Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 726 of 770
Found at i:229618104 original size:77 final size:79
Alignment explanation
Indices: 229617984--229618134 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 79
229617974 TATGGTAACC
229617984 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
229618049 CGG-TATCATAGCT
66 CGGATATCATAGCT
* * * *
229618062 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
229618126 CGGATATCA
66 CGGATATCA
229618135 CTCGAACATT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 46 0.68
78 22 0.32
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:229618106 original size:39 final size:39
Alignment explanation
Indices: 229617984--229618134 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
229617974 TATGGTAACC
* * * *
229617984 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
229618024 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
229618062 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
229618101 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
229618135 CTCGAACATT
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
38 36 0.34
39 53 0.50
40 17 0.16
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:229625970 original size:40 final size:39
Alignment explanation
Indices: 229625926--229626106 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
229625916 GTTCAAAACA
* * ** * *
229625926 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
229625966 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
229626006 CCTTCGGGCTTAGCCCGG-TATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
229626044 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
229626083 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
229626107 CTCGAACATT
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 36 0.28
39 53 0.41
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:229626076 original size:77 final size:79
Alignment explanation
Indices: 229625956--229626106 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 79
229625946 TATGGTAACC
229625956 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
229626021 CGG-TATCATAGCT
66 CGGATATCATAGCT
* * * *
229626034 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
229626098 CGGATATCA
66 CGGATATCA
229626107 CTCGAACATT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 46 0.68
78 22 0.32
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:229626078 original size:39 final size:39
Alignment explanation
Indices: 229625956--229626106 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
229625946 TATGGTAACC
* * * *
229625956 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
229625996 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
229626034 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
229626073 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
229626107 CTCGAACATT
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
38 36 0.34
39 53 0.50
40 17 0.16
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:229632285 original size:29 final size:29
Alignment explanation
Indices: 229632252--229632383 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
229632242 GTGACGAGAT
*
229632252 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
229632281 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
229632310 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
229632339 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
229632368 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
229632384 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:229639521 original size:140 final size:140
Alignment explanation
Indices: 229639247--229639538 Score: 559
Period size: 139 Copynumber: 2.1 Consensus size: 140
229639237 GGTGAGTTAA
229639247 ATTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
1 ATTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
*
229639312 TGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 TGAGTAAGTTCGAATGTTTAACAAAAAGGAAATTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
229639377 GTGCATGAGT
131 GTGCATGAGT
229639387 ATTCGGCCATGCATGTTG-TTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
1 ATTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
229639451 TGAGTAAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTG
66 TGAGTAAGTTCGAATGTTTAACAAAAAGGAAA-TTTGTGCCATTGAGTTCTTGTTGTTATGTGTG
229639516 TGTGCATGAGT
130 TGTGCATGAGT
229639527 ATTCGGCCATGC
1 ATTCGGCCATGC
229639539 CTATAGAATT
Statistics
Matches: 150, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
139 77 0.51
140 73 0.49
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (140 bp):
ATTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
TGAGTAAGTTCGAATGTTTAACAAAAAGGAAATTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGCATGAGT
Found at i:229640206 original size:29 final size:29
Alignment explanation
Indices: 229640173--229640298 Score: 156
Period size: 29 Copynumber: 4.5 Consensus size: 29
229640163 TGACGAGATC
229640173 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
*
229640202 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
*
229640231 GGCACTAAGTGTGCATGCTGGAAA-A-AT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* *
229640258 CGGCACT--GTGTGC-AGCTGGAAAAATAT
1 -GGCACTAAGTGTGCGTGCTGGAAATATAT
*
229640285 GGCACT-GGTGTGCG
1 GGCACTAAGTGTGCG
229640299 AGCTCGGAGG
Statistics
Matches: 88, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.09
26 13 0.15
27 9 0.10
28 7 0.08
29 51 0.58
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:229641869 original size:28 final size:28
Alignment explanation
Indices: 229641800--229641899 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
229641790 GACAAGATTG
* * * *
229641800 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
229641830 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
229641858 GCACTAAGTGTGCGAG-CTGAATTATATA
1 GCACTAAGTGTGCGAGTTTG-ATTATATA
229641886 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
229641900 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 44 0.69
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:229649867 original size:28 final size:28
Alignment explanation
Indices: 229649798--229649898 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
229649788 GACAAGATTG
* * * *
229649798 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
229649828 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
229649856 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
229649885 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
229649899 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:229649892 original size:29 final size:28
Alignment explanation
Indices: 229649827--229649898 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
229649817 AAAATTGTAC
*
229649827 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
229649855 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
229649884 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
229649899 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:229654767 original size:29 final size:27
Alignment explanation
Indices: 229654734--229654804 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
229654724 ATAGTGAATC
*
229654734 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA--TAATCAACT
229654763 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
229654790 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
229654805 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 23 0.56
29 18 0.44
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:229661919 original size:28 final size:28
Alignment explanation
Indices: 229661854--229661954 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
229661844 ATAGTGAATC
*
229661854 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
229661883 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
229661911 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
229661941 CGCACACTTAGTGC
1 CGCACACTTAGTGC
229661955 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:229665137 original size:34 final size:34
Alignment explanation
Indices: 229665093--229665186 Score: 127
Period size: 34 Copynumber: 2.8 Consensus size: 34
229665083 GTATCAGTTA
* *
229665093 GGCCTTAGCCCATTACAGTAACTGTAACAGTCTG
1 GGCCTGAGCCCATTACAGTAACAGTAACAGTCTG
* *
229665127 GGCCTGAGCCCATTACAGTAACAGTATCAGTTTG
1 GGCCTGAGCCCATTACAGTAACAGTAACAGTCTG
*
229665161 GGCCTGAGCCCATAACAG-AATCAGTA
1 GGCCTGAGCCCATTACAGTAA-CAGTA
229665187 CAATATGCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 2 0.04
34 52 0.96
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (34 bp):
GGCCTGAGCCCATTACAGTAACAGTAACAGTCTG
Found at i:229668877 original size:40 final size:40
Alignment explanation
Indices: 229668769--229668978 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
229668759 CGGGATTTAA
* * * * *
229668769 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
229668809 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
229668849 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
229668889 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
229668929 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
229668969 CCGGATATAT
1 CCGGATATAT
229668979 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:229676819 original size:68 final size:63
Alignment explanation
Indices: 229676733--229676951 Score: 217
Period size: 64 Copynumber: 3.4 Consensus size: 63
229676723 TAATACGGGA
* * *
229676733 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA--AAGTAGCTAGGTCGCATGGGTGGTACT
229676798 ATG
61 ATG
* * * * *
229676801 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAATGTAGCTAGGTTGCATGCGTGGTTCCAGTG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAAAGTAGCTAGGTCGCATGGGTGGTACTA-TG
* * * * * *
229676865 AAGGACACCATGT-AACAAGAGAGCTACGAGATAAAGTGGCTAGGTCACATGGGTGGTACTAAG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAAAGTAGCTAGGTCGCATGGGTGGTACTATG
*
229676928 TGTTCACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
229676952 CAAAATTATG
Statistics
Matches: 125, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
62 9 0.07
63 33 0.26
64 42 0.34
65 12 0.10
66 1 0.01
68 27 0.22
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (63 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAAAGTAGCTAGGTCGCATGGGTGGTACTATG
Found at i:229680662 original size:30 final size:30
Alignment explanation
Indices: 229680628--229680688 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
229680618 TTCCCGAGCC
229680628 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
229680658 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
229680688 T
1 T
229680689 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:229685090 original size:30 final size:29
Alignment explanation
Indices: 229685054--229685113 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
229685044 TTCCCGAGCC
229685054 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGC-AAAGTT
* * * *
229685084 TAGGGGCACAATTGTAATTTTGCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAGTT
229685113 T
1 T
229685114 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAAATATGCAAAGTT
Found at i:229686217 original size:17 final size:18
Alignment explanation
Indices: 229686175--229686223 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
229686165 AGTTGAAAAG
229686175 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
229686194 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
229686211 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
229686224 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:229687106 original size:40 final size:40
Alignment explanation
Indices: 229687040--229687206 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
229687030 AAATTGAATG
* * *
229687040 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
229687079 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
229687119 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
229687159 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
229687199 ATATCCGG
1 ATATCCGG
229687207 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:229694207 original size:17 final size:18
Alignment explanation
Indices: 229694165--229694213 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
229694155 AGTTGAAAAG
229694165 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
229694184 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
229694201 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
229694214 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:229695100 original size:40 final size:40
Alignment explanation
Indices: 229695034--229695200 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
229695024 AAATTGAATG
* * *
229695034 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
229695073 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
229695113 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
229695153 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
229695193 ATATCCGG
1 ATATCCGG
229695201 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:229696572 original size:59 final size:59
Alignment explanation
Indices: 229696480--229696600 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
229696470 TCAAATTGGT
229696480 GGGCAAAAACATGTGAACTTGGTTTGTTAACCCTCGGGTCCGACACCGGCGATGGTCTC
1 GGGCAAAAACATGTGAACTTGGTTTGTTAACCCTCGGGTCCGACACCGGCGATGGTCTC
229696539 GGGCAAAAACATGTGAACTTGGTTTGTTAACCCTCGGGTCCGACACCGGCGATGGTCTC
1 GGGCAAAAACATGTGAACTTGGTTTGTTAACCCTCGGGTCCGACACCGGCGATGGTCTC
229696598 GGG
1 GGG
229696601 TTTTGGGGTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (59 bp):
GGGCAAAAACATGTGAACTTGGTTTGTTAACCCTCGGGTCCGACACCGGCGATGGTCTC
Found at i:229699979 original size:28 final size:28
Alignment explanation
Indices: 229699890--229700018 Score: 197
Period size: 28 Copynumber: 4.5 Consensus size: 28
229699880 ATAGTGAATC
229699890 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATA-TTTCAGCT
229699919 CGCACACTTAGTGCTATATAATTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTCAGCT
229699948 CGCACACTTAGTGCTATATATTTCAGCT
1 CGCACACTTAGTGCTATATATTTCAGCT
* * *
229699976 CGCACACTTAGTGCTGTATA-ATCAAACT
1 CGCACACTTAGTGCTATATATTTC-AGCT
229700004 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
229700019 GTACAATTTT
Statistics
Matches: 95, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
27 2 0.02
28 46 0.48
29 46 0.48
30 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATATTTCAGCT
Found at i:229699990 original size:57 final size:57
Alignment explanation
Indices: 229699890--229700047 Score: 212
Period size: 58 Copynumber: 2.8 Consensus size: 57
229699880 ATAGTGAATC
*
229699890 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA--TCAAACT
*
229699948 CGCACACTTAGTGCTATATA-TTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
229700004 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
229700048 CAATCTTGTC
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
55 2 0.02
56 20 0.22
57 29 0.32
58 39 0.43
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:229700021 original size:28 final size:27
Alignment explanation
Indices: 229699890--229700018 Score: 168
Period size: 29 Copynumber: 4.6 Consensus size: 27
229699880 ATAGTGAATC
*
229699890 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATA--ATCAGCT
229699919 CGCACACTTAGTGCTATATAATTTCAGCT
1 CGCACACTTAGTGCTATATAA--TCAGCT
*
229699948 CGCACACTTAGTGCTATATATTTCAGCT
1 CGCACACTTAGTGCTATATA-ATCAGCT
* *
229699976 CGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AGCT
229700004 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
229700019 GTACAATTTT
Statistics
Matches: 91, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
27 2 0.02
28 43 0.47
29 46 0.51
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAGCT
Found at i:229707889 original size:29 final size:29
Alignment explanation
Indices: 229707857--229708015 Score: 205
Period size: 29 Copynumber: 5.5 Consensus size: 29
229707847 ATAGTGAATC
229707857 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
229707886 CGCACACTTAGTGCTATAAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
229707915 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * *
229707944 CGCACACTTAGTGCTGTATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
229707972 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
229708002 CGCACACTTAGTGC
1 CGCACACTTAGTGC
229708016 CAATCTTGTC
Statistics
Matches: 117, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.02
28 21 0.18
29 76 0.65
30 17 0.15
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:229713112 original size:33 final size:33
Alignment explanation
Indices: 229713075--229713139 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
229713065 GGAGTTGAAA
229713075 GCTCAGTTGCAAGAATTGGTGGATAGAGGTTTT
1 GCTCAGTTGCAAGAATTGGTGGATAGAGGTTTT
229713108 GCTCAGTTGCAAGAATTGGTGGATAGAGGTTT
1 GCTCAGTTGCAAGAATTGGTGGATAGAGGTTT
229713140 CGCCTGAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.34, T:0.32
Consensus pattern (33 bp):
GCTCAGTTGCAAGAATTGGTGGATAGAGGTTTT
Found at i:229717617 original size:40 final size:40
Alignment explanation
Indices: 229717509--229717618 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
229717499 ATTGAATGAT
* * * * *
229717509 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
229717549 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
229717589 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
229717619 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:229717633 original size:40 final size:39
Alignment explanation
Indices: 229717509--229717658 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
229717499 ATTGAATGAT
* * * * * * *
229717509 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
229717549 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
229717589 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
229717629 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
229717659 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:229721413 original size:28 final size:28
Alignment explanation
Indices: 229721348--229721448 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
229721338 ATAGTGAATC
*
229721348 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
229721377 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
229721405 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
229721435 CGCACACTTAGTGC
1 CGCACACTTAGTGC
229721449 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:229729367 original size:28 final size:28
Alignment explanation
Indices: 229729302--229729402 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
229729292 ATAGTGAATC
*
229729302 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
229729331 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
229729359 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
229729389 CGCACACTTAGTGC
1 CGCACACTTAGTGC
229729403 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:229736033 original size:29 final size:29
Alignment explanation
Indices: 229736000--229736131 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
229735990 GTGACGAGAT
*
229736000 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
229736029 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
229736058 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
229736087 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
229736116 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
229736132 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:229740051 original size:40 final size:40
Alignment explanation
Indices: 229739924--229740053 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
229739914 ATGCTGGAAA
* * *
229739924 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
229739964 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
229740004 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
229740044 TTATATCCGG
1 TTATATCCGG
229740054 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:229742761 original size:29 final size:29
Alignment explanation
Indices: 229742722--229742801 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
229742712 CTTAATAATC
*
229742722 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
229742752 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
229742781 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
229742802 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:229750663 original size:29 final size:29
Alignment explanation
Indices: 229750624--229750703 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
229750614 CTTAATAATC
*
229750624 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
229750654 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
229750683 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
229750704 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:229755522 original size:39 final size:40
Alignment explanation
Indices: 229755467--229755637 Score: 233
Period size: 39 Copynumber: 4.3 Consensus size: 40
229755457 GGACTAAGAT
* *
229755467 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
229755506 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
229755545 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
229755585 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
229755625 CCGAAGGCATTTG
1 CCGAAGGCATTTG
229755638 AGCTAGTCGT
Statistics
Matches: 122, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 73 0.60
40 42 0.34
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:229763567 original size:39 final size:38
Alignment explanation
Indices: 229763512--229763677 Score: 187
Period size: 39 Copynumber: 4.3 Consensus size: 38
229763502 GGACTAAGAT
* *
229763512 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTT-AGC
229763551 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTT---
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAGC
* *
229763586 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTT-AG-C
* * * *
229763626 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTTTGT
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAGC
229763665 CCGAAGGCATTTG
1 CCGAAGGCATTTG
229763678 AGCTAGTCGT
Statistics
Matches: 112, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
35 33 0.29
39 45 0.40
40 27 0.24
41 7 0.06
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (38 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAGC
Found at i:229763597 original size:35 final size:36
Alignment explanation
Indices: 229763512--229763647 Score: 157
Period size: 35 Copynumber: 3.6 Consensus size: 36
229763502 GGACTAAGAT
*
229763512 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAA
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTT-A
*
229763549 GCCCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTT-
1 --CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTA
* * *
229763586 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAA
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTT-A
229763623 GTCCCGAAGGCATTCGTGCGAGTTA
1 ---CCGAAGGCATTCGTGCGAGTTA
229763648 CTATAACCGG
Statistics
Matches: 87, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
35 33 0.38
39 33 0.38
40 21 0.24
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (36 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTA
Found at i:229765605 original size:2 final size:2
Alignment explanation
Indices: 229765598--229765623 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
229765588 CAGGGTAAAA
229765598 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
229765624 TATTATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:229766844 original size:44 final size:45
Alignment explanation
Indices: 229766754--229766882 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
229766744 GACAGAACGA
*
229766754 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
229766800 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
229766844 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
229766883 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:229772902 original size:44 final size:45
Alignment explanation
Indices: 229772812--229772940 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
229772802 GACAGAACGA
*
229772812 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
229772858 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
229772902 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
229772941 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:229778954 original size:44 final size:45
Alignment explanation
Indices: 229778864--229778992 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
229778854 GACAGAACGA
*
229778864 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
229778910 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
229778954 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
229778993 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:229788127 original size:20 final size:20
Alignment explanation
Indices: 229788073--229788131 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
229788063 TAGCTTGTTC
* *
229788073 AGCTCACAACCAGCTCAGCA
1 AGCTCACATCCAGCTCAACA
** *
229788093 AGCTCAGTTCTAGCTCAACA
1 AGCTCACATCCAGCTCAACA
*
229788113 AGTTCACATCCAGCTCAAC
1 AGCTCACATCCAGCTCAAC
229788132 TCCAGCTCAT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.36, G:0.14, T:0.19
Consensus pattern (20 bp):
AGCTCACATCCAGCTCAACA
Found at i:229790116 original size:29 final size:29
Alignment explanation
Indices: 229790084--229790243 Score: 198
Period size: 29 Copynumber: 5.5 Consensus size: 29
229790074 ATAGTGAATC
229790084 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
229790113 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
229790143 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * * *
229790172 CACACACTTAGTGCTGTATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
229790200 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
229790230 CGCACACTTAGTGC
1 CGCACACTTAGTGC
229790244 CAATCTTGTC
Statistics
Matches: 117, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 20 0.17
29 48 0.41
30 46 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:229790139 original size:30 final size:30
Alignment explanation
Indices: 229790084--229790243 Score: 204
Period size: 30 Copynumber: 5.5 Consensus size: 30
229790074 ATAGTGAATC
229790084 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
229790113 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
229790143 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* * *
229790172 CACACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
229790200 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
229790230 CGCACACTTAGTGC
1 CGCACACTTAGTGC
229790244 CAATCTTGTC
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 46 0.39
30 47 0.40
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:229790178 original size:59 final size:57
Alignment explanation
Indices: 229790084--229790214 Score: 201
Period size: 59 Copynumber: 2.3 Consensus size: 57
229790074 ATAGTGAATC
* *
229790084 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCACACACTTAGTGCTATATAA---TCAAACT
*
229790143 CGCACACTTAGTGCTATATATTTTCAGCTCACACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCACACACTTAGTGCTATATAATCAAACT
229790200 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
229790215 GTACAATTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
56 2 0.03
57 18 0.26
59 48 0.71
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCACACACTTAGTGCTATATAATCAAACT
Found at i:229798083 original size:29 final size:29
Alignment explanation
Indices: 229798051--229798208 Score: 205
Period size: 29 Copynumber: 5.5 Consensus size: 29
229798041 ATAGTGAATC
229798051 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
229798080 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
229798110 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
229798139 CGCACACTTAGTGCTGTATA---TCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * * *
229798166 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATATTTTCAGCT
229798195 CGCACACTTAGTGC
1 CGCACACTTAGTGC
229798209 CAATCTTGTC
Statistics
Matches: 119, Mismatches: 5, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.02
27 22 0.18
29 65 0.55
30 30 0.25
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:229798143 original size:59 final size:56
Alignment explanation
Indices: 229798051--229798208 Score: 201
Period size: 59 Copynumber: 2.8 Consensus size: 56
229798041 ATAGTGAATC
*
229798051 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-A---TCAAACT
*
229798110 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATCAAACT
* * * * * *
229798166 CGCACACTTAGTGCTGTACAATTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGC
229798209 CAATCTTGTC
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
55 2 0.02
56 40 0.44
58 1 0.01
59 47 0.52
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (56 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATCAAACT
Found at i:229806977 original size:28 final size:29
Alignment explanation
Indices: 229806910--229807010 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
229806900 ATAGTGAATC
*
229806910 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
229806939 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
229806967 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
229806997 CGCACACTTAGTGC
1 CGCACACTTAGTGC
229807011 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:229816342 original size:40 final size:40
Alignment explanation
Indices: 229816259--229816466 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
229816249 CGGGATTTAA
* * * * * *
229816259 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
229816299 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
229816339 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
229816379 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
229816419 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
229816459 CCGGATAT
1 CCGGATAT
229816467 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:229816379 original size:80 final size:80
Alignment explanation
Indices: 229816285--229816466 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
229816275 GCTCGATTGT
* * *** * * * **
229816285 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
229816350 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
229816365 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
229816430 TACTAGCATAATTGC
66 AACTAGCACAAATGC
229816445 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
229816467 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:229821906 original size:40 final size:40
Alignment explanation
Indices: 229821849--229822034 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
229821839 TCGAATGATG
* * * *
229821849 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
229821889 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
229821929 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
229821969 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
229822010 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
229822035 AATGAGTAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 123 0.92
41 10 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:229822052 original size:80 final size:80
Alignment explanation
Indices: 229821849--229822067 Score: 220
Period size: 80 Copynumber: 2.8 Consensus size: 80
229821839 TCGAATGATG
** * **
229821849 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTG-AATGAGTAG-CTATATCCGGGTTAAGATCCGAAGGCAT
229821912 TTGTGCGAGTTACTAAA
64 TTGTGCGAGTTACTAAA
* *** *
229821929 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGAATGAG-TAGCTATATCCGGGTTAAGAT-CCGAAGGCA
229821991 TTTGTGCGAGTTACTATAA
63 TTTGTGCGAGTTACTA-AA
*
229822010 -CCGGGCTATGTCCCGAAGGCATTTGAATGAGTAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAATGAGTAGCTATATCCGGGTTAAGA-TCCGAAGG
229822068 TACGTGATTC
Statistics
Matches: 115, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
79 17 0.15
80 90 0.78
81 8 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAATGAGTAGCTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:229828734 original size:29 final size:29
Alignment explanation
Indices: 229828717--229828803 Score: 174
Period size: 29 Copynumber: 3.0 Consensus size: 29
229828707 CCCAGTGTCG
229828717 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
229828746 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
229828775 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
229828804 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (29 bp):
TATATTTCCAGCATGCACACTTAGTGCCA
Found at i:229828735 original size:58 final size:58
Alignment explanation
Indices: 229828673--229828803 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 58
229828663 ATTTAAGCCC
* * * * *
229828673 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGTCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
229828731 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
229828789 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
229828804 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:229832221 original size:45 final size:46
Alignment explanation
Indices: 229832157--229832331 Score: 225
Period size: 45 Copynumber: 3.8 Consensus size: 46
229832147 TGTAACCCGC
*
229832157 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
229832202 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* * *
229832252 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
229832295 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
229832332 TGCCCAAAAT
Statistics
Matches: 112, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 37 0.33
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:229832323 original size:93 final size:92
Alignment explanation
Indices: 229832165--229832335 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
229832155 GCCCATAAGT
*
229832165 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
229832230 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
229832257 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
229832322 CGAGTTCGGATGCC
65 CGAGTTCGGATGCC
229832336 CAAAATCCCA
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 49 0.64
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:229834741 original size:30 final size:30
Alignment explanation
Indices: 229834697--229834785 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
229834687 CAAAGATAAC
229834697 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
229834726 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
229834756 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
229834786 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:229834745 original size:15 final size:15
Alignment explanation
Indices: 229834697--229834776 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
229834687 CAAAGATAAC
*
229834697 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
229834711 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
229834726 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
229834741 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
229834756 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
229834771 AAGAAA
1 AAGAAA
229834777 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:229834785 original size:15 final size:15
Alignment explanation
Indices: 229834708--229834785 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
229834698 AGAAAACCGA
229834708 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
229834723 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
229834737 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
229834752 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
229834768 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
229834783 ATA
1 ATA
229834786 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:229837712 original size:93 final size:93
Alignment explanation
Indices: 229837600--229837771 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
229837590 GCCCATAAGT
* *
229837600 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
229837665 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
229837693 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
229837758 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
229837772 CAAAATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:229837767 original size:46 final size:46
Alignment explanation
Indices: 229837592--229837767 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
229837582 TGTAACCCGC
* * *
229837592 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
229837638 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
229837688 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
229837731 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
229837768 TGCCCAAAAT
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:229842925 original size:40 final size:42
Alignment explanation
Indices: 229842874--229842969 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
229842864 CTCGGTGTCA
* * *
229842874 CACACTTAGTGCCA-C-ATATAGCCGAAGCTAT-TCCAATTCG
1 CACACTAAGTGCCATCTATATAGCCGAAGCTATCTCAAAAT-G
* *
229842914 CACACTAAGTGCTATCTATATAGTCGAAGCTATCTCAAAATG
1 CACACTAAGTGCCATCTATATAGCCGAAGCTATCTCAAAATG
229842956 CACACTAAGTGCCA
1 CACACTAAGTGCCA
229842970 AACATAGTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 12 0.26
41 1 0.02
42 29 0.62
43 5 0.11
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (42 bp):
CACACTAAGTGCCATCTATATAGCCGAAGCTATCTCAAAATG
Found at i:229846341 original size:93 final size:93
Alignment explanation
Indices: 229846229--229846400 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
229846219 GCCCATAAGT
* *
229846229 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
229846294 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
229846322 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
229846387 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
229846401 AAATCCTAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:229846396 original size:46 final size:46
Alignment explanation
Indices: 229846221--229846396 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
229846211 TGTAACCCGC
* * *
229846221 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
229846267 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
229846317 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
229846360 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
229846397 TGCCAAATCC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:229848802 original size:30 final size:30
Alignment explanation
Indices: 229848758--229848846 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
229848748 CAAAGATAAC
229848758 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
229848787 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
229848817 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
229848847 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:229848806 original size:15 final size:15
Alignment explanation
Indices: 229848758--229848837 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
229848748 CAAAGATAAC
*
229848758 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
229848772 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
229848787 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
229848802 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
229848817 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
229848832 AAGAAA
1 AAGAAA
229848838 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:229848846 original size:15 final size:15
Alignment explanation
Indices: 229848769--229848846 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
229848759 AGAAAACCGA
229848769 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
229848784 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
229848798 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
229848813 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
229848829 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
229848844 ATA
1 ATA
229848847 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:229851857 original size:93 final size:93
Alignment explanation
Indices: 229851745--229851916 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
229851735 GCCCATAAGT
* *
229851745 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
229851810 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
229851838 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
229851903 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
229851917 AAATCCTAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:229851912 original size:46 final size:46
Alignment explanation
Indices: 229851737--229851912 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
229851727 TGTAACCCGC
* * *
229851737 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
229851783 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
229851833 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
229851876 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
229851913 TGCCAAATCC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:229859370 original size:30 final size:30
Alignment explanation
Indices: 229859315--229859445 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
229859305 ATAGTGAATC
*
229859315 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
229859344 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
229859374 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
229859402 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
229859432 CGCACACTTAGTGC
1 CGCACACTTAGTGC
229859446 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:229859425 original size:58 final size:58
Alignment explanation
Indices: 229859314--229859445 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
229859304 TATAGTGAAT
* * * * *
229859314 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
229859373 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
229859431 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
229859446 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:229864704 original size:44 final size:41
Alignment explanation
Indices: 229864656--229864765 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 41
229864646 TTTCGTGTAA
*
229864656 CATGTCTGGGACATTGGCATCGATTTGAGATTTATATGTAAGAC
1 CATGTCTGGGACATTGGCATCGATCT--GATTTA-ATGTAAGAC
* *
229864700 CATGTCTGGGACATCGGCATCGTATCTGATTTAGTGTAAGAC
1 CATGTCTGGGACATTGGCATCG-ATCTGATTTAATGTAAGAC
* * * *
229864742 CCTATCTGGGATAGTGGCATCGAT
1 CATGTCTGGGACATTGGCATCGAT
229864766 ATTTGATTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
41 2 0.04
42 25 0.44
43 6 0.11
44 21 0.37
45 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
CATGTCTGGGACATTGGCATCGATCTGATTTAATGTAAGAC
Found at i:229864793 original size:43 final size:42
Alignment explanation
Indices: 229864695--229864809 Score: 103
Period size: 43 Copynumber: 2.7 Consensus size: 42
229864685 ATTTATATGT
* * *
229864695 AAGACCATGTCTGGGACA-TCGGCATCGTATCTGATTTAGTGT
1 AAGACCACGTCTGGGATAGT-GGCATCGTATCTGATTTAGTGC
* *
229864737 AAGACC-CTATCTGGGATAGTGGCATCGATATTTGATTGT-GTGC
1 AAGACCAC-GTCTGGGATAGTGGCATCG-TATCTGATT-TAGTGC
*
229864780 AAGACCACGTCTGGGAT-GTTGGCATTGTAT
1 AAGACCACGTCTGGGATAG-TGGCATCGTAT
229864810 GAGCTTTCTG
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
42 25 0.42
43 33 0.55
44 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
AAGACCACGTCTGGGATAGTGGCATCGTATCTGATTTAGTGC
Found at i:229867109 original size:124 final size:123
Alignment explanation
Indices: 229866887--229867110 Score: 315
Period size: 123 Copynumber: 1.8 Consensus size: 123
229866877 GAATTATGTG
* * * ** * *
229866887 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTGAATGATACCCGGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGAATTGAATGATACCCGGG
* * **
229866952 CTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAATAACAA
66 CTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAATAACAA
*
229867010 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAG-AATTGAATGATACCCGG
229867075 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
65 GCTAAGTCCCGAAGACGATTA-TGCTGGAAATTATAT
229867111 CCGAGTTAAG
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
123 44 0.51
124 43 0.49
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGAATTGAATGATACCCGGG
CTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAATAACAA
Found at i:229867231 original size:39 final size:40
Alignment explanation
Indices: 229867105--229867233 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
229867095 TTGCTGGAAA
* * *
229867105 TTATATCCGAGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
229867145 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
229867185 TTCTATCCGGGCTAAGA-CCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
229867224 TTATATCCGG
1 TTATATCCGG
229867234 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 30 0.41
40 43 0.58
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:229873060 original size:27 final size:28
Alignment explanation
Indices: 229872998--229873087 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 28
229872988 TGAATGATTA
* * * *
229872998 GAGGCACTGTGTGTGCAAATTCCGTTAACC
1 GAGGCACTATGTGTGCAGA-TCAG-TAATC
229873028 GA-GCACTATGTGTGCGAGA-C-GTAATC
1 GAGGCACTATGTGTGC-AGATCAGTAATC
229873054 GAGGCACTATGTGTGCAGATCAGTAATC
1 GAGGCACTATGTGTGCAGATCAGTAATC
229873082 GAGGCA
1 GAGGCA
229873088 GTAGAAGTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
26 9 0.17
27 15 0.28
28 13 0.25
29 12 0.23
30 4 0.08
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (28 bp):
GAGGCACTATGTGTGCAGATCAGTAATC
Found at i:229873132 original size:29 final size:29
Alignment explanation
Indices: 229873100--229873286 Score: 286
Period size: 29 Copynumber: 6.4 Consensus size: 29
229873090 AGAAGTAATG
229873100 CTGTGTGTGCGAGATCAGTAATCGAGGCA
1 CTGTGTGTGCGAGATCAGTAATCGAGGCA
*
229873129 CTGTGTGTGCGAGATCAGTAATCGAGCACA
1 CTGTGTGTGCGAGATCAGTAATCGAG-GCA
229873159 CTGTGTGTGCGAGATCAGTAATCGAGGCA
1 CTGTGTGTGCGAGATCAGTAATCGAGGCA
*
229873188 CTATGTGTGCGAGATCAGTAATCGAGGCA
1 CTGTGTGTGCGAGATCAGTAATCGAGGCA
* * *
229873217 CTATGTGTGCGAAATCAGTAATTGAGGC-
1 CTGTGTGTGCGAGATCAGTAATCGAGGCA
* *
229873245 CTATGTGTGCGAGATCAGTAATTGAGGCA
1 CTGTGTGTGCGAGATCAGTAATCGAGGCA
*
229873274 CTGTGTGTACGAG
1 CTGTGTGTGCGAG
229873287 TTTTTCAACA
Statistics
Matches: 148, Mismatches: 8, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
28 27 0.18
29 93 0.63
30 28 0.19
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (29 bp):
CTGTGTGTGCGAGATCAGTAATCGAGGCA
Found at i:229873195 original size:59 final size:58
Alignment explanation
Indices: 229873100--229873286 Score: 295
Period size: 59 Copynumber: 3.2 Consensus size: 58
229873090 AGAAGTAATG
* *
229873100 CTGTGTGTGCGAGATCAGTAATCGAGGCACTGTGTGTGCGAGATCAGTAATCGAGCACA
1 CTGTGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCGAG-GCA
229873159 CTGTGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCA
1 CTGTGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCA
* * * *
229873217 CTATGTGTGCGAAATCAGTAATTGAGGC-CTATGTGTGCGAGATCAGTAATTGAGGCA
1 CTGTGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCA
*
229873274 CTGTGTGTACGAG
1 CTGTGTGTGCGAG
229873287 TTTTTCAACA
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
57 38 0.32
58 27 0.23
59 54 0.45
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (58 bp):
CTGTGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCA
Found at i:229873235 original size:88 final size:86
Alignment explanation
Indices: 229873103--229873286 Score: 278
Period size: 88 Copynumber: 2.1 Consensus size: 86
229873093 AGTAATGCTG
* * *
229873103 TGTGTGCGAGATCAGTAATCGAGGCACTGTGTGTGCGAGATCAGTAATCGAGCACACTGTGTGTG
1 TGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAAATCAGTAATCGAG-AC-CTATGTGTG
229873168 CGAGATCAGTAATCGAGGCACTA
64 CGAGATCAGTAATCGAGGCACTA
* *
229873191 TGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAAATCAGTAATTGAGGCCTATGTGTGCG
1 TGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAAATCAGTAATCGAGACCTATGTGTGCG
* *
229873256 AGATCAGTAATTGAGGCACTG
66 AGATCAGTAATCGAGGCACTA
*
229873277 TGTGTACGAG
1 TGTGTGCGAG
229873287 TTTTTCAACA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
86 38 0.43
87 1 0.01
88 49 0.56
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (86 bp):
TGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAAATCAGTAATCGAGACCTATGTGTGCG
AGATCAGTAATCGAGGCACTA
Found at i:229882862 original size:29 final size:28
Alignment explanation
Indices: 229882792--229882866 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
229882782 ATACTCGATT
* *
229882792 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
229882820 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
229882849 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
229882867 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:229882883 original size:29 final size:29
Alignment explanation
Indices: 229882850--229882923 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
229882840 CCTTCGAGCT
229882850 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
229882879 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
229882908 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
229882924 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:229888225 original size:28 final size:27
Alignment explanation
Indices: 229888162--229888231 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
229888152 ATAGTGAGTC
*
229888162 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
229888189 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
229888217 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
229888232 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:229896163 original size:28 final size:27
Alignment explanation
Indices: 229896100--229896169 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
229896090 ATAGTGAGTC
*
229896100 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
229896127 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
229896155 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
229896170 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:229912394 original size:28 final size:29
Alignment explanation
Indices: 229912354--229912452 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
229912344 GTAATAAGCC
*
229912354 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
229912382 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
229912410 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
229912439 CGCACACTTAGTGC
1 CGCACACTTAGTGC
229912453 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:229920085 original size:28 final size:28
Alignment explanation
Indices: 229920045--229920114 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
229920035 GTAATAAGCC
* *
229920045 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
229920073 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
229920101 TGCACACTTAGTGC
1 CGCACACTTAGTGC
229920115 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:229922036 original size:27 final size:28
Alignment explanation
Indices: 229921979--229922048 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
229921969 AAACTTGTAC
*
229921979 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
229922007 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
229922034 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
229922049 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:229922059 original size:27 final size:27
Alignment explanation
Indices: 229921979--229922060 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
229921969 AAACTTGTAC
* * *
229921979 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
229922007 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
229922034 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
229922061 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:229929945 original size:27 final size:28
Alignment explanation
Indices: 229929888--229929957 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
229929878 AAACTTGTAC
*
229929888 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
229929916 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
229929943 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
229929958 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:229929968 original size:27 final size:27
Alignment explanation
Indices: 229929888--229929969 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
229929878 AAACTTGTAC
* * *
229929888 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
229929916 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
229929943 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
229929970 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:229937367 original size:17 final size:17
Alignment explanation
Indices: 229937345--229937386 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
229937335 CTTTTCTTGC
*
229937345 CTCTTTTTTCTTTTGAT
1 CTCTTTTTTCTTTTCAT
*
229937362 CTCTTTTTGCTTTTCAT
1 CTCTTTTTTCTTTTCAT
229937379 CT-TTTTTT
1 CTCTTTTTT
229937387 TTTCTCGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.05, C:0.19, G:0.05, T:0.71
Consensus pattern (17 bp):
CTCTTTTTTCTTTTCAT
Found at i:229939678 original size:40 final size:39
Alignment explanation
Indices: 229939513--229939696 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
229939503 AAATTGAATG
* * *
229939513 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
229939553 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
229939593 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
229939633 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
229939672 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
229939697 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:229939721 original size:80 final size:81
Alignment explanation
Indices: 229939553--229939741 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
229939543 GCTGGAAATT
* * * *
229939553 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
229939618 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
229939634 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
229939697 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
229939713 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
229939742 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:229944182 original size:27 final size:24
Alignment explanation
Indices: 229944107--229944184 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 24
229944097 ATTATCTGTT
* *
229944107 TTCTGGTGGCTATGCCACAAATGTCTG
1 TTCTGGT-GCTCTGCC-C-AATATCTG
229944134 TTCTGGTGCTCTGCCCAATATCTG
1 TTCTGGTGCTCTGCCCAATATCTG
*
229944158 TATCTGGTGACTCTGTCTCAATATCTG
1 T-TCTGGTG-CTCTG-CCCAATATCTG
229944185 ATAACTGAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
24 8 0.18
25 8 0.18
26 12 0.27
27 17 0.38
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (24 bp):
TTCTGGTGCTCTGCCCAATATCTG
Found at i:229944362 original size:6 final size:6
Alignment explanation
Indices: 229944347--229944442 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
229944337 ATTCTGTTAC
* * *
229944347 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
229944396 CTGATT CTG-TCAC CTAATT CTGATT CT-ATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
229944443 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
5 9 0.12
6 55 0.76
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:229944375 original size:31 final size:31
Alignment explanation
Indices: 229944337--229944433 Score: 151
Period size: 31 Copynumber: 3.2 Consensus size: 31
229944327 CTGATTTTTT
*
229944337 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
229944368 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
229944399 ATTCTGTCACCTAATTCTGATTCT-ATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
229944429 ATTCT
1 ATTCT
229944434 AGTTCTGATA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 11 0.18
31 51 0.82
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:229948784 original size:21 final size:21
Alignment explanation
Indices: 229948758--229948818 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
229948748 GTCATAGTGG
*
229948758 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTGTTGCCCTT
229948779 CCACACAGGCGTGTTAG-CCTT
1 CCACACAGGCGTGTT-GCCCTT
229948800 CCACACAGGCGTG-TGCCCT
1 CCACACAGGCGTGTTGCCCT
229948819 GTTTCAAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 31 0.84
22 1 0.03
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (21 bp):
CCACACAGGCGTGTTGCCCTT
Found at i:229951951 original size:49 final size:49
Alignment explanation
Indices: 229951883--229952005 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
229951873 TACATATATG
*
229951883 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
229951932 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
229951981 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
229952006 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:229952151 original size:37 final size:37
Alignment explanation
Indices: 229952108--229952185 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
229952098 GTTCCGGGCG
229952108 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
229952145 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
229952182 AGAC
1 AGAC
229952186 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:229954263 original size:29 final size:29
Alignment explanation
Indices: 229954199--229954507 Score: 496
Period size: 29 Copynumber: 10.7 Consensus size: 29
229954189 CGAATGATTA
* * *
229954199 GAGGCACTGTGTGTGC-AAATTCCATTAACC
1 GAGGCACTGTGTGTGCGAGA-T-CAGTAATC
*
229954229 GA-GCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
229954257 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
229954286 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
229954315 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
229954344 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
229954373 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
229954402 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* * *
229954431 GAGGCACTATGTGTGCGAAATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* *
229954460 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
*
229954489 GAGGCACTGTGTGTACGAG
1 GAGGCACTGTGTGTGCGAG
229954508 TTTTTCAACA
Statistics
Matches: 266, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
28 8 0.03
29 254 0.95
30 4 0.02
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
GAGGCACTGTGTGTGCGAGATCAGTAATC
Found at i:229955089 original size:40 final size:41
Alignment explanation
Indices: 229954991--229955089 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
229954981 TTCGAATGGT
* ** * *
229954991 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
229955032 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGC-AAATCACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCTAAATCACTA-A
229955073 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
229955090 GAACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 20 0.40
41 27 0.54
42 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
Found at i:229958260 original size:49 final size:49
Alignment explanation
Indices: 229958192--229958314 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
229958182 TACATATATG
*
229958192 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
229958241 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
229958290 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
229958315 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:229958464 original size:36 final size:37
Alignment explanation
Indices: 229958417--229958493 Score: 147
Period size: 36 Copynumber: 2.1 Consensus size: 37
229958407 GTTCCGGGCG
229958417 AGACCCGATGACTACGTGTGGAGATTATGACC-GGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
229958453 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
229958490 AGAC
1 AGAC
229958494 TTCTTTTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 32 0.80
37 8 0.20
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:229967418 original size:29 final size:29
Alignment explanation
Indices: 229967356--229967458 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
229967346 GTGACGAGAT
* * *
229967356 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
229967385 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
229967414 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
229967443 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
229967459 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:229971605 original size:30 final size:30
Alignment explanation
Indices: 229971569--229971699 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
229971559 GACAAGATTG
* * * * *
229971569 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
229971599 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
229971627 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
229971657 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
229971686 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
229971700 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:229971660 original size:58 final size:58
Alignment explanation
Indices: 229971569--229971699 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
229971559 GACAAGATTG
* * * * * *
229971569 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
229971627 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
229971686 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
229971700 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:229979533 original size:30 final size:30
Alignment explanation
Indices: 229979497--229979627 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
229979487 GACAAGATTG
* * * * *
229979497 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
229979527 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
229979555 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
229979585 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
229979614 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
229979628 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:229979588 original size:58 final size:58
Alignment explanation
Indices: 229979497--229979627 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
229979487 GACAAGATTG
* * * * * *
229979497 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
229979555 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
229979614 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
229979628 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:229985100 original size:30 final size:30
Alignment explanation
Indices: 229985064--229985193 Score: 160
Period size: 28 Copynumber: 4.5 Consensus size: 30
229985054 GACAAGATTG
* * *
229985064 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
*
229985094 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
229985122 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
229985152 GCACTAAGTGTGCGAG-CTGAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
229985180 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
229985194 GATTCACTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
28 43 0.49
29 3 0.03
30 42 0.48
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:229985155 original size:58 final size:58
Alignment explanation
Indices: 229985064--229985193 Score: 181
Period size: 58 Copynumber: 2.2 Consensus size: 58
229985054 GACAAGATTG
* * * * * *
229985064 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
229985122 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
229985180 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
229985194 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 2 0.03
58 62 0.97
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:229989687 original size:39 final size:39
Alignment explanation
Indices: 229989536--229989729 Score: 253
Period size: 40 Copynumber: 4.9 Consensus size: 39
229989526 TGTTCAAACA
* * * * * *
229989536 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
229989576 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
* * * *
229989616 CCTTCGGAGTTTATCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGG-GCTTAGCCCGGATATCACAACTCGCACAATTG
229989656 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
229989695 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
229989730 TTCATACACA
Statistics
Matches: 137, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 62 0.45
40 74 0.54
41 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:229997588 original size:39 final size:39
Alignment explanation
Indices: 229997439--229997630 Score: 269
Period size: 39 Copynumber: 4.9 Consensus size: 39
229997429 CGTTCAAACA
* * * * * *
229997439 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
229997479 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
* *
229997519 CCTTCGGG-TTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
229997557 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
229997596 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
229997631 TTCATACACA
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 35 0.25
39 62 0.45
40 41 0.30
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:230005421 original size:39 final size:39
Alignment explanation
Indices: 230005310--230005502 Score: 278
Period size: 39 Copynumber: 4.9 Consensus size: 39
230005300 CTTTCAAACA
* * * * * *
230005310 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
230005350 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
* *
230005390 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
230005429 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
230005468 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
230005503 TTCATACACA
Statistics
Matches: 140, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 99 0.71
40 41 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:230016067 original size:29 final size:29
Alignment explanation
Indices: 230016034--230016194 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
230016024 GTGACGAGAT
230016034 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
230016063 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
230016092 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
230016121 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
230016150 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
230016179 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
230016195 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:230018463 original size:41 final size:40
Alignment explanation
Indices: 230018374--230018526 Score: 177
Period size: 41 Copynumber: 3.8 Consensus size: 40
230018364 GTTATAATAG
* *
230018374 CTCGCATAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGGAA
*
230018414 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTTGGGAA
1 CTCGCACAAATGCCTTCGGGA-CTTAGCCCGGA-TTTGGGAA
* * * **
230018455 CTCGCACAAATGCCTTC-GGATCTTAGTCTGGATATGGTCA
1 CTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTGGGAA
230018495 CTCAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CTC-GCACAAATGCCTTCGGGACTTAGCCCGGA
230018527 CATCATTCGA
Statistics
Matches: 100, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 48 0.48
41 49 0.49
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGGAA
Found at i:230020131 original size:14 final size:14
Alignment explanation
Indices: 230020112--230020142 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
230020102 TGAAATTTTC
230020112 ACACATTCATAAAT
1 ACACATTCATAAAT
230020126 ACACATTCATAAAT
1 ACACATTCATAAAT
230020140 ACA
1 ACA
230020143 TATTATAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (14 bp):
ACACATTCATAAAT
Found at i:230021963 original size:40 final size:40
Alignment explanation
Indices: 230021883--230022101 Score: 363
Period size: 40 Copynumber: 5.5 Consensus size: 40
230021873 TTCGGATGAC
*
230021883 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
230021922 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
230021962 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
230022002 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
230022042 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
230022082 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
230022102 TACTTGGGTT
Statistics
Matches: 172, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 38 0.22
40 132 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:230030341 original size:40 final size:40
Alignment explanation
Indices: 230030297--230030514 Score: 302
Period size: 40 Copynumber: 5.4 Consensus size: 40
230030287 ACATCCGCGA
230030297 GCTAAGT-CCGAAGGCATGTTGTGCTAGTGACTATATCCGG
1 GCTAAGTCCCGAAGGCAT-TTGTGCTAGTGACTATATCCGG
230030337 GCTAAGTCAGCCGAAGGCAGCTTTTGTGCTAGTGGACTATATCCGG
1 GCTAAGTC--CCGAAGGCA---TTTGTGCTAGT-GACTATATCCGG
*
230030383 GCTAAGT-CCGAAGGCATTTGTGCTATTGACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGG
230030422 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGG
*
230030462 GCTAAGT-CCGAAGGCATTTGTGCGAGTTG-CTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGG
*
230030500 GCTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
230030515 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 4, Indels: 21
0.87 0.02 0.11
Matches are distributed among these distances:
38 7 0.04
39 52 0.32
40 57 0.35
43 18 0.11
45 10 0.06
46 20 0.12
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGG
Found at i:230030478 original size:79 final size:81
Alignment explanation
Indices: 230030297--230030519 Score: 328
Period size: 79 Copynumber: 2.7 Consensus size: 81
230030287 ACATCCGCGA
*
230030297 GCTAAGTCCGAAGGCATGTTGTGCTAGTGACTATATCCGGGCTAAGTCAGCCGAAGGCAGCTTTT
1 GCTAAGTCCGAAGGCAT-TTGTGCTATTGACTATATCCGGGCTAAGTC--CCGAAGGCA-C-TTT
230030362 GTGCTAGTGGACTATATCCGG
61 GTGCTAGTGGACTATATCCGG
230030383 GCTAAGTCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCT
1 GCTAAGTCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCT
230030447 AGT-GACTATATCCGG
66 AGTGGACTATATCCGG
* * *
230030462 GCTAAGTCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGGTACTT
1 GCTAAGTCCGAAGGCATTTGTGCTA-TTGACTATATCCGGGCTAAGTCCCGAAGGCACTT
230030520 GGGTTTGGAA
Statistics
Matches: 131, Mismatches: 4, Indels: 11
0.90 0.03 0.08
Matches are distributed among these distances:
78 16 0.12
79 46 0.35
80 14 0.11
83 9 0.07
85 29 0.22
86 17 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (81 bp):
GCTAAGTCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCT
AGTGGACTATATCCGG
Done.