Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 200 of 352
Found at i:66072274 original size:64 final size:58
Alignment explanation
Indices: 66072187--66072304 Score: 137
Period size: 64 Copynumber: 1.9 Consensus size: 58
66072177 ATAAAATTAG
*
66072187 GGTTTTAAAGGAATGAAACTAGGGTTTATGGTGTTTAAATAAATAAATTAAATTAGGGTTCTAT
1 GGTTTTAAAGAAATGAAACTAGGGTTTA-GG-G-TT--A-AAATAAATTAAATTAGGGTTCTAT
* * * *
66072251 GGTTTTAAATAAATTAAATTAGGGTTTAGGGTTAAAATTAATTAAATTAGGGTT
1 GGTTTTAAAGAAATGAAACTAGGGTTTAGGGTTAAAATAAATTAAATTAGGGTT
66072305 TAGTTTTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
58 19 0.39
59 1 0.02
61 2 0.04
62 1 0.02
63 2 0.04
64 24 0.49
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.39
Consensus pattern (58 bp):
GGTTTTAAAGAAATGAAACTAGGGTTTAGGGTTAAAATAAATTAAATTAGGGTTCTAT
Found at i:66072297 original size:28 final size:28
Alignment explanation
Indices: 66072227--66072307 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 28
66072217 GTGTTTAAAT
* *
66072227 AAATAAATTAAATTAGGGTTCTATGGTTTT
1 AAATAAATTAAATTAGGGTT-TA-GGGTTA
66072257 AAATAAATTAAATTAGGGTTTAGGGTTA
1 AAATAAATTAAATTAGGGTTTAGGGTTA
*
66072285 AAATTAATTAAATTAGGGTTTAG
1 AAATAAATTAAATTAGGGTTTAG
66072308 TTTTTTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
28 26 0.54
29 2 0.04
30 20 0.42
ACGTcount: A:0.41, C:0.01, G:0.19, T:0.40
Consensus pattern (28 bp):
AAATAAATTAAATTAGGGTTTAGGGTTA
Found at i:66072591 original size:126 final size:125
Alignment explanation
Indices: 66072363--66072735 Score: 507
Period size: 126 Copynumber: 3.0 Consensus size: 125
66072353 ATTTTGACCC
* * * **
66072363 TGAAAAAATAATATTGAAAAGATGTTTCTGAATAAATAGTGTCAAAAACGCTTCAATAAGGATGC
1 TGAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * *
66072428 ACTGTCAGCAAAA-TTATAGAAAAAAGCTCTCATGTGAACGTTCTTTTTCTACAGTAATTCT
66 ACTGTCAGCAAAATTTCTA-AAAAAAGCT-TCACGTGAACGCTCTTTTTCTACAGTAATTCT
* *
66072489 TGAAAAAATAATTTTGAGAAA-ACGTTTCTAAACAAATATTGTCAAAAACGCTTCAAGCAGGATG
1 TGAAAAAATAATTTTGA-AAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATG
* *
66072553 CATTGTCAGCAAAATTTCTAAAAAAAGCTTACACGTGAACACTCTTTTTCTACAGTAATTCT
65 CACTGTCAGCAAAATTTCTAAAAAAAGCTT-CACGTGAACGCTCTTTTTCTACAGTAATTCT
* * *
66072615 TGAAAAAATAATTTTGAAAAGACGTTTTTGAACAAATAGTGTCAAAAACGTTTCAAGCAAGATGC
1 TGAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * * *
66072680 ACTGTCAACAAAATTTCTAAAAAAAGCTCCCACATGGATGCTCTTTTTCTACAGTA
66 ACTGTCAGCAAAATTTCTAAAAAAAGCT-TCACGTGAACGCTCTTTTTCTACAGTA
66072736 GTTCATGCTT
Statistics
Matches: 218, Mismatches: 24, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
125 4 0.02
126 207 0.95
127 7 0.03
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (125 bp):
TGAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
ACTGTCAGCAAAATTTCTAAAAAAAGCTTCACGTGAACGCTCTTTTTCTACAGTAATTCT
Found at i:66076237 original size:18 final size:18
Alignment explanation
Indices: 66076216--66076250 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
66076206 AAAAGGAAAC
66076216 ATATAAGGGTTAGGATAT
1 ATATAAGGGTTAGGATAT
66076234 ATATAAGGGTTAGGATA
1 ATATAAGGGTTAGGATA
66076251 CGCACCTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (18 bp):
ATATAAGGGTTAGGATAT
Found at i:66076389 original size:30 final size:30
Alignment explanation
Indices: 66076310--66076396 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 30
66076300 GGCATTGGGT
**
66076310 ATTGTGTAGATACTGTTGATGGGCCCGATG
1 ATTGTGTAGGCACTGTTGATGGGCCCGATG
* *
66076340 ATTGTGTAGGCACTATTGATGGGCCCGGTG
1 ATTGTGTAGGCACTGTTGATGGGCCCGATG
* * *
66076370 ATTGTGTGGGCGCTGTTGATGCGCCCG
1 ATTGTGTAGGCACTGTTGATGGGCCCG
66076397 TCCCATCATC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.15, C:0.17, G:0.37, T:0.31
Consensus pattern (30 bp):
ATTGTGTAGGCACTGTTGATGGGCCCGATG
Found at i:66077873 original size:24 final size:24
Alignment explanation
Indices: 66077846--66077929 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 24
66077836 AATACAAATT
66077846 AATTAAAATTACATAAATGAAAAA
1 AATTAAAATTACATAAATGAAAAA
* * * *
66077870 AATTAAATAATATTCAAAAATTAAAATT
1 AATT-AA-AAT-TACATAAATGAAAA-A
*
66077898 AATTAACATTACATAAATGAAAAAA
1 AATTAAAATTACATAAATG-AAAAA
66077923 AATTAAA
1 AATTAAA
66077930 TAATATTCAA
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
24 4 0.09
25 15 0.33
26 9 0.20
27 13 0.29
28 4 0.09
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (24 bp):
AATTAAAATTACATAAATGAAAAA
Found at i:66077912 original size:52 final size:53
Alignment explanation
Indices: 66077841--66077949 Score: 184
Period size: 53 Copynumber: 2.1 Consensus size: 53
66077831 TATAAAATAC
66077841 AAATTAATTAAAATTACATAAATG-AAAAAAATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATGAAAAAAAATTAAATAATATTCAAAAATTA
* * *
66077893 AAATTAATTAACATTACATAAATGAAAAAAAATTAAATAATATTCAACATTTA
1 AAATTAATTAAAATTACATAAATGAAAAAAAATTAAATAATATTCAAAAATTA
66077946 AAAT
1 AAAT
66077950 AAACCGTTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
52 23 0.43
53 30 0.57
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (53 bp):
AAATTAATTAAAATTACATAAATGAAAAAAAATTAAATAATATTCAAAAATTA
Found at i:66078647 original size:24 final size:24
Alignment explanation
Indices: 66078606--66078654 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
66078596 TTTTATCCTT
66078606 TCAATCTAAGTTTCAATTCTTTCC
1 TCAATCTAAGTTTCAATTCTTTCC
*
66078630 TCAATCTCAAG-TTGAATTCTTTCC
1 TCAATCT-AAGTTTCAATTCTTTCC
66078654 T
1 T
66078655 ACTCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (24 bp):
TCAATCTAAGTTTCAATTCTTTCC
Found at i:66082857 original size:71 final size:71
Alignment explanation
Indices: 66082780--66082940 Score: 322
Period size: 71 Copynumber: 2.3 Consensus size: 71
66082770 AATAAAGATC
66082780 AAGATCCATATCAAAATAATATTAAATTTACACAACGGCAGCATTAATCTTCAATGAGAACAAAT
1 AAGATCCATATCAAAATAATATTAAATTTACACAACGGCAGCATTAATCTTCAATGAGAACAAAT
66082845 TGGAAG
66 TGGAAG
66082851 AAGATCCATATCAAAATAATATTAAATTTACACAACGGCAGCATTAATCTTCAATGAGAACAAAT
1 AAGATCCATATCAAAATAATATTAAATTTACACAACGGCAGCATTAATCTTCAATGAGAACAAAT
66082916 TGGAAG
66 TGGAAG
66082922 AAGATCCATATCAAAATAA
1 AAGATCCATATCAAAATAA
66082941 AGGCAAAACG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.25
Consensus pattern (71 bp):
AAGATCCATATCAAAATAATATTAAATTTACACAACGGCAGCATTAATCTTCAATGAGAACAAAT
TGGAAG
Found at i:66086161 original size:9 final size:10
Alignment explanation
Indices: 66086138--66086198 Score: 68
Period size: 11 Copynumber: 5.7 Consensus size: 10
66086128 ACAAAAGTCA
66086138 TCTCATAATTC
1 TCTCA-AATTC
66086149 TCTCTAAATTC
1 TCTC-AAATTC
66086160 TCTCCAAATTC
1 TCT-CAAATTC
66086171 TCTCAAATTTC
1 TCTCAAA-TTC
* *
66086182 TTTCAAATTT
1 TCTCAAATTC
66086192 TCTCAAA
1 TCTCAAA
66086199 GCTTTCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
10 12 0.27
11 30 0.68
12 2 0.05
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (10 bp):
TCTCAAATTC
Found at i:66086204 original size:23 final size:21
Alignment explanation
Indices: 66086144--66086207 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 21
66086134 GTCATCTCAT
*
66086144 AATTCTCTCTAAA-TTCTCTCCA
1 AATTCTCTC-AAATTTCT-TTCA
66086166 AATTCTCTCAAATTTCTTTCA
1 AATTCTCTCAAATTTCTTTCA
*
66086187 AATTTTCTCAAAGCTTTCTTT
1 AATTCTCTCAAA--TTTCTTT
66086208 AATTTTTGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 17 0.46
22 13 0.35
23 7 0.19
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.47
Consensus pattern (21 bp):
AATTCTCTCAAATTTCTTTCA
Found at i:66086211 original size:21 final size:20
Alignment explanation
Indices: 66086165--66086213 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
66086155 AATTCTCTCC
*
66086165 AAATTCTCTCAAATTTCTTT
1 AAATTTTCTCAAATTTCTTT
66086185 CAAATTTTCTCAAAGCTTTCTTT
1 -AAATTTTCTCAAA--TTTCTTT
66086208 -AATTTT
1 AAATTTT
66086214 TGCAAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 18 0.72
23 7 0.28
ACGTcount: A:0.29, C:0.18, G:0.02, T:0.51
Consensus pattern (20 bp):
AAATTTTCTCAAATTTCTTT
Found at i:66087921 original size:18 final size:18
Alignment explanation
Indices: 66087898--66087940 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
66087888 TGCCAAGTGC
* *
66087898 GTATCCTAGCCTTTATAT
1 GTATCCTAACCCTTATAT
66087916 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
66087934 GTTTCCT
1 GTATCCT
66087941 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:66091688 original size:126 final size:126
Alignment explanation
Indices: 66091458--66091898 Score: 697
Period size: 126 Copynumber: 3.5 Consensus size: 126
66091448 CCAAATAGGA
** * * *
66091458 ACTACTGTAGCAAAAGAGCGTCCACGT-GGGGCTTTTTTTAGTAATTCTGCTGATAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* *
66091522 GCTTGACGTGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTTAGAT
66 GCTTGAAGTGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * * *
66091583 ATTATTGTAGCAAAAGAGCGTCTACGTAGAAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* *
66091648 GCTTGAAGTGTTTTGGACACTATTTGTTCAAAAACATCTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAGTGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
*
66091709 ACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * *
66091774 GCTTGAAGCGTTTTGAACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
66 GCTTGAAGTGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* *
66091835 ACTACTGTAGCAAAAGAGCATCCACGTGGAAGC-TTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
66091899 AATTTAATTA
Statistics
Matches: 291, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
125 54 0.19
126 237 0.81
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTGAAGTGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:66092416 original size:30 final size:30
Alignment explanation
Indices: 66092380--66092440 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
66092370 CAACTTAATA
*
66092380 AGCAAATGCCTCTAAGATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAACAAAATT
*
66092410 AGCAAATGCCTTTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAACAAAATT
66092440 A
1 A
66092441 ACAATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAACAAAATT
Found at i:66093418 original size:31 final size:33
Alignment explanation
Indices: 66093365--66093436 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 33
66093355 TCACTCTCTC
*
66093365 TTTTCTTAACTTTTTTTAAGGGTTAGGATGAGGA
1 TTTT-TTAACTTTTGTTAAGGGTTAGGATGAGGA
* *
66093399 TTTTTTAA-TTTTGTT-AGGGTTAGGGTTAGGA
1 TTTTTTAACTTTTGTTAAGGGTTAGGATGAGGA
66093430 TTTTTTA
1 TTTTTTA
66093437 GGAATTAAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 21 0.60
32 6 0.17
33 4 0.11
34 4 0.11
ACGTcount: A:0.21, C:0.03, G:0.24, T:0.53
Consensus pattern (33 bp):
TTTTTTAACTTTTGTTAAGGGTTAGGATGAGGA
Found at i:66094036 original size:42 final size:42
Alignment explanation
Indices: 66093958--66094038 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
66093948 GTGCAGGTTT
*
66093958 CACACGGCCAAGACACACGCCCGTGTGCTAGGCCGTGTGGCA
1 CACACGGCCAAGACACACGCCCGTGTGCTAGCCCGTGTGGCA
* *
66094000 CACACGGCTAAGACACACGCCCGTGTCTCTA-CCCGTGTG
1 CACACGGCCAAGACACACGCCCGTGT-GCTAGCCCGTGTG
66094039 CTCAATTCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.21, C:0.37, G:0.27, T:0.15
Consensus pattern (42 bp):
CACACGGCCAAGACACACGCCCGTGTGCTAGCCCGTGTGGCA
Found at i:66096102 original size:20 final size:21
Alignment explanation
Indices: 66096064--66096102 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
66096054 TTTACAACAC
66096064 ATGTATTCATAAAAATTCAGA
1 ATGTATTCATAAAAATTCAGA
* *
66096085 ATGT-TTCATCAAATTTCA
1 ATGTATTCATAAAAATTCA
66096103 CAACTTTACA
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:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (21 bp):
ATGTATTCATAAAAATTCAGA
Found at i:66102522 original size:24 final size:24
Alignment explanation
Indices: 66102460--66102550 Score: 94
Period size: 24 Copynumber: 3.7 Consensus size: 24
66102450 GGATTCACCA
*
66102460 CAGCTCG-TATGAGCTTACTGATATAT
1 CAGCTCGTTA-GAGCTTACT-AT-TTT
* *
66102486 CAACTCGTAAGAGCTTACTATTTT
1 CAGCTCGTTAGAGCTTACTATTTT
* *
66102510 CAGCTCGTTAGAGCTTACTGTTTC
1 CAGCTCGTTAGAGCTTACTATTTT
*
66102534 CAGCTCGATAGAGCTTA
1 CAGCTCGTTAGAGCTTA
66102551 TTGTTCATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 38 0.68
25 2 0.04
26 15 0.27
27 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (24 bp):
CAGCTCGTTAGAGCTTACTATTTT
Found at i:66102726 original size:20 final size:20
Alignment explanation
Indices: 66102701--66102738 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66102691 ATTTTGTTAT
*
66102701 TGATTATACAGATGAATTCC
1 TGATTATACAAATGAATTCC
*
66102721 TGATTATATAAATGAATT
1 TGATTATACAAATGAATT
66102739 GTCGATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (20 bp):
TGATTATACAAATGAATTCC
Found at i:66104632 original size:31 final size:31
Alignment explanation
Indices: 66104594--66104655 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
66104584 ACCTGGGAGT
66104594 TGGTACTAACGTAGATGTTAGCTAAATACTA
1 TGGTACTAACGTAGATGTTAGCTAAATACTA
* *
66104625 TGGTACTAATGTGGATGTTAGCTAAATACTA
1 TGGTACTAACGTAGATGTTAGCTAAATACTA
66104656 CGAACCTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (31 bp):
TGGTACTAACGTAGATGTTAGCTAAATACTA
Found at i:66105040 original size:17 final size:17
Alignment explanation
Indices: 66105018--66105057 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
66105008 AGAAAAGTCT
* *
66105018 GCCAAACCTTAGAGCTC
1 GCCAAAACTTAAAGCTC
*
66105035 GCCAAAACTTAAAGTTC
1 GCCAAAACTTAAAGCTC
66105052 GCCAAA
1 GCCAAA
66105058 TGGCGAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.17
Consensus pattern (17 bp):
GCCAAAACTTAAAGCTC
Found at i:66110794 original size:50 final size:51
Alignment explanation
Indices: 66110732--66110833 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
66110722 TTTTTAATAC
* * * *
66110732 ATTCTACAATAACTT-AAATAGAAATATAAGAAATCTTGTTGTTGAAACAT
1 ATTCTACAATAACTTAAAAGAGAAATATAAGAAATCATATTGTTCAAACAT
*
66110782 ATTCTACGATAACTTAAAAGAGAAATATAAGAAATCATATTGTTCAAACAT
1 ATTCTACAATAACTTAAAAGAGAAATATAAGAAATCATATTGTTCAAACAT
66110833 A
1 A
66110834 CATTTGACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 14 0.30
51 32 0.70
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (51 bp):
ATTCTACAATAACTTAAAAGAGAAATATAAGAAATCATATTGTTCAAACAT
Found at i:66111997 original size:14 final size:14
Alignment explanation
Indices: 66111974--66112029 Score: 69
Period size: 14 Copynumber: 4.0 Consensus size: 14
66111964 CAAGAATGGT
66111974 CGAAATGGTATGAA
1 CGAAATGGTATGAA
*
66111988 CGATATGGTATGAA
1 CGAAATGGTATGAA
*
66112002 TGAAATGGTATGAA
1 CGAAATGGTATGAA
*
66112016 C-AAAGGGGTATGAA
1 CGAAA-TGGTATGAA
66112030 TGAATTGGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
13 3 0.08
14 33 0.92
ACGTcount: A:0.41, C:0.05, G:0.30, T:0.23
Consensus pattern (14 bp):
CGAAATGGTATGAA
Found at i:66112007 original size:28 final size:28
Alignment explanation
Indices: 66111975--66112038 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
66111965 AAGAATGGTC
* *
66111975 GAAATGGTATGAACGATA-TGGTATGAAT
1 GAAATGGTATGAAC-AAAGGGGTATGAAT
66112003 GAAATGGTATGAACAAAGGGGTATGAAT
1 GAAATGGTATGAACAAAGGGGTATGAAT
*
66112031 GAATTGGT
1 GAAATGGT
66112039 CGGTTTAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 2 0.06
28 30 0.94
ACGTcount: A:0.39, C:0.03, G:0.31, T:0.27
Consensus pattern (28 bp):
GAAATGGTATGAACAAAGGGGTATGAAT
Found at i:66114886 original size:43 final size:43
Alignment explanation
Indices: 66114748--66114923 Score: 166
Period size: 43 Copynumber: 4.1 Consensus size: 43
66114738 TAACACATAT
* * * *
66114748 CATA-CAATGCCAACGTCCCATACGTGGTCTTACATGTAATCA
1 CATATCAATGCCAACGTCCCAGACATGGTCTTACACGAAATCA
* * *
66114790 CATGTCGATGCC-ACTGTTCCAGACA-GGTCTTACACG-AATCA
1 CATATCAATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCA
* * *
66114831 CA-ATTACGATGCCAATGTCCCAGACATGGTCTTACTCGAAATCA
1 CATA-T-CAATGCCAACGTCCCAGACATGGTCTTACACGAAATCA
* *
66114875 CATATCAATGCCAACGTCCTAGACGTGGTCTTACACGAGAA-CA
1 CATATCAATGCCAACGTCCCAGACATGGTCTTACACGA-AATCA
66114918 CATATC
1 CATATC
66114924 GAAAATCCTA
Statistics
Matches: 110, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
41 8 0.07
42 31 0.28
43 60 0.55
44 10 0.09
45 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
CATATCAATGCCAACGTCCCAGACATGGTCTTACACGAAATCA
Found at i:66115639 original size:27 final size:27
Alignment explanation
Indices: 66115603--66115657 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
66115593 GCTTTCAAAG
66115603 TGCCGAATACCTAAAGCTTTCTTTTCT
1 TGCCGAATACCTAAAGCTTTCTTTTCT
66115630 TGCCGAATACCTAAAGCTTTCTTTTCT
1 TGCCGAATACCTAAAGCTTTCTTTTCT
66115657 T
1 T
66115658 TCTTTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (27 bp):
TGCCGAATACCTAAAGCTTTCTTTTCT
Found at i:66115986 original size:14 final size:15
Alignment explanation
Indices: 66115969--66115997 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
66115959 GCACGAAAAT
66115969 TTCACACAT-ATAAA
1 TTCACACATAATAAA
66115983 TTCACACATAATAAA
1 TTCACACATAATAAA
66115998 CACTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:66116274 original size:45 final size:45
Alignment explanation
Indices: 66116210--66116332 Score: 176
Period size: 45 Copynumber: 2.7 Consensus size: 45
66116200 AAAACATGTG
* *
66116210 TCACATATATCACT-AACTCATATCACAACTCAATGAATTCAGACA
1 TCACATATATCA-TGAACTCAAACCACAACTCAATGAATTCAGACA
* * *
66116255 TCACATATATCATGAACTCAAACCACAACTCAATGAGTTCGGACG
1 TCACATATATCATGAACTCAAACCACAACTCAATGAATTCAGACA
*
66116300 TCACATATATCATGAACTCAGACCACAACTCAA
1 TCACATATATCATGAACTCAAACCACAACTCAA
66116333 ATGAGTTTAG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
44 1 0.01
45 70 0.99
ACGTcount: A:0.41, C:0.28, G:0.08, T:0.24
Consensus pattern (45 bp):
TCACATATATCATGAACTCAAACCACAACTCAATGAATTCAGACA
Found at i:66117882 original size:20 final size:20
Alignment explanation
Indices: 66117857--66117896 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
66117847 AAATGAAATC
*
66117857 CATATCCATTTTTATCAATA
1 CATATCCATTTTCATCAATA
66117877 CATATCCATTTTCATCAATA
1 CATATCCATTTTCATCAATA
66117897 ATTAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (20 bp):
CATATCCATTTTCATCAATA
Found at i:66119254 original size:41 final size:41
Alignment explanation
Indices: 66119207--66119305 Score: 173
Period size: 41 Copynumber: 2.4 Consensus size: 41
66119197 TTATCTCTAA
66119207 TACCCTCCCATTTAATTGATTTATACAAA-ATTTTATTCTCT
1 TACCCTCCCATTTAATTGATTTATA-AAATATTTTATTCTCT
*
66119248 TACCCTCCCATTTAATTGATTTATAAAATTTTTTATTCTCT
1 TACCCTCCCATTTAATTGATTTATAAAATATTTTATTCTCT
66119289 TACCCTCCCATTTAATT
1 TACCCTCCCATTTAATT
66119306 TCACTACTAC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.23, G:0.02, T:0.47
Consensus pattern (41 bp):
TACCCTCCCATTTAATTGATTTATAAAATATTTTATTCTCT
Found at i:66123565 original size:42 final size:42
Alignment explanation
Indices: 66123503--66123651 Score: 178
Period size: 42 Copynumber: 3.5 Consensus size: 42
66123493 TGAGATTACA
* *
66123503 TGTAAGACCATATCTAGGATATGGCATCGTTATGATACTTCG
1 TGTAAGACCATATCTAGGATATGGCATCGATATGAGACTTCG
* *
66123545 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCG
1 TGTAAGACCATATCTAGGATATGGCATCGATATGAGACTTCG
* * *
66123587 TGTAAGACCATAGCTAGGCTATTGGC-TCGATATGAGA-TTCCA
1 TGTAAGACCATATCTAGGATA-TGGCATCGATATGAGACTT-CG
*
66123629 TGTGAGACCATATCT-GGAATATG
1 TGTAAGACCATATCTAGG-ATATG
66123652 ACATTGGAAC
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
41 6 0.07
42 82 0.89
43 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGGCATCGATATGAGACTTCG
Found at i:66126537 original size:28 final size:29
Alignment explanation
Indices: 66126506--66126562 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
66126496 TAAAGTGATT
*
66126506 TTTGACAAAAATGTCAATT-AGGGATTAA
1 TTTGACAAAAATGTAAATTGAGGGATTAA
* * *
66126534 TTTGAGAAAAGTGTAAATTGAGGGGTTAA
1 TTTGACAAAAATGTAAATTGAGGGATTAA
66126563 ATTGTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (29 bp):
TTTGACAAAAATGTAAATTGAGGGATTAA
Found at i:66148954 original size:40 final size:40
Alignment explanation
Indices: 66148858--66149001 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
66148848 CAATATCTCA
* * * * *
66148858 CACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATTG
1 CACACTAAGTGCCATATATAGCCAAAGCTATCTCAAATCG
* *
66148898 CACACTAAGTGCCATATATTGCCAAAGCTATCTCAAGTCG
1 CACACTAAGTGCCATATATAGCCAAAGCTATCTCAAATCG
** * *
66148938 CACACTAAGTGCCATATGTATAGCTGAAGCTATGTCGAATCG
1 CACACTAAGTGCCATA--TATAGCCAAAGCTATCTCAAATCG
* ** *
66148980 TACTTTAAGTGCCACATATAGC
1 CACACTAAGTGCCATATATAGC
66149002 TGATTTGTCG
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 55 0.65
42 30 0.35
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCAAAGCTATCTCAAATCG
Found at i:66157317 original size:18 final size:17
Alignment explanation
Indices: 66157290--66157326 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
66157280 ATTCTTTATT
*
66157290 TTATTAATATATTATAA
1 TTATTAATATAATATAA
66157307 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
66157325 TT
1 TT
66157327 TACTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:66164612 original size:5 final size:5
Alignment explanation
Indices: 66164601--66164637 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
66164591 TTTATTTTAT
*
66164601 TAATA TATTA TAAT- T-ATA TAATA TAATA TAATA TAAT
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAAT
66164638 TTACTTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
3 2 0.07
4 2 0.07
5 24 0.86
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (5 bp):
TAATA
Found at i:66164624 original size:18 final size:17
Alignment explanation
Indices: 66164597--66164632 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
66164587 ATTCTTTATT
*
66164597 TTATTAATATATTATAA
1 TTATTAATATAATATAA
66164614 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
66164632 T
1 T
66164633 ATAATTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:66166052 original size:46 final size:46
Alignment explanation
Indices: 66166000--66166130 Score: 208
Period size: 46 Copynumber: 2.8 Consensus size: 46
66165990 GATGGTTGAG
*
66166000 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
**
66166046 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
66166092 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66166131 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:66171120 original size:94 final size:95
Alignment explanation
Indices: 66170959--66171549 Score: 974
Period size: 94 Copynumber: 6.2 Consensus size: 95
66170949 CCCTTCGGGA
* * * * * * * *
66170959 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
66171023 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
66171053 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
66171117 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
66171147 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
*
66171211 CTTTCACATTCATCACATTGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
66171241 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTAATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
66171306 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
66171339 CTTATCACATATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
66171403 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
66171436 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
66171501 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
66171534 CTTATCACATATATAC
1 CTTATCACATATATAC
66171550 TTTCACGTAT
Statistics
Matches: 478, Mismatches: 14, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
94 186 0.39
96 53 0.11
97 96 0.20
98 143 0.30
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66171274 original size:49 final size:49
Alignment explanation
Indices: 66170959--66171548 Score: 999
Period size: 49 Copynumber: 12.3 Consensus size: 49
66170949 CCCTTCGGGA
* * * * *
66170959 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66171006 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66171053 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66171100 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66171147 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66171194 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66171241 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66171290 CTAATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66171339 CTTATCACATATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66171387 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66171436 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66171485 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66171534 CTTATCACATATATA
1 CTTATCACATATATA
66171549 CTTTCACGTA
Statistics
Matches: 523, Mismatches: 15, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 228 0.44
48 48 0.09
49 246 0.47
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66175239 original size:40 final size:40
Alignment explanation
Indices: 66175158--66175453 Score: 386
Period size: 40 Copynumber: 7.5 Consensus size: 40
66175148 CGCATGATTA
** * *
66175158 CTCTTCGGGACCTAGCCCGGATATA-CACCAGCACGAATG
1 CTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATG
* * * *
66175197 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATG
* * * *
66175237 CTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATG
*
66175277 CTCTTCAGGATTTAGCCCGG-TACATCACTAGCACGAATG
1 CTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATG
* * *
66175316 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATG
66175356 C-CTTCGGGATTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATG
* * *
66175395 --CTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATG
66175433 CTCTTCGGGATTTAGCCCGGA
1 CTCTTCGGGATTTAGCCCGGA
66175454 CATTTTCACT
Statistics
Matches: 223, Mismatches: 30, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
38 35 0.16
39 90 0.40
40 98 0.44
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATG
Found at i:66175308 original size:79 final size:80
Alignment explanation
Indices: 66175158--66175453 Score: 458
Period size: 79 Copynumber: 3.8 Consensus size: 80
66175148 CGCATGATTA
* * * * * * * * *
66175158 CTCTTCGGGACCTAGCCCGGATATA-CACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATACA
66175222 TCACTAGCACGAATG
66 TCACTAGCACGAATG
* *
66175237 CTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCAGGATTTAGCCCGG-TACA
1 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATACA
66175301 TCACTAGCACGAATG
66 TCACTAGCACGAATG
66175316 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC-CTTCGGGATTTAGCCCGGATACA
1 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATACA
66175380 TCACTAGCACGAATG
66 TCACTAGCACGAATG
66175395 --CTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGA
1 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGA
66175454 CATTTTCACT
Statistics
Matches: 201, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
77 39 0.19
78 36 0.18
79 97 0.48
80 29 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATACA
TCACTAGCACGAATG
Found at i:66181862 original size:12 final size:13
Alignment explanation
Indices: 66181832--66181869 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
66181822 GCCTTGCTCT
66181832 CACC-TTTTTTTC
1 CACCATTTTTTTC
66181844 CTACCATTTTTTTC
1 C-ACCATTTTTTTC
66181858 C-CCATTTTTTTC
1 CACCATTTTTTTC
66181870 ACTTTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.50
13 3 0.12
14 9 0.38
ACGTcount: A:0.11, C:0.32, G:0.00, T:0.58
Consensus pattern (13 bp):
CACCATTTTTTTC
Found at i:66183309 original size:21 final size:22
Alignment explanation
Indices: 66183279--66183322 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
66183269 GGCTTTAATG
*
66183279 CAAGGTTGTT-ATGGCTCAACA
1 CAAGGCTGTTAATGGCTCAACA
66183300 CAAGGCTGTTAATGGCTCAACA
1 CAAGGCTGTTAATGGCTCAACA
66183322 C
1 C
66183323 TGGGTTGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (22 bp):
CAAGGCTGTTAATGGCTCAACA
Found at i:66188768 original size:45 final size:46
Alignment explanation
Indices: 66188605--66188779 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
66188595 TGGTTGAGCA
*
66188605 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
66188651 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
66188696 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
66188744 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66188780 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:66190466 original size:12 final size:12
Alignment explanation
Indices: 66190449--66190475 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
66190439 ACACACGCCT
66190449 GTGTGCTAGGCC
1 GTGTGCTAGGCC
66190461 GTGTGCTAGGCC
1 GTGTGCTAGGCC
66190473 GTG
1 GTG
66190476 CCAAACCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.44, T:0.26
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:66191613 original size:41 final size:41
Alignment explanation
Indices: 66191553--66191653 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 41
66191543 ATAGCCTCAT
*
66191553 ATTGCACACTAAGTGCCAT-ATATAGCCAAATCTATCTCG-
1 ATTGCACACTAAGTGCCATAATATAGCCAAAGCTATCTCGA
* *
66191592 ATCTCGCACACTAAGTGCCATACATATAGCCGAAGCTATGTCGA
1 AT-T-GCACACTAAGTGCCATA-ATATAGCCAAAGCTATCTCGA
66191636 ATTGCACACTAAGTGCCA
1 ATTGCACACTAAGTGCCA
66191654 CTTATAGTTG
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
39 2 0.04
40 1 0.02
41 16 0.30
42 15 0.28
43 18 0.33
44 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (41 bp):
ATTGCACACTAAGTGCCATAATATAGCCAAAGCTATCTCGA
Found at i:66193564 original size:43 final size:43
Alignment explanation
Indices: 66193454--66193564 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
66193444 TGTACAAGTT
* *
66193454 ATACTTCGGTTTATCTAATGATGCATTTTATGTGCTAGTATAA
1 ATACTTCGGTTTATCCAATGATGCATTGTATGTGCTAGTATAA
* * * * *
66193497 TTACTTCGGTATATTCGATGATGCATTGTGTGTGCTAGTATAA
1 ATACTTCGGTTTATCCAATGATGCATTGTATGTGCTAGTATAA
* * *
66193540 ATGCTTCGGTTTGTCCAATAATGCA
1 ATACTTCGGTTTATCCAATGATGCA
66193565 CCATGTATGC
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (43 bp):
ATACTTCGGTTTATCCAATGATGCATTGTATGTGCTAGTATAA
Found at i:66204740 original size:39 final size:39
Alignment explanation
Indices: 66204686--66204844 Score: 221
Period size: 39 Copynumber: 4.1 Consensus size: 39
66204676 CCGGGTACCA
* * *
66204686 TTCCAGCACGTAGCCTACGGA-CTACAAGTCTGGATATAT
1 TTCCAGCACATAGCCTGCGGACCT-CAAGTCCGGATATAT
*
66204725 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATAT
*
66204764 TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATAT
* * * *
66204803 TCCCAGCATATAGCCTGCGGACCTCATGTCTGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATAT
66204842 TTC
1 TTC
66204845 AAATACCATG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 108 0.99
40 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATAT
Found at i:66208655 original size:43 final size:42
Alignment explanation
Indices: 66208552--66208672 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
66208542 TAGGGTTACT
* *
66208552 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
* *
66208594 GAGACTT-CATGTAAGACCATTTCTGGGTTATTGGCATCGATAC
1 GAGA-TTACATGTAAGACCATATCTGGGATA-TGGCATCGATAC
* *
66208637 GAGATTACATTTATGACCATATCTGGGATATGGCAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
66208673 TGGTACGGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:66216978 original size:40 final size:40
Alignment explanation
Indices: 66216741--66216964 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
66216731 TTGAATGATG
* * * *
66216741 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
66216781 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAG-TACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
66216820 TCC-GGCTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66216859 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66216899 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
66216940 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66216965 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
38 26 0.16
39 18 0.11
40 114 0.68
41 9 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66224856 original size:120 final size:119
Alignment explanation
Indices: 66224625--66224882 Score: 301
Period size: 120 Copynumber: 2.2 Consensus size: 119
66224615 TTGAATGATG
* * *
66224625 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
**
66224690 TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * **
66224744 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
* * * *
66224808 TGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
64 TGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAA
* *
66224864 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
66224883 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
119 38 0.32
120 79 0.66
121 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:66224863 original size:40 final size:40
Alignment explanation
Indices: 66224625--66224849 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
66224615 TTGAATGATG
* * * *
66224625 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
66224664 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66224704 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66224744 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66224784 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
66224825 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66224850 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 19 0.11
40 150 0.88
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66226564 original size:28 final size:28
Alignment explanation
Indices: 66226501--66226623 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
66226491 ATATTAAGTC
*
66226501 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
66226528 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
66226556 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66226584 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
66226613 CGCACACTTAG
1 CGCACACTTAG
66226624 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.25
28 51 0.57
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66237022 original size:45 final size:45
Alignment explanation
Indices: 66236958--66237130 Score: 160
Period size: 45 Copynumber: 3.8 Consensus size: 45
66236948 TGGTTGAGCA
66236958 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAATG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGGAAATG
* * * *
66237004 TCCGAAC-CGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGGAA--ATG
*
66237048 CATCCGAACTCGTTGAGTTGA-TCGAGTTCACTCATGGATGCG-AATG
1 --TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATG-GAAATG
* * *
66237094 CCCGAGCTCGTTGAGTTGAGTCGCAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCG-AGTTCACTTATGG
66237131 CGGGTTACAT
Statistics
Matches: 104, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 6 0.06
44 21 0.20
45 31 0.30
46 30 0.29
47 11 0.11
48 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGGAAATG
Found at i:66240073 original size:15 final size:15
Alignment explanation
Indices: 66240053--66240091 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
66240043 ATCTTGGGTT
66240053 TCTTTATTCTGGATC
1 TCTTTATTCTGGATC
*
66240068 TCTTTATTCTGGATT
1 TCTTTATTCTGGATC
66240083 TCTTTATTC
1 TCTTTATTC
66240092 GGTTTTCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.13, C:0.18, G:0.10, T:0.59
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:66242527 original size:46 final size:46
Alignment explanation
Indices: 66242477--66242652 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
66242467 TGGTTGAGCA
*
66242477 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
66242523 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
66242570 TCCGAACTCGTTGATTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * ** *
66242616 CCCGAGCTCGTTGAGTTGAGTCTAAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66242653 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 1 0.01
46 60 0.58
47 26 0.25
48 1 0.01
49 2 0.02
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66242644 original size:93 final size:93
Alignment explanation
Indices: 66242474--66242645 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
66242464 GGATGGTTGA
* * *
66242474 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
*
66242539 TGAGTCCGAGTTCGTAAGATGTAACTAG
66 TGAGTCCAAGTTCGTAAGATGTAACTAG
* * * *
66242567 GCATCCGAACTCGTTGATTTGAGTCTGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
*
66242632 TGAGTCTAAGTTCG
66 TGAGTCCAAGTTCG
66242646 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTAAGATGTAACTAG
Found at i:66244724 original size:46 final size:46
Alignment explanation
Indices: 66244673--66244797 Score: 187
Period size: 46 Copynumber: 2.7 Consensus size: 46
66244663 GGTTGAGCAT
* *
66244673 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGC
* * *
66244719 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGC
* *
66244765 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66244798 GGGGCGGGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGC
Found at i:66248894 original size:30 final size:30
Alignment explanation
Indices: 66248799--66248895 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
66248789 AGCTCACTCC
*
66248799 TAGCTC-ACTTTCAACTCACGAGCTAAA-CAT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGC-T
* * * **
66248829 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
66248859 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
66248889 TAGCTCA
1 TAGCTCA
66248896 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
29 2 0.04
30 40 0.80
31 8 0.16
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:66250623 original size:15 final size:14
Alignment explanation
Indices: 66250605--66250666 Score: 76
Period size: 14 Copynumber: 4.6 Consensus size: 14
66250595 TTATACAAGT
66250605 AAAAAAAATTTGAA
1 AAAAAAAATTTGAA
*
66250619 AAAAAAAA--T-CA
1 AAAAAAAATTTGAA
*
66250630 AAAAAAAATTCGAA
1 AAAAAAAATTTGAA
66250644 AAATAAAAATTTGAA
1 AAA-AAAAATTTGAA
66250659 AAAAAAAA
1 AAAAAAAA
66250667 GTGTTTAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 9 0.22
12 1 0.03
14 17 0.43
15 13 0.32
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (14 bp):
AAAAAAAATTTGAA
Found at i:66250639 original size:25 final size:26
Alignment explanation
Indices: 66250605--66250653 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
66250595 TTATACAAGT
*
66250605 AAAAAAAATTTGAAAAA-AAAAATCA
1 AAAAAAAATTCGAAAAATAAAAATCA
66250630 AAAAAAAATTCGAAAAATAAAAAT
1 AAAAAAAATTCGAAAAATAAAAAT
66250654 TTGAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (26 bp):
AAAAAAAATTCGAAAAATAAAAATCA
Found at i:66250651 original size:16 final size:15
Alignment explanation
Indices: 66250605--66250666 Score: 62
Period size: 15 Copynumber: 4.5 Consensus size: 15
66250595 TTATACAAGT
*
66250605 AAAAAAAATTTG-AA
1 AAAAAAAATTCGAAA
66250619 AAAAAAAA-TC---A
1 AAAAAAAATTCGAAA
66250630 AAAAAAAATTCGAAA
1 AAAAAAAATTCGAAA
* *
66250645 AATAAAAATTTGAAA
1 AAAAAAAATTCGAAA
66250660 AAAAAAA
1 AAAAAAA
66250667 GTGTTTAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 9 0.22
12 2 0.05
13 1 0.03
14 8 0.20
15 20 0.50
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (15 bp):
AAAAAAAATTCGAAA
Found at i:66252771 original size:20 final size:20
Alignment explanation
Indices: 66252746--66252800 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
66252736 TGTGGTTCAA
*
66252746 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
66252766 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
66252786 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
66252801 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:66255028 original size:30 final size:30
Alignment explanation
Indices: 66254994--66255090 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
66254984 AGCTCACTCC
*
66254994 TAGCTCACTTTCAACTCACGAGCTAAACCT
1 TAGCTCACTTTCAGCTCACGAGCTAAACCT
* * * * *
66255024 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTC-ACTTTCAGCTCACGAGCTAAACCT
* *
66255054 CAGCTCAGCTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCA-CTTTCAGCTCACGAGCTAAACCT
66255084 TAGCTCA
1 TAGCTCA
66255091 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 1 0.02
30 45 0.90
31 4 0.08
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCACTTTCAGCTCACGAGCTAAACCT
Found at i:66260859 original size:13 final size:13
Alignment explanation
Indices: 66260841--66260865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66260831 GATATAAATT
66260841 CACATAAAATAAA
1 CACATAAAATAAA
66260854 CACATAAAATAA
1 CACATAAAATAA
66260866 TTTTTAACTA
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:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
CACATAAAATAAA
Found at i:66265096 original size:31 final size:31
Alignment explanation
Indices: 66265058--66265118 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
66265048 GTCCATAAAT
*
66265058 CTCTGACTGATATATTTCTAACGAAACTAAC
1 CTCTGACTAATATATTTCTAACGAAACTAAC
* *
66265089 CTCTGACTAATATATTTCTTATGAAACTAA
1 CTCTGACTAATATATTTCTAACGAAACTAA
66265119 GTCTAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (31 bp):
CTCTGACTAATATATTTCTAACGAAACTAAC
Found at i:66267769 original size:43 final size:43
Alignment explanation
Indices: 66267703--66267789 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
66267693 AAATCGTACA
* *
66267703 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCATAAACACATATCG
66267746 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCATAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCATAAACACATATCG
66267789 A
1 A
66267790 AATCACATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCATAAACACATATCG
Found at i:66268997 original size:14 final size:14
Alignment explanation
Indices: 66268980--66269013 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
66268970 TTTCACAGAT
66268980 AATAATTCACATAA
1 AATAATTCACATAA
*
66268994 AATAA-ACACATAA
1 AATAATTCACATAA
66269007 AATAATT
1 AATAATT
66269014 TTTAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAATTCACATAA
Found at i:66269290 original size:38 final size:39
Alignment explanation
Indices: 66269260--66269408 Score: 158
Period size: 38 Copynumber: 3.7 Consensus size: 39
66269250 TGTATTACCG
66269260 TGGCATATCCACTTAGCACCACGTTACATGTT-TAACCA
1 TGGCATATCCACTTAGCACCACGTTACATGTTCTAACCA
* * * *
66269298 TGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCG
1 TGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-TCTAACCA
*
66269345 TGGCATATCCACTTAGCACCAGGTTACATGTTC-AACCA
1 TGGCATATCCACTTAGCACCACGTTACATGTTCTAACCA
*
66269383 TGGTATATCCACTTAGCACCACGTTA
1 TGGCATATCCACTTAGCACCACGTTA
66269409 ATGAATCAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
38 50 0.54
39 2 0.02
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.03
46 2 0.02
47 26 0.28
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (39 bp):
TGGCATATCCACTTAGCACCACGTTACATGTTCTAACCA
Found at i:66269354 original size:85 final size:85
Alignment explanation
Indices: 66269256--66269438 Score: 348
Period size: 85 Copynumber: 2.2 Consensus size: 85
66269246 AACATGTATT
*
66269256 ACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCACG
1 ACCGTGGCATATCCACTTAGCACCACGTTACATGTTCAACCATGGTATATCCACTTAGCACCACG
66269321 TTAATGAATCAATATATGTA
66 TTAATGAATCAATATATGTA
*
66269341 ACCGTGGCATATCCACTTAGCACCAGGTTACATGTTCAACCATGGTATATCCACTTAGCACCACG
1 ACCGTGGCATATCCACTTAGCACCACGTTACATGTTCAACCATGGTATATCCACTTAGCACCACG
66269406 TTAATGAATCAATATATGTA
66 TTAATGAATCAATATATGTA
66269426 ACCGTGGCATATC
1 ACCGTGGCATATC
66269439 ATGTAACACC
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 96 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (85 bp):
ACCGTGGCATATCCACTTAGCACCACGTTACATGTTCAACCATGGTATATCCACTTAGCACCACG
TTAATGAATCAATATATGTA
Found at i:66269361 original size:47 final size:47
Alignment explanation
Indices: 66269292--66269438 Score: 168
Period size: 47 Copynumber: 3.3 Consensus size: 47
66269282 GTTACATGTT
*
66269292 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
66269339 TAACCGTGGCATATCCACTTAGCACCA-GGT--T--A-C-ATGT-T-
1 TAACCATGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
66269377 CAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
66269424 TAACCGTGGCATATC
1 TAACCATGGCATATC
66269439 ATGTAACACC
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
38 24 0.30
39 3 0.04
40 3 0.04
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 3 0.04
47 37 0.47
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (47 bp):
TAACCATGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:66275534 original size:22 final size:23
Alignment explanation
Indices: 66275488--66275537 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
66275478 ATTTCGATAA
* *
66275488 CCTTTATGGCATATTCTGATTTGG
1 CCTTTATGGCA-ATTCTAATATGG
66275512 CCTTTATGGC-ATTCTAATATGG
1 CCTTTATGGCAATTCTAATATGG
66275534 CCTT
1 CCTT
66275538 GGTGGCGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.58
24 10 0.42
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (23 bp):
CCTTTATGGCAATTCTAATATGG
Found at i:66275543 original size:22 final size:22
Alignment explanation
Indices: 66275500--66275543 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
66275490 TTTATGGCAT
* * *
66275500 ATTCTGATTTGGCCTTTATGGC
1 ATTCTAATATGGCCTTGATGGC
*
66275522 ATTCTAATATGGCCTTGGTGGC
1 ATTCTAATATGGCCTTGATGGC
66275544 GCATTCTGTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.41
Consensus pattern (22 bp):
ATTCTAATATGGCCTTGATGGC
Found at i:66275569 original size:20 final size:20
Alignment explanation
Indices: 66275544--66275587 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
66275534 CCTTGGTGGC
*
66275544 GCATTCTGTTAGCCTTTGTA
1 GCATTCTGCTAGCCTTTGTA
*
66275564 GCATTCTGCTAGCCTTTGTG
1 GCATTCTGCTAGCCTTTGTA
66275584 GCAT
1 GCAT
66275588 ATTCTATGTA
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:0.14, C:0.23, G:0.23, T:0.41
Consensus pattern (20 bp):
GCATTCTGCTAGCCTTTGTA
Found at i:66275604 original size:25 final size:27
Alignment explanation
Indices: 66275575--66275644 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
66275565 CATTCTGCTA
*
66275575 GCCTTTGTGGCATATTCTATGTAT-T-
1 GCCTTTGTGACATATTCTATGTATCTC
*
66275600 GCCTTTGTGACGTA-T-TATGTATCTC
1 GCCTTTGTGACATATTCTATGTATCTC
*
66275625 ACCTTTGTGACATATTCTAT
1 GCCTTTGTGACATATTCTAT
66275645 CAGGCCTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
23 7 0.19
24 2 0.05
25 24 0.65
26 1 0.03
27 3 0.08
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.46
Consensus pattern (27 bp):
GCCTTTGTGACATATTCTATGTATCTC
Found at i:66276911 original size:12 final size:12
Alignment explanation
Indices: 66276894--66276918 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66276884 TTTGAGTTAG
66276894 TATATTTTGTCT
1 TATATTTTGTCT
66276906 TATATTTTGTCT
1 TATATTTTGTCT
66276918 T
1 T
66276919 TGAATCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (12 bp):
TATATTTTGTCT
Found at i:66282710 original size:15 final size:15
Alignment explanation
Indices: 66282690--66282744 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
66282680 ACTCTCCTCA
*
66282690 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
66282705 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
66282720 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
66282734 TTCTTTT-TCTC
1 TTCTTTTCTCTC
66282745 GATCAATAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:66284893 original size:14 final size:14
Alignment explanation
Indices: 66284876--66284908 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
66284866 TTTTTTTGAA
66284876 TTTTTTTCAAATTT
1 TTTTTTTCAAATTT
*
66284890 TTTTTTTCGAATTT
1 TTTTTTTCAAATTT
66284904 TTTTT
1 TTTTT
66284909 ATATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTTTCAAATTT
Found at i:66284901 original size:25 final size:24
Alignment explanation
Indices: 66284865--66284919 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
66284855 GAATACAAAC
66284865 TTTTTTTTGAATTTTTTTCAAATT
1 TTTTTTTTGAATTTTTTTCAAATT
* *
66284889 TTTTTTTTCGAATTTTTTTTATATT
1 TTTTTTTT-GAATTTTTTTCAAATT
66284914 TTTTTT
1 TTTTTT
66284920 ACAATACCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTTTTTTGAATTTTTTTCAAATT
Found at i:66288921 original size:33 final size:33
Alignment explanation
Indices: 66288883--66288945 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
66288873 GATTACTCAC
66288883 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
66288916 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
66288946 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:66288972 original size:21 final size:21
Alignment explanation
Indices: 66288943--66288998 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
66288933 CAAGCTCTCT
*
66288943 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
66288964 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
66288985 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
66288999 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:66288991 original size:14 final size:14
Alignment explanation
Indices: 66288942--66288998 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
66288932 TCAAGCTCTC
66288942 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
66288955 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
66288969 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
66288983 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
66288997 TT
1 TT
66288999 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:66289045 original size:12 final size:12
Alignment explanation
Indices: 66288963--66289052 Score: 53
Period size: 12 Copynumber: 7.6 Consensus size: 12
66288953 TTTTTCGCTT
66288963 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
66288975 TTTTCTTTTCTTCAT
1 -TTTC-TTT-TTCAA
**
66288990 TTTCTTTTTCTC
1 TTTCTTTTTCAA
** *
66289002 TCACTTTTTCGA
1 TTTCTTTTTCAA
66289014 TTTCTTTTT---
1 TTTCTTTTTCAA
*
66289023 TTT-TCTTTCAA
1 TTTCTTTTTCAA
66289034 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
66289046 TCTCTTT
1 TTTCTTT
66289053 CTACTTTTCT
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
11 3 0.05
12 31 0.53
13 7 0.12
14 7 0.12
15 4 0.07
ACGTcount: A:0.10, C:0.20, G:0.01, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:66290120 original size:12 final size:12
Alignment explanation
Indices: 66290105--66290140 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
66290095 TTTTGCTCGA
*
66290105 TTTTTTTTCACT
1 TTTTTTTTCAAT
*
66290117 TTTTTTTTGAAT
1 TTTTTTTTCAAT
66290129 TTTTTTTTCAAT
1 TTTTTTTTCAAT
66290141 CAAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (12 bp):
TTTTTTTTCAAT
Found at i:66290133 original size:39 final size:37
Alignment explanation
Indices: 66290090--66290175 Score: 93
Period size: 39 Copynumber: 2.3 Consensus size: 37
66290080 TTTTCTTTTC
* *
66290090 TTTTTTTTTGCTC-GATTTTTTTTCACTTTTTTTTTGAAT
1 TTTTTTTTTGATCAAATTTTTTTTCA-TTTTTTTTT--AT
** *
66290129 TTTTTTTTCAATCAAATTTTTTTTGATTTTTTTTTAT
1 TTTTTTTTTGATCAAATTTTTTTTCATTTTTTTTTAT
66290166 TTTTTTTTTG
1 TTTTTTTTTG
66290176 TTACTCCAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
37 10 0.26
39 19 0.49
40 10 0.26
ACGTcount: A:0.13, C:0.07, G:0.06, T:0.74
Consensus pattern (37 bp):
TTTTTTTTTGATCAAATTTTTTTTCATTTTTTTTTAT
Found at i:66290136 original size:28 final size:28
Alignment explanation
Indices: 66290105--66290169 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
66290095 TTTTGCTCGA
**
66290105 TTTTTTTTCACTTTTTTTTTGAATTTTT
1 TTTTTTTTCAAATTTTTTTTGAATTTTT
*** *
66290133 TTTTCAATCAAATTTTTTTTGATTTTTT
1 TTTTTTTTCAAATTTTTTTTGAATTTTT
66290161 TTTATTTTT
1 TTT-TTTTT
66290170 TTTTTGTTAC
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.75
Consensus pattern (28 bp):
TTTTTTTTCAAATTTTTTTTGAATTTTT
Found at i:66290174 original size:11 final size:10
Alignment explanation
Indices: 66290144--66290173 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
66290134 TTTCAATCAA
*
66290144 ATTTTTTTTG
1 ATTTTTTTTT
66290154 ATTTTTTTTT
1 ATTTTTTTTT
66290164 ATTTTTTTTT
1 ATTTTTTTTT
66290174 TGTTACTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:66291771 original size:20 final size:19
Alignment explanation
Indices: 66291748--66291812 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
66291738 AAGCTCAAAC
66291748 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
66291768 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
66291788 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
66291808 GAGCT
1 GAGCT
66291813 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:66292152 original size:14 final size:14
Alignment explanation
Indices: 66292105--66292152 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
66292095 GTACGAATGG
*
66292105 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
66292119 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
66292133 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
66292147 ATTGGT
1 AATGGT
66292153 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:66303392 original size:13 final size:13
Alignment explanation
Indices: 66303371--66303423 Score: 63
Period size: 14 Copynumber: 4.0 Consensus size: 13
66303361 AGACCGTATG
66303371 CAAATTTTTTTTT
1 CAAATTTTTTTTT
66303384 CAAAATTTTGTTTTT
1 C-AAATTTT-TTTTT
*
66303399 CAATTTTTTTTTT
1 CAAATTTTTTTTT
*
66303412 C-GATTTTTTTTT
1 CAAATTTTTTTTT
66303424 GAATCTACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 9 0.26
13 7 0.20
14 13 0.37
15 6 0.17
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.70
Consensus pattern (13 bp):
CAAATTTTTTTTT
Found at i:66306551 original size:11 final size:11
Alignment explanation
Indices: 66306537--66306574 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
66306527 CTTTTTTCGA
66306537 TTTTTTT-ATT
1 TTTTTTTGATT
*
66306547 TTTTTTCGATT
1 TTTTTTTGATT
66306558 TTTTTTTGATT
1 TTTTTTTGATT
66306569 TTTTTT
1 TTTTTT
66306575 AACTTGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.08, C:0.03, G:0.05, T:0.84
Consensus pattern (11 bp):
TTTTTTTGATT
Found at i:66306570 original size:19 final size:19
Alignment explanation
Indices: 66306529--66306571 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
66306519 ATAAATCACT
*
66306529 TTTTTCGATTTTTTTATTT
1 TTTTTCGATTTTTTTATTA
66306548 TTTTTCGATTTTTTT-TTGA
1 TTTTTCGATTTTTTTATT-A
66306567 TTTTT
1 TTTTT
66306572 TTTAACTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.09, C:0.05, G:0.07, T:0.79
Consensus pattern (19 bp):
TTTTTCGATTTTTTTATTA
Found at i:66306984 original size:14 final size:14
Alignment explanation
Indices: 66306937--66306984 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
66306927 GTACGAATGG
*
66306937 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
66306951 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
66306965 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
66306979 ATTGGT
1 AATGGT
66306985 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:66312732 original size:19 final size:19
Alignment explanation
Indices: 66312708--66312745 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
66312698 AGCCGAACCT
66312708 ATCACTATTCCTACACTTA
1 ATCACTATTCCTACACTTA
66312727 ATCACTATTCCTACACTTA
1 ATCACTATTCCTACACTTA
66312746 CTTGAAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCACTATTCCTACACTTA
Found at i:66313449 original size:18 final size:19
Alignment explanation
Indices: 66313421--66313463 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
66313411 TCACACTCTT
66313421 TTTTTTATAT-ATATTCAAA
1 TTTTTTATATAAT-TTCAAA
*
66313440 TTTTTT-TATAATTTCATA
1 TTTTTTATATAATTTCAAA
66313458 TTTTTT
1 TTTTTT
66313464 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTTATATAATTTCAAA
Found at i:66315459 original size:20 final size:20
Alignment explanation
Indices: 66315436--66315489 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
66315426 TAGTTTTCCC
*
66315436 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
66315456 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
66315476 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
66315490 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:66315470 original size:30 final size:30
Alignment explanation
Indices: 66315436--66315509 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
66315426 TAGTTTTCCC
66315436 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
66315466 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
66315496 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
66315510 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:66315499 original size:20 final size:20
Alignment explanation
Indices: 66315436--66315500 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
66315426 TAGTTTTCCC
* * * *
66315436 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
66315456 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
66315475 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
66315496 AGCTC
1 AGCTC
66315501 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:66319390 original size:23 final size:22
Alignment explanation
Indices: 66319355--66319417 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
66319345 TGAAATTCAA
66319355 AAAAAAAAGAAGTGAGCAAAAAAAG
1 AAAAAAAA-AAGTGA--AAAAAAAG
66319380 -AAAAAAAAAGT-AAAAAAAAG
1 AAAAAAAAAAGTGAAAAAAAAG
66319400 AACAAAAAAAAGTGAAAA
1 AA-AAAAAAAAGTGAAAA
66319418 GTCTTGCGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.23
21 1 0.03
22 11 0.31
23 8 0.23
24 7 0.20
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (22 bp):
AAAAAAAAAAGTGAAAAAAAAG
Found at i:66319417 original size:10 final size:10
Alignment explanation
Indices: 66319372--66319409 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
66319362 AGAAGTGAGC
66319372 AAAAAAAGAA
1 AAAAAAAGAA
*
66319382 AAAAAAAGTA
1 AAAAAAAGAA
66319392 AAAAAAAGAA
1 AAAAAAAGAA
66319402 CAAAAAAA
1 -AAAAAAA
66319410 AGTGAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.87, C:0.03, G:0.08, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:66320447 original size:11 final size:12
Alignment explanation
Indices: 66320431--66320549 Score: 66
Period size: 12 Copynumber: 9.6 Consensus size: 12
66320421 AAAGAAATTG
66320431 AAAGAAAAC-AA
1 AAAGAAAACGAA
66320442 AAAGAAAACGAA
1 AAAGAAAACGAA
*
66320454 AAAGAAAAAGAA
1 AAAGAAAACGAA
***
66320466 ATTTCAAAA-GAA
1 A-AAGAAAACGAA
*
66320478 AAAGAAATCGAA
1 AAAGAAAACGAA
*
66320490 AAAGTGAAA-G-A
1 AAAG-AAAACGAA
*
66320501 AAAGAAAATGAAGA
1 AAAGAAAACG-A-A
*
66320515 AAAGAAAATTGAA
1 AAAGAAAA-CGAA
66320528 AAAGAAAAAGCGAAA
1 AAAG-AAAA-CG-AA
66320543 AAAGAAA
1 AAAGAAA
66320550 TTGAAAGAGA
Statistics
Matches: 84, Mismatches: 13, Indels: 19
0.72 0.11 0.16
Matches are distributed among these distances:
10 3 0.04
11 18 0.21
12 26 0.31
13 11 0.13
14 18 0.21
15 8 0.10
ACGTcount: A:0.72, C:0.04, G:0.17, T:0.07
Consensus pattern (12 bp):
AAAGAAAACGAA
Found at i:66320461 original size:18 final size:18
Alignment explanation
Indices: 66320435--66320537 Score: 82
Period size: 18 Copynumber: 5.6 Consensus size: 18
66320425 AAATTGAAAG
*
66320435 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAAACGA
****
66320453 AAAAGAAAAAGAAATTTC
1 AAAAGAAAAAGAAAACGA
*
66320471 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAAACGA
**
66320489 AAAAGTGAAAGAAAA-GA
1 AAAAGAAAAAGAAAACGA
* *
66320506 AAATGAAGAAAAGAAAATTGA
1 AAAAG-A-AAAAGAAAA-CGA
66320527 AAAAGAAAAAG
1 AAAAGAAAAAG
66320538 CGAAAAAAGA
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
17 6 0.09
18 40 0.61
19 13 0.20
20 1 0.02
21 6 0.09
ACGTcount: A:0.72, C:0.04, G:0.17, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAAGAAAACGA
Found at i:66320463 original size:6 final size:6
Alignment explanation
Indices: 66320431--66320537 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
66320421 AAAGAAATTG
* * ****
66320431 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTTCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * *
66320478 AAAGAA ATCGAA AAAGTG AAAG-A AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
66320528 AAAGAA AAAG
1 AAAGAA AAAG
66320538 CGAAAAAAGA
Statistics
Matches: 74, Mismatches: 23, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
5 7 0.09
6 56 0.76
7 7 0.09
8 4 0.05
ACGTcount: A:0.72, C:0.04, G:0.17, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:66320514 original size:14 final size:15
Alignment explanation
Indices: 66320497--66320535 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
66320487 GAAAAAGTGA
66320497 AAGAAAAGAAAA-TG
1 AAGAAAAGAAAATTG
66320511 AAGAAAAGAAAATTG
1 AAGAAAAGAAAATTG
66320526 -A-AAAAGAAAA
1 AAGAAAAGAAAA
66320536 AGCGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.38
14 13 0.54
15 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (15 bp):
AAGAAAAGAAAATTG
Found at i:66320589 original size:33 final size:33
Alignment explanation
Indices: 66320552--66320614 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
66320542 AAAAGAAATT
66320552 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
66320585 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
66320615 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:66322034 original size:25 final size:25
Alignment explanation
Indices: 66322002--66322049 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
66321992 TCTTGTTTTA
* *
66322002 ATTTATTT-TTATGTTTTTAAATGT
1 ATTTATTTATTATATTTTAAAATGT
66322026 ATTTAATTTATTATATTTTAAAAT
1 ATTT-ATTTATTATATTTTAAAAT
66322050 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 4 0.20
26 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (25 bp):
ATTTATTTATTATATTTTAAAATGT
Found at i:66322736 original size:7 final size:7
Alignment explanation
Indices: 66322726--66322758 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
66322716 CACTTATTCA
66322726 TCATCCC
1 TCATCCC
66322733 TCATCCC
1 TCATCCC
66322740 TCATCCC
1 TCATCCC
*
66322747 TCATCCA
1 TCATCCC
66322754 TCATC
1 TCATC
66322759 ATTCAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.18, C:0.52, G:0.00, T:0.30
Consensus pattern (7 bp):
TCATCCC
Found at i:66325464 original size:45 final size:45
Alignment explanation
Indices: 66325414--66325582 Score: 195
Period size: 45 Copynumber: 3.7 Consensus size: 45
66325404 TGGTTGAGCA
66325414 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATG
* *
66325459 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATG-GATGCGAA-T--G
*
66325504 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATG
* *
66325552 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
66325583 TAGGGGCGGG
Statistics
Matches: 106, Mismatches: 7, Indels: 23
0.78 0.05 0.17
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 1 0.01
45 38 0.36
46 19 0.18
47 28 0.26
48 1 0.01
49 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATG
Found at i:66325577 original size:92 final size:92
Alignment explanation
Indices: 66325411--66325579 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
66325401 GGATGGTTGA
* *
66325411 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
66325476 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
66325503 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
66325568 TGAGT-CGAGTTC
65 TGAGTCCGAGTTC
66325580 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 41 0.56
93 32 0.44
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66333015 original size:46 final size:46
Alignment explanation
Indices: 66332965--66333137 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
66332955 TGGTTGAGCA
66332965 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
66333011 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
66333056 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
66333104 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66333138 GGGCGGGTTA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:66333121 original size:93 final size:93
Alignment explanation
Indices: 66332962--66333132 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
66332952 GGATGGTTGA
* *
66332962 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
66333027 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
66333055 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
66333120 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
66333133 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66335276 original size:40 final size:40
Alignment explanation
Indices: 66335192--66335299 Score: 114
Period size: 39 Copynumber: 2.8 Consensus size: 40
66335182 CAGGGTTTAT
** * *
66335192 CCGGATATAACCACTCGCAC-AA-GCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAAC
* * *
66335230 CCGGATATGTGTCACTAGCATAAATGCCTTC-GGACTTAGC
1 CCGGATAT-AGTCACTAGCACAAATGCCTTCGGGACTTAAC
*
66335270 CCGGATATAGTCGCTAGCACAAATGCCTTC
1 CCGGATATAGTCACTAGCACAAATGCCTTC
66335300 AATATGCTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
38 8 0.14
39 26 0.46
40 17 0.30
41 6 0.11
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAAC
Found at i:66343577 original size:34 final size:35
Alignment explanation
Indices: 66343519--66343590 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
66343509 CGTATCCTAG
* *
66343519 CTACAGTCTCAGTCTTCTAAAGTTTTCAGT-TTTCC
1 CTACAGTCTCAATCTTCTAAAG-TTTCAGTATTACC
* *
66343554 CTACTGTCTCAAT-TTCTACAGTTTCAGTATTACC
1 CTACAGTCTCAATCTTCTAAAGTTTCAGTATTACC
66343588 CTA
1 CTA
66343591 ACTACAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 7 0.22
34 14 0.44
35 11 0.34
ACGTcount: A:0.22, C:0.26, G:0.10, T:0.42
Consensus pattern (35 bp):
CTACAGTCTCAATCTTCTAAAGTTTCAGTATTACC
Found at i:66345114 original size:27 final size:26
Alignment explanation
Indices: 66345058--66345114 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
66345048 CAACCTTAAC
* * *
66345058 CCTAGGGGTATATTAGTAATTTTGCT
1 CCTAGGGGTAAATTAGTAATTTTCCA
66345084 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTCCA
66345111 CCTA
1 CCTA
66345115 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTCCA
Found at i:66357431 original size:40 final size:40
Alignment explanation
Indices: 66357387--66357474 Score: 142
Period size: 39 Copynumber: 2.2 Consensus size: 40
66357377 CCGGCAATTA
66357387 GCCTGCTAGGGTATAAACCTGAACTTATCACCGGCACGAG
1 GCCTGCTAGGGTATAAACCTGAACTTATCACCGGCACGAG
* * *
66357427 GCCTGCTA-GGTATAAACCTTAATTTATCACCGGCATGAG
1 GCCTGCTAGGGTATAAACCTGAACTTATCACCGGCACGAG
66357466 GCCTGCTAG
1 GCCTGCTAG
66357475 ACATTAAGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 36 0.82
40 8 0.18
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCTGCTAGGGTATAAACCTGAACTTATCACCGGCACGAG
Found at i:66363864 original size:24 final size:26
Alignment explanation
Indices: 66363818--66363879 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
66363808 CAAGTACACG
*
66363818 AAAAGTCTT-AATACTTGATGTCAC-
1 AAAAGACTTGAATACTTGATGTCACA
66363842 AAAAGACTTGAATACTTGA-GTCACA
1 AAAAGACTTGAATACTTGATGTCACA
66363867 AAAAGACTTGAAT
1 AAAAGACTTGAAT
66363880 TGAGATAGCG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
24 13 0.37
25 22 0.63
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (26 bp):
AAAAGACTTGAATACTTGATGTCACA
Found at i:66366980 original size:93 final size:93
Alignment explanation
Indices: 66366821--66366991 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
66366811 GGATGGTTGA
* * *
66366821 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
66366886 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
66366914 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
66366979 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
66366992 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66366994 original size:46 final size:46
Alignment explanation
Indices: 66366827--66366996 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
66366817 TTGAGCATCT
* * *
66366827 GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
* * *
66366873 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CC
66366920 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
*
66366966 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66366997 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.55
47 28 0.27
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
Found at i:66370012 original size:17 final size:15
Alignment explanation
Indices: 66369987--66370031 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 15
66369977 CCAAAAAATT
66369987 AAATAAATAAAAATAACA
1 AAAT-AATAAAAAT-A-A
66370005 AAATAATAAAAATAA
1 AAATAATAAAAATAA
66370020 AAATAATTAAAA
1 AAATAA-TAAAA
66370032 GTTGACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.27
16 6 0.23
17 9 0.35
18 4 0.15
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAATAAAAATAA
Done.