C-AAGTCTTATCTCC
* * ** * * * * * *
6660488 ATGAAGTTGCAGTGGAATAGATTAAAGCTATAAATAACAGACCTTATATCT
1 CTAAAGTTGCAGTGGAGCAGGTTGAAG--AT--A-CA-AG-TCTTATCTCC
* * * **
6660539 CTGAGGTTGCAGT--AG-A-GTAGATCATATCAAGTCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAGTCTTATCTCC
* * * ** ** *
6660580 CTGAAGTTGTAGTGAAGCAGACTGAAGAT-CGCGGATCTTATTTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATAC-AAG-TCTTATCTCC
* * * ** ** * * *
6660625 CTGAAGTTTCAGTAGAATATATTAAAGCTATAAATAACAGATCTTATCTCT
1 CTAAAGTTGCAGTGGAGCAGGTTGAAG--AT--A-CA-AG-TCTTATCTCC
* * * * * * **
6660676 TTAAGGTTGCAGTAGAGCA-GAT-CATAT-CAAACCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCC
* ** * *
6660717 CTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATAACAGATCTTATCTCTC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAG--AT--A-CA-AG-TCTTATCTC-C
* * * * **
6660769 C-GAAGTTACAGTAGAGCA-GAT--A-ATAGCAAACCTTAT-TCCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAGTCTTATCT-CC
* * * *
6660809 CTGAAGTTGCAGTGGGGCAGGTTGAAGTTACAAGTCTTACCT-C
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCC
* ** * **
6660852 ATGAAA-TTGCAGTGGAGCAGACTGAATATAGCAAACCTTATCTCC
1 CT-AAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAGTCTTATCTCC
* *
6660897 CTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCC
* * ** *
6660941 CTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAA-TCTTATTTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATA-C-AAGTCTTATCTCC
* * * * * *
6660986 CTGATGTTGTAGTGGAACAGATTGAAGCTATAAATTACAAGTCTTATCTCA
1 CTAAAGTTGCAGTGGAGCAGGTTGAAG------A-TACAAGTCTTATCTCC
* * * * **
6661037 CTAAAGTTGCAGTAGAGCA-GAT-CATAT-CAAACCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCC
* * * * *
6661078 TTAAAGTTGTAGTGGTGCAGGTTAAAAATAAATCAA-TCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGAT--A-CAAGTCTTATCTCC
* *
6661124 CTGAAGTTGTAGTGGAGC-GGATTGAAGACAGGCTACGAA-TCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGG-TTGAAG--A---TAC-AAGTCTTATCTCC
* * * * ** ** *
6661173 TTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATCTCT
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCC
* * **
6661217 CTAAATTTGCAGTAGAGCAGGTTGAA-ATAACAAACCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGAT-ACAAGTCTTATCTCC
* *
6661261 CTGAAGTT-CTAGTGGAGCAGGTTGACGATACCAA-TCTTATCTCC
1 CTAAAGTTGC-AGTGGAGCAGGTTGAAGATA-CAAGTCTTATCTCC
* * * * *
6661305 CTGAAGTTGCAGTGGAGTAGATTGAAGCTACTAA-TCCTATCTCC
1 CTAAAGTTGCAGTGGAGCAGGTTGAAGATAC-AAGTCTTATCTCC
*
6661349 CTGAAGTTGCAGTGGAGC
1 CTAAAGTTGCAGTGGAGC
6661367 GGATTAAAAC
Statistics
Matches: 976, Mismatches: 250, Indels: 210
0.68 0.17 0.15
Matches are distributed among these distances:
40 4 0.00
41 131 0.13
42 16 0.02
43 48 0.05
44 287 0.29
45 235 0.24
46 36 0.04
47 14 0.01
48 7 0.01
49 43 0.04
50 13 0.01
51 137 0.14
52 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
CTAAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCC
Found at i:6660287 original size:92 final size:93
Alignment explanation
Indices: 6660026--6661374 Score: 538
Period size: 92 Copynumber: 14.8 Consensus size: 93
6660016 AAATTACAAG
* * * * * *
6660026 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAACCTTATCTCCTTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT--ACATATCAAACCTTATCTCCCTGAAGTTGC
* * *
6660091 AGTGGAGTAGGTTGAAG-AT--A-CA-AG-
64 AGTGGAGCAGATTAAAGTATAAATCACAGA
* * * * * * *
6660115 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGA-AGGTAGCGAATCTTATCTCTCTGAAGTTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT-ACA--TATCAAACCTTATCTCCCTGAAGTTG
* *
6660179 CAGTGGAACAGATTAAAGCTATAAATTACAGA
63 CAGTGGAGCAGATTAAAG-TATAAATCACAGA
*
6660211 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CATATCAAACCTTATCTCCTTGAAGTTGCAG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTACATATCAAACCTTATCTCCCTGAAGTTGCAG
*
6660274 TGGAGCAGGTTAAAGT-T--A-CA-AG-
66 TGGAGCAGATTAAAGTATAAATCACAGA
* * * * * * * * *
6660296 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT--ACATATCAAACCTTATCTCCCTGAAGTTGC
* * * *
6660361 AGTGGAACATATTAAAGTTATAAATAACATA
64 AGTGGAGCAGATTAAAG-TATAAATCACAGA
* ** **
6660392 TCTTATCTCTGTG-AGATTAAAGTAGAGCAGA-T-CATATCAAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCTCTGAAG-TTGCAGTAGAGCAGACTACATATCAAACCTTATCTCCCTGAAGTTGCA
* * * *
6660454 ATGGAGCAGACTAAAG-AT--AGC-GA-A
65 GTGGAGCAGATTAAAGTATAAATCACAGA
* * ** * * * *
6660478 TCTTATTTC-CATGAAGTTGCAGTGGAATAGATTAAAGCTATAAATAACAGACCTTATATCTCTG
1 TCTTATCTCTC-TGAAGTTGCAGTAGAGCAGACT--A-C-AT--AT--CAAACCTTATCTCCCTG
* *
6660542 AGGTTGCAGT--AG-AG--T--AG-ATCATATCA-AG-
57 AAGTTGCAGTGGAGCAGATTAAAGTAT-AAATCACAGA
* * * ** * *
6660570 TCTTATCTCCCTGAAGTTGTAGT-GAAGCAGACTGA-AGATCGCGGATCTTATTTCCCTGAAGTT
1 TCTTATCTCTCTGAAGTTGCAGTAG-AGCAGACT-ACATAT--CAAACCTTATCTCCCTGAAGTT
* * ** * *
6660633 TCAGTAGAATATATTAAAGCTATAAATAACAGA
62 GCAGTGGAGCAGATTAAAG-TATAAATCACAGA
*
6660666 TCTTATCTCT-TTAAGGTTGCAGTAGAGCAGA-T-CATATCAAACCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCTCTGAA-GTTGCAGTAGAGCAGACTACATATCAAACCTTATCTCCCTGAAGTTGCA
** * *
6660728 GTGGAATAGATTGAAGCTATAAATAACAGA
65 GTGGAGCAGATTAAAG-TATAAATCACAGA
* * *
6660758 TCTTATCTCTCCGAAGTTACAGTAGAGCAGA-TA-ATAGCAAACCTTAT-TCCCCTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTACATATCAAACCTTATCT-CCCTGAAGTTGCA
* * *
6660820 GTGGGGCAGGTTGAAGT-T--A-CA-AG-
65 GTGGAGCAGATTAAAGTATAAATCACAGA
* *
6660843 TCTTA-C-CTCATGAAATTGCAGTGGAGCAGACTGA-ATATAGCAAACCTTATCTCCCTGAAGTT
1 TCTTATCTCTC-TGAAGTTGCAGTAGAGCAGACT-ACATAT--CAAACCTTATCTCCCTGAAGTT
* * *
6660905 GCAGTAGAGCAGGTTGAAG-AT--A-CA-AG-
62 GCAGTGGAGCAGATTAAAGTATAAATCACAGA
* * * * * * * *
6660931 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGATGTTGT
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT--ACATATCAAACCTTATCTCCCTGAAGTTGC
* * *
6660996 AGTGGAACAGATTGAAGCTATAAATTACA-A
64 AGTGGAGCAGATTAAAG-TATAAATCACAGA
* * * * *
6661026 GTCTTATCTCACTAAAGTTGCAGTAGAGCAGA-T-CATATCAAACCTTATCTCCTTAAAGTTGTA
1 -TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTACATATCAAACCTTATCTCCCTGAAGTTGCA
* * *
6661089 GTGGTGCAGGTTAAA-AATAAAT--CA-A
65 GTGGAGCAGATTAAAGTATAAATCACAGA
* * * ** * * * *
6661114 TCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTGAAGACAGGCTA-CGAATCTTATCTCCTTAAA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGC--A--GACTACA---TATCAAACCTTATCTCCCTGAA
* * *
6661178 GTTGTAGTGGAGCAGATTAAAG------CCACAAA
59 GTTGCAGTGGAGCAGATTAAAGTATAAATCACAGA
* * * ** * *
6661207 CCTTATCTCTCTAAATTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTGAAGTT-CT
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT-ACATATCAAACCTTATCTCCCTGAAGTTGC-
* * *
6661271 AGTGGAGCAGGTTGACG-AT--A-C-CA-A
64 AGTGGAGCAGATTAAAGTATAAATCACAGA
* * * * *
6661295 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGA-AGCTA-CTAATCC-TATCTCCCTGAAGTT
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT-ACA--TATC-AAACCTTATCTCCCTGAAGTT
*
6661357 GCAGTGGAGCGGATTAAA
62 GCAGTGGAGCAGATTAAA
6661375 ACGATGAATC
Statistics
Matches: 974, Mismatches: 186, Indels: 201
0.72 0.14 0.15
Matches are distributed among these distances:
83 3 0.00
84 17 0.02
85 34 0.03
86 53 0.05
87 34 0.03
88 146 0.15
89 175 0.18
90 17 0.02
91 19 0.02
92 249 0.26
93 35 0.04
94 15 0.02
95 53 0.05
96 123 0.13
97 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (93 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTACATATCAAACCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTAAAGTATAAATCACAGA
Found at i:6660296 original size:181 final size:180
Alignment explanation
Indices: 6660016--6660503 Score: 620
Period size: 181 Copynumber: 2.7 Consensus size: 180
6660006 GAGCAGGTTG
* * * * *
6660016 AAATTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAACCTTATCTCC
1 AAATTACAA-TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATATCAAACCTTATCTCC
* *
6660081 TTGAAGTTGCAGTGGAGTAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAA
61 TTGAAGTTGCAGTGGAGCAGGTTAAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAA
* *
6660146 CTGAAGGTAGCGAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAAAGCTAT
126 CTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAT
6660201 AAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATCTCCTTGA
1 AAATTACA-ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATCTCCTTGA
* * * *
6660266 AGTTGCAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGA
65 AGTTGCAGTGGAGCAGGTTAAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGA
* * *
6660331 AGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAGTTAT
130 AGATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAT
* * ** ** *
6660382 AAATAACATATCTTATCTCTGTG-AGATTAAAGTAGAGCAGATCATATCAAGTCTTATCTCCCTG
1 AAATTACA-ATCTTATCTCTCTGAAG-TTGCAGTAGAGCAGATCATATCAAACCTTATCTCCTTG
* ** * *
6660446 AAGTTGCAATGGAGCAGACTAAAGATAGCGAA-TCTTATTTCCATGAAGTTGCAGTGGA
64 AAGTTGCAGTGGAGCAGGTTAAAGATA-C-AAGTCTTATCTCCCTGAAGTTGCAGTGGA
6660504 ATAGATTAAA
Statistics
Matches: 269, Mismatches: 30, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
180 2 0.01
181 202 0.75
182 25 0.09
183 2 0.01
184 1 0.00
185 36 0.13
186 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (180 bp):
AAATTACAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATCTCCTTGAA
GTTGCAGTGGAGCAGGTTAAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAA
GATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAT
Found at i:6660449 original size:137 final size:137
Alignment explanation
Indices: 6660292--6660732 Score: 648
Period size: 137 Copynumber: 3.2 Consensus size: 137
6660282 GTTAAAGTTA
* *
6660292 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCGAATCTTATTTCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * * * **
6660357 TTGCAGTGGAACATATTAAAGTTATAAATAACATATCTTATCTCTGTGAGATTAAAGTAGAGCAG
66 TTGCAGTGGAATATATTAAAGCTATAAATAACAGATCTTATCTCTCTGAGGTTGCAGTAGAGCAG
6660422 ATCATAT
131 ATCATAT
* * *
6660429 CAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGATAGCGAATCTTATTTCCATGAAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
6660494 TTGCAGTGGAATAGATTAAAGCTATAAATAACAGACCTTATATCTCTGAGGTTGCAGTAGAGTAG
66 TTGCAGTGGAATATATTAAAGCTATAAATAACAGATCTTATCTCTCTGAGGTTGCAGTAGAGCAG
6660559 ATCATAT
131 ATCATAT
* * * *
6660566 CAAGTCTTATCTCCCTGAAGTTGTAGTGAAGCAGACTGAAGATCGCGGATCTTATTTCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
6660631 TTTCAGTAGAATATATTAAAGCTATAAATAACAGATCTTATCTCTTTAAGGTTGCAGTAGAGCAG
66 TTGCAGTGGAATATATTAAAGCTATAAATAACAGATCTTATCTCTCTGAGGTTGCAGTAGAGCAG
6660696 ATCATAT
131 ATCATAT
**
6660703 CAAACCTTATCTCCCTGAAGTTGCAGTGGA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGA
6660733 ATAGATTGAA
Statistics
Matches: 269, Mismatches: 35, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
137 269 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (137 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
TTGCAGTGGAATATATTAAAGCTATAAATAACAGATCTTATCTCTCTGAGGTTGCAGTAGAGCAG
ATCATAT
Found at i:6661119 original size:46 final size:49
Alignment explanation
Indices: 6661069--6661198 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 49
6661059 CATATCAAAC
* *
6661069 CTTATCTCCTTAAAGTTGTAGTGGTGCAGGTTAAAAATA-AAT-C-AAT
1 CTTATCTCCTTAAAGTTGTAGTGGAGCAGGTTAAAAACAGAATACGAAT
* * * * **
6661115 CTTATCTCCCTGAAGTTGTAGTGGAGC-GGATTGAAGACAGGCTACGAAT
1 CTTATCTCCTTAAAGTTGTAGTGGAGCAGG-TTAAAAACAGAATACGAAT
*
6661164 CTTATCTCCTTAAAGTTGTAGTGGAGCAGATTAAA
1 CTTATCTCCTTAAAGTTGTAGTGGAGCAGGTTAAA
6661199 GCCACAAACC
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.03
46 30 0.45
47 1 0.01
48 1 0.01
49 32 0.48
50 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (49 bp):
CTTATCTCCTTAAAGTTGTAGTGGAGCAGGTTAAAAACAGAATACGAAT
Found at i:6661346 original size:132 final size:134
Alignment explanation
Indices: 6660888--6661366 Score: 346
Period size: 137 Copynumber: 3.5 Consensus size: 134
6660878 TATAGCAAAC
* * * * ** ** *
6660888 CTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTGCAG
** * * * * * * * * *
6660953 TAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGATGTTGTAGTGGAACAGATTGAAGCTATA
66 TAGAGCAGGTTGAA-ATAACAAACCTTATCTCCCTGAAGTTCTAGTGGAGCGGATT--AG--ACA
*
6661018 AATTA-CAAGT
126 GA-TACCAA-T
* * * * * * *
6661028 CTTATCTCACTAAAGTTGCAGTAGAGCAGATCATA---TCAAACCTTATCTCCTTAAAGTTGTAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTGCAG
* * * * *
6661090 TGGTGCAGGTTAAAAATAA-ATCAATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTGAAGACA
66 TAGAGCAGGTT-GAAATAACA--AACCTTATCTCCCTGAAGTTCTAGTGGAGCGGATT--AGACA
* *
6661154 GGCTACGAAT
126 -GATACCAAT
* * * *
6661164 CTTATCTCCTTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATCTCTCTAAATTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTGCAG
6661229 TAGAGCAGGTTGAAATAACAAACCTTATCTCCCTGAAGTTCTAGTGGAGCAGG-TT-GAC-GATA
66 TAGAGCAGGTTGAAATAACAAACCTTATCTCCCTGAAGTTCTAGTGGAGC-GGATTAGACAGATA
6661291 CCAAT
130 CCAAT
* * * * * *
6661296 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACTAATCC-TATCTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAC-AAACCTTATCTCCCTAAAGTTGCA
*
6661360 GTGGAGC
65 GTAGAGC
6661367 GGATTAAAAC
Statistics
Matches: 272, Mismatches: 56, Indels: 30
0.76 0.16 0.08
Matches are distributed among these distances:
132 62 0.23
133 4 0.01
134 3 0.01
136 34 0.12
137 63 0.23
138 45 0.17
139 32 0.12
140 29 0.11
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (134 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTGCAG
TAGAGCAGGTTGAAATAACAAACCTTATCTCCCTGAAGTTCTAGTGGAGCGGATTAGACAGATAC
CAAT
Found at i:6661385 original size:44 final size:44
Alignment explanation
Indices: 6661112--6661401 Score: 144
Period size: 44 Copynumber: 6.5 Consensus size: 44
6661102 AAAATAAATC
* * * * *
6661112 AATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTGAAGACAGGCTACG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-A-A--CGACT
* * * * * *
6661161 AATCTTATCTCCTTAAAGTTGTAGTGGAGCAGATTAAAGCCAC-
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGACT
* * * * * * * **
6661204 AAACCTTATCTCTCTAAATTTGCAGTAGAGCAGGTTGAAATAAC-
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGACT
* * * *
6661248 AAACCTTATCTCCCTGAAGTT-CTAGTGGAGCAGGTT--GACGATACC
1 AATCC-TATCTCCCTGAAGTTGC-AGTGGAGCAGATTAAAACG--ACT
* * * * *
6661293 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGACT
*
6661337 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACGA-T
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGACT
*
6661380 GAATCCTATAC-CTCTGAAGTTG
1 -AATCCTAT-CTCCCTGAAGTTG
6661402 TAGTAGTTGC
Statistics
Matches: 192, Mismatches: 39, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 145 0.76
45 5 0.03
46 1 0.01
47 1 0.01
48 2 0.01
49 32 0.17
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGACT
Found at i:6663166 original size:43 final size:43
Alignment explanation
Indices: 6663099--6663347 Score: 342
Period size: 43 Copynumber: 5.8 Consensus size: 43
6663089 TTCATACAAC
* * *
6663099 GCCATCGTCCCAGACGTGGTCTTACATG-TAATCGCAAATCGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAAT-ACAAATCGAT
* * *
6663142 GCCA-CTGTCCCAGACAG-GGTCTTACTCGAAAATATAAATTGAT
1 GCCATC-GTCCCAGAC-GTGGTCTTACACGAAAATACAAATCGAT
*
6663185 GCCATCGTCCCAGACATGGTCTTACACGAAAATACAAATCGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
* * *
6663228 GTCATCGTCCTAGACGTGGTTTTACACGAAAATACAAATCGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
*
6663271 GCCATTGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
*
6663314 GCCATCGTCCCAGACATGGTCTTACACGAAAATA
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATA
6663348 ATGATAAAAA
Statistics
Matches: 181, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 175 0.97
44 5 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
Found at i:6663331 original size:129 final size:129
Alignment explanation
Indices: 6663101--6663347 Score: 381
Period size: 129 Copynumber: 1.9 Consensus size: 129
6663091 CATACAACGC
* * *
6663101 CATCGTCCCAGACGTGGTCTTACATGTAATCGCAAATCGATGCCACTGTCCCAGACAGGGTCTTA
1 CATCGTCCCAGACGTGGTCTTACACGAAATCACAAATCGATGCCACTGTCCCAGACAGGGTCTTA
* * *
6663166 CTCGAAAATATAAATTGATGCCATCGTCCCAGACATGGTCTTACACGAAAATACAAATCGATGT
66 CACGAAAATACAAATCGATGCCATCGTCCCAGACATGGTCTTACACGAAAATACAAATCGATGT
* * *
6663230 CATCGTCCTAGACGTGGTTTTACACGAAAAT-ACAAATCGATGCCATTGTCCCAGAC-GTGGTCT
1 CATCGTCCCAGACGTGGTCTTACACG-AAATCACAAATCGATGCCACTGTCCCAGACAG-GGTCT
6663293 TACACGAAAATACAAATCGATGCCATCGTCCCAGACATGGTCTTACACGAAAATA
64 TACACGAAAATACAAATCGATGCCATCGTCCCAGACATGGTCTTACACGAAAATA
6663348 ATGATAAAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
128 1 0.01
129 103 0.96
130 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (129 bp):
CATCGTCCCAGACGTGGTCTTACACGAAATCACAAATCGATGCCACTGTCCCAGACAGGGTCTTA
CACGAAAATACAAATCGATGCCATCGTCCCAGACATGGTCTTACACGAAAATACAAATCGATGT
Found at i:6674350 original size:28 final size:27
Alignment explanation
Indices: 6674273--6674350 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
6674263 TATAATATGT
* *
6674273 ATAAATTAAAAGGTTAAAATAAATTTGA
1 ATAAATTAAAATGTTAAAAT-AAGTTGA
* *
6674301 ATAAATTAACAATATTGAAATAAGTTGA
1 ATAAATTAA-AATGTTAAAATAAGTTGA
6674329 GATAAATTAAAATGTTAAAATA
1 -ATAAATTAAAATGTTAAAATA
6674351 TTGGAAAGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 25 0.60
29 17 0.40
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.32
Consensus pattern (27 bp):
ATAAATTAAAATGTTAAAATAAGTTGA
Found at i:6675799 original size:31 final size:29
Alignment explanation
Indices: 6675728--6675814 Score: 74
Period size: 28 Copynumber: 3.0 Consensus size: 29
6675718 TTTGTTTATA
*
6675728 CTTAT-TATGTAAATTTTATATATATATG
1 CTTATATATGTATATTTTATATATATATG
*
6675756 CTT-CATAT-TATATTATTAT-TATATAATTG
1 CTTATATATGTATATT-TTATATATAT-A-TG
**
6675785 CTTATATATGTATATAGGTATATATATATG
1 CTTATATATGTATAT-TTTATATATATATG
6675815 TATGTTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
27 10 0.22
28 11 0.24
29 5 0.11
30 6 0.13
31 9 0.20
32 5 0.11
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.52
Consensus pattern (29 bp):
CTTATATATGTATATTTTATATATATATG
Found at i:6688789 original size:44 final size:43
Alignment explanation
Indices: 6688684--6688838 Score: 152
Period size: 44 Copynumber: 3.5 Consensus size: 43
6688674 TCTTATCAGG
* * *
6688684 TCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGATCTTA
1 TCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA----AGATCTTA
* * *
6688730 TCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTA
1 TCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA-AGATCTTA
* ** *
6688774 TCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTA
1 TCTCCCTGAGATTACAGTGGAGCAGATCGAAGACAAGATCTTA
6688817 TCTCCCTGA-AGTTACAGTGGAG
1 TCTCCCTGAGA-TTACAGTGGAG
6688839 TGGATTAAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.01
43 24 0.26
44 39 0.42
46 27 0.29
47 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (43 bp):
TCTCCCTGAGATTACAGTGGAGCAGATCGAAGACAAGATCTTA
Found at i:6692917 original size:20 final size:18
Alignment explanation
Indices: 6692872--6692932 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 18
6692862 TATAGGAAAT
* *
6692872 AGAAAGAATCAAAGAAAAC
1 AGAAAGAAAC-AAGAAAAG
6692891 AGTAAAGAAACACAGAGAAAG
1 AG-AAAGAAACA-AGA-AAAG
6692912 AGAAAGAAA-AAGAAAAG
1 AGAAAGAAACAAGAAAAG
6692929 AGAA
1 AGAA
6692933 CCACATTCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 8 0.22
18 3 0.08
19 4 0.11
20 17 0.46
21 5 0.14
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (18 bp):
AGAAAGAAACAAGAAAAG
Found at i:6693281 original size:26 final size:27
Alignment explanation
Indices: 6693252--6693302 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
6693242 CCACATTAGC
*
6693252 TGGGCTAGGTTAATTGGGT-TTTGGTT
1 TGGGCTAGGTTAAGTGGGTATTTGGTT
6693278 TGGGCTAGGTTAAGTGGGTATTTGG
1 TGGGCTAGGTTAAGTGGGTATTTGG
6693303 GATCTGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.14, C:0.04, G:0.41, T:0.41
Consensus pattern (27 bp):
TGGGCTAGGTTAAGTGGGTATTTGGTT
Found at i:6693413 original size:16 final size:17
Alignment explanation
Indices: 6693382--6693414 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6693372 ACTTTTAATA
*
6693382 ATTTTGTTTTTATTTTT
1 ATTTTGTTTATATTTTT
6693399 ATTTT-TTTATATTTTT
1 ATTTTGTTTATATTTTT
6693415 TGTTTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
ATTTTGTTTATATTTTT
Found at i:6695138 original size:15 final size:16
Alignment explanation
Indices: 6695118--6695151 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6695108 AAGTTAACAA
*
6695118 AAATCATAA-AAAAAT
1 AAATCAAAAGAAAAAT
6695133 AAATCAAAAGAAAAAT
1 AAATCAAAAGAAAAAT
6695149 AAA
1 AAA
6695152 CAGTTTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
AAATCAAAAGAAAAAT
Found at i:6704305 original size:15 final size:15
Alignment explanation
Indices: 6704287--6704322 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
6704277 AAATGTAATA
6704287 TGATGAAAAAGGGAT
1 TGATGAAAAAGGGAT
6704302 TGATGAAAAAGGGAT
1 TGATGAAAAAGGGAT
6704317 TGATGA
1 TGATGA
6704323 GTTGAATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (15 bp):
TGATGAAAAAGGGAT
Found at i:6721244 original size:24 final size:24
Alignment explanation
Indices: 6721210--6721257 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6721200 TTTCTAGAAG
* *
6721210 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
6721234 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
6721258 TTAACTTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:6723733 original size:17 final size:17
Alignment explanation
Indices: 6723707--6723740 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6723697 AAGAGTTATT
* *
6723707 AAAAATTATAGAATATA
1 AAAAAATATAAAATATA
6723724 AAAAAATATAAAATATA
1 AAAAAATATAAAATATA
6723741 TAAATTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAAAATATAAAATATA
Found at i:6723933 original size:21 final size:22
Alignment explanation
Indices: 6723892--6723933 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6723882 TTATATCAAC
*
6723892 TAAAAATTAACATAAACACAGG
1 TAAAAATTAACATAAAAACAGG
*
6723914 TAAAAATTAAGA-AAAAACAG
1 TAAAAATTAACATAAAAACAG
6723934 ATGAAGACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.64, C:0.10, G:0.10, T:0.17
Consensus pattern (22 bp):
TAAAAATTAACATAAAAACAGG
Found at i:6725529 original size:2 final size:2
Alignment explanation
Indices: 6725522--6725551 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6725512 TTGATTATTT
6725522 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6725552 TTTGATTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6728899 original size:17 final size:17
Alignment explanation
Indices: 6728877--6728911 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
6728867 TTTCAATTAA
6728877 TACACTTAAATAGTATC
1 TACACTTAAATAGTATC
6728894 TACACTTAAATAGTATC
1 TACACTTAAATAGTATC
6728911 T
1 T
6728912 CATAAATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (17 bp):
TACACTTAAATAGTATC
Found at i:6728919 original size:14 final size:16
Alignment explanation
Indices: 6728877--6728919 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
6728867 TTTCAATTAA
6728877 TACACTTAAATAGTATC
1 TACAC-TAAATAGTATC
6728894 TACACTTAAATAGTATC
1 TACAC-TAAATAGTATC
6728911 T-CA-TAAATA
1 TACACTAAATA
6728920 ACATTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.23
16 2 0.08
17 18 0.69
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (16 bp):
TACACTAAATAGTATC
Found at i:6729339 original size:13 final size:13
Alignment explanation
Indices: 6729321--6729345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6729311 CCGTGAATTT
6729321 CATTTCATCCATG
1 CATTTCATCCATG
6729334 CATTTCATCCAT
1 CATTTCATCCAT
6729346 CTTCTTTCTT
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:0.24, C:0.32, G:0.04, T:0.40
Consensus pattern (13 bp):
CATTTCATCCATG
Found at i:6730899 original size:7 final size:7
Alignment explanation
Indices: 6730887--6730917 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6730877 AAGGAACACA
6730887 TCAAACT
1 TCAAACT
6730894 TCAAACT
1 TCAAACT
6730901 TCAAACT
1 TCAAACT
6730908 TCAAACT
1 TCAAACT
6730915 TCA
1 TCA
6730918 CCACACTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (7 bp):
TCAAACT
Found at i:6733741 original size:34 final size:35
Alignment explanation
Indices: 6733697--6733763 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
6733687 CAGTAAAATA
*
6733697 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
6733731 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
6733764 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:6736850 original size:42 final size:42
Alignment explanation
Indices: 6736804--6737146 Score: 337
Period size: 45 Copynumber: 7.9 Consensus size: 42
6736794 TTATTTTTAT
6736804 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCAC
* ***** *
6736846 AAACGCCGCTAAAGGTCATGTTCTTTAGTAGCGGTGCTACAAAAA
1 AAACGCCGCTAAAGGTCATGTTC-TT--TAGCGGCGCTTTTCCAC
***** *
6736891 AAACGCCGCTAAAGGTCATGTTCTTTAGTAGCGGCGCTACAAAAA
1 AAACGCCGCTAAAGGTCATGTTC-TT--TAGCGGCGCTTTTCCAC
*
6736936 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCAC
* * *
6736978 AAATGCCGCTACAGATCATGTTCTTTAGCGGCGCTTTTTTCGC-C
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC--TTTTC-CAC
* * *
6737022 AAACGCCGCTAAAGATCATGTTCTTTGGTGGCGCTTTATCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTT-TCCAC
* *
6737065 AAACGCCACTAAAGGTAATGTTCTTTTAGCGGCGCTTTTCCGAC
1 AAACGCCGCTAAAGGTCATGTTC-TTTAGCGGCGCTTTTCC-AC
** **
6737109 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTT
6737147 TTTAAAAACG
Statistics
Matches: 259, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
42 70 0.27
43 43 0.17
44 69 0.27
45 77 0.30
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (42 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCAC
Found at i:6737123 original size:87 final size:86
Alignment explanation
Indices: 6736804--6737145 Score: 343
Period size: 87 Copynumber: 3.9 Consensus size: 86
6736794 TTATTTTTAT
*
6736804 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGGTCATGTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGATCATGTT
* * * * *
6736868 CTTTAGTAGCGGTGCTA-CAAAAA
66 CTTTAGTGGCGCT-TTATC--CAC
* ** * * *
6736891 AAACGCCGCTAAAGGTCATGTTCTTTAGTAGCGGCGC--TACAAAAAAAATGCCGCTAAAGGTCA
1 AAACGCCGCTAAAGGTCATGTTC-TT--TAGCGGCGCTTTTC-CGACAAACGCCGCTAAAGATCA
*
6736954 TGTTCTTTAGCGGCGCTTT-TCCAC
62 TGTTCTTTAGTGGCGCTTTATCCAC
* * * * *
6736978 AAATGCCGCTACAGATCATGTTCTTTAGCGGCGCTTTTTTCGCCAAACGCCGCTAAAGATCATGT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTTCCGACAAACGCCGCTAAAGATCATGT
*
6737043 TCTTTGGTGGCGCTTTATCCAC
65 TCTTTAGTGGCGCTTTATCCAC
* * * *
6737065 AAACGCCACTAAAGGTAATGTTCTTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGACCATGA
1 AAACGCCGCTAAAGGTCATGTTC-TTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGATCATGT
* *
6737130 CCTTTAGCGGCGCTTT
65 TCTTTAGTGGCGCTTT
6737146 TTTTAAAAAC
Statistics
Matches: 209, Mismatches: 35, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
84 9 0.04
86 35 0.17
87 107 0.51
88 15 0.07
89 2 0.01
90 41 0.20
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (86 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGATCATGTT
CTTTAGTGGCGCTTTATCCAC
Found at i:6737158 original size:43 final size:43
Alignment explanation
Indices: 6736804--6737147 Score: 302
Period size: 42 Copynumber: 7.9 Consensus size: 43
6736794 TTATTTTTAT
*
6736804 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
* ** * ** * * *
6736846 AAACGCCGCTAAAGGTCATGTTCTTTAGTAGCGGTGCTACAAAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTC--CAC
* ***** *
6736891 AAACGCCGCTAAAGGTCATGTTCTTTAGTAGCGGCGC-TACAAAAA
1 AAACGCCGCTAAAGATCATGTTC-TT--TAGCGGCGCTTTTTCCAC
* *
6736936 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
* *
6736978 AAATGCCGCTACAGATCATGTTCTTTAGCGGCGCTTTTTTCGC-C
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTTTTC-CAC
* * *
6737022 AAACGCCGCTAAAGATCATGTTCTTTGGTGGCGCTTTATCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
* * *
6737065 AAACGCCACTAAAGGTAATGTTCTTTTAGCGGCGC-TTTTCCGAC
1 AAACGCCGCTAAAGATCATGTTC-TTTAGCGGCGCTTTTTCC-AC
* **
6737109 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTT
6737148 TTAAAAACGC
Statistics
Matches: 248, Mismatches: 41, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
42 75 0.30
43 44 0.18
44 70 0.28
45 50 0.20
46 2 0.01
47 1 0.00
48 6 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
Found at i:6739284 original size:9 final size:9
Alignment explanation
Indices: 6739270--6739933 Score: 165
Period size: 9 Copynumber: 76.9 Consensus size: 9
6739260 ATAATGTAAT
6739270 TAAGTTATG
1 TAAGTTATG
*
6739279 TAAGTTGTG
1 TAAGTTATG
6739288 T-A-TTAT-
1 TAAGTTATG
*
6739294 TAAAGTTAAG
1 T-AAGTTATG
6739304 T-A-TTATG
1 TAAGTTATG
*
6739311 TAAGTTATT
1 TAAGTTATG
6739320 TAAGTTATG
1 TAAGTTATG
**
6739329 TAAGTGGTG
1 TAAGTTATG
6739338 T-A-TTATG
1 TAAGTTATG
*
6739345 TAAGTTAAG
1 TAAGTTATG
6739354 TAAGTTATG
1 TAAGTTATG
* *
6739363 TAGGCTATG
1 TAAGTTATG
6739372 T-A-TTATG
1 TAAGTTATG
*
6739379 CAAGTTA--
1 TAAGTTATG
6739386 T---TTATG
1 TAAGTTATG
**
6739392 TAAGTGGTG
1 TAAGTTATG
*
6739401 T-A-TTGTG
1 TAAGTTATG
*
6739408 TAAGTTATA
1 TAAGTTATG
6739417 TAAGTTATG
1 TAAGTTATG
* *
6739426 TAGGCTATG
1 TAAGTTATG
*
6739435 T--GTTATC
1 TAAGTTATG
*
6739442 TAAGTT-TT
1 TAAGTTATG
*
6739450 TAAGTTATA
1 TAAGTTATG
6739459 TAAGTTATG
1 TAAGTTATG
* *
6739468 CAAGTTTCTATA
1 TAAG--T-TATG
6739480 TAAGTTTCTATG
1 TAAG--T-TATG
6739492 TAAGTTATG
1 TAAGTTATG
* *
6739501 TAGGTTATTATT
1 TAAG---TTATG
6739513 TAAGTTATG
1 TAAGTTATG
6739522 T-A-TTATG
1 TAAGTTATG
*
6739529 TAAG--A-A
1 TAAGTTATG
* * **
6739535 TAAATAAAA
1 TAAGTTATG
* * *
6739544 AAATTTATT
1 TAAGTTATG
6739553 TAAGTTATG
1 TAAGTTATG
6739562 T-A-TTATG
1 TAAGTTATG
*
6739569 TAAGTGTATATA
1 TAA--GT-TATG
6739581 TAAGTTATG
1 TAAGTTATG
* *
6739590 ATATGATT-TA
1 -TAAG-TTATG
6739600 TAAGTTATG
1 TAAGTTATG
*
6739609 T-A-TAATG
1 TAAGTTATG
6739616 TAAGTTATG
1 TAAGTTATG
*
6739625 AAAGTTATG
1 TAAGTTATG
6739634 T-A-TTATG
1 TAAGTTATG
6739641 TAAGTTATG
1 TAAGTTATG
*
6739650 TAAGTTGTG
1 TAAGTTATG
6739659 T-A-TTATG
1 TAAGTTATG
* *
6739666 CAAGTCATG
1 TAAGTTATG
* *
6739675 TAGGCTATG
1 TAAGTTATG
6739684 T-A-TTATG
1 TAAGTTATG
6739691 TAAGTTAT-
1 TAAGTTATG
*
6739699 TATGTTATTATG
1 TAAG---TTATG
6739711 TAAGTTATG
1 TAAGTTATG
* *
6739720 AAAGTTATATA
1 TAAG-T-TATG
6739731 TAAGTTAT-
1 TAAGTTATG
**
6739739 TAA-AAATG
1 TAAGTTATG
6739747 T-A-TTATG
1 TAAGTTATG
*
6739754 TAATTTATG
1 TAAGTTATG
*
6739763 TAAGTTGTG
1 TAAGTTATG
6739772 T-A-TTATG
1 TAAGTTATG
* *
6739779 CAAGTCATG
1 TAAGTTATG
* *
6739788 TAGGCTATG
1 TAAGTTATG
6739797 T-A-TTATG
1 TAAGTTATG
6739804 TAAGTTATG
1 TAAGTTATG
* *
6739813 AAAGTTTTATA
1 TAAG--TTATG
*
6739824 TAAGTGAT-
1 TAAGTTATG
**
6739832 TAA-AAATG
1 TAAGTTATG
6739840 T-A-TTATG
1 TAAGTTATG
6739847 TAAGTTATG
1 TAAGTTATG
*
6739856 TAAGTTGTG
1 TAAGTTATG
6739865 T-A-TTATG
1 TAAGTTATG
* *
6739872 CAAGTCATG
1 TAAGTTATG
* *
6739881 TAGGCTATG
1 TAAGTTATG
6739890 T-A-TTATG
1 TAAGTTATG
6739897 TAAGTTAT-
1 TAAGTTATG
*
6739905 TATGTTATTATG
1 TAAG---TTATG
6739917 TAAGTTATG
1 TAAGTTATG
*
6739926 AAAGTTAT
1 TAAGTTAT
6739934 ATATAAGTTA
Statistics
Matches: 472, Mismatches: 110, Indels: 146
0.65 0.15 0.20
Matches are distributed among these distances:
4 3 0.01
6 5 0.01
7 91 0.19
8 52 0.11
9 250 0.53
10 10 0.02
11 25 0.05
12 36 0.08
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:6739299 original size:25 final size:24
Alignment explanation
Indices: 6739268--6739364 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
6739258 GTATAATGTA
* *
6739268 ATTAAGTTATGTAAGTTGTGTATT
1 ATTAAGTTAAGTAAGTTATGTATT
6739292 ATTAAAGTTAAGT-A-TTATGTAAGTT
1 ATT-AAGTTAAGTAAGTTATGT-A-TT
* **
6739317 ATTTAAGTTATGTAAGTGGTGTATT
1 A-TTAAGTTAAGTAAGTTATGTATT
6739342 ATGTAAGTTAAGTAAGTTATGTA
1 AT-TAAGTTAAGTAAGTTATGTA
6739365 GGCTATGTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 5 0.09
24 6 0.10
25 39 0.67
26 4 0.07
27 4 0.07
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (24 bp):
ATTAAGTTAAGTAAGTTATGTATT
Found at i:6739346 original size:34 final size:33
Alignment explanation
Indices: 6739303--6739463 Score: 136
Period size: 34 Copynumber: 4.9 Consensus size: 33
6739293 TTAAAGTTAA
*
6739303 GTATTATGTAAGTTATTTAAGTTATGTAAGTGGT
1 GTATTATGTAAGTTATTTAAGTTATGTAAGT-AT
** *
6739337 GTATTATGTAAGTTAAGTAAGTTATGTAGGCTAT
1 GTATTATGTAAGTTATTTAAGTTATGTAAG-TAT
* *
6739371 GTATTATGCAAGTTA--T---TTATGTAAGTGGT
1 GTATTATGTAAGTTATTTAAGTTATGTAAGT-AT
* * *
6739400 GTATTGTGTAAGTTATATAAGTTATGTAGGCTAT
1 GTATTATGTAAGTTATTTAAGTTATGTAAG-TAT
* * *
6739434 GTGTTATCTAAGTT-TTTAAGTTATATAAGT
1 GTATTATGTAAGTTATTTAAGTTATGTAAGT
6739464 TATGCAAGTT
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
28 1 0.01
29 22 0.22
31 1 0.01
32 2 0.02
33 12 0.12
34 62 0.61
35 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.45
Consensus pattern (33 bp):
GTATTATGTAAGTTATTTAAGTTATGTAAGTAT
Found at i:6739447 original size:63 final size:62
Alignment explanation
Indices: 6739324--6739451 Score: 197
Period size: 63 Copynumber: 2.0 Consensus size: 62
6739314 GTTATTTAAG
6739324 TTATGTAAGTGGTGTATTATGTAAGTTAAGTAAGTTATGTAGGCTATGTATTATGCAAGTTAT
1 TTATGTAAGTGGTGTATTATGTAAGTTAAGTAAGTTATGTAGGCTATGTATTATGCAAGTT-T
* *
6739387 TTATGTAAGTGGTGTATTGTGTAAGTTATA-TAAGTTATGTAGGCTATGTGTTAT-CTAAGTTT
1 TTATGTAAGTGGTGTATTATGTAAGTTA-AGTAAGTTATGTAGGCTATGTATTATGC-AAGTTT
6739449 TTA
1 TTA
6739452 AGTTATATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
62 5 0.08
63 55 0.90
64 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.45
Consensus pattern (62 bp):
TTATGTAAGTGGTGTATTATGTAAGTTAAGTAAGTTATGTAGGCTATGTATTATGCAAGTTT
Found at i:6739572 original size:16 final size:16
Alignment explanation
Indices: 6739548--6739676 Score: 72
Period size: 16 Copynumber: 8.0 Consensus size: 16
6739538 ATAAAAAAAT
*
6739548 TTATTTAAGTTATGTA
1 TTATGTAAGTTATGTA
6739564 TTATGTAAG---TGTA
1 TTATGTAAGTTATGTA
*
6739577 -TATATAAGTTATGATA
1 TTATGTAAGTTATG-TA
* *
6739593 TGATTTATAAGTTATGTA
1 T--TATGTAAGTTATGTA
* *
6739611 TAATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
6739628 GTTATGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
*
6739644 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
* *
6739661 TTATGCAAGTCATGTA
1 TTATGTAAGTTATGTA
6739677 GGCTATGTAT
Statistics
Matches: 88, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
12 7 0.08
13 4 0.05
15 2 0.02
16 46 0.52
17 4 0.05
18 13 0.15
19 12 0.14
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.46
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:6739709 original size:20 final size:20
Alignment explanation
Indices: 6739680--6739740 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
6739670 TCATGTAGGC
6739680 TATG-TATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
6739699 TATGTTATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
* * *
6739719 GAAAGTTA-TATATAAGTTAT
1 -TATGTTATTATGTAAGTTAT
6739739 TA
1 TA
6739741 AAAATGTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
TATGTTATTATGTAAGTTAT
Found at i:6739756 original size:43 final size:43
Alignment explanation
Indices: 6739704--6739861 Score: 163
Period size: 43 Copynumber: 3.5 Consensus size: 43
6739694 GTTATTATGT
*
6739704 TATTATGTAAGTTATGAAAGTTATATATAAGTTATTAAAAATG
1 TATTATGTAAGTTATGAAAGTTATATATAAGTCATTAAAAATG
* * * ***
6739747 TATTATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATG
1 TATTATGTAAGTTATGAAAG-T-TATA-TAT--AAGTCAT-TA-AAAATG
* *
6739797 TATTATGTAAGTTATGAAAGTTTTATATAAGTGATTAAAAATG
1 TATTATGTAAGTTATGAAAGTTATATATAAGTCATTAAAAATG
*
6739840 TATTATGTAAGTTATGTAAGTT
1 TATTATGTAAGTTATGAAAGTT
6739862 GTGTATTATG
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
43 42 0.45
44 3 0.03
45 9 0.10
46 3 0.03
47 3 0.03
48 9 0.10
49 3 0.03
50 21 0.23
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.44
Consensus pattern (43 bp):
TATTATGTAAGTTATGAAAGTTATATATAAGTCATTAAAAATG
Found at i:6739824 original size:93 final size:93
Alignment explanation
Indices: 6739699--6739904 Score: 376
Period size: 93 Copynumber: 2.2 Consensus size: 93
6739689 TGTAAGTTAT
* *
6739699 TATGTTATTATGTAAGTTATGAAAGTTATATATAAGTTATTAAAAATGTATTATGTAATTTATGT
1 TATG-TATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAAGTTATGT
6739764 AAGTTGTGTATTATGCAAGTCATGTAGGC
65 AAGTTGTGTATTATGCAAGTCATGTAGGC
*
6739793 TATGTATTATGTAAGTTATGAAAGTTTTATATAAGTGATTAAAAATGTATTATGTAAGTTATGTA
1 TATGTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAAGTTATGTA
6739858 AGTTGTGTATTATGCAAGTCATGTAGGC
66 AGTTGTGTATTATGCAAGTCATGTAGGC
6739886 TATGTATTATGTAAGTTAT
1 TATGTATTATGTAAGTTAT
6739905 TATGTTATTA
Statistics
Matches: 109, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
93 105 0.96
94 4 0.04
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (93 bp):
TATGTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAAGTTATGTA
AGTTGTGTATTATGCAAGTCATGTAGGC
Found at i:6739828 original size:113 final size:116
Alignment explanation
Indices: 6739616--6739960 Score: 375
Period size: 113 Copynumber: 3.0 Consensus size: 116
6739606 ATGTATAATG
* **
6739616 TAAGTTATGAAAGTTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCT
1 TAAGTTATGTAAGAAATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCT
* * * * *
6739681 ATGTATTATGTAAGTTAT-TATGTTATTATGTAAGTTATGAAAGT-TATATA
66 ATGTATTATGTAAGTTATGAAAGTT-TTATATAAGTTATAAAAATATATATA
*
6739731 TAAGTTAT-TAA-AAATGTATTATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCT
1 TAAGTTATGTAAGAAATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCT
* * *
6739794 ATGTATTATGTAAGTTATGAAAGTTTTATATAAGTGATTAAAAATGTATTATG
66 ATGTATTATGTAAGTTATGAAAGTTTTATATAAGTTA-TAAAAATATA-TATA
*** * * * * * * *
6739847 TAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGTTAT-TA---T
1 TAAGTTATGTAAGAAATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCT
* * *
6739908 GT-TATTATGTAAGTTATGAAAGTTATATATAAGTTATTAAAATATATATA
66 ATGTATTATGTAAGTTATGAAAGTTTTATATAAGTTATAAAAATATATATA
6739958 TAA
1 TAA
6739961 ATTTTTAATA
Statistics
Matches: 196, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
111 6 0.03
112 8 0.04
113 109 0.56
114 13 0.07
115 10 0.05
116 11 0.06
117 5 0.03
118 34 0.17
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (116 bp):
TAAGTTATGTAAGAAATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCT
ATGTATTATGTAAGTTATGAAAGTTTTATATAAGTTATAAAAATATATATA
Found at i:6739850 original size:23 final size:21
Alignment explanation
Indices: 6739794--6739851 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
6739784 CATGTAGGCT
* *
6739794 ATGTATTATGTAAGTTATGAA
1 ATGTATTATGTAAGTGATAAA
* *
6739815 A-GTTTTATATAAGTGATTAAAA
1 ATGTATTATGTAAGTGA-T-AAA
6739837 ATGTATTATGTAAGT
1 ATGTATTATGTAAGT
6739852 TATGTAAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 12 0.43
21 2 0.07
22 3 0.11
23 11 0.39
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (21 bp):
ATGTATTATGTAAGTGATAAA
Found at i:6739915 original size:20 final size:20
Alignment explanation
Indices: 6739886--6739946 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
6739876 TCATGTAGGC
6739886 TATG-TATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
6739905 TATGTTATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
* * *
6739925 GAAAGTTA-TATATAAGTTAT
1 -TATGTTATTATGTAAGTTAT
6739945 TA
1 TA
6739947 AAATATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
TATGTTATTATGTAAGTTAT
Found at i:6739957 original size:21 final size:21
Alignment explanation
Indices: 6739917--6740019 Score: 70
Period size: 21 Copynumber: 5.0 Consensus size: 21
6739907 TGTTATTATG
* *
6739917 TAAGTTATGAAAGT-TATATA
1 TAAGTTATTAAAATATATATA
6739937 TAAGTTATTAAAATATATATA
1 TAAGTTATTAAAATATATATA
* * *
6739958 TAAATTTTTAATATATATATTA
1 TAAGTTATTAAAATATATA-TA
* *
6739980 AAAATGTA-TATAAATAT-TA-A
1 TAAGT-TATTA-AAATATATATA
**
6740000 TAAGTTATTAAGTTATATAT
1 TAAGTTATTAAAATATATAT
6740020 TAAAAATTTA
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
19 6 0.09
20 20 0.31
21 22 0.34
22 10 0.16
23 6 0.09
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.45
Consensus pattern (21 bp):
TAAGTTATTAAAATATATATA
Found at i:6740034 original size:206 final size:206
Alignment explanation
Indices: 6739631--6739996 Score: 532
Period size: 206 Copynumber: 1.8 Consensus size: 206
6739621 TATGAAAGTT
6739631 ATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
1 ATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
* *
6739696 TATTATGTTATTATGTAAGTTATGAAAGTTATATATAAGTTATTAAAAATGTATTATGTAATTTA
66 TATTATGTTATTATGTAAGTTATGAAAGTTATATATAAGTTATTAAAAATATATTATGAAATTTA
* * ** * ** * ***
6739761 TGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGTTATGAAAGTTTTATATA
131 TGTAAGTTATATATTATAAAAGTCATATAGAATATATATTATGTAAGTTATGAAAAAATTATATA
6739826 AGTGATTAAAA
196 AGTGATTAAAA
6739837 ATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
1 ATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
6739902 TATTATGTTATTATGTAAGTTATGAAAGTTATATATAAGTTATT-AAAATATATATAT-AAATTT
66 TATTATGTTATTATGTAAGTTATGAAAGTTATATATAAGTTATTAAAAATATAT-TATGAAATTT
6739965 -T-TAA-TATATATATTA-AAAATGT-ATATA-AATAT
130 ATGTAAGT-TATATATTATAAAA-GTCATATAGAATAT
6739997 TAATAAGTTA
Statistics
Matches: 148, Mismatches: 9, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
201 3 0.02
202 7 0.05
203 12 0.08
204 1 0.01
205 13 0.09
206 112 0.76
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (206 bp):
ATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
TATTATGTTATTATGTAAGTTATGAAAGTTATATATAAGTTATTAAAAATATATTATGAAATTTA
TGTAAGTTATATATTATAAAAGTCATATAGAATATATATTATGTAAGTTATGAAAAAATTATATA
AGTGATTAAAA
Found at i:6742071 original size:22 final size:22
Alignment explanation
Indices: 6742046--6742095 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
6742036 AGTGCCTAGA
*
6742046 CTAAAAAAGGTTCAAAGTTTCC
1 CTAAAAAAGGTTCAAAGTTGCC
6742068 CTAAAAAAGGTTCAAAGTTGCC
1 CTAAAAAAGGTTCAAAGTTGCC
6742090 CTAAAA
1 CTAAAA
6742096 TAAACTTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (22 bp):
CTAAAAAAGGTTCAAAGTTGCC
Found at i:6743005 original size:104 final size:107
Alignment explanation
Indices: 6742816--6743089 Score: 364
Period size: 104 Copynumber: 2.6 Consensus size: 107
6742806 GCAAAATATT
*
6742816 ATTTCATTTTGAGCAAAATGACGCCGTTTTGCTATGCACAAAAT-TTATTATTTTGTTTTTT-TA
1 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATATT-TTATTTTGTTTTTTATA
* *
6742879 AATTGATTTATTTTTGGTGGCG-TT-TTAGGGAAAACGCCGCA
65 AATTGATTTATTTTTGGCGGCGTTTCTTAGGAAAAACGCCGCA
* **
6742920 ATTTCAATTTGAACAAAATGACATCGTTTTGCTATGCACAAAATATTTTATTTTGTTTTTTATAA
1 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATATTTTATTTTGTTTTTTATAA
* *
6742985 ATTGATTTATTTTT-GCGGCGTTTCTTATGAAAAACGCCGCT
66 ATTGATTTATTTTTGGCGGCGTTTCTTAGGAAAAACGCCGCA
* * * * *
6743026 ATTTGATTTTAAACAAAATGACGCCGTTTTACTATGCA-AATA-ATTTTATTTTTATTTTTTATA
1 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATATTTTA-TTTTGTTTTTTATA
6743089 A
65 A
6743090 TTTTATTTTT
Statistics
Matches: 149, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
104 65 0.44
105 38 0.26
106 46 0.31
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (107 bp):
ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATATTTTATTTTGTTTTTTATAA
ATTGATTTATTTTTGGCGGCGTTTCTTAGGAAAAACGCCGCA
Found at i:6743090 original size:21 final size:21
Alignment explanation
Indices: 6743065--6743104 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
6743055 TACTATGCAA
6743065 ATAATTTTATTTTTATTTTTT
1 ATAATTTTATTTTTATTTTTT
6743086 ATAATTTTATTTTTATTTT
1 ATAATTTTATTTTTATTTT
6743105 GCTATAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
ATAATTTTATTTTTATTTTTT
Found at i:6743110 original size:22 final size:21
Alignment explanation
Indices: 6743065--6743111 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6743055 TACTATGCAA
*
6743065 ATAATTTTATTTTTATTTTTT
1 ATAATTTTATTTTTATTTTCT
6743086 ATAATTTTATTTTTATTTTGCT
1 ATAATTTTATTTTTATTTT-CT
6743108 ATAA
1 ATAA
6743112 AACCGCCGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
ATAATTTTATTTTTATTTTCT
Found at i:6743673 original size:7 final size:7
Alignment explanation
Indices: 6743653--6743701 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
6743643 AACATTAAAT
6743653 CCCTAAC
1 CCCTAAC
* *
6743660 TCTTAAC
1 CCCTAAC
6743667 CCCTAAC
1 CCCTAAC
**
6743674 GTCTAAC
1 CCCTAAC
6743681 CCCTAAAC
1 CCCT-AAC
6743689 CCCTAAC
1 CCCTAAC
6743696 CCCTAA
1 CCCTAA
6743702 ACTTTAAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.31, C:0.47, G:0.02, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:6743696 original size:15 final size:15
Alignment explanation
Indices: 6743663--6743703 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
6743653 CCCTAACTCT
**
6743663 TAACCCCT-AACGTC
1 TAACCCCTAAACCCC
6743677 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
6743692 TAACCCCTAAAC
1 TAACCCCTAAAC
6743704 TTTAAATCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.34, C:0.46, G:0.02, T:0.17
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:6743723 original size:21 final size:22
Alignment explanation
Indices: 6743684--6743724 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6743674 GTCTAACCCC
6743684 TAAACCCCTAACCCCTAAACTT
1 TAAACCCCTAACCCCTAAACTT
* *
6743706 TAAATCCC-AACCCTTAAAC
1 TAAACCCCTAACCCCTAAAC
6743725 CATAATTCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACTT
Found at i:6744297 original size:114 final size:115
Alignment explanation
Indices: 6744140--6744470 Score: 459
Period size: 115 Copynumber: 2.9 Consensus size: 115
6744130 TTTTTTGCGA
* *
6744140 CGCTTTACTAAAAAACTCCGCTAAATCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTT
1 CGCTTTCCTAAAAAACGCCGCTAAAT-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTT
* * *
6744205 TATTTTACGGCGCTTCATTAAAAACGCCGCTAAATCCCTGAGCATTAGCGG
65 TATTTTGCGGCGCTTCATAAAAAACGCCGCTAAATCCCTCAGCATTAGCGG
* * * *
6744256 CGC-TTCCTAAAAAACGCCACTAAATCCGCGAAAGCTTAGAAAATGGCGTCGTTGGGCTTAGTTT
1 CGCTTTCCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTT
* * *
6744320 ATTTTGCGGCGCTTCATCAAAAACGCCGCTAAAGCCCTCAGCCTTAGCGG
66 ATTTTGCGGCGCTTCATAAAAAACGCCGCTAAATCCCTCAGCATTAGCGG
* * * *
6744370 CGCTTTCTTAAGAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTATGTC
1 CGCTTTCCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA-GTT
* * *
6744435 T-TTTTGCGGCGCTGCCTAAAAAACGCCACTAAATCC
65 TATTTTGCGGCGCTTCATAAAAAACGCCGCTAAATCC
6744471 GCGAAAGCTC
Statistics
Matches: 189, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
114 84 0.44
115 99 0.52
116 6 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (115 bp):
CGCTTTCCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTT
ATTTTGCGGCGCTTCATAAAAAACGCCGCTAAATCCCTCAGCATTAGCGG
Found at i:6744467 original size:73 final size:73
Alignment explanation
Indices: 6744366--6744613 Score: 363
Period size: 73 Copynumber: 3.4 Consensus size: 73
6744356 CTCAGCCTTA
* *
6744366 GCGGCGCTTTCTTAAGAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTA
1 GCGGCGC-TTCCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTA
6744431 TGTCTTTTT
65 TGTCTTTTT
* * * *
6744440 GCGGCGCTGCCTAAAAAACGCCACTAAATCCGCGAAAGCTCAGAAAACGGCGTCGTTGGCCTTA-
1 GCGGCGCTTCCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTAT
*
6744504 GTTTATTTT
66 GTCT-TTTT
* * *
6744513 GCGGCGCTTCCTAAGAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCGTTGGACTTAT
1 GCGGCGCTTCCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTAT
6744578 GTCTTTTT
66 GTCTTTTT
* *
6744586 GCGGCGCTTTCTCAAAAACGCCGCTAAA
1 GCGGCGCTTCCTAAAAAACGCCGCTAAA
6744614 GACCTGAGCA
Statistics
Matches: 153, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
72 3 0.02
73 140 0.92
74 10 0.07
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (73 bp):
GCGGCGCTTCCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTAT
GTCTTTTT
Found at i:6746261 original size:14 final size:16
Alignment explanation
Indices: 6746231--6746262 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
6746221 AGTTTTTTCT
6746231 ATTTTTAATTAAATTA
1 ATTTTTAATTAAATTA
6746247 ATTTTT-ATT-AATTA
1 ATTTTTAATTAAATTA
6746261 AT
1 AT
6746263 GAAATTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTTAATTAAATTA
Found at i:6747288 original size:2 final size:2
Alignment explanation
Indices: 6747281--6747310 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6747271 TGAAATTATC
6747281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6747311 TAAAAGGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6748685 original size:25 final size:25
Alignment explanation
Indices: 6748655--6748713 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
6748645 TACAGTTGTG
* *
6748655 CTGCTAGAAATATATTGCAGAA-ATA
1 CTGCTAGAAATATAGTGCA-AATAAA
*
6748680 CTGCTAGAATTATAGTGCAAATAAA
1 CTGCTAGAAATATAGTGCAAATAAA
6748705 CTGCTAGAA
1 CTGCTAGAA
6748714 GCGGACTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (25 bp):
CTGCTAGAAATATAGTGCAAATAAA
Found at i:6760063 original size:15 final size:15
Alignment explanation
Indices: 6760012--6760073 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
6760002 CCCTTTATTA
*
6760012 TTATTATTATTTA-G
1 TTATTATTATTAATG
* * *
6760026 TTCATTGTTTTTATTG
1 TT-ATTATTATTAATG
*
6760042 CTATTATTATTAATG
1 TTATTATTATTAATG
*
6760057 TTATTATTATTATTG
1 TTATTATTATTAATG
6760072 TT
1 TT
6760074 TCTACATTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 2 0.06
15 32 0.89
16 2 0.06
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (15 bp):
TTATTATTATTAATG
Found at i:6760070 original size:30 final size:30
Alignment explanation
Indices: 6760013--6760071 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
6760003 CCTTTATTAT
* * *
6760013 TATTATTATTTAGTTCATTGTTTTTATTGC
1 TATTATTATTAAGTTCATTATTATTATTGC
6760043 TATTATTATTAATGTT-ATTATTATTATTG
1 TATTATTATTAA-GTTCATTATTATTATTG
6760072 TTTCTACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.63
Consensus pattern (30 bp):
TATTATTATTAAGTTCATTATTATTATTGC
Found at i:6763619 original size:17 final size:18
Alignment explanation
Indices: 6763597--6763633 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6763587 TTATTCTTTT
6763597 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
6763614 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
6763632 AT
1 AT
6763634 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:6764366 original size:8 final size:9
Alignment explanation
Indices: 6764353--6764406 Score: 78
Period size: 9 Copynumber: 6.3 Consensus size: 9
6764343 TCAGACTAGA
*
6764353 AAAAAAATA
1 AAAAAAATC
6764362 AAAAAAATC
1 AAAAAAATC
6764371 AAAAAAATC
1 AAAAAAATC
6764380 --AAAAATC
1 AAAAAAATC
6764387 AAAAAAAT-
1 AAAAAAATC
6764395 AAAAAAATC
1 AAAAAAATC
6764404 AAA
1 AAA
6764407 GTCAAAATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
7 7 0.17
8 8 0.20
9 26 0.63
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:6764366 original size:9 final size:9
Alignment explanation
Indices: 6764352--6764455 Score: 63
Period size: 9 Copynumber: 11.6 Consensus size: 9
6764342 TTCAGACTAG
6764352 AAAAAAAAT
1 AAAAAAAAT
6764361 AAAAAAAAT
1 AAAAAAAAT
*
6764370 CAAAAAAAT
1 AAAAAAAAT
*
6764379 --CAAAAAT
1 AAAAAAAAT
*
6764386 CAAAAAAAT
1 AAAAAAAAT
6764395 -AAAAAAAT
1 AAAAAAAAT
*
6764403 CAAAGTCAAAAT
1 -AAA--AAAAAT
*
6764415 AGAAAAAAAG
1 A-AAAAAAAT
*
6764425 AAAAAGAA-
1 AAAAAAAAT
*
6764433 AAAAAAAAG
1 AAAAAAAAT
* *
6764442 AAGAAAAAG
1 AAAAAAAAT
6764451 AAAAA
1 AAAAA
6764456 GGAGAGGTCA
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
7 6 0.08
8 15 0.19
9 41 0.53
10 7 0.09
11 1 0.01
12 7 0.09
ACGTcount: A:0.81, C:0.05, G:0.07, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:6764383 original size:16 final size:17
Alignment explanation
Indices: 6764353--6764406 Score: 83
Period size: 16 Copynumber: 3.2 Consensus size: 17
6764343 TCAGACTAGA
6764353 AAAAAAATAAAAAAAATC
1 AAAAAAAT-AAAAAAATC
*
6764371 AAAAAAAT-CAAAAATC
1 AAAAAAATAAAAAAATC
6764387 AAAAAAATAAAAAAATC
1 AAAAAAATAAAAAAATC
6764404 AAA
1 AAA
6764407 GTCAAAATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 15 0.45
17 10 0.30
18 8 0.24
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAAAATAAAAAAATC
Found at i:6764421 original size:8 final size:8
Alignment explanation
Indices: 6764410--6764455 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
6764400 AATCAAAGTC
*
6764410 AAAATAGA
1 AAAAAAGA
6764418 AAAAAAGA
1 AAAAAAGA
*
6764426 AAAAGAAAA
1 AAAA-AAGA
6764435 AAAAAAGA
1 AAAAAAGA
6764443 AGAAAAAGA
1 A-AAAAAGA
6764452 AAAA
1 AAAA
6764456 GGAGAGGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 18 0.55
9 15 0.45
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:6764432 original size:14 final size:13
Alignment explanation
Indices: 6764410--6764455 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
6764400 AATCAAAGTC
*
6764410 AAAATAGAAAAAA
1 AAAAAAGAAAAAA
6764423 AGAAAAAGAAAAAA
1 A-AAAAAGAAAAAA
6764437 AAAAGAAGAAAAAGA
1 AAAA-AAGAAAAA-A
6764452 AAAA
1 AAAA
6764456 GGAGAGGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 4 0.14
14 20 0.69
15 5 0.17
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:6764440 original size:20 final size:20
Alignment explanation
Indices: 6764417--6764455 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6764407 GTCAAAATAG
6764417 AAAAAAAGAAAAAGAAAAAA
1 AAAAAAAGAAAAAGAAAAAA
*
6764437 AAAAGAAGAAAAAGAAAAA
1 AAAAAAAGAAAAAGAAAAA
6764456 GGAGAGGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAAAGAAAAAA
Found at i:6769038 original size:46 final size:46
Alignment explanation
Indices: 6768980--6769151 Score: 278
Period size: 46 Copynumber: 3.8 Consensus size: 46
6768970 AGTGATAAGT
* *
6768980 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
*
6769026 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
*
6769072 GCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC-TA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
*
6769117 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
6769152 ATCATATGTA
Statistics
Matches: 119, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
43 12 0.10
44 5 0.04
45 18 0.15
46 84 0.71
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
Found at i:6769899 original size:50 final size:50
Alignment explanation
Indices: 6769750--6770323 Score: 574
Period size: 50 Copynumber: 11.5 Consensus size: 50
6769740 GGGGTGTTAC
* * * *
6769750 AGCTACAACGGCAGATCTCACTTCCCTGACATTGCAATCAA-AAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
* * * * * * * ** * * *
6769799 GGCCACAACGGCGAATCTTA-TTTCCAGGCGGTGCAGTGGAA-CAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT-TAAGAAGATTGA
*
6769848 AGCTACAATAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
* * * * * *
6769898 AGCTACAACAGCAGATCTTACTTTCCT-AGCGTTGCAGTGGAA-CAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAAT-TAAGAAGATTGA
* *
6769948 AGCTACAACAGCAGATCTTACTTTCCTGACATTGCAATTAAGAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
* * * * * *
6769998 AGCTACAACAACGGATCTTACTTTCCT-AGCGTTGCAGTGGAA-CAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAAT-TAAGAAGATTGA
*
6770048 AGCTACAATAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
* * * * *
6770098 AGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAA-CAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAAT-TAAGAAGATTGA
* *
6770148 AGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
* * * ** * *
6770198 AGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAGCAGATTAA
1 AGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAATTAAGAAGATTGA
* *
6770248 AGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
6770298 AGCTACAACAGCGGATCTTACTTCCC
1 AGCTACAACAGCGGATCTTACTTCCC
6770324 AGGCGATGCA
Statistics
Matches: 427, Mismatches: 81, Indels: 33
0.79 0.15 0.06
Matches are distributed among these distances:
48 11 0.03
49 51 0.12
50 355 0.83
51 10 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (50 bp):
AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
Found at i:6769953 original size:100 final size:100
Alignment explanation
Indices: 6769750--6770484 Score: 951
Period size: 100 Copynumber: 7.4 Consensus size: 100
6769740 GGGGTGTTAC
* * * * * * * *
6769750 AGCTACAACGGCAGATCTCACTTCCCTGACATTGCAATCAA-AAGATTGAGGCCACAACGGCGAA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGA
*
6769814 TCTTA-TTTCC-AGGCGGTGCAGTGGAACAGATTGA
66 TCTTACTTTCCTA-GCGTTGCAGTGGAACAGATTGA
* *
6769848 AGCTACAATAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGA
6769913 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
66 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
* * *
6769948 AGCTACAACAGCAGATCTTACTTTCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAACGGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGA
6770013 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
66 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
*
6770048 AGCTACAATAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGA
6770113 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
66 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
* *
6770148 AGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGA
* *
6770213 TCTTACTTTCCTAGCGTTGCAGTGGAGCAGATTAA
66 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
* *
6770248 AGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGA
* * *
6770313 TCTTAC-TTCCCAGGCGATGCAGCGGAACAGATTGA
66 TCTTACTTTCCTA-GCGTTGCAGTGGAACAGATTGA
** * * * ** ** * * * ** *
6770348 AGCTATGACGGTGAATCTCGCTTCCCCAACATCGCAACTCAA-AAGATTGAAGCCACAATGGCGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAA-TTAAGAAGATTGAAGCTACAACAGCGG
* ** *
6770412 ATCTTAC-TTCCCAGGCAATGCAGCGGAACAGATTGA
65 ATCTTACTTTCCTA-GCGTTGCAGTGGAACAGATTGA
* * * * * *
6770448 AGCTACGACAGTGAATCTCATTTCCCCGACATTGCAA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAA
6770485 GTACATAGAT
Statistics
Matches: 577, Mismatches: 55, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
98 36 0.06
99 28 0.05
100 509 0.88
101 4 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGA
TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
Found at i:6770464 original size:50 final size:50
Alignment explanation
Indices: 6769792--6770483 Score: 467
Period size: 50 Copynumber: 13.9 Consensus size: 50
6769782 TGCAATCAAA
* * * * **
6769792 AGATTGAGGCCACAACGGCGAATCTTA-TTTCCAGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTGGAAC
* * * * * * *
6769841 AGATTGAAGCTACAATAGCGGATCTTACTTCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTGGAA-C
* *
6769891 AGATTGAAGCTACAACAGC-AGATCTTACTTTCCTA-GCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGA-ATCTTAC-TTCCCAGGCATTGCAGTGGAAC
* * * * * *
6769941 AGATTGAAGCTACAACAGC-AGATCTTACTTTCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGA-ATCTTACTTCCCAGGCATTGCAGTGGAA-C
* * * *
6769991 AGATTGAAGCTACAACAACGGATCTTACTTTCCTA-GCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTAC-TTCCCAGGCATTGCAGTGGAAC
* * * * * * *
6770041 AGATTGAAGCTACAATAGCGGATCTTACTTCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTGGAA-C
* * *
6770091 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTAC-TTCCCAGGCATTGCAGTGGAAC
* * * * * ** *
6770141 AGATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTGGAAC
* * * *
6770191 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAGC
1 AGATTGAAGCTACAACAGCGAATCTTAC-TTCCCAGGCATTGCAGTGGAAC
* * * * ** *
6770241 AGATTAAAGCTACAACAGC-AGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGA-ATCTTACTTCCCAGGCATTGCAGTGGAAC
* *
6770291 AGATTGAAGCTACAACAGCGGATCTTACTTCCCAGGCGA-TGCAGCGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGC-ATTGCAGTGGAAC
** * * ** * * * * *
6770341 AGATTGAAGCTATGACGGTGAATCTCGCTTCCCCA-ACATCGCAACT-CAAA
1 AGATTGAAGCTACAACAGCGAATCTTACTT-CCCAGGCATTGC-AGTGGAAC
* ** * *
6770391 AGATTGAAGCCACAATGGCGAATCTTACTTCCCAGGCAATGCAGCGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTGGAAC
* * * * * *
6770441 AGATTGAAGCTACGACAGTGAATCTCATTTCCCCGACATTGCA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCA
6770484 AGTACATAGA
Statistics
Matches: 485, Mismatches: 133, Indels: 49
0.73 0.20 0.07
Matches are distributed among these distances:
49 49 0.10
50 409 0.84
51 27 0.06
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTGGAAC
Found at i:6770794 original size:44 final size:44
Alignment explanation
Indices: 6770745--6770875 Score: 167
Period size: 44 Copynumber: 3.0 Consensus size: 44
6770735 CCACGAAGAG
*
6770745 TCACAAATCCTATCTCCCTGAAGTTGCAATAGAGCGGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
* *
6770789 TCACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
* ** *
6770833 TGATGAATCCTATACT-TCTGAAGTTGCAGTAG-GTCGGATTAAA
1 TCACAAATCCTAT-CTCCCTGAAGTTGCAGTAGAG-CGGATTAAA
6770876 TCTACCATAG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
43 1 0.01
44 73 0.96
45 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (44 bp):
TCACAAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
Found at i:6772418 original size:15 final size:15
Alignment explanation
Indices: 6772367--6772422 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
6772357 AGTCCCTTTA
*
6772367 TTATTATTATTTA-G
1 TTATTATTATTAATG
* * *
6772381 TTCATTGTTTTTATTG
1 TT-ATTATTATTAATG
*
6772397 CTATTATTATTAATG
1 TTATTATTATTAATG
6772412 TTATTATTATT
1 TTATTATTATT
6772423 GTTTCTACAT
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
14 2 0.06
15 27 0.87
16 2 0.06
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.64
Consensus pattern (15 bp):
TTATTATTATTAATG
Found at i:6777402 original size:30 final size:30
Alignment explanation
Indices: 6777358--6777474 Score: 144
Period size: 30 Copynumber: 3.9 Consensus size: 30
6777348 CAAGAGCTGG
* * *
6777358 CACATGAGCGTGTGGCTAGCCCCTATGGCT
1 CACACGAGCATGTGGCTAGCCCCTGTGGCT
* **
6777388 CACACGAGCATGTGGCCAGCCTGTGTGGCT
1 CACACGAGCATGTGGCTAGCCCCTGTGGCT
* *
6777418 CACACGGGCATGTGGCTAGCCCTTGTGGCT
1 CACACGAGCATGTGGCTAGCCCCTGTGGCT
* *
6777448 CACACGAGCATGTGGCTTGCCCGTGTG
1 CACACGAGCATGTGGCTAGCCCCTGTG
6777475 AAAATGCTCA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 74 1.00
ACGTcount: A:0.15, C:0.30, G:0.32, T:0.22
Consensus pattern (30 bp):
CACACGAGCATGTGGCTAGCCCCTGTGGCT
Found at i:6778569 original size:3 final size:3
Alignment explanation
Indices: 6778561--6778666 Score: 212
Period size: 3 Copynumber: 35.3 Consensus size: 3
6778551 ATACTACAAA
6778561 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
6778609 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
6778657 TAG TAG TAG T
1 TAG TAG TAG T
6778667 TCTAATAATT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 103 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:6778859 original size:26 final size:25
Alignment explanation
Indices: 6778822--6778889 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 25
6778812 AAATAGAGCC
*
6778822 AGATCTTCAAAAATATGATTATATG
1 AGATCTTTAAAAATATGATTATATG
* *
6778847 AGATCTTTAAAAAGATGATTATCTG
1 AGATCTTTAAAAATATGATTATATG
6778872 AGATCTTTTAATAAATAT
1 AGATC-TTTAA-AAATAT
6778890 TATGAAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 27 0.73
26 5 0.14
27 5 0.14
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (25 bp):
AGATCTTTAAAAATATGATTATATG
Found at i:6779842 original size:23 final size:23
Alignment explanation
Indices: 6779816--6779860 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6779806 GGAAACAGAA
* *
6779816 AAAATATTGGTTATAATAAAAAG
1 AAAATATTGGTTAGAAGAAAAAG
*
6779839 AAAATATTTGTTAGAAGAAAAA
1 AAAATATTGGTTAGAAGAAAAA
6779861 CTTTTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (23 bp):
AAAATATTGGTTAGAAGAAAAAG
Found at i:6782554 original size:41 final size:39
Alignment explanation
Indices: 6782466--6782554 Score: 106
Period size: 41 Copynumber: 2.2 Consensus size: 39
6782456 TTTATCTTTA
* *
6782466 GCGGCGTTTATGAAAAATGATGCTATTGCTTTACCTTTT
1 GCGGCGTTTATGAAAAATGACGCTATTGCTTTACATTTT
** * *
6782505 GCAACGTTTATGAGAAAAATGCCGCTATTGTTTTACATTTT
1 GCGGCGTTTAT--GAAAAATGACGCTATTGCTTTACATTTT
6782546 GCGGCGTTT
1 GCGGCGTTT
6782555 TCAATCCAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 9 0.22
41 31 0.77
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (39 bp):
GCGGCGTTTATGAAAAATGACGCTATTGCTTTACATTTT
Done.