Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 19 of 325
Found at i:6086093 original size:13 final size:13
Alignment explanation
Indices: 6086075--6086100 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6086065 CTGTGCACCC
6086075 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
6086088 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
6086101 ACAAATCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:6098117 original size:16 final size:16
Alignment explanation
Indices: 6098073--6098122 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
6098063 TCTAAAATGG
6098073 TAAAATTTT-AATTTA
1 TAAAATTTTAAATTTA
**
6098088 -AGCATTTTATAATTTA
1 TAAAATTTTA-AATTTA
*
6098104 TAAAATTTTAAATTAA
1 TAAAATTTTAAATTTA
6098120 TAA
1 TAA
6098123 TAGTAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
14 6 0.22
16 14 0.52
17 7 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TAAAATTTTAAATTTA
Found at i:6104774 original size:21 final size:21
Alignment explanation
Indices: 6104748--6104788 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6104738 ATCTGCTCAA
* *
6104748 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
6104769 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6104789 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6109850 original size:12 final size:12
Alignment explanation
Indices: 6109835--6109884 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
6109825 GAGCTGAAGC
6109835 CGAAGCCGGACT
1 CGAAGCCGGACT
*
6109847 CGAAGCCAGACT
1 CGAAGCCGGACT
*
6109859 C-AGAGTCGGAGC-
1 CGA-AGCCGGA-CT
6109871 CGAAGCCGGACT
1 CGAAGCCGGACT
6109883 CG
1 CG
6109885 GAGTCAGAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.07
12 26 0.87
13 2 0.07
ACGTcount: A:0.26, C:0.32, G:0.34, T:0.08
Consensus pattern (12 bp):
CGAAGCCGGACT
Found at i:6109902 original size:24 final size:24
Alignment explanation
Indices: 6109847--6109905 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
6109837 AAGCCGGACT
* *
6109847 CGAAGCCAGACTCAGAGTCGGAGC
1 CGAAGCCGGACTCAGAGTCAGAGC
*
6109871 CGAAGCCGGACTCGGAGTCAGAGC
1 CGAAGCCGGACTCAGAGTCAGAGC
6109895 CGAAGCCGGAC
1 CGAAGCCGGAC
6109906 GTGGATCCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.27, C:0.31, G:0.36, T:0.07
Consensus pattern (24 bp):
CGAAGCCGGACTCAGAGTCAGAGC
Found at i:6113434 original size:24 final size:24
Alignment explanation
Indices: 6113406--6113457 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6113396 TTAGCAAGTC
* *
6113406 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6113430 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6113454 AAAT
1 AAAT
6113458 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6119806 original size:11 final size:11
Alignment explanation
Indices: 6119790--6119816 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6119780 ACATGCCCAA
6119790 GTGTCTAGGCC
1 GTGTCTAGGCC
6119801 GTGTCTAGGCC
1 GTGTCTAGGCC
6119812 GTGTC
1 GTGTC
6119817 AAAACTGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.26, G:0.37, T:0.30
Consensus pattern (11 bp):
GTGTCTAGGCC
Found at i:6131128 original size:2 final size:2
Alignment explanation
Indices: 6131115--6131145 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6131105 ATGGCTAGCT
*
6131115 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6131146 TTATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:6133849 original size:21 final size:20
Alignment explanation
Indices: 6133825--6133864 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6133815 CATGTATTTT
6133825 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
6133846 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
6133865 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:6133872 original size:20 final size:21
Alignment explanation
Indices: 6133830--6133872 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6133820 ATTTTAATGA
*
6133830 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
6133851 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
6133871 TT
1 TT
6133873 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:6146070 original size:6 final size:6
Alignment explanation
Indices: 6146059--6146114 Score: 112
Period size: 6 Copynumber: 9.3 Consensus size: 6
6146049 AAAAGAAAAT
6146059 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
6146107 AATAAA AA
1 AATAAA AA
6146115 GATAAAAGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:6146121 original size:8 final size:7
Alignment explanation
Indices: 6146049--6146121 Score: 63
Period size: 6 Copynumber: 11.3 Consensus size: 7
6146039 TATGTCTTTC
*
6146049 AAAAGAA
1 AAAATAA
6146056 AATAAT-A
1 AA-AATAA
6146063 AAAAT-A
1 AAAATAA
6146069 AAAAT-A
1 AAAATAA
6146075 AAAAT-A
1 AAAATAA
6146081 AAAAT-A
1 AAAATAA
6146087 AAAAT-A
1 AAAATAA
6146093 AAAAT-A
1 AAAATAA
6146099 AAAAT-A
1 AAAATAA
6146105 AAAATAA
1 AAAATAA
6146112 AAAGATAA
1 AAA-ATAA
6146120 AA
1 AA
6146122 GGATTCAATG
Statistics
Matches: 62, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
6 45 0.73
7 9 0.15
8 8 0.13
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:6158366 original size:16 final size:17
Alignment explanation
Indices: 6158335--6158368 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6158325 GTATTCTTTC
6158335 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
6158352 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
6158368 T
1 T
6158369 TTCTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:6163737 original size:18 final size:18
Alignment explanation
Indices: 6163714--6163766 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
6163704 GATAAATCCT
6163714 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
6163732 AATCAAGGATTGACTCCC
1 AATCAAGGATTTACTCCC
*
6163750 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
6163767 TATATTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:6165443 original size:16 final size:17
Alignment explanation
Indices: 6165412--6165445 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6165402 GCATTCTCTC
6165412 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
6165429 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
6165445 T
1 T
6165446 TTCTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:6167829 original size:38 final size:38
Alignment explanation
Indices: 6167778--6167972 Score: 309
Period size: 38 Copynumber: 5.1 Consensus size: 38
6167768 AAAGGCCCAA
* *
6167778 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
6167816 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
6167854 ATATATTACCAACACGAAACCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
6167892 ATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
6167930 ATATATTACTAGTACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
6167968 ATATA
1 ATATA
6167973 CGTCGAATAT
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 144 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:6172538 original size:39 final size:39
Alignment explanation
Indices: 6172484--6172585 Score: 177
Period size: 39 Copynumber: 2.6 Consensus size: 39
6172474 CTCTTCATAG
*
6172484 AAGTACACAATCACCCAAAATACATTTCTTTTTGTAATC
1 AAGTACACAATCACCCAAAATACATTTCTTTCTGTAATC
*
6172523 AAGTACGCAATCACCCAAAATACATTTCTTTCTGTAATC
1 AAGTACACAATCACCCAAAATACATTTCTTTCTGTAATC
*
6172562 AAGTACACAATCACCCAAATTACA
1 AAGTACACAATCACCCAAAATACA
6172586 ATTTAATCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.28
Consensus pattern (39 bp):
AAGTACACAATCACCCAAAATACATTTCTTTCTGTAATC
Found at i:6175851 original size:76 final size:77
Alignment explanation
Indices: 6175721--6175873 Score: 238
Period size: 76 Copynumber: 2.0 Consensus size: 77
6175711 TTGCTAGTCT
*
6175721 GTTGAAGACACCTGTTGAAAACAATAAGAAAAAATGTGAGCCTATCAAAGGTGCAAGCTCAGCCT
1 GTTGAAGACACCTGTTGAAAACAATAAGAAAAAATGTGAACCTATCAAAGGTGCAAGCTCAGCCT
*
6175786 AGTGCGATCAGA
66 AGTGCGAGCAGA
* * *
6175798 GTTGAAGACACCTGTT-AAAGA-AGTAAGAAAAAATGTGAACCTGTCAAATGTGCAAGCTCAGCC
1 GTTGAAGACACCTGTTGAAA-ACAATAAGAAAAAATGTGAACCTATCAAAGGTGCAAGCTCAGCC
6175861 TAGTGCGAGCAGA
65 TAGTGCGAGCAGA
6175874 AAAGTGCAAG
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
76 53 0.76
77 17 0.24
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (77 bp):
GTTGAAGACACCTGTTGAAAACAATAAGAAAAAATGTGAACCTATCAAAGGTGCAAGCTCAGCCT
AGTGCGAGCAGA
Found at i:6196872 original size:26 final size:27
Alignment explanation
Indices: 6196813--6196864 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6196803 TATTTAACAT
* *
6196813 ATTATTTATTTGAAATTTGCTTTATAA
1 ATTATTTATTTCAAATTTGATTTATAA
*
6196840 ACTATTTATTTCAAA-TTGATTTATA
1 ATTATTTATTTCAAATTTGATTTATA
6196865 CTTTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (27 bp):
ATTATTTATTTCAAATTTGATTTATAA
Found at i:6196887 original size:23 final size:22
Alignment explanation
Indices: 6196844--6196887 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
6196834 TTATAAACTA
* *
6196844 TTTATTTCAAATTGATTTATAC
1 TTTATTTAAAATTGATATATAC
*
6196866 TTTATTTTAAAATTTATATATA
1 TTTA-TTTAAAATTGATATATA
6196888 TTGCTTATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTATTTAAAATTGATATATAC
Found at i:6196940 original size:28 final size:30
Alignment explanation
Indices: 6196909--6196967 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
6196899 GAACTGTTTC
6196909 ATATATTA-TTATTTTAAACCTTTT-TTTT
1 ATATATTATTTATTTTAAACCTTTTATTTT
*
6196937 ATATATTATTTATTTTAAACTTTTTATTTT
1 ATATATTATTTATTTTAAACCTTTTATTTT
6196967 A
1 A
6196968 CACTTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 8 0.29
29 15 0.54
30 5 0.18
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (30 bp):
ATATATTATTTATTTTAAACCTTTTATTTT
Found at i:6196960 original size:25 final size:25
Alignment explanation
Indices: 6196866--6196963 Score: 81
Period size: 25 Copynumber: 3.8 Consensus size: 25
6196856 TGATTTATAC
* * *
6196866 TTTATTTTAAAATTTATATATATTG
1 TTTATTTTAAACTTTTTATATATTA
* * * *
6196891 CTTATTCTGAACTGTTTCATATATTA
1 TTTATTTTAAACT-TTTTATATATTA
6196917 -TTATTTTAAACCTTTTTTTTATATATTA
1 TTTATTTTAAA-C---TTTTTATATATTA
6196945 TTTATTTTAAACTTTTTAT
1 TTTATTTTAAACTTTTTAT
6196964 TTTACACTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
25 24 0.42
26 10 0.18
28 12 0.21
29 11 0.19
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (25 bp):
TTTATTTTAAACTTTTTATATATTA
Found at i:6196964 original size:14 final size:14
Alignment explanation
Indices: 6196917--6196973 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
6196907 TCATATATTA
6196917 TTATTTTAAACCTTT
1 TTATTTTAAA-CTTT
*
6196932 TT-TTTATATA-TTAT
1 TTATTT-TAAACTT-T
6196946 TTATTTTAAACTTT
1 TTATTTTAAACTTT
*
6196960 TTATTTTACACTTT
1 TTATTTTAAACTTT
6196974 AATTGGTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
13 2 0.06
14 23 0.66
15 10 0.29
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTTAAACTTT
Found at i:6197775 original size:130 final size:127
Alignment explanation
Indices: 6197635--6197883 Score: 365
Period size: 130 Copynumber: 1.9 Consensus size: 127
6197625 AAATTCGAGA
* * *
6197635 AATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATGATCGAATATTCCTTTGG
1 AATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTC-AAATAATCGAATATTCCTTTAG
* * *
6197700 AATTTCACTTATGTTTTAAAAATTCCTTAAAACGAAGGCAACGTTCAAAGTTT-GGAAATTTGGG
65 AATATCACTCATGTTTTAAAAATT-C-TAAAAC-AAGACAACGTTCAAAGTTTAGGAAATTTGGG
6197764 G
127 G
6197765 AATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAATAATCGAATATTCCTTTAGA
1 AATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAATAATCGAATATTCCTTTAGA
** * *
6197830 ATATCACTCATGTTTTCTAAATTCTAAAACAAGACAATGTTCAACGTTTAGGAA
66 ATATCACTCATGTTTTAAAAATTCTAAAACAAGACAACGTTCAAAGTTTAGGAA
6197884 TCCGAGAAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
126 16 0.15
127 10 0.09
128 1 0.01
129 40 0.37
130 41 0.38
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (127 bp):
AATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAATAATCGAATATTCCTTTAGA
ATATCACTCATGTTTTAAAAATTCTAAAACAAGACAACGTTCAAAGTTTAGGAAATTTGGGG
Found at i:6201622 original size:43 final size:43
Alignment explanation
Indices: 6201553--6201634 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
6201543 TCTTTCAATT
* * * * *
6201553 TCATACCGTACAAACAATTATTCTTAGATTCTTTTATTCATGA
1 TCATACCATACAAACAATCATCCTTAGAATCATTTATTCATGA
*
6201596 TCATACCATACAAATAATCATCCTTAGAATCATTTATTC
1 TCATACCATACAAACAATCATCCTTAGAATCATTTATTC
6201635 TTTGGCATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (43 bp):
TCATACCATACAAACAATCATCCTTAGAATCATTTATTCATGA
Found at i:6204248 original size:45 final size:45
Alignment explanation
Indices: 6204179--6204784 Score: 163
Period size: 45 Copynumber: 13.7 Consensus size: 45
6204169 AATTCTACAA
* *
6204179 ATCTTGCCTCCCTGAAGTTACAGTGAAGCAGATCGAAGACGGCAG
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCAG
* ** *
6204224 ATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAG-C--CACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCA-G
* * ** * * * * ** ** * *
6204267 ATCCTATCTCCCT-AAGCAGTAGTGGAGTAGGTTAAAGATTGTAA
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCAG
* *
6204311 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGC-G
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCAG
* * * ** *
6204355 AATCTTGTCTTCTTGAAGTTGCAGTGAAGTAGATTTAAG-C--CACC
1 -ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCA-G
* * ** * * * * ****
6204399 ATCCTATCTCCCT-AAGCAGTAGTGGAGTAG-GCTGAAGATTATAG
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATC-GAAGACGGCAG
* *
6204443 ATCCTGTCTCCCTGAAGTTGCAGT-AGAGCAGATCGAAGATGGC-G
1 ATCTTGTCTCCCTGAAGTTGCAGTGA-AGCAGATCGAAGACGGCAG
* ** * * ** *
6204487 AATCTTGTCTTCCTGAAGTTATAGTAAAGCGGATTTAAG-C--CACC
1 -ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCA-G
* * * * * * * * * ** ** *
6204531 ATCCTATTTCCCT-AAGTAGTAATGGAGTAGGTTAAAGATTGTAG
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCAG
* * *
6204575 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGCAG
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCAG
** * ** *
6204620 ATCTTGTCTTTCTGAAGTTGCAGTGAAGTAGATTTAAG-C--CACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCA-G
* * ** * * * * ** ****
6204663 ATCCTATCTCCCT-AAGAAGTAGTGGAGTAGGTTAAAGATTATAG
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCAG
* * * *
6204707 ATCTTGCCTCACTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCAG
**
6204752 ATCTTGTCTTTCTGAAGTTGCAGTGAAGCAGAT
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGAT
6204785 TTAAGCCACC
Statistics
Matches: 389, Mismatches: 144, Indels: 56
0.66 0.24 0.10
Matches are distributed among these distances:
42 72 0.19
43 37 0.10
44 44 0.11
45 234 0.60
46 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (45 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCAG
Found at i:6204888 original size:132 final size:132
Alignment explanation
Indices: 6204179--6204862 Score: 1037
Period size: 132 Copynumber: 5.2 Consensus size: 132
6204169 AATTCTACAA
* * * *
6204179 ATCTTGCCTCCCTGAAGTTACAGTGAAGCAGATCGAAGACGGCAGATCTTGTCTTCCTGAAGTTG
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
*
6204244 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGT
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAT
*
6204309 AA
131 AG
*
6204311 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTTGTC-TTCTTGAAGTT
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTC-TGAAGTT
* * *
6204375 GCAGTGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTA
65 GCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTA
6204440 TAG
130 TAG
* * * * * * *
6204443 ATCCTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGATGGCGAATCTTGTCTTCCTGAAGTTA
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
* * * * * * *
6204508 TAGTAAAGCGGATTTAAGCCACCATCCTATTTCCCTAAGTAGTAATGGAGTAGGTTAAAGATTGT
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAT
6204573 AG
131 AG
* *
6204575 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGCAGATCTTGTCTTTCTGAAGTTG
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
* *
6204640 CAGTGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGTTAAAGATTAT
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAT
6204705 AG
131 AG
*
6204707 ATCTTGCCTCACTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
** * *
6204772 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTGAAGATTAT
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAT
6204837 AG
131 AG
* *
6204839 ATCTTGTCTCTCTGAAGTTGCAGT
1 ATCTTGCCTCCCTGAAGTTGCAGT
6204863 AGAGTACACT
Statistics
Matches: 497, Mismatches: 53, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
131 2 0.00
132 493 0.99
133 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (132 bp):
ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAT
AG
Found at i:6205032 original size:44 final size:43
Alignment explanation
Indices: 6204984--6205134 Score: 162
Period size: 44 Copynumber: 3.5 Consensus size: 43
6204974 ACCTTATCCC
*
6204984 CCTGAAGTTGCAGTGGGGCAAGTTGAAGTTACAAGTCTTATCTT
1 CCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATC-T
* * * **
6205028 CCTGAAGTTGCAGTGGAG-TAGACTGAAGATAGCAAACCTTATCT
1 CCTGAAGTTGCAGTGGAGCAAG-TTGAAGTTA-CAAGTCTTATCT
* * *
6205072 CTCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTATTATCT
1 C-CTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCT
*
6205116 -CTGAAGTTGCAGTAGAGCA
1 CCTGAAGTTGCAGTGGAGCA
6205135 GATCATAGCA
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 18 0.20
43 2 0.02
44 35 0.40
45 32 0.36
46 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (43 bp):
CCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCT
Found at i:6205048 original size:89 final size:87
Alignment explanation
Indices: 6204947--6205132 Score: 282
Period size: 89 Copynumber: 2.1 Consensus size: 87
6204937 CCCCTAAAGG
* *
6204947 TGCAGTAGAGTAGACTAAAGATAGCAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAAGTTGAAG
1 TGCAGTAGAGTAGACTAAAGATAGCAAACCTTATCCCCCTGAAGTTGCAGTGGAGCAAGTTGAAA
*
6205012 TTACAAGTCTTATCTTCCTGAAGT
66 TTACAAGTATTATC-T-CTGAAGT
* * * * *
6205036 TGCAGTGGAGTAGACTGAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAA
1 TGCAGTAGAGTAGACTAAAGATAGCAAACCTTATCCCCCTGAAGTTGCAGTGGAGCAAGTTGAAA
6205101 TTACAAGTATTATCTCTGAAGT
66 TTACAAGTATTATCTCTGAAGT
6205123 TGCAGTAGAG
1 TGCAGTAGAG
6205133 CAGATCATAG
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 16 0.18
88 1 0.01
89 71 0.81
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (87 bp):
TGCAGTAGAGTAGACTAAAGATAGCAAACCTTATCCCCCTGAAGTTGCAGTGGAGCAAGTTGAAA
TTACAAGTATTATCTCTGAAGT
Found at i:6205087 original size:45 final size:44
Alignment explanation
Indices: 6204718--6205271 Score: 238
Period size: 45 Copynumber: 12.5 Consensus size: 44
6204708 TCTTGCCTCA
** * * *
6204718 CTGAAGTTGCAGTGGAGCAGA-TCGAAGACGGCAAATCTTGTCTTT
1 CTGAAGTTGCAGTGGAGCAGACT-GAAGA-TACAAACCTTATCTCT
* * * ** * * *
6204763 CTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCC-TATCTCC
1 CTGAAGTTGCAGTGGAGCAGACTGAAGATACAAACCTTATCTCT
* * * * * * *
6204806 CT-AAGTTGTAGTGGAGTAGGCTGAAGATTATAGATCTTGTCTCT
1 CTGAAGTTGCAGTGGAGCAGACTGAAGA-TACAAACCTTATCTCT
* * * *
6204850 CTGAAGTTGCAGTAGAGTACACTGAAGATATCAAATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAACCTTATCTCT
* * * * * * * * * *
6204895 CCGAAATTACAGTAGAGCAGAGTTAAAGCTATAAACCTTATCCCC
1 CTGAAGTTGCAGTGGAGCAGA-CTGAAGATACAAACCTTATCTCT
* * * * * * *
6204940 CTAAAGGTGCAGTAGAGTAGACTAAAGATAGCAAACCTTATCCCC
1 CTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAACCTTATCTCT
* * * **
6204985 CTGAAGTTGCAGTGGGGCA-AGTTGAAGTTACAAGTCTTATCT-T
1 CTGAAGTTGCAGTGGAGCAGA-CTGAAGATACAAACCTTATCTCT
*
6205028 CCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCTTATCTCT
1 -CTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAACCTTATCTCT
** ***
6205074 CTGAAGTTGCAGTGGAGCAGGTTGAA-ATTACAAGTATTA--TCT
1 CTGAAGTTGCAGTGGAGCAGACTGAAGA-TACAAACCTTATCTCT
* * *
6205116 CTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAACCTTATTTCT
1 CTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAACCTTATCTCT
* * * * *
6205157 CTGAAGTTGCAATGGAACAGATTGAAGCTATAAATCACAGATCTTATTTCT
1 CTGAAGTTGCAGTGGAGCAGACTGAAG--AT--A-CA-A-ACCTTATCTCT
* * * *
6205208 CTGAAGTTGTAGTGGAGTAG-GTCGAA-ATTACAAACCTCATCT-T
1 CTGAAGTTGCAGTGGAGCAGACT-GAAGA-TACAAACCTTATCTCT
6205251 CCTGAAGTTGCAGTGGAGCAG
1 -CTGAAGTTGCAGTGGAGCAG
6205272 GTTAAAATAG
Statistics
Matches: 380, Mismatches: 99, Indels: 61
0.70 0.18 0.11
Matches are distributed among these distances:
38 2 0.01
39 7 0.02
41 22 0.06
42 41 0.11
43 9 0.02
44 84 0.22
45 166 0.44
46 10 0.03
47 3 0.01
48 1 0.00
49 4 0.01
50 2 0.01
51 29 0.08
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAGACTGAAGATACAAACCTTATCTCT
Found at i:6205182 original size:83 final size:88
Alignment explanation
Indices: 6204947--6205182 Score: 270
Period size: 89 Copynumber: 2.7 Consensus size: 88
6204937 CCCCTAAAGG
* * * *
6204947 TGCAGTAGAGTAGACTA-AAGATAGCAAACCTTATCCCCCTGAAGTTGCAGTGGGGCA-AGTTGA
1 TGCAGT-GAGTAGAC-AGAACATAGCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTGA
* *
6205010 AGTTACAAGTCTTATCTTCCTGAAGT
63 AATTACAAGTATTATCTTCCTGAAGT
* * *
6205036 TGCAGTGGAGTAGACTGAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAA
1 TGCAGT-GAGTAGACAGAACATAGCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAA
6205101 TTACAAGTATTATC-T-CTGAAGT
65 TTACAAGTATTATCTTCCTGAAGT
* * * *
6205123 TGCAGT-AG-AG-CAGATCATAGCAAACCTTATTTCTCTGAAGTTGCAATGGAACAGATTGAA
1 TGCAGTGAGTAGACAGAACATAGCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAA
6205183 GCTATAAATC
Statistics
Matches: 130, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
83 43 0.33
84 2 0.02
85 2 0.02
87 13 0.10
88 1 0.01
89 69 0.53
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (88 bp):
TGCAGTGAGTAGACAGAACATAGCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAAT
TACAAGTATTATCTTCCTGAAGT
Found at i:6207289 original size:26 final size:27
Alignment explanation
Indices: 6207230--6207281 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6207220 TATTTAACAT
* *
6207230 ATTATTTATTTGAAATTTGCTTTATAA
1 ATTATTTATTTCAAATTTGATTTATAA
*
6207257 ACTATTTATTTCAAA-TTGATTTATA
1 ATTATTTATTTCAAATTTGATTTATA
6207282 CTTTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (27 bp):
ATTATTTATTTCAAATTTGATTTATAA
Found at i:6207304 original size:23 final size:22
Alignment explanation
Indices: 6207261--6207304 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
6207251 TTATAAACTA
* *
6207261 TTTATTTCAAATTGATTTATAC
1 TTTATTTAAAATTGATATATAC
*
6207283 TTTATTTTAAAATTTATATATA
1 TTTA-TTTAAAATTGATATATA
6207305 TTGCTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTATTTAAAATTGATATATAC
Found at i:6207375 original size:27 final size:27
Alignment explanation
Indices: 6207326--6207377 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
6207316 GAACCGTTTC
6207326 ATATATTATTATTTTAAACCTTTTTTT
1 ATATATTATTATTTTAAACCTTTTTTT
6207353 ATATATTATTTATTTTAAA-CTTTTT
1 ATATATTA-TTATTTTAAACCTTTTT
6207378 ATTTTATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (27 bp):
ATATATTATTATTTTAAACCTTTTTTT
Found at i:6207376 original size:25 final size:25
Alignment explanation
Indices: 6207283--6207379 Score: 88
Period size: 25 Copynumber: 3.8 Consensus size: 25
6207273 TGATTTATAC
* * *
6207283 TTTATTTTAAAATTTATATATATTG
1 TTTATTTTAAACTTTTTATATATTA
* * * *
6207308 CTTATTTTGAACCGTTTCATATATTA
1 TTTATTTT-AAACTTTTTATATATTA
6207334 -TTATTTTAAACCTTTTTTTATATATTA
1 TTTATTTTAAA-C--TTTTTATATATTA
6207361 TTTATTTTAAACTTTTTAT
1 TTTATTTTAAACTTTTTAT
6207380 TTTATGCTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
24 2 0.04
25 22 0.39
26 11 0.19
27 12 0.21
28 10 0.18
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (25 bp):
TTTATTTTAAACTTTTTATATATTA
Found at i:6207389 original size:14 final size:14
Alignment explanation
Indices: 6207334--6207383 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
6207324 TCATATATTA
6207334 TTATTTTAAACCTTT
1 TTATTTTAAA-CTTT
* *
6207349 TT-TTATATA-TTAT
1 TTATTTTAAACTT-T
6207362 TTATTTTAAACTTT
1 TTATTTTAAACTTT
6207376 TTATTTTA
1 TTATTTTA
6207384 TGCTTTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 2 0.07
13 3 0.11
14 19 0.68
15 4 0.14
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTTAAACTTT
Found at i:6208267 original size:129 final size:129
Alignment explanation
Indices: 6207925--6208276 Score: 378
Period size: 129 Copynumber: 2.8 Consensus size: 129
6207915 ATTTCGATAG
* * * * * * *
6207925 ATCGTGCCCTAAT-GTGTTGGGTTTCGATCTT-TCATTTGTTTAAATAATCGAATTTTCCTTTAA
1 ATCGTGCCCT-ATCGTGCTGGGTTGCAAT-TTCTCGTTTGTTCAAATAATCGAATATTCCTTTAG
** ** * * * *
6207988 AATTTCGTTCGCGTTTTCTAAA--CCTTAAAACAAAAGCGATGTTTGATGTTTAGAAATTCGAGG
64 AATTTCACTCATGTTTTCTAAATTCCTTAAAACAAAAGCAACGTTCGAAGTTTAGAAATTCGAGG
6208051 A
129 A
* * * *
6208052 ATCGTGCCCTATCGTGCTGGGTTTCAATTTCTCGTTTGTTCAAAATGATCGCATATTCCTTTGGA
1 ATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTC-AAATAATCGAATATTCCTTTAGA
** * * * *
6208117 ATTTCACTCATG-TTTAAAAATTCCTTAAAACGAAGGCAACGTTCGAAGTTTTGAAATTCGGGGA
65 ATTTCACTCATGTTTTCTAAATTCCTTAAAACAAAAGCAACGTTCGAAGTTTAGAAATTCGAGGA
*
6208181 ATCGTGCCCTATCGTGCTGGGTTGCAATTTC-CTGTTTGTTCAAATAATTGAATATTCCTTTAGA
1 ATCGTGCCCTATCGTGCTGGGTTGCAATTTCTC-GTTTGTTCAAATAATCGAATATTCCTTTAGA
6208245 ATTTCACTCATGTTTTCTAAATT-C-TAAAACAA
65 ATTTCACTCATGTTTTCTAAATTCCTTAAAACAA
6208277 GACAATGTTC
Statistics
Matches: 187, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
126 4 0.02
127 44 0.24
128 59 0.32
129 80 0.43
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (129 bp):
ATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAATAATCGAATATTCCTTTAGAA
TTTCACTCATGTTTTCTAAATTCCTTAAAACAAAAGCAACGTTCGAAGTTTAGAAATTCGAGGA
Found at i:6208898 original size:19 final size:19
Alignment explanation
Indices: 6208874--6209000 Score: 185
Period size: 19 Copynumber: 6.9 Consensus size: 19
6208864 ATAATCTTCA
6208874 ATGATATGCAATCTTCA-AT
1 ATGATATGCAATCTT-AGAT
6208893 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6208912 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6208929 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
6208947 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6208966 ATGATAT--AATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
6208983 ATGATGTGCAATCTTAGA
1 ATGATATGCAATCTTAGA
6209001 AGATATGATT
Statistics
Matches: 100, Mismatches: 2, Indels: 12
0.88 0.02 0.11
Matches are distributed among these distances:
17 32 0.32
18 17 0.17
19 51 0.51
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:6208912 original size:14 final size:15
Alignment explanation
Indices: 6208895--6208950 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
6208885 TCTTCAATAT
6208895 GATATG-CAATCTTA
1 GATATGACAATCTTA
6208909 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
6208926 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
6208944 GATATGA
1 GATATGA
6208951 TATGTAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:6208939 original size:54 final size:55
Alignment explanation
Indices: 6208874--6209007 Score: 204
Period size: 54 Copynumber: 2.5 Consensus size: 55
6208864 ATAATCTTCA
6208874 ATGATATGCAATCTTCA-ATATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTT-AGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
* *
6208929 ATGAT-TGCAATCTTAGATATGATATGTAATCTTAGATATGATATAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
*
6208983 ATGATGTGCAATCTTAGA-A-GATATG
1 ATGATATGCAATCTTAGATATGATATG
6209008 ATTTTGTAAT
Statistics
Matches: 75, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
53 7 0.09
54 51 0.68
55 17 0.23
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (55 bp):
ATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:6208968 original size:14 final size:15
Alignment explanation
Indices: 6208902--6208987 Score: 73
Period size: 17 Copynumber: 5.0 Consensus size: 15
6208892 TATGATATGC
6208902 AATCTTAGATATGAT
1 AATCTTAGATATGAT
6208917 ACAATCTTAGATATGATT
1 --AATCTTAGATATGA-T
6208935 GCAATCTTAGATATGATATGT
1 --AATCTTAGATATG--A--T
6208956 AATCTTAGATATGATAT
1 AATCTTAGATATG--AT
6208973 AATCTTAGATATGAT
1 AATCTTAGATATGAT
6208988 GTGCAATCTT
Statistics
Matches: 63, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.03
17 28 0.44
18 15 0.24
19 16 0.25
20 1 0.02
21 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (15 bp):
AATCTTAGATATGAT
Found at i:6208998 original size:36 final size:37
Alignment explanation
Indices: 6208874--6209000 Score: 174
Period size: 36 Copynumber: 3.5 Consensus size: 37
6208864 ATAATCTTCA
6208874 ATGATATGCAATCTTCA-ATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTT-AGATATGATAT-CAATCTTAGAT
6208912 ATGATA--CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAT-CAATCTTAGAT
*
6208947 ATGATATGTAATCTTAGATATGATAT-AATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATCAATCTTAGAT
*
6208983 ATGATGTGCAATCTTAGA
1 ATGATATGCAATCTTAGA
6209001 AGATATGATT
Statistics
Matches: 82, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
35 20 0.24
36 40 0.49
37 15 0.18
38 7 0.09
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATATCAATCTTAGAT
Found at i:6209007 original size:22 final size:23
Alignment explanation
Indices: 6208979--6209023 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6208969 ATATAATCTT
6208979 AGATATGA-TGTGCAATCTTAGA
1 AGATATGATTGTGCAATCTTAGA
* *
6209001 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTGTGCAATCTTAGA
6209024 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (23 bp):
AGATATGATTGTGCAATCTTAGA
Found at i:6209026 original size:22 final size:21
Alignment explanation
Indices: 6208925--6209026 Score: 78
Period size: 19 Copynumber: 5.2 Consensus size: 21
6208915 ATACAATCTT
*
6208925 AGATATGAT-TGCAATCTT--
1 AGATATGATGTGTAATCTTAG
*
6208943 AGATATGATATGTAATCTT--
1 AGATATGATGTGTAATCTTAG
*
6208962 AGATATGA--TATAATCTT--
1 AGATATGATGTGTAATCTTAG
*
6208979 AGATATGATGTGCAATCTTAG
1 AGATATGATGTGTAATCTTAG
*
6209000 AAGATATGATTTTGTAATCTTAG
1 -AGATATGA-TGTGTAATCTTAG
6209023 AGAT
1 AGAT
6209027 TTAATTTGTA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
17 16 0.23
18 9 0.13
19 23 0.32
22 12 0.17
23 11 0.15
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (21 bp):
AGATATGATGTGTAATCTTAG
Found at i:6209314 original size:18 final size:19
Alignment explanation
Indices: 6209291--6209326 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6209281 GTTTTCCTGT
*
6209291 TTTTTTTATAT-ATTTTAA
1 TTTTTTTAAATAATTTTAA
6209309 TTTTTTTAAATAATTTTA
1 TTTTTTTAAATAATTTTA
6209327 GTATTATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTAAATAATTTTAA
Found at i:6210563 original size:22 final size:23
Alignment explanation
Indices: 6210515--6210563 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
6210505 GTAGCTTTTT
*
6210515 TATTTCTTTTAGGTTTGTCTTAC
1 TATTTCTTTTAGGTTTGCCTTAC
*
6210538 TATTT-TTTTAGTTTTAGCCTTA-
1 TATTTCTTTTAGGTTT-GCCTTAC
6210560 TATT
1 TATT
6210564 ATGCTGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.63
Consensus pattern (23 bp):
TATTTCTTTTAGGTTTGCCTTAC
Found at i:6213125 original size:20 final size:20
Alignment explanation
Indices: 6213100--6213139 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6213090 TAAATTTAGG
6213100 ATTTATATT-TATTTATCTTT
1 ATTTAT-TTGTATTTATCTTT
6213120 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
6213140 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:6217881 original size:12 final size:12
Alignment explanation
Indices: 6217864--6217889 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6217854 AAATTAAATT
6217864 AAAGAAAAAAAA
1 AAAGAAAAAAAA
6217876 AAAGAAAAAAAA
1 AAAGAAAAAAAA
6217888 AA
1 AA
6217890 GACATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAA
Found at i:6218513 original size:10 final size:10
Alignment explanation
Indices: 6218498--6218556 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
6218488 TAAATTTAGG
*
6218498 ATTTATATTT
1 ATTTATCTTT
6218508 ATTTATCTTT
1 ATTTATCTTT
*
6218518 AATTATCTTT
1 ATTTATCTTT
*
6218528 AATTATCTTT
1 ATTTATCTTT
6218538 A-TTAT-TTGT
1 ATTTATCTT-T
6218547 ATTTATCTTT
1 ATTTATCTTT
6218557 TAGAATTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
8 2 0.05
9 6 0.14
10 34 0.77
11 2 0.05
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:6240022 original size:44 final size:44
Alignment explanation
Indices: 6239959--6240049 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
6239949 AACTCTGTTT
* *
6239959 TTAGTTTCCCACTTAAACTCTAATTCGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTATAGGTTATTTTAATA
* *
6240003 TTAGTTTCCTATTTAAACTCTAATTAGTATAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTATAGGTTATTTTAATA
6240047 TTA
1 TTA
6240050 TTTGACCTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTAATTAGTATAGGTTATTTTAATA
Found at i:6243748 original size:28 final size:27
Alignment explanation
Indices: 6243702--6243763 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
6243692 TGATACTATA
6243702 TAGATCAAGAAAAACAAAGT-TTGGATC
1 TAGATCAAGAAAAACAAAGTATTGGA-C
* *
6243729 TAGATCGAGGAAAAATAAAGTATTGGAC
1 TAGATC-AAGAAAAACAAAGTATTGGAC
6243757 TAG-TCAA
1 TAGATCAA
6243764 AACATTTCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.03
27 8 0.27
28 16 0.53
29 5 0.17
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.23
Consensus pattern (27 bp):
TAGATCAAGAAAAACAAAGTATTGGAC
Found at i:6246290 original size:4 final size:4
Alignment explanation
Indices: 6246281--6246702 Score: 767
Period size: 4 Copynumber: 106.0 Consensus size: 4
6246271 TTACTACCAA
6246281 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6246329 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6246377 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6246425 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6246473 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6246521 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
6246569 TATG TATG TATG TATA AATG AATG TATA TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
6246617 TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG TGTG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
6246663 TGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6246703 AACATAGTTA
Statistics
Matches: 409, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
2 2 0.00
4 407 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:6247671 original size:17 final size:18
Alignment explanation
Indices: 6247634--6247674 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6247624 ATAAGTCTTC
*
6247634 AAAAAT-AAATAAGAGAT
1 AAAAATAAAATAAGAAAT
6247651 -AAAATAAAATAA-AAAT
1 AAAAATAAAATAAGAAAT
6247667 AAAAATAA
1 AAAAATAA
6247675 TAGTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAAATAAAATAAGAAAT
Found at i:6249317 original size:17 final size:18
Alignment explanation
Indices: 6249268--6249329 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
6249258 CTCCAAATCA
*
6249268 AAATAATAAACATAAAT-G
1 AAATAAAAAACA-AAATAG
* *
6249286 AAAGAAAGTAAACAAAA-AT
1 AAATAAA--AAACAAAATAG
6249305 AAATAAAAAACAAAATAG
1 AAATAAAAAACAAAATAG
6249323 AAATAAA
1 AAATAAA
6249330 GTGAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 8 0.23
18 13 0.37
19 9 0.26
20 5 0.14
ACGTcount: A:0.74, C:0.05, G:0.06, T:0.15
Consensus pattern (18 bp):
AAATAAAAAACAAAATAG
Found at i:6249328 original size:22 final size:23
Alignment explanation
Indices: 6249301--6249343 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6249291 AAGTAAACAA
6249301 AAATAAA-TAAAAAACAAAATAG
1 AAATAAAGTAAAAAACAAAATAG
* *
6249323 AAATAAAGTGAAAAATAAAAT
1 AAATAAAGTAAAAAACAAAAT
6249344 TTAAGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.16
Consensus pattern (23 bp):
AAATAAAGTAAAAAACAAAATAG
Found at i:6265629 original size:16 final size:16
Alignment explanation
Indices: 6265610--6265644 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6265600 CATGGAAAAG
6265610 AAAAGAAAAAATAATA
1 AAAAGAAAAAATAATA
* *
6265626 AAAATAAAATATAATA
1 AAAAGAAAAAATAATA
6265642 AAA
1 AAA
6265645 TAAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAAGAAAAAATAATA
Found at i:6274734 original size:19 final size:19
Alignment explanation
Indices: 6274710--6274750 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
6274700 AAGCACAATC
6274710 TGGCCCTAATAAAATTTTT
1 TGGCCCTAATAAAATTTTT
6274729 TGGCCCTAATAAAATTTTT
1 TGGCCCTAATAAAATTTTT
6274748 TGG
1 TGG
6274751 AAAAATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (19 bp):
TGGCCCTAATAAAATTTTT
Found at i:6281101 original size:31 final size:31
Alignment explanation
Indices: 6281066--6281129 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
6281056 TTGCACACGT
6281066 GGGCGTGAGAGAAGCGAACGAAGCTAGACAC
1 GGGCGTGAGAGAAGCGAACGAAGCTAGACAC
* *
6281097 GGGCGTGGGAGAAGTGAACGAAGCTAGACAC
1 GGGCGTGAGAGAAGCGAACGAAGCTAGACAC
6281128 GG
1 GG
6281130 TTGTGCGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.17, G:0.42, T:0.08
Consensus pattern (31 bp):
GGGCGTGAGAGAAGCGAACGAAGCTAGACAC
Found at i:6285345 original size:25 final size:26
Alignment explanation
Indices: 6285317--6285365 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6285307 TCTCATCCCA
6285317 ATTTTACCCCT-ATAAAATTTTGACG
1 ATTTTACCCCTGATAAAATTTTGACG
* *
6285342 ATTTTATCCCTGGTAAAATTTTGA
1 ATTTTACCCCTGATAAAATTTTGA
6285366 GAAAGTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (26 bp):
ATTTTACCCCTGATAAAATTTTGACG
Found at i:6289741 original size:16 final size:16
Alignment explanation
Indices: 6289720--6289750 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6289710 GTACCCAACG
6289720 GAAGAAAATATAAGGT
1 GAAGAAAATATAAGGT
6289736 GAAGAAAATATAAGG
1 GAAGAAAATATAAGG
6289751 ATCATACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (16 bp):
GAAGAAAATATAAGGT
Found at i:6291863 original size:26 final size:26
Alignment explanation
Indices: 6291741--6291863 Score: 73
Period size: 26 Copynumber: 5.0 Consensus size: 26
6291731 AGTTAAAAGT
* *
6291741 TCTTTGTGAACTTCCTGAT-TATGGC
1 TCTTTGTGAGCTTCCTGTTATATGGC
* * *
6291766 TC-TTATGAGCTTCCTATTATATAGC
1 TCTTTGTGAGCTTCCTGTTATATGGC
** *
6291791 -C-CAGATAAGCTTCCTG--ATA-GGC
1 TCTTTG-TGAGCTTCCTGTTATATGGC
* * *
6291813 TTTTTGTGAGCTACCCGATTA-ATGGC
1 TCTTTGTGAGCTTCCTG-TTATATGGC
6291839 TCTTTGTGAGCTTCCTGTTATATGG
1 TCTTTGTGAGCTTCCTGTTATATGG
6291864 TTGAGAGAGG
Statistics
Matches: 69, Mismatches: 20, Indels: 17
0.65 0.19 0.16
Matches are distributed among these distances:
22 2 0.03
23 11 0.16
24 14 0.20
25 20 0.29
26 22 0.32
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (26 bp):
TCTTTGTGAGCTTCCTGTTATATGGC
Found at i:6296113 original size:22 final size:22
Alignment explanation
Indices: 6296085--6296129 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6296075 GGCCCAATGA
6296085 ACCATGGACTTAGTTTTCCTTT
1 ACCATGGACTTAGTTTTCCTTT
6296107 ACCATGGACTTAGTTTTCCTTT
1 ACCATGGACTTAGTTTTCCTTT
6296129 A
1 A
6296130 TGATCAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (22 bp):
ACCATGGACTTAGTTTTCCTTT
Found at i:6307839 original size:17 final size:18
Alignment explanation
Indices: 6307819--6307853 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6307809 TTCTTTTCAT
6307819 TTTGGT-TTTGCATGAGC
1 TTTGGTATTTGCATGAGC
6307836 TTTGGTAATTTGCATGAG
1 TTTGGT-ATTTGCATGAG
6307854 GTCGTGCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.17, C:0.09, G:0.29, T:0.46
Consensus pattern (18 bp):
TTTGGTATTTGCATGAGC
Found at i:6311641 original size:48 final size:48
Alignment explanation
Indices: 6311561--6311836 Score: 268
Period size: 48 Copynumber: 5.8 Consensus size: 48
6311551 TTTGGATGAT
* *
6311561 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAAC
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAAC
* * ** *
6311609 ATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-TATTGAT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CAAC
* * * ***
6311657 ATGTGCA-CTAGTCTAAGACCATGTCTGAGACATGGCATCGGCCACCTT
1 ATGAG-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAAC
* * * * * ** *
6311705 ATGAGAGCCAATGTAAGACCATGTATGGGACATGACATCGGCAATGAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAAC
* * *
6311753 ACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAAC
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAAC
* * * *
6311801 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGC
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
6311837 TTTGGCAATT
Statistics
Matches: 181, Mismatches: 43, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
47 2 0.01
48 177 0.98
49 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAAC
Found at i:6311721 original size:96 final size:96
Alignment explanation
Indices: 6311574--6311845 Score: 330
Period size: 96 Copynumber: 2.8 Consensus size: 96
6311564 AGTGCCAGTG
* * *
6311574 TAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAAAGCTAGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTGTAAGACCATGTATGGGA
* * * * *
6311639 CATGGCATCGGTATTGATATGTGCA-CTAGTC
66 CATGGCATCGGCAATGAGACGAG-AGCTAGTC
* *** *
6311670 TAAGACCATGTCTGAGACATGGCATCGGCCACCTTATGAGAGCCAATGTAAGACCATGTATGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTGTAAGACCATGTATGGGA
* *
6311735 CATGACATCGGCAATGAGACGAGAGCTAGTG
66 CATGGCATCGGCAATGAGACGAGAGCTAGTC
* * * * *
6311766 TAAGACCATGTCTGGGACATGGCATCAGCCTCAACATGTGAGCCAGTGTAAGACCATGTTTGGAA
1 TAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTGTAAGACCATGTATGGGA
* *
6311831 CATGGCTTTGGCAAT
66 CATGGCATCGGCAAT
6311846 TCACCCTCTT
Statistics
Matches: 147, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
95 1 0.01
96 146 0.99
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (96 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTGTAAGACCATGTATGGGA
CATGGCATCGGCAATGAGACGAGAGCTAGTC
Found at i:6311836 original size:144 final size:144
Alignment explanation
Indices: 6311560--6311824 Score: 352
Period size: 144 Copynumber: 1.8 Consensus size: 144
6311550 ATTTGGATGA
* * * * * *
6311560 TATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAAAGCTAGTGTAA
1 TATGAGAGCCAATGTAAGACCATGTATGGGACATGACATCGGCAACAACACGAAAGCTAGTGTAA
* * ** * *
6311625 GACCATGTCTGGGACATGGCATCGGTATTGATATGTGCACTAGTCTAAGACCATGTCTGAGACAT
66 GACCATGTCTGGGACATGGCATCAGCATCAACATGTGCACCAGTCTAAGACCATGTCTGAGACAT
6311690 GGCATCGGCCACCT
131 GGCATCGGCCACCT
** * *
6311704 TATGAGAGCCAATGTAAGACCATGTATGGGACATGACATCGGCAATGAGACGAGAGCTAGTGTAA
1 TATGAGAGCCAATGTAAGACCATGTATGGGACATGACATCGGCAACAACACGAAAGCTAGTGTAA
* *
6311769 GACCATGTCTGGGACATGGCATCAGCCTCAACATGTG-AGCCAGTGTAAGACCATGT
66 GACCATGTCTGGGACATGGCATCAGCATCAACATGTGCA-CCAGTCTAAGACCATGT
6311825 TTGGAACATG
Statistics
Matches: 102, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
143 1 0.01
144 101 0.99
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (144 bp):
TATGAGAGCCAATGTAAGACCATGTATGGGACATGACATCGGCAACAACACGAAAGCTAGTGTAA
GACCATGTCTGGGACATGGCATCAGCATCAACATGTGCACCAGTCTAAGACCATGTCTGAGACAT
GGCATCGGCCACCT
Found at i:6313394 original size:55 final size:55
Alignment explanation
Indices: 6313308--6313417 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 55
6313298 AAATTATAGA
* * *
6313308 TTGCAAATTAATTATTCATGAGCACTATTCAAATTAGAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCATAAGCACTATTCAAAATAAAAGTGATGATTTATCATC
* *
6313363 TTGCAAATTAATTATTCATAAGCTCTGTTCAAAATAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCATAAGCACTATTCAAAATAAAAGTGATGATTTATCATC
6313418 CAATGGATAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (55 bp):
TTGCAAATTAATTATTCATAAGCACTATTCAAAATAAAAGTGATGATTTATCATC
Found at i:6316792 original size:16 final size:17
Alignment explanation
Indices: 6316752--6316792 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
6316742 AAACCGAATG
*
6316752 ATCTGATTGTTTGACAT
1 ATCTGATTGTTGGACAT
6316769 ATCTGATTGTTGGACAT
1 ATCTGATTGTTGGACAT
6316786 A-CTGATT
1 ATCTGATT
6316793 TGATTAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (17 bp):
ATCTGATTGTTGGACAT
Found at i:6331283 original size:11 final size:12
Alignment explanation
Indices: 6331246--6331275 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6331236 TTATAAATAA
6331246 AAAT-TAATAGC
1 AAATATAATAGC
6331257 AAATATAATAGC
1 AAATATAATAGC
6331269 AAATATA
1 AAATATA
6331276 TAGTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (12 bp):
AAATATAATAGC
Found at i:6331783 original size:25 final size:24
Alignment explanation
Indices: 6331744--6331791 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
6331734 AATTGAAATC
6331744 TATTTTTTTTATTTAAT-ATATAAT
1 TATTTTTTTTATTT-ATGATATAAT
*
6331768 TATTTTTTATTTTTTATGATATAA
1 TATTTTTT-TTATTTATGATATAA
6331792 AATAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTTTTTTTATTTATGATATAAT
Found at i:6333260 original size:17 final size:17
Alignment explanation
Indices: 6333247--6333292 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
6333237 GAAATAATAG
6333247 TTCATACAATATAACAA
1 TTCATACAATATAACAA
* * *
6333264 TTCATATAACATAACAT
1 TTCATACAATATAACAA
6333281 TTCATACAATAT
1 TTCATACAATAT
6333293 CATAACTCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (17 bp):
TTCATACAATATAACAA
Found at i:6333268 original size:34 final size:34
Alignment explanation
Indices: 6333224--6333292 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
6333214 TCGCAGAGAG
* *
6333224 TAACAGTTCATATGAA-ATAATAGTTCATACAATA
1 TAACAATTCATAT-AACATAACAGTTCATACAATA
*
6333258 TAACAATTCATATAACATAACATTTCATACAATA
1 TAACAATTCATATAACATAACAGTTCATACAATA
6333292 T
1 T
6333293 CATAACTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.33
Consensus pattern (34 bp):
TAACAATTCATATAACATAACAGTTCATACAATA
Found at i:6333711 original size:14 final size:14
Alignment explanation
Indices: 6333694--6333737 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
6333684 GCATAATTTG
*
6333694 CAATTCATAATTCA
1 CAATTCATAGTTCA
6333708 CAATATCATAGTTCA
1 CAAT-TCATAGTTCA
6333723 CAATTCATAGTTCA
1 CAATTCATAGTTCA
6333737 C
1 C
6333738 CTTAGCACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (14 bp):
CAATTCATAGTTCA
Found at i:6334155 original size:34 final size:34
Alignment explanation
Indices: 6334073--6334170 Score: 101
Period size: 34 Copynumber: 2.9 Consensus size: 34
6334063 CAATAGGGGT
* * *
6334073 TCGCAC-CATGGTACGGTTCGCACAATGTTATGAC
1 TCGCACAC-TGGTAAGGTTCGCACTATGGTATGAC
* *
6334107 TCGCACACTAGTAAGGTTCGCACTATGGTATGGC
1 TCGCACACTGGTAAGGTTCGCACTATGGTATGAC
* *
6334141 TGGCACAAC-GGTAAGGTTCACACTATGGTA
1 TCGCAC-ACTGGTAAGGTTCGCACTATGGTA
6334171 GGGGTTAGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
34 51 0.94
35 3 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (34 bp):
TCGCACACTGGTAAGGTTCGCACTATGGTATGAC
Found at i:6334170 original size:17 final size:17
Alignment explanation
Indices: 6334070--6334200 Score: 75
Period size: 17 Copynumber: 7.6 Consensus size: 17
6334060 TATCAATAGG
* *
6334070 GGTTCGCACCATGGTAC
1 GGTTCGCACTATGGTAA
* * *
6334087 GGTTCGCACAATGTTAT
1 GGTTCGCACTATGGTAA
** *
6334104 GACTCGCAC-ACTAGTAA
1 GGTTCGCACTA-TGGTAA
*
6334121 GGTTCGCACTATGGTAT
1 GGTTCGCACTATGGTAA
* * * *
6334138 GGCTGGCACAACGGTAA
1 GGTTCGCACTATGGTAA
* *
6334155 GGTTCACACTATGGTAGG
1 GGTTCGCACTATGGTA-A
* *
6334173 GGTTAGCACTATAGGTAG
1 GGTTCGCACTAT-GGTAA
6334191 GGTTCGCACT
1 GGTTCGCACT
6334201 TTAGGTAGGA
Statistics
Matches: 84, Mismatches: 26, Indels: 7
0.72 0.22 0.06
Matches are distributed among these distances:
16 1 0.01
17 58 0.69
18 21 0.25
19 4 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (17 bp):
GGTTCGCACTATGGTAA
Found at i:6334191 original size:19 final size:19
Alignment explanation
Indices: 6334161--6334209 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
6334151 GTAAGGTTCA
6334161 CACTAT-GGTAGGGGTTAG
1 CACTATAGGTAGGGGTTAG
*
6334179 CACTATAGGTA-GGGTTCG
1 CACTATAGGTAGGGGTTAG
*
6334197 CACTTTAGGTAGG
1 CACTATAGGTAGG
6334210 AGTTTGCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.29
Consensus pattern (19 bp):
CACTATAGGTAGGGGTTAG
Found at i:6334502 original size:22 final size:22
Alignment explanation
Indices: 6334476--6334583 Score: 128
Period size: 22 Copynumber: 4.8 Consensus size: 22
6334466 ACAAGGTTTG
*
6334476 CATATCATTCAACATCGGTTCA
1 CATATCATTCAACATAGGTTCA
* *
6334498 TATATCATTCAACATAGCATGTTCG
1 CATATCATTCAACATAG---GTTCA
* *
6334523 TATA-CAATTCAACATAAGTTCA
1 CATATC-ATTCAACATAGGTTCA
6334545 CATATCATTCAACATAGGTTCA
1 CATATCATTCAACATAGGTTCA
6334567 CATATCATTCAACATAG
1 CATATCATTCAACATAG
6334584 CATGTTCGTA
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
22 54 0.73
23 1 0.01
24 1 0.01
25 18 0.24
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.32
Consensus pattern (22 bp):
CATATCATTCAACATAGGTTCA
Found at i:6334662 original size:18 final size:18
Alignment explanation
Indices: 6334641--6334687 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
6334631 AGGATTCGCA
6334641 TATTAACAAGGGGTTGCT
1 TATTAACAAGGGGTTGCT
6334659 TATTAACAAGGGGTTGCT
1 TATTAACAAGGGGTTGCT
6334677 TATTAACAAGG
1 TATTAACAAGG
6334688 CAGTGTTCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (18 bp):
TATTAACAAGGGGTTGCT
Found at i:6343660 original size:15 final size:16
Alignment explanation
Indices: 6343628--6343668 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
6343618 CACTTGATTC
6343628 AATAAAAAAAATTCAA
1 AATAAAAAAAATTCAA
6343644 AATAAAATAAAA-T-AA
1 AATAAAA-AAAATTCAA
6343659 AATAATAAAA
1 AATAA-AAAA
6343669 CTTACAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 9 0.39
16 10 0.43
17 4 0.17
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
AATAAAAAAAATTCAA
Found at i:6345687 original size:13 final size:13
Alignment explanation
Indices: 6345669--6345693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6345659 AAAAAGCTTG
6345669 TTTTTTTTGGGTT
1 TTTTTTTTGGGTT
6345682 TTTTTTTTGGGT
1 TTTTTTTTGGGT
6345694 GTTAAGAAAA
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:0.00, G:0.24, T:0.76
Consensus pattern (13 bp):
TTTTTTTTGGGTT
Found at i:6349662 original size:25 final size:25
Alignment explanation
Indices: 6349627--6349690 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
6349617 GAGCTATAAA
* *
6349627 CGGGAATCTCATGTGAGCTGGATAAT
1 CGGGAAGCTCATGCGAGCTGGA-AAT
* *
6349653 -GGGAAGCTCATACGAGCTGTAAAT
1 CGGGAAGCTCATGCGAGCTGGAAAT
*
6349677 CGGAAAGCTCATGC
1 CGGGAAGCTCATGC
6349691 AATCTTAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 3 0.10
25 28 0.90
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (25 bp):
CGGGAAGCTCATGCGAGCTGGAAAT
Found at i:6359854 original size:26 final size:27
Alignment explanation
Indices: 6359825--6359878 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
6359815 CTTGAAGTAT
* *
6359825 ACTTTTTT-TCTCATTTTGATATCTAA
1 ACTTTTTTATCCCATTTTAATATCTAA
6359851 ACTTTTTTATCCCATTTTAATATCTAA
1 ACTTTTTTATCCCATTTTAATATCTAA
6359878 A
1 A
6359879 GTATCAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.28, C:0.17, G:0.02, T:0.54
Consensus pattern (27 bp):
ACTTTTTTATCCCATTTTAATATCTAA
Found at i:6360180 original size:27 final size:27
Alignment explanation
Indices: 6360149--6360202 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
6360139 TAAAAATGTA
*
6360149 AAAAAATTATATATAATATATAATTTTT
1 AAAAAATTATA-AAAATATATAATTTTT
*
6360177 AAAAAATTTTAAAAATATATAATTTT
1 AAAAAATTATAAAAATATATAATTTT
6360203 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
AAAAAATTATAAAAATATATAATTTTT
Found at i:6360238 original size:20 final size:19
Alignment explanation
Indices: 6360209--6360253 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6360199 TTTTAAATTT
6360209 TAAAAA-TC-AAAATAATATA
1 TAAAAATTCAAAAAT-AT-TA
6360228 TAAAAATTCAAAAATATTA
1 TAAAAATTCAAAAATATTA
6360247 TAAAAAT
1 TAAAAAT
6360254 AAATTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 15 0.62
20 4 0.17
21 5 0.21
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAAATTCAAAAATATTA
Found at i:6360280 original size:236 final size:241
Alignment explanation
Indices: 6360018--6360499 Score: 610
Period size: 233 Copynumber: 2.0 Consensus size: 241
6360008 AAAAAATAGA
*
6360018 AAATTATAATATTAAATATTTAAATATTAAAA-A-AAATGATTTTGACTAATCAAT-CCCGGCCA
1 AAATTATAATATTAAATATTTAAATATTAAAACACAAATGATTTTGACAAATCAATGCCCGGCCA
* * *
6360080 CATGGTGTTATTGTCTTTTTTTTTAAAATTTTTTTTAGTATTATATATATTATATTAATTAAAAA
66 CATGGCGCTATTGTC---CTTTTT---ATTTTTTTTAGTATTATATATATTATATTAATTAAAAA
* *
6360145 TGTAAAAAAATTATATATAATATAT-A-A-TTTT-T-AA-AAAAT-TTTAAAAATATATAATTTT
125 TGT-AAAAAATCATATATAATATATAATATTTTTATAAATAAAATATTTAAAAATATATAATTTA
*
6360203 AAATTTTAAAAA-TCAAAATAATATATAAAAATT-CAAAAATATTATAAAAAT
189 AAATTTTAAAAAGTCAAAATAATATATAAAAATTAAAAAAATATTATAAAAAT
*** ***
6360254 AAATTATAATATTAAATATTTAAATATTAAAACACTTTTGATTTTGACAAATCAATGGTTGGCCA
1 AAATTATAATATTAAATATTTAAATATTAAAACACAAATGATTTTGACAAATCAATGCCCGGCCA
* *
6360319 CGTGGCGCTATTGTCCTTTTTATTTTTTTTAGTATTATATATATTATATTGATTAAAAATGTAAA
66 CATGGCGCTATTGTCCTTTTTATTTTTTTTAGTATTATATATATTATATTAATTAAAAATGTAAA
* *
6360384 ATATCATATATAATATATAATATTTTTAAAAATAAAAATAAAATATTTATAAATATATAATTTAA
131 AAATCATATATAATATATAATATTTTT----AT--AAATAAAATATTTAAAAATATATAATTTAA
6360449 AATTTTAAAAAGTCAAAATAATATATAAAAATTAAAAAAATATTATAAAAA
190 AATTTTAAAAAGTCAAAATAATATATAAAAATTAAAAAAATATTATAAAAA
6360500 AGTAATTAAA
Statistics
Matches: 211, Mismatches: 17, Indels: 25
0.83 0.07 0.10
Matches are distributed among these distances:
232 19 0.09
233 41 0.19
234 1 0.00
235 4 0.02
236 37 0.18
237 1 0.00
238 17 0.08
239 17 0.08
240 1 0.00
243 2 0.01
244 5 0.02
245 29 0.14
246 21 0.10
247 16 0.08
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.41
Consensus pattern (241 bp):
AAATTATAATATTAAATATTTAAATATTAAAACACAAATGATTTTGACAAATCAATGCCCGGCCA
CATGGCGCTATTGTCCTTTTTATTTTTTTTAGTATTATATATATTATATTAATTAAAAATGTAAA
AAATCATATATAATATATAATATTTTTATAAATAAAATATTTAAAAATATATAATTTAAAATTTT
AAAAAGTCAAAATAATATATAAAAATTAAAAAAATATTATAAAAAT
Found at i:6360432 original size:21 final size:21
Alignment explanation
Indices: 6360408--6360499 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 21
6360398 ATATAATATT
6360408 TTTAAAAATAAAAATAAAATA
1 TTTAAAAATAAAAATAAAATA
**
6360429 TTTATAAATATATAATTTAAAAT-
1 TTTA-AAA-ATA-AAAATAAAATA
*
6360452 TTTAAAAAGTCAAAAT--AATA
1 TTTAAAAA-TAAAAATAAAATA
* *
6360472 TATAAAAAT-TAAA-AAAATA
1 TTTAAAAATAAAAATAAAATA
6360491 TTATAAAAA
1 TT-TAAAAA
6360500 AGTAATTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
18 3 0.05
19 9 0.16
20 13 0.24
21 8 0.15
22 7 0.13
23 7 0.13
24 8 0.15
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (21 bp):
TTTAAAAATAAAAATAAAATA
Found at i:6360616 original size:27 final size:30
Alignment explanation
Indices: 6360566--6360632 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 30
6360556 GAATTATGTA
*
6360566 TTTTAGAATTTTATATAAAAA-TTTA-ATT
1 TTTTATAATTTTATATAAAAATTTTATATT
6360594 TTTTATAATTTT-TA-AAAATATTTTATATT
1 TTTTATAATTTTATATAAAA-ATTTTATATT
6360623 TTTTAATAAT
1 TTTT-ATAAT
6360633 ATTGTTAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
26 4 0.12
27 3 0.09
28 15 0.44
29 7 0.21
30 5 0.15
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTTATAATTTTATATAAAAATTTTATATT
Found at i:6360644 original size:19 final size:20
Alignment explanation
Indices: 6360597--6360644 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
6360587 TTTAATTTTT
* *
6360597 TATAATTTTTAAAAATATTT
1 TATAGTTTTTAAAAATATTG
* *
6360617 TATATTTTTTAATAATATTG
1 TATAGTTTTTAAAAATATTG
6360637 T-TAGTTTT
1 TATAGTTTT
6360645 AACTAATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATAGTTTTTAAAAATATTG
Found at i:6360644 original size:20 final size:20
Alignment explanation
Indices: 6360594--6360635 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6360584 AAATTTAATT
*
6360594 TTTTATAATTTTTAAAAATA
1 TTTTATATTTTTTAAAAATA
*
6360614 TTTTATATTTTTTAATAATA
1 TTTTATATTTTTTAAAAATA
6360634 TT
1 TT
6360636 GTTAGTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATATTTTTTAAAAATA
Found at i:6360748 original size:19 final size:19
Alignment explanation
Indices: 6360724--6360760 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6360714 TTATATATAT
6360724 TTTTATTTTTATACATTTA
1 TTTTATTTTTATACATTTA
*
6360743 TTTTATTTTTATATATTT
1 TTTTATTTTTATACATTT
6360761 TAATGTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATTTTTATACATTTA
Found at i:6360777 original size:37 final size:36
Alignment explanation
Indices: 6360709--6360779 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 36
6360699 TATAAAAAAA
* * *
6360709 TTATTTTATATATATTTTTATTTTTATACATTTATT
1 TTATTTTATATATATTTTAATTTATAAACATTTATT
6360745 TTATTTT-TATATATTTTAATGTGTATAAACATTTA
1 TTATTTTATATATATTTTAAT-T-TATAAACATTTA
6360780 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 12 0.40
36 8 0.27
37 10 0.33
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (36 bp):
TTATTTTATATATATTTTAATTTATAAACATTTATT
Found at i:6363625 original size:18 final size:18
Alignment explanation
Indices: 6363602--6363637 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6363592 TACGAACACA
6363602 ACCCATTATTTTGTCAAT
1 ACCCATTATTTTGTCAAT
6363620 ACCCATTATTTTGTCAAT
1 ACCCATTATTTTGTCAAT
6363638 CCACTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (18 bp):
ACCCATTATTTTGTCAAT
Found at i:6367872 original size:48 final size:48
Alignment explanation
Indices: 6367820--6368086 Score: 268
Period size: 48 Copynumber: 5.6 Consensus size: 48
6367810 AGAGACAGTT
* *
6367820 TAAGATCATGT-TGAGGACATGGCATCGGTGTTGATATGTGCGCTAGTG
1 TAAGACCATGTCTG-GGACATGGCATCGGCGTTGATATGTGCGCTAGTG
* * *
6367868 TAAGACCATGTCTGGGACATGGCATTGGCGTTGATATGAGCGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTG
*
6367916 TAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGCGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTG
* * **** * * *
6367964 TAAGACCATGTCTGGGACATGGCGTCAGCCACAATATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTG
* * * * * * * * * *
6368012 TAAGACC-TTTTTGGAACATGACATCGACATTGAGACGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTG
* *
6368059 TAAGACTATGTCTGGGGCATGGCATCGG
1 TAAGACCATGTCTGGGACATGGCATCGG
6368087 TAATTTACTC
Statistics
Matches: 179, Mismatches: 38, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
47 32 0.18
48 145 0.81
49 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTG
Found at i:6367920 original size:96 final size:96
Alignment explanation
Indices: 6367755--6368086 Score: 339
Period size: 96 Copynumber: 3.5 Consensus size: 96
6367745 GACATTTGAG
** * * * *
6367755 TGATATGTATGCTAGTGTAAGACCATGTTTGGAACATGACATCGGCCACATTATGAGAGACAGTT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGACAGTG
* * *
6367820 TAAGATCATGT-TGAGGACATGGCATCGGTGT
66 TAAGACCATGTCTG-GGACATGGCATCAGCGT
* *** * *
6367851 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCGTTGA-TATGAGCGCCAGT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGACAGT
6367915 GTAAGACCATGTCTGGGACATGGCATCAGCGT
65 GTAAGACCATGTCTGGGACATGGCATCAGCGT
* * * *
6367947 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCACAATATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGACAGTG
* * * * *
6368012 TAAGACC-TTTTTGGAACATGACATC-GACAT
66 TAAGACCATGTCTGGGACATGGCATCAG-CGT
* * * * * *
6368042 TGAGACGAGAGCTAGTGTAAGACTATGTCTGGGGCATGGCATCGG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
6368087 TAATTTACTC
Statistics
Matches: 197, Mismatches: 35, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
94 1 0.01
95 54 0.27
96 139 0.71
97 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (96 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGACAGTG
TAAGACCATGTCTGGGACATGGCATCAGCGT
Found at i:6370106 original size:35 final size:35
Alignment explanation
Indices: 6370066--6370135 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
6370056 ACAACCCACA
6370066 CCACCCAATTATTCTTTGAAAGAGAATAAAGATGG
1 CCACCCAATTATTCTTTGAAAGAGAATAAAGATGG
6370101 CCACCCAATTATTCTTTGAAAGAGAATAAAGATGG
1 CCACCCAATTATTCTTTGAAAGAGAATAAAGATGG
6370136 TATTCTCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (35 bp):
CCACCCAATTATTCTTTGAAAGAGAATAAAGATGG
Found at i:6370207 original size:28 final size:29
Alignment explanation
Indices: 6370167--6370238 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
6370157 AAACGGTATT
* * * *
6370167 AAATGTAAAGAAAAGACATTAAGACA-TA
1 AAATGCAAGGAAAAAACATTAAAACATTA
* *
6370195 AAATGCATGGAAAAAACATTAAAACATTT
1 AAATGCAAGGAAAAAACATTAAAACATTA
6370224 AAATGCAAGGAAAAA
1 AAATGCAAGGAAAAA
6370239 GCTATTGTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 21 0.58
29 15 0.42
ACGTcount: A:0.60, C:0.08, G:0.14, T:0.18
Consensus pattern (29 bp):
AAATGCAAGGAAAAAACATTAAAACATTA
Found at i:6370306 original size:17 final size:17
Alignment explanation
Indices: 6370269--6370311 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
6370259 TCACAAACCA
6370269 ATTTTTTTTTTTTCACT
1 ATTTTTTTTTTTTCACT
*
6370286 -TTTTTTATTTTTT-GCT
1 ATTTTTT-TTTTTTCACT
6370302 ATTTTTTTTT
1 ATTTTTTTTT
6370312 CACTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.81
Consensus pattern (17 bp):
ATTTTTTTTTTTTCACT
Found at i:6371722 original size:68 final size:68
Alignment explanation
Indices: 6371613--6371750 Score: 267
Period size: 68 Copynumber: 2.0 Consensus size: 68
6371603 CCCATCCAAA
6371613 CCCTAGTCAATCATCGCCTGCTTAGGCCCATCCCTTGCAATCATCTCTCATAAAGAATTCTTTGC
1 CCCTAGTCAATCATCGCCTGCTTAGGCCCATCCCTTGCAATCATCTCTCATAAAGAATTCTTTGC
6371678 AAC
66 AAC
*
6371681 CCCTAGTCAATCATCGCCTGCTTAGGCCCATCCCTTGCAATCATCTCTCATAAAGAATTCTTTGG
1 CCCTAGTCAATCATCGCCTGCTTAGGCCCATCCCTTGCAATCATCTCTCATAAAGAATTCTTTGC
6371746 AAC
66 AAC
6371749 CC
1 CC
6371751 ATGAATTTAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.29
Consensus pattern (68 bp):
CCCTAGTCAATCATCGCCTGCTTAGGCCCATCCCTTGCAATCATCTCTCATAAAGAATTCTTTGC
AAC
Found at i:6373153 original size:7 final size:7
Alignment explanation
Indices: 6373141--6373168 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6373131 TATAGCTTCA
6373141 TATTATT
1 TATTATT
6373148 TATTATT
1 TATTATT
6373155 TATTATT
1 TATTATT
6373162 TATTATT
1 TATTATT
6373169 ACTCACGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTATT
Found at i:6375811 original size:24 final size:25
Alignment explanation
Indices: 6375766--6375812 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
6375756 TATTTTTGAG
* *
6375766 TCTTTTTTTGCCATCAATTTTTTGT
1 TCTTTTTTTGCAATCAACTTTTTGT
*
6375791 TCTTTTTTT-CAATCTACTTTTT
1 TCTTTTTTTGCAATCAACTTTTT
6375813 CTAACAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.13, C:0.17, G:0.04, T:0.66
Consensus pattern (25 bp):
TCTTTTTTTGCAATCAACTTTTTGT
Found at i:6375999 original size:19 final size:19
Alignment explanation
Indices: 6375975--6376029 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
6375965 TTAGATTAAA
6375975 AAATAACTCATAATTATCT
1 AAATAACTCATAATTATCT
6375994 AAAT-A---A-AATTA---
1 AAATAACTCATAATTATCT
6376005 AAATAACTCATAATTATCT
1 AAATAACTCATAATTATCT
6376024 AAATAA
1 AAATAA
6376030 AATTAACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 4 0.14
12 1 0.04
14 5 0.18
15 2 0.07
16 5 0.18
18 1 0.04
19 10 0.36
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAACTCATAATTATCT
Found at i:6376010 original size:30 final size:30
Alignment explanation
Indices: 6375974--6376035 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
6375964 ATTAGATTAA
6375974 AAAATAACTCATAATTATCTAAATAAAATT
1 AAAATAACTCATAATTATCTAAATAAAATT
6376004 AAAATAACTCATAATTATCTAAATAAAATT
1 AAAATAACTCATAATTATCTAAATAAAATT
6376034 AA
1 AA
6376036 CTCAGTAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAATAACTCATAATTATCTAAATAAAATT
Found at i:6378868 original size:44 final size:44
Alignment explanation
Indices: 6378769--6378929 Score: 214
Period size: 44 Copynumber: 3.5 Consensus size: 44
6378759 CTGATCACAT
6378769 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
6378813 TTATCACTTATCATTTGTCACTGATTAGATAAGTGTAGCTAAATCTACCAC
1 TTAT--C--A-C--TTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
6378864 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
6378908 TTATTACTTGTCACTGATCAGA
1 TTATCACTTGTCACTGATCAGA
6378930 AGTACTCAAA
Statistics
Matches: 103, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
44 58 0.56
46 2 0.02
47 1 0.01
48 1 0.01
49 2 0.02
51 39 0.38
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (44 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:6386612 original size:37 final size:37
Alignment explanation
Indices: 6386562--6386646 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
6386552 TCACATTTAT
*
6386562 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
6386599 CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTAC
6386636 CACTTATCACT
1 CACTTATCACT
6386647 TGTCACTTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (37 bp):
CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:6386645 original size:7 final size:7
Alignment explanation
Indices: 6386633--6386672 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
6386623 TAGCTAAAGC
6386633 TATCACT
1 TATCACT
6386640 TATCACT
1 TATCACT
*
6386647 TGTCACT
1 TATCACT
*
6386654 TGTCACT
1 TATCACT
6386661 TATCACT
1 TATCACT
*
6386668 GATCA
1 TATCA
6386673 GATAAGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.25, C:0.28, G:0.07, T:0.40
Consensus pattern (7 bp):
TATCACT
Found at i:6386665 original size:58 final size:58
Alignment explanation
Indices: 6386599--6386711 Score: 199
Period size: 58 Copynumber: 1.9 Consensus size: 58
6386589 CTAAAGCTAC
*
6386599 CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTGTCACTTGT
1 CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGT
* *
6386657 CACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTCACT
1 CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACT
6386712 GATCAGAAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (58 bp):
CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGT
Found at i:6392755 original size:29 final size:30
Alignment explanation
Indices: 6392721--6392791 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
6392711 TATTATAGAG
* *
6392721 AATGAATCAAATTAG-TCTTTTTATTATT-A
1 AATGAATCAAATTAGTTC-TTATACTATTAA
* *
6392750 AATGAATTAATTTAGTTCTTATACTATTAA
1 AATGAATCAAATTAGTTCTTATACTATTAA
*
6392780 AAAGAATCAAAT
1 AATGAATCAAAT
6392792 ATGTTCAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (30 bp):
AATGAATCAAATTAGTTCTTATACTATTAA
Found at i:6393320 original size:30 final size:30
Alignment explanation
Indices: 6393286--6393347 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
6393276 CTTAACAAGT
*
6393286 AAATGCCTCTAAAATAAAAATAAAATTAAC
1 AAATGCCTCTAAAATAAAAACAAAATTAAC
* * *
6393316 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAAAAACAAAATTAAC
6393346 AA
1 AA
6393348 CAAAATAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAAAAACAAAATTAAC
Found at i:6393432 original size:22 final size:22
Alignment explanation
Indices: 6393385--6393434 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6393375 CAATAACAAC
* *
6393385 AAAATAGTAGTAACATAATAGT
1 AAAATAGTAGTAAAATAAGAGT
*
6393407 AAAATGGTAGTAAAATAAGGAG-
1 AAAATAGTAGTAAAATAA-GAGT
6393429 AAAATA
1 AAAATA
6393435 ATAAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.58, C:0.02, G:0.18, T:0.22
Consensus pattern (22 bp):
AAAATAGTAGTAAAATAAGAGT
Found at i:6395912 original size:23 final size:23
Alignment explanation
Indices: 6395886--6395929 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6395876 TAATTAGAAA
*
6395886 AATTAATTAA-ATTTATTTTAATT
1 AATTAAATAATATTT-TTTTAATT
6395909 AATTAAATAATATTTTTTTAA
1 AATTAAATAATATTTTTTTAA
6395930 ATAGAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATTAAATAATATTTTTTTAATT
Found at i:6395929 original size:19 final size:19
Alignment explanation
Indices: 6395886--6395924 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
6395876 TAATTAGAAA
*
6395886 AATTAATTAAATTTATTTT
1 AATTAATTAAATATATTTT
6395905 AATTAATTAAATAATATTTT
1 AATTAATTAAAT-ATATTTT
6395925 TTTAAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTAATTAAATATATTTT
Found at i:6397637 original size:116 final size:116
Alignment explanation
Indices: 6397433--6397662 Score: 433
Period size: 116 Copynumber: 2.0 Consensus size: 116
6397423 TTAAGGATCG
*
6397433 ACTTTTCGAATCTCAAAATACGAGATATTGCTTGTTTAAAACAACATTTTAGTGTGTCGGGTAAA
1 ACTTTTCGAATCTCAAAAGACGAGATATTGCTTGTTTAAAACAACATTTTAGTGTGTCGGGTAAA
* *
6397498 ATGTAACACTATTTCGTAGTAAAATGGAAAATGGATTACGGTACCGATAAT
66 ATGTAACACTATTTCGTAGTAAAATGGAAAATGGATTACGATAACGATAAT
6397549 ACTTTTCGAATCTCAAAAGACGAGATATTGCTTGTTTAAAACAACATTTTAGTGTGTCGGGTAAA
1 ACTTTTCGAATCTCAAAAGACGAGATATTGCTTGTTTAAAACAACATTTTAGTGTGTCGGGTAAA
6397614 ATGTAACACTATTTCGTAGTAAAATGGAAAATGGATTACGATAACGATA
66 ATGTAACACTATTTCGTAGTAAAATGGAAAATGGATTACGATAACGATA
6397663 TGCATAATCG
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 111 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (116 bp):
ACTTTTCGAATCTCAAAAGACGAGATATTGCTTGTTTAAAACAACATTTTAGTGTGTCGGGTAAA
ATGTAACACTATTTCGTAGTAAAATGGAAAATGGATTACGATAACGATAAT
Found at i:6397899 original size:20 final size:21
Alignment explanation
Indices: 6397866--6397904 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6397856 AATAATAGAA
* *
6397866 AATAATAATGGTAA-AAAAGT
1 AATAACAATAGTAATAAAAGT
6397886 AATAACAATAGTAATAAAA
1 AATAACAATAGTAATAAAA
6397905 ATAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (21 bp):
AATAACAATAGTAATAAAAGT
Found at i:6398136 original size:3 final size:3
Alignment explanation
Indices: 6397818--6398117 Score: 184
Period size: 3 Copynumber: 99.3 Consensus size: 3
6397808 AAAAATGATG
* * * * *
6397818 ATA ATG ATA ATG ATA ATG ATA ATA ATA ATA ATA GTA ATA ATA ATA GAAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * *
6397867 ATA ATA ATG GTA A-A A-A AGTA ATA ACA ATA GTA ATA AAA ATA AAA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** * * *
6397911 ATA AAA ACA GCA ATG ATA ATA ATA ATA TTG ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * *
6397957 GTA A-A A-A ATA GTA ATA ATA GAAA ATA ATA ATA ATA A-A ATGA AGA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA AT-A ATA
* * *
6398001 ATA ATA ATA CATTA ATA ATA A-A ATA AGGA ATA ATA ATA ATA ACA ACA
1 ATA ATA ATA -A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* *
6398048 ATA AT- ATAA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
6398093 GTGA A-A ATA ATA ATA GTG ATA ATA A
1 AT-A ATA ATA ATA ATA ATA ATA ATA A
6398118 ATTAATTAAT
Statistics
Matches: 226, Mismatches: 55, Indels: 32
0.72 0.18 0.10
Matches are distributed among these distances:
2 16 0.07
3 190 0.84
4 18 0.08
5 2 0.01
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:6398528 original size:20 final size:21
Alignment explanation
Indices: 6398495--6398533 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6398485 AATAATAGAA
* *
6398495 AATAATAATGGTAA-AAAAGT
1 AATAACAATAGTAATAAAAGT
6398515 AATAACAATAGTAATAAAA
1 AATAACAATAGTAATAAAA
6398534 ATAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (21 bp):
AATAACAATAGTAATAAAAGT
Found at i:6398599 original size:29 final size:28
Alignment explanation
Indices: 6398567--6398730 Score: 129
Period size: 29 Copynumber: 5.6 Consensus size: 28
6398557 AATAATATTG
*
6398567 ATAATAAATAATAATAGTAA-AAAATAGTA
1 ATAAT-AATAATAATAATAATAAAATAG-A
* *
6398596 ATAATAGAAAATGATAATAATAAAAT-GA
1 ATAATA-ATAATAATAATAATAAAATAGA
*
6398624 AGAATAATAATACATTAATAATAAAATAAGGA
1 ATAATAATAATA-A-TAATAATAAAAT-A-GA
* * *
6398656 ATAATAATAATAACAACAATAATATA-A
1 ATAATAATAATAATAATAATAAAATAGA
*
6398683 ATAATAATAGTAATAATAATAATAATAGTA
1 ATAATAATAATAATAATAATAA-AATAG-A
*
6398713 ATAGTGAA-AATAATAATA
1 ATAAT-AATAATAATAATA
6398731 GTGATAATAA
Statistics
Matches: 108, Mismatches: 16, Indels: 21
0.74 0.11 0.14
Matches are distributed among these distances:
27 24 0.22
28 11 0.10
29 29 0.27
30 28 0.26
31 3 0.03
32 13 0.12
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (28 bp):
ATAATAATAATAATAATAATAAAATAGA
Found at i:6398676 original size:18 final size:16
Alignment explanation
Indices: 6398440--6398730 Score: 110
Period size: 16 Copynumber: 17.8 Consensus size: 16
6398430 AAAAGATTAT
*
6398440 AAAAATAATGATAATA
1 AAAAATAATAATAATA
* *
6398456 ATAATGATAATAATACTA
1 A-AA-AATAATAATAATA
*
6398474 ATAATAGTAATAATAATA
1 A-AA-AATAATAATAATA
* **
6398492 GAAAATAATAATGGTA
1 AAAAATAATAATAATA
*
6398508 AAAAAGTAATAACAAT-
1 AAAAA-TAATAATAATA
** *
6398524 AGTAATAAAAATAA-A
1 AAAAATAATAATAATA
* **
6398539 AATAAA-AACAGCAAT-
1 AA-AAATAATAATAATA
* * * *
6398554 GATAATAATATTGATA
1 AAAAATAATAATAATA
* *
6398570 ATAAATAATAATAGTA
1 AAAAATAATAATAATA
*
6398586 AAAAATAGTAATAATA
1 AAAAATAATAATAATA
* *
6398602 GAAAATGATAATAATA
1 AAAAATAATAATAATA
*
6398618 AAATGAAGAATAATAATA
1 AAA--AATAATAATAATA
**
6398636 CATTAATAATAA-AATA
1 -AAAAATAATAATAATA
**
6398652 AGGAATAATAATAAT-
1 AAAAATAATAATAATA
* *
6398667 AACAACAATAAT-ATA
1 AAAAATAATAATAATA
* *
6398682 AATAATAATAGTAATA
1 AAAAATAATAATAATA
*
6398698 ATAATAATAATAGTAATA
1 A-AA-AATAATAATAATA
*
6398716 GTGAAAATAATAATA
1 --AAAAATAATAATA
6398731 GTGATAATAA
Statistics
Matches: 199, Mismatches: 58, Indels: 34
0.68 0.20 0.12
Matches are distributed among these distances:
14 4 0.02
15 46 0.23
16 69 0.35
17 19 0.10
18 58 0.29
19 3 0.02
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (16 bp):
AAAAATAATAATAATA
Found at i:6398759 original size:3 final size:3
Alignment explanation
Indices: 6398438--6398740 Score: 172
Period size: 3 Copynumber: 100.3 Consensus size: 3
6398428 TAAAAAGATT
* * * * *
6398438 ATA AAA ATA ATG ATA ATA ATA ATG ATA ATA ATA CTA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6398486 ATA ATA GAAA ATA ATA ATG GTA A-A A-A AGTA ATA ACA ATA GTA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * * * ** * * *
6398531 AAA ATA AAA ATA AAA ACA GCA ATG ATA ATA ATA TTG ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * *
6398577 ATA ATA GTA A-A A-A ATA GTA ATA ATA GAAA ATG ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* *
6398620 ATGA AGA ATA ATA ATA CATTA ATA ATA A-A ATA AGGA ATA ATA ATA ATA
1 AT-A ATA ATA ATA ATA -A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * *
6398668 ACA ACA ATA AT- ATAA ATA ATA ATA GTA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
6398713 ATA GTGA A-A ATA ATA ATA GTG ATA ATA A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
6398741 ATTAATTAAT
Statistics
Matches: 225, Mismatches: 59, Indels: 32
0.71 0.19 0.10
Matches are distributed among these distances:
2 16 0.07
3 189 0.84
4 18 0.08
5 2 0.01
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:6399389 original size:3 final size:3
Alignment explanation
Indices: 6399060--6399370 Score: 220
Period size: 3 Copynumber: 102.3 Consensus size: 3
6399050 TAAAAAGATT
* * * * *
6399060 ATA AAA ATA ATG ATA ATA ATA ATG ATA ATA ATA CTA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
6399108 ATA ATA GAAA ATA ATA ATG GTA AAA AGTA ATA ATA ATA GTA ATA AAA
1 ATA ATA -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * ** * * *
6399155 ATA A-A AAA ACA GCA ATG ATA ATA ATA ATA TTG ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * * *
6399200 ATA GTA A-A AAA ATA GTA ATA ATA GAAA ATA ATA ATA ATA A-A ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA AT-A
* *
6399245 AGA ATA ATA ATA ATA CATTA ATA ATA A-A ATA AGGA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * *
6399292 ACA ACA ATA AT- ATAA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
6399337 ATA ATA ATA GTGA A-A ATA ATA ATA GTG ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
6399371 ATTAATAAAT
Statistics
Matches: 239, Mismatches: 53, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
2 12 0.05
3 207 0.87
4 18 0.08
5 2 0.01
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6399614 original size:20 final size:21
Alignment explanation
Indices: 6399591--6399629 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6399581 AATGGGCGAA
6399591 AATTT-AAAAAAATAAAAACT
1 AATTTCAAAAAAATAAAAACT
*
6399611 AATTTCAAAACAATAAAAA
1 AATTTCAAAAAAATAAAAA
6399630 AAGCGGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (21 bp):
AATTTCAAAAAAATAAAAACT
Done.