Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 175 of 318
Found at i:55070804 original size:81 final size:80
Alignment explanation
Indices: 55070668--55070816 Score: 226
Period size: 81 Copynumber: 1.9 Consensus size: 80
55070658 CAAGTTGAGA
* * * *
55070668 GTATTTTAATAATTTTACAATCAGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTTGTAA
1 GTATTTTAATAATTTTACAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAA
55070733 TTTTACAAACCAGTG
66 TTTTACAAACCAGTG
** *
55070748 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTA
1 GTATTTTAATAATTTTAC-AACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTA
55070813 ATTT
65 ATTT
55070817 GGTAAACTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
80 16 0.26
81 45 0.74
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (80 bp):
GTATTTTAATAATTTTACAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAA
TTTTACAAACCAGTG
Found at i:55079779 original size:14 final size:14
Alignment explanation
Indices: 55079756--55079788 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
55079746 GAATTAGGGC
*
55079756 AATTTTGTAGCTAA
1 AATTTCGTAGCTAA
55079770 AATTTCGTAGCTAA
1 AATTTCGTAGCTAA
55079784 AATTT
1 AATTT
55079789 AGTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (14 bp):
AATTTCGTAGCTAA
Found at i:55080038 original size:6 final size:6
Alignment explanation
Indices: 55080005--55080063 Score: 61
Period size: 6 Copynumber: 10.2 Consensus size: 6
55079995 TGATCTCCGT
* * *
55080005 AATTAA AA-T-A AA-TAA AACTAA CATTAA AATTAA AAATAA AGATTAA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA A-ATTAA
55080051 AATTAA AATTAA A
1 AATTAA AATTAA A
55080064 GAAAATATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 32 0.71
7 5 0.11
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (6 bp):
AATTAA
Found at i:55080049 original size:19 final size:19
Alignment explanation
Indices: 55080027--55080065 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
55080017 TAAAACTAAC
55080027 ATTAAAATTAAAAATAAAG
1 ATTAAAATTAAAAATAAAG
*
55080046 ATTAAAATTAAAATTAAAG
1 ATTAAAATTAAAAATAAAG
55080065 A
1 A
55080066 AAATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
ATTAAAATTAAAAATAAAG
Found at i:55080059 original size:25 final size:24
Alignment explanation
Indices: 55080014--55080094 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
55080004 TAATTAAAAT
* *
55080014 AAATAAAACTAACATTAAAATTAA
1 AAATAAAATTAAAATTAAAATTAA
55080038 AAATAAAGATTAAAATTAAAATTAA
1 AAATAAA-ATTAAAATTAAAATTAA
* * *
55080063 AGAA-AATATAAAAATGAGAAA-TAA
1 A-AATAAAATTAAAATTA-AAATTAA
55080087 AAATAAAA
1 AAATAAAA
55080095 CTAAGATAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 2 0.04
24 22 0.47
25 21 0.45
26 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.22
Consensus pattern (24 bp):
AAATAAAATTAAAATTAAAATTAA
Found at i:55102099 original size:21 final size:21
Alignment explanation
Indices: 55102073--55102113 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
55102063 TACATATCAC
55102073 TATTAAACTACTTGTATTTTA
1 TATTAAACTACTTGTATTTTA
* *
55102094 TATTAAATTATTTGTATTTT
1 TATTAAACTACTTGTATTTT
55102114 CTGTATTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
TATTAAACTACTTGTATTTTA
Found at i:55103036 original size:123 final size:123
Alignment explanation
Indices: 55102815--55103036 Score: 284
Period size: 123 Copynumber: 1.8 Consensus size: 123
55102805 TTTCGAGAAC
* * * * ** * *
55102815 AAGGCAATGTTTCGTATTTGGAAATTCCGAAAATCGTGCCTTAGGGTACTGGGTTTCGATTTTCT
1 AAGGCAATATTTCATATTTGAAAATTCCGAAAATCGTGCCCTAACGTACTGGGTTTCGATTTACC
* * * * *
55102880 GTTTGATCAAATGACCAAATATCCTTTTTAAATTCCGTCTTTGTTTTCTTCAACAAAA
66 GATTGACCAAATAACCAAATACCCTTTTAAAATTCCGTCTTTGTTTTCTTCAACAAAA
55102938 AAGGCAATATTTCATATTTGAAAATT-CGAGAAATCGTGCCCTAACGTACTGGGTTTCGATTTAC
1 AAGGCAATATTTCATATTTGAAAATTCCGA-AAATCGTGCCCTAACGTACTGGGTTTCGATTTAC
***
55103002 CGATTGACCAAATAATTGAATACCCTTTTAAAATT
65 CGATTGACCAAATAACCAAATACCCTTTTAAAATT
55103037 TCAATGCATG
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
122 3 0.04
123 79 0.96
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (123 bp):
AAGGCAATATTTCATATTTGAAAATTCCGAAAATCGTGCCCTAACGTACTGGGTTTCGATTTACC
GATTGACCAAATAACCAAATACCCTTTTAAAATTCCGTCTTTGTTTTCTTCAACAAAA
Found at i:55113399 original size:178 final size:179
Alignment explanation
Indices: 55112756--55114120 Score: 1587
Period size: 178 Copynumber: 7.7 Consensus size: 179
55112746 GTGAATTCAC
* * ** *
55112756 AGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATTGAAGATGATGAATCTTATCTT-TCTGAGA
1 AGATCTTATCTCCCTGAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCTC-GAGG
* * *
55112820 TAGCAGGGGAGCAGATTTTAGCCACCAGTCTTATC-TCTCTGAGGTAGCAAAAGAGCAGGTTGAA
65 TAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTTCTCTGAGGTAGCAAGAGAGCAGGCTGAA
* * *
55112884 GATTGTAGTCTTATCTTCCTGGGGTAGTAAGGAAGCAGACTGAAGATTGT
130 GATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* ** * * *
55112934 AGATCTTATCT-CCTTAAGCAGTAGTGGAACAGATCGAAGATGGCGAATCTTATCTTTTAGAGGT
1 AGATCTTATCTCCCTGAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCTCGAGGT
* * * * *
55112998 AGCAGGGGAGTAGATTTTAGCCACCAGCCTTATCTT-TTTGAGGTAGCAAAAAAGCAGGTTGAAG
66 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTTCTCTGAGGTAGCAAGAGAGCAGGCTGAAG
* * * *
55113062 ATTGTAGTCTTATCTTCCTAAGGTAGTATGGAAGCAGACTGAAGATTGT
131 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
** * * * * *
55113111 AGATCTT-TCTCCCT-AAGCAGTAGTGGAGCAAACCGAAGATGGCAAATCTTATCTTTTCGGGGT
1 AGATCTTATCTCCCTGAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCTCGAGGT
* * * * * *
55113174 AGCAGGCGAGCAGATTTCAGCCACTAGCCTTATC-TCCCTTAGGTAGCAAGGGAGCAGGCTGAAG
66 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTTCTCTGAGGTAGCAAGAGAGCAGGCTGAAG
* * *
55113238 ATTATTGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTGA
131 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* * * ** * *
55113287 AGATCTTATCTCCCTGAAATAGCAGTGAAGCAGATCCAAGACAGTGAATCTTATCTTCTCGAGGC
1 AGATCTTATCTCCCTGAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCTCGAGGT
* * * *
55113352 AGCAAGGAAGCAGATTTCAGCCACTAGCCTTATCTTC-CTGAGGTAGCAA-AGGAGCAGGCTGAA
66 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTTCTCTGAGGTAGCAAGA-GAGCAGGCTGAA
* * * *
55113415 GATTATAGTCTTATCTTCCTGAGGTAGCAAAGAAGCAGATTGAAGA-TCA
130 GATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
** * * * *
55113464 CAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCAAAAATGACAAATCTTATCTTCTCGAGG
1 -AGATCTTATCTCCCTGAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCTCGAGG
* *
55113528 TAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATC-TCTCTGAGGTAGCAAGAGAGTAGGCTGAA
65 TAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTTCTCTGAGGTAGCAAGAGAGCAGGCTGAA
** *
55113592 GATTGTAGTCTTATCTTCCAAAGGTAGCAAGGAAGCAGATTGAAGATTGA
130 GATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* * * * * * * * *
55113642 ATATCTTATCTCCTTCAGATAGCAGTGGAGTAGATTGAAGATGGCGAATCTTATCTTCCCGAGAT
1 AGATCTTATCTCCCTGAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCTCGAGGT
* * * * *
55113707 AGTAGAGGAGTAAATTTTAGCCACCAGCCTTATC-TCTCTGAGGTAGCAAGAGAGCAGGTTGAAG
66 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTTCTCTGAGGTAGCAAGAGAGCAGGCTGAAG
* * * * *
55113771 ATTATAGTCTTATCTTCCTGAGGTAGCTAGGAAACAGATTGATGATTGA
131 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* * * *
55113820 AGATCTTATCTCCTTGAGATAGTAATGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGT
1 AGATCTTATCTCCCTGAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCTCGAGGT
* * *
55113885 AGTAGGGGAGCAGATTTTAGCCACCAGCCTTAT-TTCTCTAAGGTAGCAAGAGAGCAGG-TCAAA
66 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTTCTCTGAGGTAGCAAGAGAGCAGGCT-GAA
55113948 GATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
130 GATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* * * * * * *
55113998 AGATCTTGTCT-CCTCGAGATAGCAGTGGGGCTGATCGAAGATGACGAATCTTATCTTCCCGAGG
1 AGATCTTATCTCCCT-GAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCTCGAGG
* * ** *
55114062 TAGTAGGGGAGCAGATTTTAGTCAATATCCTTATCTTCTC-GAGGTAAGCAACG-GAGCAG
65 TAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTTCTCTGAGGT-AGCAA-GAGAGCAG
55114121 ATTTAAGTCA
Statistics
Matches: 1026, Mismatches: 142, Indels: 37
0.85 0.12 0.03
Matches are distributed among these distances:
175 1 0.00
176 148 0.14
177 311 0.30
178 547 0.53
179 18 0.02
180 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (179 bp):
AGATCTTATCTCCCTGAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCTCGAGGT
AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTTCTCTGAGGTAGCAAGAGAGCAGGCTGAAG
ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
Found at i:55113994 original size:44 final size:44
Alignment explanation
Indices: 55112846--55113996 Score: 294
Period size: 44 Copynumber: 26.0 Consensus size: 44
55112836 TTTAGCCACC
* *
55112846 AGTCTTATC-TCTCTGAGGTAGCAA-AAGAGCAGGTTGAAGATTGT
1 AGTCTTATCTTC-CTGAGGTAGCAAGGA-AGCAGATTGAAGATTGT
* * *
55112890 AGTCTTATCTTCCTGGGGTAGTAAGGAAGCAGACTGAAGATTGT
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGT
* * * * * * * *
55112934 AGATCTTATC-TCCTTAAGCAGTAGTGGAA-CAGATCGAAGATGGCG
1 AG-TCTTATCTTCCTGAGGTAGCA-AGGAAGCAGATTGAAGATTG-T
* * * * * ** *****
55112979 AATCTTATCTT-TTAGAGGTAGCAGGGGAGTAGATTTTAGCCACC
1 AGTCTTATCTTCCT-GAGGTAGCAAGGAAGCAGATTGAAGATTGT
* ** ** *
55113023 AGCCTTATCTTTTTGAGGTAGCAAAAAAGCAGGTTGAAGATTGT
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGT
* * * *
55113067 AGTCTTATCTTCCTAAGGTAGTATGGAAGCAGACTGAAGATTGT
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGT
* * * * ** * *
55113111 AGATCTT-TCTCCCTAAGCAGTAG--TGG-AGCAAACCGAAGATGGCA
1 AG-TCTTATCTTCCTGAG--GTAGCAAGGAAGCAGATTGAAGATTG-T
* * * * ** ****
55113155 AATCTTATCTT-TTCGGGGTAGC-AGGCGAGCAGATTTCAGCCACT
1 AGTCTTATCTTCCT-GAGGTAGCAAGG-AAGCAGATTGAAGATTGT
* * * * ** *
55113199 AGCCTTATCTCCCTTAGGTAGCAAGGGAGCAGGCTGAAGATTAT
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGT
* * * *
55113243 TGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTGA
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGT
* ** ** **
55113287 AGATCTTATCTCCCTGAAATAGC-AGTGAAGCAGATCCAAGACAGT
1 AG-TCTTATCTTCCTGAGGTAGCAAG-GAAGCAGATTGAAGATTGT
* * ** ****
55113332 GAATCTTATCTT-CTCGAGGCAGCAAGGAAGCAGATTTCAGCCACT
1 -AGTCTTATCTTCCT-GAGGTAGCAAGGAAGCAGATTGAAGATTGT
* ** *
55113377 AGCCTTATCTTCCTGAGGTAGCAAAGG-AGCAGGCTGAAGATTAT
1 AGTCTTATCTTCCTGAGGTAGC-AAGGAAGCAGATTGAAGATTGT
* ***
55113421 AGTCTTATCTTCCTGAGGTAGCAAAGAAGCAGATTGAAGATCAC
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGT
* * * * * * *
55113465 AGATCTTATCTCCCTAAGCAGTAG--TGG-AGCAGA-TCAAAAATGACA
1 AG-TCTTATCTTCCTGAG--GTAGCAAGGAAGCAGATTGAAGATTG--T
* * * * ** *****
55113510 AATCTTATCTT-CTCGAGGTAGCAGGGGAGCAAATTTTAGCCACC
1 AGTCTTATCTTCCT-GAGGTAGCAAGGAAGCAGATTGAAGATTGT
* * **
55113554 AGCCTTATC-TCTCTGAGGTAGCAA-GAGAGTAGGCTGAAGATTGT
1 AGTCTTATCTTC-CTGAGGTAGCAAGGA-AGCAGATTGAAGATTGT
**
55113598 AGTCTTATCTTCCAAAGGTAGCAAGGAAGCAGATTGAAGATTGAAT
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTG--T
* * * * * *
55113644 A-TCTTATC-TCCTTCAGATAGC-AGTGGAGTAGATTGAAGATGGCG
1 AGTCTTATCTTCC-TGAGGTAGCAAG-GAAGCAGATTGAAGATTG-T
* * * * * * ** *****
55113688 AATCTTATCTTCCCGAGATAGTAGAGG-AGTAAATTTTAGCCACC
1 AGTCTTATCTTCCTGAGGTAGCA-AGGAAGCAGATTGAAGATTGT
* * *
55113732 AGCCTTATC-TCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGATTAT
1 AGTCTTATCTTC-CTGAGGTAGCAAGGA-AGCAGATTGAAGATTGT
* * * *
55113776 AGTCTTATCTTCCTGAGGTAGCTAGGAAACAGATTGATGATTGA
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGT
* * * * *
55113820 AGATCTTATC-TCCTTGAGATAGTAATGG-AGCAGATCGAAGATGGCG
1 AG-TCTTATCTTCC-TGAGGTAGCAA-GGAAGCAGATTGAAGATTG-T
* * * * * ** *****
55113866 AATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTTAGCCACC
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGT
* * * **
55113910 AGCCTTAT-TTCTCTAAGGTAGCAA-GAGAGCAGGTCAAAGATTGT
1 AGTCTTATCTTC-CTGAGGTAGCAAGGA-AGCAGATTGAAGATTGT
*
55113954 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTG
55113997 AAGATCTTGT
Statistics
Matches: 776, Mismatches: 265, Indels: 132
0.66 0.23 0.11
Matches are distributed among these distances:
42 9 0.01
43 38 0.05
44 460 0.59
45 242 0.31
46 21 0.03
47 6 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGT
Found at i:55114130 original size:45 final size:44
Alignment explanation
Indices: 55114047--55114142 Score: 120
Period size: 45 Copynumber: 2.2 Consensus size: 44
55114037 GATGACGAAT
* ** * *
55114047 CTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTTAGTCAATATC
1 CTTATCTTCCCGAGGTAGCAACGGAGCAGATTTAAGTCAATAGC
* *
55114091 CTTATCTTCTCGAGGTAAGCAACGGAGCAGATTTAAGTCACTAGC
1 CTTATCTTCCCGAGGT-AGCAACGGAGCAGATTTAAGTCAATAGC
55114136 CTTATCT
1 CTTATCT
55114143 CCCTGAAGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 15 0.34
45 29 0.66
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
CTTATCTTCCCGAGGTAGCAACGGAGCAGATTTAAGTCAATAGC
Found at i:55115830 original size:21 final size:21
Alignment explanation
Indices: 55115804--55115846 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
55115794 TACATATCAC
55115804 TATTAAACTACTTGTATTTTA
1 TATTAAACTACTTGTATTTTA
* *
55115825 TATTAAATTATTTGTATTTTA
1 TATTAAACTACTTGTATTTTA
55115846 T
1 T
55115847 GTATTCTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (21 bp):
TATTAAACTACTTGTATTTTA
Found at i:55116756 original size:123 final size:123
Alignment explanation
Indices: 55116535--55116756 Score: 284
Period size: 123 Copynumber: 1.8 Consensus size: 123
55116525 TTTTGAGAAC
* ** * * * * *
55116535 AAGGCAATGTTTTGTATTTGGAAATTCAGGAAATTGTGCCCTAGCATGCTGGGTTTTGATTTTCC
1 AAGGCAATATTTCATATTTGGAAATTCAGGAAATCGTGCCCTAACATACTGGGTTTCGATTTACC
* * * *
55116600 GTTTGATCAAATAACCAAATATCCTTTTTAAATTCCGTCTGTGTTTTCTTCAACAAAA
66 GATTGACCAAATAACCAAATACCCTTTTAAAATTCCGTCTGTGTTTTCTTCAACAAAA
*
55116658 AAGGCAATATTTCATATTTGGAAATTC-GAGAAATCGTGCCCTAACGTACTGGGTTTCGATTTAC
1 AAGGCAATATTTCATATTTGGAAATTCAG-GAAATCGTGCCCTAACATACTGGGTTTCGATTTAC
***
55116722 CGATTGACCAAATAATTGAATACCCTTTTAAAATT
65 CGATTGACCAAATAACCAAATACCCTTTTAAAATT
55116757 TCAATGCATG
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
122 1 0.01
123 81 0.99
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (123 bp):
AAGGCAATATTTCATATTTGGAAATTCAGGAAATCGTGCCCTAACATACTGGGTTTCGATTTACC
GATTGACCAAATAACCAAATACCCTTTTAAAATTCCGTCTGTGTTTTCTTCAACAAAA
Found at i:55118213 original size:42 final size:42
Alignment explanation
Indices: 55118166--55118282 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
55118156 TGTGTTATCG
*
55118166 GTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTTCAT
1 GTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACAT
* * *
55118208 GTAAGACCCTGCCTGGGACAG-TGGCATCGATTTTTGATTACAT
1 GTAAGACCATGTCTGGGAC-GTTGGCATCG-TATTTGATTACAT
** * * *
55118251 GTAAGACCACATCTAGGATGTTGGCATTGTAT
1 GTAAGACCATGTCTGGGACGTTGGCATCGTAT
55118283 GAGCTTTCCG
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACAT
Found at i:55118257 original size:43 final size:42
Alignment explanation
Indices: 55118166--55118259 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
55118156 TGTGTTATCG
* *
55118166 GTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTTCAT
1 GTAAGACCATGCCTGGGACGTTGGCATCGTATTTGATTACAT
* *
55118208 GTAAGACCCTGCCTGGGACAG-TGGCATCGATTTTTGATTACAT
1 GTAAGACCATGCCTGGGAC-GTTGGCATCG-TATTTGATTACAT
55118251 GTAAGACCA
1 GTAAGACCA
55118260 CATCTAGGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
GTAAGACCATGCCTGGGACGTTGGCATCGTATTTGATTACAT
Found at i:55129546 original size:21 final size:21
Alignment explanation
Indices: 55129522--55129563 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
55129512 CTATTTTAGT
*
55129522 CCATTATAATTCCAATTTGAC
1 CCATGATAATTCCAATTTGAC
**
55129543 CCATGATAATTTTAATTTGAC
1 CCATGATAATTCCAATTTGAC
55129564 ACTTAACATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.40
Consensus pattern (21 bp):
CCATGATAATTCCAATTTGAC
Found at i:55132314 original size:18 final size:18
Alignment explanation
Indices: 55132291--55132327 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
55132281 CAATTGAAGC
55132291 GTCGAAATTTACACATAG
1 GTCGAAATTTACACATAG
55132309 GTCGAAATTTACACATAG
1 GTCGAAATTTACACATAG
55132327 G
1 G
55132328 CCTGTTGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (18 bp):
GTCGAAATTTACACATAG
Found at i:55145459 original size:40 final size:40
Alignment explanation
Indices: 55145404--55145600 Score: 322
Period size: 40 Copynumber: 4.9 Consensus size: 40
55145394 GCATGAGCAT
55145404 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
55145444 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
55145484 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
55145524 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
55145564 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
55145601 TTGCGGTTAT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:55147886 original size:31 final size:31
Alignment explanation
Indices: 55147846--55147999 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
55147836 TTTCCATAAA
*
55147846 TCAT-AATCATATCACTGGGTCGAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
55147876 TCATAAATCATATCACTGGGCCGAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
55147907 TCATAAATCATATCACTGGGCCGAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
**
55147938 TCATAAATCATATCACTGGGCTAAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
55147969 TCATAAATCATATCACTGGGCCGAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
55148000 ACTGTAAACG
Statistics
Matches: 118, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 4 0.03
31 114 0.97
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (31 bp):
TCATAAATCATATCACTGGGCCGAAGCCTTT
Found at i:55148070 original size:42 final size:42
Alignment explanation
Indices: 55148023--55148114 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
55148013 TGGCCCTTAG
* *
55148023 GCCCATTTCAATATCACATGTAATGTCCATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
55148065 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
55148107 GCCCATTT
1 GCCCATTT
55148115 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:55148290 original size:25 final size:25
Alignment explanation
Indices: 55148262--55148331 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
55148252 CTCTTTTAAT
55148262 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
55148287 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
55148312 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
55148332 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:55149309 original size:85 final size:85
Alignment explanation
Indices: 55149166--55149344 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
55149156 GGCCGGCCAT
55149166 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
55149231 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
55149251 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
55149316 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
55149336 GGGCATGGG
1 GAGCATGGG
55149345 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:55150664 original size:47 final size:47
Alignment explanation
Indices: 55150610--55151496 Score: 1232
Period size: 47 Copynumber: 18.6 Consensus size: 47
55150600 TATTTGAATA
*
55150610 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55150657 AATGTGAAAGTGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAA--GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
55150706 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
55150753 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
55150802 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55150849 AATATGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
55150896 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATTGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
55150945 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55150994 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
55151041 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
55151088 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
55151137 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55151184 AATGTGAACA-TGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
55151231 AATGTGAAAGTGTATATATATGTGATAAGGCCAAATGGTCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
55151280 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
55151327 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
55151374 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55151421 GATGTGAAAGTGTATATATATGTGATAAGGCCAAATGACCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
55151470 AATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
55151497 TCCCGAAGGG
Statistics
Matches: 775, Mismatches: 45, Indels: 40
0.90 0.05 0.05
Matches are distributed among these distances:
46 4 0.01
47 462 0.60
49 305 0.39
50 4 0.01
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:55150718 original size:96 final size:96
Alignment explanation
Indices: 55150610--55151496 Score: 1257
Period size: 96 Copynumber: 9.3 Consensus size: 96
55150600 TATTTGAATA
*
55150610 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTGTATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATA
* * *
55150675 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
55150706 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATA
*
55150771 TATGTGATAAGGCCGAATGACCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55150802 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA-TGTG--
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTGTA
*
55150863 TATGTGTGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
55150896 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATTGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTA
55150961 TATATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55150994 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACA-TGTG--
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTGTA
*
55151055 TATGTGTGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
55151088 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTG-
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTGT
*
55151151 -TATGTGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
55151184 AATGTGAACA-TGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTAT
* *
55151248 ATATGTGATAAGGCCAAATGGTCAATGTGATG
65 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55151280 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA---TGCA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTGTA
*
55151341 TATATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
55151374 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATA
* *
55151439 TATGTGATAAGGCCAAATGACCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
55151470 AATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
55151497 TCCCGAAGGG
Statistics
Matches: 719, Mismatches: 50, Indels: 44
0.88 0.06 0.05
Matches are distributed among these distances:
93 5 0.01
94 208 0.29
95 1 0.00
96 457 0.64
97 5 0.01
98 42 0.06
99 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:55150874 original size:143 final size:142
Alignment explanation
Indices: 55150610--55151496 Score: 1313
Period size: 143 Copynumber: 6.2 Consensus size: 142
55150600 TATTTGAATA
* *
55150610 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTGTATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATA
* * * * *
55150675 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAA
65 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAA
55150739 TGGCCAATGTGATG
129 TGGCCAATGTGATG
* *
55150753 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACA-TG-TG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGATA
* *
55150816 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGTGTATGTGTGATAAGGCCGA
63 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGA
55150881 ATGGCCAATGTGATG
128 ATGGCCAATGTGATG
*
55150896 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATTGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATA
55150961 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGA
63 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGA
*
55151026 ATGACCAATGTGATG
128 ATGGCCAATGTGATG
* *
55151041 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATAT
55151105 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAA
64 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAA
55151170 TGGCCAATGTGATG
129 TGGCCAATGTGATG
* * *
55151184 AATGTGAACA-TGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATAT
* *
55151248 ATATGTGATAAGGCCAAATGGTCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAA
64 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAA
55151313 TGGCCAATGTGATG
129 TGGCCAATGTGATG
* *
55151327 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-TATA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATA
* * * *
55151390 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAA-AGTGTATATATATGTGATAAGGCCA
65 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATGTGTGATAAGGCCG
*
55151454 AATGACCAATGTGATG
127 AATGGCCAATGTGATG
* *
55151470 AATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
55151497 TCCCGAAGGG
Statistics
Matches: 695, Mismatches: 37, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
140 1 0.00
141 42 0.06
142 2 0.00
143 516 0.74
144 1 0.00
145 131 0.19
146 2 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (142 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATG
GCCAATGTGATG
Found at i:55150919 original size:27 final size:27
Alignment explanation
Indices: 55150888--55150970 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
55150878 CGAATGGCCA
55150888 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
* * ***
55150915 ATGTGAT-AAGGCCG-AA-T-T-GCCA-
1 ATGTGATGAATG-TGAAAGTGTATATAT
55150937 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
55150964 ATGTGAT
1 ATGTGAT
55150971 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
22 8 0.21
23 6 0.15
24 2 0.05
25 2 0.05
26 6 0.15
27 15 0.38
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:55151325 original size:22 final size:22
Alignment explanation
Indices: 55151298--55151419 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
55151288 CATGTGTATG
55151298 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
55151320 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
55151345 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
55151367 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
55151392 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
55151414 TGTGAT
1 TGTGAT
55151420 GGATGTGAAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:55154409 original size:40 final size:40
Alignment explanation
Indices: 55154061--55154408 Score: 498
Period size: 40 Copynumber: 8.7 Consensus size: 40
55154051 ACAATGATCT
55154061 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
* *
55154101 GGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCT
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
*
55154141 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
* * * *
55154181 GGGTTAAGTTCTGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
*
55154221 GGGCTAAGTCCCGAAGAGCATTCACGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
*
55154261 GGGCTAAGTCCCAAAGAGCATTCATGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
** * *
55154301 GGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATATATCC
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
* ** * * * *
55154341 GTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
* *
55154381 GGGCTAGGTCCCGAAGAGCAATCATGCT
1 GGGCTAAGTCCCGAAGAGCATTCATGCT
55154409 GATGACGTGT
Statistics
Matches: 275, Mismatches: 33, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 275 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
Found at i:55155812 original size:85 final size:85
Alignment explanation
Indices: 55155669--55155847 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
55155659 GGCCGGCCAT
*
55155669 GAGCATGGGTGGACAAGATGTTATGGTTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
55155734 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
55155754 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
55155819 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
55155839 GGGCATGGG
1 GAGCATGGG
55155848 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:55157165 original size:47 final size:47
Alignment explanation
Indices: 55157111--55157688 Score: 844
Period size: 47 Copynumber: 12.3 Consensus size: 47
55157101 TATTTGAATA
* * *
55157111 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
55157158 AATGTGAA-AGTGTGCATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAACA-TGTG--TATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55157207 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGACAATGTGATG
1 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
55157254 AATGTGAACATGTGTATGTGTGATAAGGCTGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* ** * *
55157301 ATTGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
55157348 AATGTGAACATGTGTATGTGTGATAAGGCC-AATGACCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
55157394 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55157441 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGGCAATGTGATG
1 AATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
55157490 AATGTGAACATGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
55157537 AATGTGAACATGTGTATGTGAGA-AAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
55157583 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
55157630 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
55157677 AATGTGAACATG
1 AATGTGAACATG
55157689 CATATATGAG
Statistics
Matches: 487, Mismatches: 35, Indels: 18
0.90 0.06 0.03
Matches are distributed among these distances:
46 90 0.18
47 309 0.63
48 1 0.00
49 86 0.18
50 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:55157531 original size:189 final size:188
Alignment explanation
Indices: 55157111--55157696 Score: 862
Period size: 189 Copynumber: 3.1 Consensus size: 188
55157101 TATTTGAATA
*
55157111 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTGCA
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTG--
* * * * *
55157174 TATATGTGATAAGGCCTAAT-AGCCGATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCC
62 TATGTGTGATAAGGCCGAATGA-CCAATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCC
* *
55157237 GAATGGACAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCTGAATGGCCAATGTGATG
125 GAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55157301 ATTGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
55157366 TGTGATAAGGCC-AATGACCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGG
66 TGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGG
* * *
55157430 CCAATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGGCAATGTGATG
131 CCAATGTGATGAATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
55157490 AATGTGAACATGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAACATGTGTATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
55157555 TGAGA-AAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGG
66 TGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGG
55157619 CCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
131 CCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
55157677 AATGTGAACATGCATATATG
1 AATGTGAACATGTATATATG
55157697 AGATGTAACA
Statistics
Matches: 360, Mismatches: 27, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
186 1 0.00
187 114 0.32
188 23 0.06
189 166 0.46
190 54 0.15
191 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (188 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
TGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGG
CCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:55157625 original size:236 final size:234
Alignment explanation
Indices: 55157111--55157684 Score: 929
Period size: 236 Copynumber: 2.4 Consensus size: 234
55157101 TATTTGAATA
* *
55157111 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTGCA
1 AATGTGAACA-TGTGTATGTGTGATAAGGCC-AATGGCCAATGTGATGAATGTGAACA-TGTG--
* * * *
55157174 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
61 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
* *
55157239 ATGGACAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCTGAATGGCCAATGTGATGATT
126 ATGGACAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
55157304 GTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
191 GTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
*
55157348 AATGTGAACATGTGTATGTGTGATAAGGCCAATGACCAATGTGATGAATGTGAACATGTGTATGT
1 AATGTGAACATGTGTATGTGTGATAAGGCCAATGGCCAATGTGATGAATGTGAACATGTGTATGT
55157413 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATG
* *
55157478 GGCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTG
129 GACAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
** *
55157543 AACATGTGTATGTGAGA-AAGGCCGAATGGCCAATGTGATG
194 AACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
55157583 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 AATGTGAACATGTGTATGTGTGATAAGGCC-AATGGCCAATGTGATGAATGTGAACATGTGTATG
55157648 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
65 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
55157685 CATGCATATA
Statistics
Matches: 317, Mismatches: 15, Indels: 11
0.92 0.04 0.03
Matches are distributed among these distances:
234 41 0.13
235 53 0.17
236 195 0.62
237 27 0.09
238 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (234 bp):
AATGTGAACATGTGTATGTGTGATAAGGCCAATGGCCAATGTGATGAATGTGAACATGTGTATGT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGA
CAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
CATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
Found at i:55159436 original size:29 final size:30
Alignment explanation
Indices: 55159397--55159475 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
55159387 CTTAATAATC
55159397 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
55159427 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
55159456 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
55159476 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:55167556 original size:29 final size:30
Alignment explanation
Indices: 55167517--55167595 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
55167507 CTTAATAATC
55167517 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
55167547 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
55167576 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
55167596 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:55169259 original size:47 final size:46
Alignment explanation
Indices: 55169181--55169292 Score: 179
Period size: 47 Copynumber: 2.4 Consensus size: 46
55169171 TGTTACATGA
*
55169181 GATAAGGCCGAATGGCAATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCGAATGGCAATGTGATGAATGTGAAAGTGTATAAATGT
*
55169227 GATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGT
1 GATAAGGCCGAATGG-CAATGTGATGAATGTGAAAGTGTATAAATGT
* *
55169274 GATAAGTCCGAAGGGCAAT
1 GATAAGGCCGAATGGCAAT
55169293 TGTGTCAGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
46 19 0.31
47 42 0.69
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
GATAAGGCCGAATGGCAATGTGATGAATGTGAAAGTGTATAAATGT
Found at i:55171423 original size:27 final size:27
Alignment explanation
Indices: 55171393--55171457 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
55171383 GGGTATATTC
55171393 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
55171420 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
55171447 GTCTTTTTACC
1 GTCATTTTACC
55171458 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:55171531 original size:27 final size:27
Alignment explanation
Indices: 55171501--55171553 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
55171491 GGGTGTTTTG
55171501 GTAAATCTATAAACCAAGGGTATTTCA
1 GTAAATCTATAAACCAAGGGTATTTCA
* * * *
55171528 GTAATTTTGTAAACCAATGGTATTTC
1 GTAAATCTATAAACCAAGGGTATTTC
55171554 TATAATGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (27 bp):
GTAAATCTATAAACCAAGGGTATTTCA
Found at i:55171623 original size:26 final size:27
Alignment explanation
Indices: 55171516--55171696 Score: 120
Period size: 27 Copynumber: 6.7 Consensus size: 27
55171506 TCTATAAACC
* * **
55171516 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTCTGTAATTTTATAAATT
* * *
55171543 AATGGTATTTCTATAATGTTTAGAAAGTT
1 AAGGGTATTTCTGTAAT-TTTATAAA-TT
*
55171572 AAGGGTATTTCTGTAATTTTGTAAATT
1 AAGGGTATTTCTGTAATTTTATAAATT
55171599 AAGGGTATTT-TGGT-ATTTTATAAATT
1 AAGGGTATTTCT-GTAATTTTATAAATT
* * * *
55171625 GAGGGTATTTC-GATAATTTCACAAA-C
1 AAGGGTATTTCTG-TAATTTTATAAATT
* * * *
55171651 CAGTGGTATTTCGGTAATTTTACAAACT
1 AAG-GGTATTTCTGTAATTTTATAAATT
*
55171679 AGGGGTATTT-TGGTAATT
1 AAGGGTATTTCT-GTAATT
55171697 ATATCCTACA
Statistics
Matches: 122, Mismatches: 22, Indels: 20
0.74 0.13 0.12
Matches are distributed among these distances:
25 1 0.01
26 24 0.20
27 68 0.56
28 14 0.11
29 15 0.12
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTCTGTAATTTTATAAATT
Found at i:55171736 original size:27 final size:27
Alignment explanation
Indices: 55171627--55171736 Score: 98
Period size: 27 Copynumber: 4.1 Consensus size: 27
55171617 TATAAATTGA
* *
55171627 GGGTATTTCGATAATTTCACAAACCAG
1 GGGTATTTCGGTAATTTCACAAACAAG
* * *
55171654 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACAAG
* **
55171681 GGGTATTTTGGTAATTAT-ATCCTAC-AG
1 GGGTATTTCGGTAATT-TCA-CAAACAAG
* *
55171708 GGGTATTTCAGTAATTTCACAATCAAG
1 GGGTATTTCGGTAATTTCACAAACAAG
55171735 GG
1 GG
55171737 TAAAATGGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
26 3 0.05
27 59 0.89
28 4 0.06
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTCACAAACAAG
Found at i:55171766 original size:27 final size:27
Alignment explanation
Indices: 55171728--55171925 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
55171718 GTAATTTCAC
* * *
55171728 AATCAAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
55171755 AA-CTGAGGGTAAAATGGTAATTTTATA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* * *
55171782 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
55171809 AACCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
55171836 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
55171863 AATTGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
55171890 AATCGAGGGTAAAATAGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
55171917 AATCGAGGG
1 AATCGAGGG
55171926 CATTTTAGTA
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 144 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:55171803 original size:54 final size:54
Alignment explanation
Indices: 55171728--55171903 Score: 271
Period size: 54 Copynumber: 3.3 Consensus size: 54
55171718 GTAATTTCAC
* * *
55171728 AATCAAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTATA
* * *
55171782 AATCGAGGGTAAAACGATAATTCTGTAAACCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTATA
* * *
55171836 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTATA
55171890 AATCGAGGGTAAAA
1 AATCGAGGGTAAAA
55171904 TAGTAATTCT
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 110 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTATA
Found at i:55171845 original size:81 final size:81
Alignment explanation
Indices: 55171733--55171925 Score: 271
Period size: 81 Copynumber: 2.4 Consensus size: 81
55171723 TTCACAATCA
* * *
55171733 AGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAAC
1 AGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAAC
*
55171797 GATAATTCTGTAAACCG
65 GATAATTCTATAAACCG
* * *
55171814 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTGAAACG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACG
* *
55171879 GTAATTCTATAAATCG
66 ATAATTCTATAAACCG
* *
55171895 AGGGTAAAATAGTAATTCTACAAATCGAGGG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGG
55171926 CATTTTAGTA
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 99 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.28
Consensus pattern (81 bp):
AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACG
ATAATTCTATAAACCG
Found at i:55183808 original size:24 final size:24
Alignment explanation
Indices: 55183708--55183808 Score: 139
Period size: 24 Copynumber: 4.2 Consensus size: 24
55183698 CCAACACCGT
*
55183708 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
55183732 TCTCTCTTATCCGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
55183756 TCTTCCTTATTAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
55183780 TCTCCCTTATCAGCTCCCAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
55183804 TCTCC
1 TCTCC
55183809 TGACAGCCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.20, C:0.41, G:0.04, T:0.36
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:55185464 original size:34 final size:34
Alignment explanation
Indices: 55185433--55185500 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
55185423 TGATCCATGG
*
55185433 AAAAGTGTGAAACGTAGGTATGGTATTTCCATAC
1 AAAACTGTGAAACGTAGGTATGGTATTTCCATAC
** *
55185467 CGACCTGTGAAACGTAGGTATGGTATTTCCATAC
1 AAAACTGTGAAACGTAGGTATGGTATTTCCATAC
55185501 TGAGTTGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (34 bp):
AAAACTGTGAAACGTAGGTATGGTATTTCCATAC
Found at i:55189367 original size:33 final size:32
Alignment explanation
Indices: 55189330--55189408 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 32
55189320 GTAGAACTGG
55189330 AAAAGGAAATGTACACTGTGTGTGTACAACTTA
1 AAAAGGAAATGTACACTGTGTGTGTAC-ACTTA
* * *
55189363 AAAAGGAAACGTACACTTTGTGTGTACACTTG
1 AAAAGGAAATGTACACTGTGTGTGTACACTTA
*
55189395 AAAAGAAAATGTAC
1 AAAAGGAAATGTAC
55189409 GCCTTATGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 16 0.39
33 25 0.61
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (32 bp):
AAAAGGAAATGTACACTGTGTGTGTACACTTA
Found at i:55189419 original size:32 final size:32
Alignment explanation
Indices: 55189350--55189432 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
55189340 GTACACTGTG
* * * *
55189350 TGTGTACAACTTAAAAAGGAAACGTACACTTTG
1 TGTGTAC-ACTTGAAAAGAAAACGTACACCTTA
* *
55189383 TGTGTACACTTGAAAAGAAAATGTACGCCTTA
1 TGTGTACACTTGAAAAGAAAACGTACACCTTA
*
55189415 TGTGTACAATGTGAAAAG
1 TGTGTACACT-TGAAAAG
55189433 TGGTAGCTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 28 0.67
33 14 0.33
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (32 bp):
TGTGTACACTTGAAAAGAAAACGTACACCTTA
Found at i:55189486 original size:31 final size:31
Alignment explanation
Indices: 55189425--55189631 Score: 247
Period size: 31 Copynumber: 6.5 Consensus size: 31
55189415 TGTGTACAAT
55189425 GTGAAAAGTGGTAGCTTCGGCTATACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGC--TACCTGATCA
* *
55189458 GTGAAAAGTGGTAGCTTCGACTACCTGATCG
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
55189489 GTGAAAAGTGGTAGCTTTGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
55189520 GTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
55189551 GTGAAAAATGGTAGC-TCTAGCTACTTGATCA
1 GTGAAAAGTGGTAGCTTC-GGCTACCTGATCA
* *
55189582 GTGAATAGTGGTAGCTTCGGCTACAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCGGCTAC--CTGATC-A
*
55189615 GTGATAAGTGGTAGCTT
1 GTGAAAAGTGGTAGCTT
55189632 TAGCTACATT
Statistics
Matches: 150, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
30 2 0.01
31 106 0.71
32 3 0.02
33 39 0.26
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:55189726 original size:27 final size:27
Alignment explanation
Indices: 55189695--55189746 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
55189685 TAGTTGAACT
55189695 ATGGCAAAGTGATAAAGTGTACCAATC
1 ATGGCAAAGTGATAAAGTGTACCAATC
* *
55189722 ATGGCAAAGTGATATAGTGTGCCAA
1 ATGGCAAAGTGATAAAGTGTACCAA
55189747 ACATAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.23
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTACCAATC
Found at i:55189756 original size:27 final size:27
Alignment explanation
Indices: 55189699--55189759 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
55189689 TGAACTATGG
* **
55189699 CAAAGTGATAAAGTGTACCAATCATGG
1 CAAAGTGATAAAGTGTACCAAACATAA
* *
55189726 CAAAGTGATATAGTGTGCCAAACATAA
1 CAAAGTGATAAAGTGTACCAAACATAA
55189753 CAAAGTG
1 CAAAGTG
55189760 TTCATTGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (27 bp):
CAAAGTGATAAAGTGTACCAAACATAA
Found at i:55193416 original size:56 final size:56
Alignment explanation
Indices: 55193252--55193387 Score: 227
Period size: 56 Copynumber: 2.4 Consensus size: 56
55193242 ACCATGGCAT
* *
55193252 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTT
1 CGATATATGTGTGAGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
* *
55193308 CAATATATTTGTGAGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGAGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
*
55193364 CGATATATGTGTGTGAGTAAGACC
1 CGATATATGTGTGAGAGTAAGACC
55193388 CTGTCTAGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGAGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
Found at i:55198038 original size:43 final size:43
Alignment explanation
Indices: 55197990--55198108 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
55197980 AATGCCGACA
* * *
55197990 TCCCAGACATGGTCTTACATGTAAT-TCAATATCGAAGCCTCTG
1 TCCCAGACACGGTCTTACACGAAATCTCAA-ATCGAAGCCTCTG
* * *
55198033 TCCCAGACAGGGTCTTACACGAAATCTCAAATCGAGGCCTGTG
1 TCCCAGACACGGTCTTACACGAAATCTCAAATCGAAGCCTCTG
*
55198076 TCCCAGACACGGTCTTACACGATATCTCAAATC
1 TCCCAGACACGGTCTTACACGAAATCTCAAATC
55198109 AATTTCGACT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 64 0.94
44 4 0.06
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
TCCCAGACACGGTCTTACACGAAATCTCAAATCGAAGCCTCTG
Found at i:55215960 original size:29 final size:30
Alignment explanation
Indices: 55215903--55215963 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
55215893 CCTTAACTCT
55215903 AACTTTTGCAAAATTACAATTTTTCCCCTA
1 AACTTTTGCAAAATTACAATTTTTCCCCTA
* * *
55215933 AACTTTTGCATATTTACACTTTTT-CCCTA
1 AACTTTTGCAAAATTACAATTTTTCCCCTA
55215962 AA
1 AA
55215964 GCTCGAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTTCCCCTA
Found at i:55216543 original size:30 final size:30
Alignment explanation
Indices: 55216508--55216566 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
55216498 TGCATGATTG
55216508 TGTGAAAAATTCGTGAAGAAATTTTATGCT
1 TGTGAAAAATTCGTGAAGAAATTTTATGCT
55216538 TGTGAAAAATTCGTGAAGAAATTTTATGC
1 TGTGAAAAATTCGTGAAGAAATTTTATGC
55216567 ATAAAGTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.36
Consensus pattern (30 bp):
TGTGAAAAATTCGTGAAGAAATTTTATGCT
Found at i:55217756 original size:46 final size:46
Alignment explanation
Indices: 55217701--55217875 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
55217691 TATTTGGGCA
55217701 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
55217747 TTCGAACTCGTTGAG-TGAGTCCGAGTTCGC-GA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
55217791 CATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55217839 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55217876 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 2 0.02
45 14 0.13
46 61 0.58
47 13 0.12
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55217825 original size:92 final size:93
Alignment explanation
Indices: 55217697--55217867 Score: 272
Period size: 92 Copynumber: 1.8 Consensus size: 93
55217687 AGAATATTTG
* * **
55217697 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55217762 -TGAGTCCGAGTTCGCGAGATGTAACTA
66 TTGAGTCCGAGTTCGCGAGATGTAACTA
* *
55217789 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
55217854 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
55217868 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 59 0.83
93 12 0.17
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGCGAGATGTAACTA
Found at i:55221614 original size:13 final size:13
Alignment explanation
Indices: 55221596--55221628 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
55221586 AAATATTGCT
55221596 TTCTTAATTATTG
1 TTCTTAATTATTG
*
55221609 TTCTTAATTCTTG
1 TTCTTAATTATTG
55221622 TT-TTAAT
1 TTCTTAAT
55221629 ATTCCAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (13 bp):
TTCTTAATTATTG
Found at i:55223623 original size:11 final size:11
Alignment explanation
Indices: 55223607--55223662 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
55223597 ACATGGTTAT
55223607 ATGATATGCAC
1 ATGATATGCAC
*
55223618 ATGATATG--T
1 ATGATATGCAC
55223627 ATGATATGCAC
1 ATGATATGCAC
*
55223638 ATGATATG--T
1 ATGATATGCAC
55223647 ATGATATGCAC
1 ATGATATGCAC
55223658 ATGAT
1 ATGAT
55223663 GTATGCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:55223631 original size:20 final size:20
Alignment explanation
Indices: 55223606--55223662 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
55223596 TACATGGTTA
55223606 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
55223626 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
55223646 TATGATATGCACATGAT
1 TATGATATGCACATGAT
55223663 GTATGCATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:55223741 original size:25 final size:25
Alignment explanation
Indices: 55223713--55223809 Score: 79
Period size: 25 Copynumber: 3.8 Consensus size: 25
55223703 GAGGAAGTGC
*
55223713 AAAAAGGCTTATGCCCGGTTTACCG
1 AAAAAGGCTTATGCCCAGTTTACCG
* * **
55223738 AAAATGGCTTATGCTCTAGTTTATTG
1 AAAAAGGCTTATGC-CCAGTTTACCG
* *
55223764 AGAAGGGCTTATGCCCCAGTTTACCG
1 AAAAAGGCTTATG-CCCAGTTTACCG
* *
55223790 -AAAGGGCTTTTGCCCCAGTT
1 AAAAAGGCTTATG-CCCAGTT
55223810 ATTAAAAGAG
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
25 31 0.53
26 26 0.45
27 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (25 bp):
AAAAAGGCTTATGCCCAGTTTACCG
Found at i:55241259 original size:40 final size:40
Alignment explanation
Indices: 55241204--55241449 Score: 361
Period size: 40 Copynumber: 6.2 Consensus size: 40
55241194 GGACTAAGAT
* * * *
55241204 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
55241244 CCGAAGGCATTTGTGCGAGTTACTATATTCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
55241284 CCGAAGGCATTTGT-CTGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGTC
* *
55241324 CTGAAGGCATTTGTGCGAGTTACTATATCCGGGATAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
55241364 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* ** *
55241404 CTGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
55241443 CCGAAGG
1 CCGAAGG
55241450 TACTTGGGTT
Statistics
Matches: 189, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 15 0.08
40 173 0.92
41 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:55245432 original size:47 final size:48
Alignment explanation
Indices: 55245309--55245439 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 48
55245299 GAATATGTGA
** *
55245309 GAGCTAGTGTAGACCATGTCTAGGACATGGTGTCGACCTCGATTTTGAT
1 GAGCTAGTGTAGACCATGTCTAGGACATGGCATCGACCTCGA-TTGGAT
* *
55245358 -AGAC-AGTGTAAGACCATGTCTAAGACATGGCATCGA-CTTGA-TGGAT
1 GAG-CTAGTGT-AGACCATGTCTAGGACATGGCATCGACCTCGATTGGAT
*
55245404 GAGCTAGTGTATGACCAAGTCTAGGACATGGCATCG
1 GAGCTAGTGTA-GACCATGTCTAGGACATGGCATCG
55245440 GCATTATGCC
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
46 6 0.09
47 29 0.41
48 11 0.16
49 24 0.34
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
GAGCTAGTGTAGACCATGTCTAGGACATGGCATCGACCTCGATTGGAT
Found at i:55249655 original size:20 final size:20
Alignment explanation
Indices: 55249625--55249711 Score: 156
Period size: 20 Copynumber: 4.3 Consensus size: 20
55249615 ATTTTGATAA
*
55249625 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55249645 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
55249665 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
55249685 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
55249705 ACATGAT
1 ACATGAT
55249712 GTATTCATAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55249672 original size:11 final size:11
Alignment explanation
Indices: 55249636--55249711 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
55249626 CATGGTATGT
55249636 ATGATATGCAC
1 ATGATATGCAC
* *
55249647 ATGACATG--T
1 ATGATATGCAC
55249656 ATGATATGCAC
1 ATGATATGCAC
*
55249667 ATGATATG--T
1 ATGATATGCAC
55249676 ATGATATGCAC
1 ATGATATGCAC
*
55249687 ATGATATG--T
1 ATGATATGCAC
55249696 ATGATATGCAC
1 ATGATATGCAC
55249707 ATGAT
1 ATGAT
55249712 GTATTCATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:55249681 original size:9 final size:9
Alignment explanation
Indices: 55249631--55249703 Score: 56
Period size: 9 Copynumber: 7.4 Consensus size: 9
55249621 ATAAACATGG
55249631 TATGTATGA
1 TATGTATGA
*
55249640 TATGCACATGA
1 TATG--TATGA
*
55249651 CATGTATGA
1 TATGTATGA
*
55249660 TATGCACATGA
1 TATG--TATGA
55249671 TATGTATGA
1 TATGTATGA
*
55249680 TATGCACATGA
1 TATG--TATGA
55249691 TATGTATGA
1 TATGTATGA
55249700 TATG
1 TATG
55249704 CACATGATGT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 27 0.54
11 23 0.46
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.36
Consensus pattern (9 bp):
TATGTATGA
Found at i:55249817 original size:24 final size:23
Alignment explanation
Indices: 55249761--55249898 Score: 186
Period size: 24 Copynumber: 5.9 Consensus size: 23
55249751 GAGGAAGTGA
*
55249761 AAAAGGGCTTATGCCCCAGCTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
55249784 TAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
55249807 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
55249831 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
55249855 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
55249878 AAAAAGGGCTTTTTCCCCAGT
1 -AAAAGGGCTTATGCCCCAGT
55249899 GGAGAGTTAT
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
23 41 0.40
24 61 0.60
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:55249877 original size:71 final size:71
Alignment explanation
Indices: 55249761--55249898 Score: 222
Period size: 71 Copynumber: 1.9 Consensus size: 71
55249751 GAGGAAGTGA
* * *
55249761 AAAAGGGCTTATGCCCCAGCTATTAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGCTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
55249826 GTTATC
66 GTTATC
* * *
55249832 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTTCCCCA
1 AAAAGGGCTTACGCCCCAGCTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
55249897 GT
66 GT
55249899 GGAGAGTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGCTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:55249896 original size:47 final size:47
Alignment explanation
Indices: 55249761--55249898 Score: 188
Period size: 47 Copynumber: 2.9 Consensus size: 47
55249751 GAGGAAGTGA
* * *
55249761 AAAAGGGCTTATGCCCCAGCTATTAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
*
55249808 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
* * *
55249855 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTTCCCCAGT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGT
55249899 GGAGAGTTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 61 0.75
48 20 0.25
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:55250122 original size:31 final size:31
Alignment explanation
Indices: 55250067--55250130 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
55250057 CGTTTACAGT
*
55250067 AAAGGCTTCAGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* *
55250098 AAAGGCTTCGGCCCAGT-GTAATGAAATATGA
1 AAAGGCTTCAGCCCAGTAAT-ATGAAATATGA
55250129 AA
1 AA
55250131 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:55257686 original size:24 final size:24
Alignment explanation
Indices: 55257654--55257700 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
55257644 TTATAACATG
* * *
55257654 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
55257678 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
55257701 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:55257766 original size:19 final size:19
Alignment explanation
Indices: 55257742--55257804 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
55257732 ATAACATGGT
55257742 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
*
55257761 ATGTATGATATGCTCATGA
1 ATGTATGATATGCACATGA
55257780 TATGTATGATATGCACATG-
1 -ATGTATGATATGCACATGA
55257799 ATGTAT
1 ATGTAT
55257805 TCATAAATGC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.15
19 18 0.44
20 17 0.41
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.37
Consensus pattern (19 bp):
ATGTATGATATGCACATGA
Found at i:55257779 original size:11 final size:11
Alignment explanation
Indices: 55257746--55257800 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
55257736 CATGGTATGT
*
55257746 ATGATATGCAC
1 ATGATATGCTC
55257757 ATGA-ATG-T-
1 ATGATATGCTC
55257765 ATGATATGCTC
1 ATGATATGCTC
55257776 ATGATATG-T-
1 ATGATATGCTC
*
55257785 ATGATATGCAC
1 ATGATATGCTC
55257796 ATGAT
1 ATGAT
55257801 GTATTCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 4 0.11
9 11 0.30
10 5 0.14
11 17 0.46
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (11 bp):
ATGATATGCTC
Found at i:55257786 original size:20 final size:20
Alignment explanation
Indices: 55257735--55257800 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
55257725 GGATTTGATA
*
55257735 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
55257755 ACATGA-ATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55257774 TCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
55257794 ACATGAT
1 ACATGAT
55257801 GTATTCATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
19 18 0.43
20 24 0.57
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55257790 original size:9 final size:9
Alignment explanation
Indices: 55257741--55257792 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
55257731 GATAACATGG
55257741 TATGTATGA
1 TATGTATGA
*
55257750 TATGCACATGA
1 TATG--TATGA
55257761 -ATGTATGA
1 TATGTATGA
55257769 TATGCTCATGA
1 TATG-T-ATGA
55257780 TATGTATGA
1 TATGTATGA
55257789 TATG
1 TATG
55257793 CACATGATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
8 4 0.11
9 15 0.42
10 5 0.14
11 12 0.33
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:55257881 original size:22 final size:22
Alignment explanation
Indices: 55257850--55258014 Score: 208
Period size: 23 Copynumber: 7.3 Consensus size: 22
55257840 GAGGAAGTGA
55257850 AAAAGGGCTTATGCCCAGTTAT
1 AAAAGGGCTTATGCCCAGTTAT
*
55257872 AAAAGAGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATG-CCCAGTTAT
*
55257895 TAAAGGGCTTATGCCCAGTTAT
1 AAAAGGGCTTATGCCCAGTTAT
55257917 CAAAA-GGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATG-CCCAGTTAT
*
55257940 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATG-CCCAGTTAT
*
55257964 TAAA-GGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCC-AGTTAT
*
55257986 AAAAGGGCTTTTGCCCAGTTATT
1 AAAAGGGCTTATGCCCAGTTA-T
55258009 AAAAGG
1 AAAAGG
55258015 CTAGGCCTCC
Statistics
Matches: 127, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.02
22 50 0.39
23 57 0.45
24 17 0.13
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (22 bp):
AAAAGGGCTTATGCCCAGTTAT
Found at i:55257889 original size:23 final size:23
Alignment explanation
Indices: 55257850--55258031 Score: 216
Period size: 22 Copynumber: 8.0 Consensus size: 23
55257840 GAGGAAGTGA
55257850 AAAAGGGCTTATG-CCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
55257872 AAAAGAGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
55257895 TAAAGGGCTTATG-CCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
55257917 CAAAA-GGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
55257940 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
55257964 TAAA-GGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
55257986 AAAAGGGCTTTTG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
55258009 AAAA-GGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCC-CCAGTTAT
55258031 A
1 A
55258032 TGATAAAGCA
Statistics
Matches: 139, Mismatches: 13, Indels: 16
0.83 0.08 0.10
Matches are distributed among these distances:
21 2 0.01
22 61 0.44
23 59 0.42
24 17 0.12
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:55257915 original size:45 final size:44
Alignment explanation
Indices: 55257850--55258031 Score: 249
Period size: 45 Copynumber: 4.0 Consensus size: 44
55257840 GAGGAAGTGA
55257850 AAAAGGGCTTATGCCCAGTTATAAAAGAGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCAGTTATAAAAG-GCTTATGCCCCAGTTAT
*
55257895 TAAAGGGCTTATGCCCAGTTATCAAAAGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCAGTTAT-AAAAGGCTTATGCCCCAGTTAT
* * *
55257940 CAAAAGGGCTTACGCCCCAGTTATTAAAGGCTTATGCCCTAGTTAT
1 -AAAAGGGCTTATG-CCCAGTTATAAAAGGCTTATGCCCCAGTTAT
* *
55257986 AAAAGGGCTTTTGCCCAGTTATTAAAAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCAGTTA-TAAAAGGCTTATGCC-CCAGTTAT
55258031 A
1 A
55258032 TGATAAAGCA
Statistics
Matches: 122, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
44 13 0.11
45 64 0.52
46 36 0.30
47 9 0.07
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
AAAAGGGCTTATGCCCAGTTATAAAAGGCTTATGCCCCAGTTAT
Found at i:55271113 original size:40 final size:40
Alignment explanation
Indices: 55271014--55271297 Score: 405
Period size: 40 Copynumber: 7.1 Consensus size: 40
55271004 TGGATGATGA
* *
55271014 CCGGGCTAAGTCCCGTAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
*
55271055 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
55271095 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
55271135 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
55271175 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
55271215 TCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
55271255 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
55271294 CCGG
1 CCGG
55271298 TTAAATCCCA
Statistics
Matches: 222, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
38 2 0.01
39 17 0.08
40 177 0.80
41 22 0.10
42 4 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:55279089 original size:40 final size:40
Alignment explanation
Indices: 55278994--55279211 Score: 311
Period size: 40 Copynumber: 5.5 Consensus size: 40
55278984 TGGATGATAA
*
55278994 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
55279035 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
55279075 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
55279115 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
55279155 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
55279194 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
55279212 TACTTGGCTT
Statistics
Matches: 166, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 15 0.09
39 16 0.10
40 107 0.64
41 24 0.14
42 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:55285804 original size:16 final size:16
Alignment explanation
Indices: 55285783--55285825 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
55285773 GTAGATCGGC
*
55285783 AAAAGCCAAAATACTG
1 AAAAGCCAAAATACCG
* *
55285799 AAAAGCTAAAATGCCG
1 AAAAGCCAAAATACCG
55285815 AAAAGCCAAAA
1 AAAAGCCAAAA
55285826 GTTCAGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.58, C:0.19, G:0.14, T:0.09
Consensus pattern (16 bp):
AAAAGCCAAAATACCG
Found at i:55285947 original size:19 final size:19
Alignment explanation
Indices: 55285923--55285959 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
55285913 CTTGGGTTGT
55285923 GAATAGGCCAAATGGGCCG
1 GAATAGGCCAAATGGGCCG
*
55285942 GAATAGGCTAAATGGGCC
1 GAATAGGCCAAATGGGCC
55285960 TGATAGTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.35, T:0.14
Consensus pattern (19 bp):
GAATAGGCCAAATGGGCCG
Found at i:55286069 original size:28 final size:29
Alignment explanation
Indices: 55286041--55286266 Score: 192
Period size: 28 Copynumber: 8.0 Consensus size: 29
55286031 GCATGGGTAT
* * *
55286041 AATGTGATTTGGGTCGGATGGGCCATATA
1 AATGTGAATTGGGCCTGATGGGCCATATA
** * * *
55286070 AATAAG-ATTGGGCCTAACGGGCCATATG
1 AATGTGAATTGGGCCTGATGGGCCATATA
* * * *
55286098 AATGTGAATTGGGCTTGATCGGCTATATG
1 AATGTGAATTGGGCCTGATGGGCCATATA
* * *
55286127 AACGTGAAGTGGGCCGGATGGGCCATATA
1 AATGTGAATTGGGCCTGATGGGCCATATA
* * * *
55286156 AATGAG-ATTGGGCCTAACGGGCCATATG
1 AATGTGAATTGGGCCTGATGGGCCATATA
*
55286184 AATGTGAATTGGGCC-GATGGGCCTTAT-
1 AATGTGAATTGGGCCTGATGGGCCATATA
* * *
55286211 GACGTGAATTGGGCCGGATGGGCCATATA
1 AATGTGAATTGGGCCTGATGGGCCATATA
* *
55286240 AATGAG-ATTGGGCCTAATGGGCCATAT
1 AATGTGAATTGGGCCTGATGGGCCATAT
55286267 GCATGTATGT
Statistics
Matches: 152, Mismatches: 41, Indels: 9
0.75 0.20 0.04
Matches are distributed among these distances:
27 13 0.09
28 81 0.53
29 58 0.38
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (29 bp):
AATGTGAATTGGGCCTGATGGGCCATATA
Found at i:55286250 original size:84 final size:86
Alignment explanation
Indices: 55286044--55286272 Score: 356
Period size: 86 Copynumber: 2.7 Consensus size: 86
55286034 TGGGTATAAT
* * *
55286044 GTGATTTGGGTCGGATGGGCCATATAAATAAGATTGGGCCTAACGGGCCATATGAATGTGAATTG
1 GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAACGGGCCATATGAATGTGAATTG
*
55286109 GGCTTGATCGGCTATATGAAC
66 GGCTCGATCGGCTATATGAAC
*
55286130 GTGAAGTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAACGGGCCATATGAATGTGAATTG
1 GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAACGGGCCATATGAATGTGAATTG
*
55286195 GGC-CGATGGGCCT-TATG-AC
66 GGCTCGATCGG-CTATATGAAC
* *
55286214 GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGCATGT
1 GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAACGGGCCATATGAATGT
55286273 ATGTAGGGGT
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
84 58 0.44
85 9 0.07
86 66 0.50
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (86 bp):
GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAACGGGCCATATGAATGTGAATTG
GGCTCGATCGGCTATATGAAC
Found at i:55290023 original size:46 final size:46
Alignment explanation
Indices: 55289874--55290286 Score: 236
Period size: 46 Copynumber: 8.7 Consensus size: 46
55289864 TTATTTGTGT
* *
55289874 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * * ** *
55289920 GCTAGTGTAAGACCATGTCTGAGATATGACATCGGAAAT-GAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCGG-CCTCGAGATGAGA
* *
55289968 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
*
55290014 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
* * * * *
55290058 GTCAATGTAAGACCATGTCTGGGACATGGCATCGG-CAC-ATATAGAAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-G-AGA
* * * * * * *
55290106 GTCTGTGTAAGACCATGTCTAGGACATGGCATCCGCATAGATATGTGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA--TGAGA
* * * ** *
55290156 GCTAGTGTAAGACCATGTCTTGGACATGGCATTGGCCTCGATTTCGATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-GAGA
* * * *
55290205 GTCAGTGTAAGACCATGTCTAGGACATGGCATC-GACTTGACG--GATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GATGA-GA
*
55290252 GCCAGTGTAAGACTATGTCTGGGACACGGCATCGG
1 GCCAGTGTAAGAC-ATGTCTGGGACA-TGCATCGG
55290287 TATTATACCC
Statistics
Matches: 293, Mismatches: 50, Indels: 46
0.75 0.13 0.12
Matches are distributed among these distances:
44 13 0.04
45 18 0.06
46 71 0.24
47 54 0.18
48 63 0.22
49 33 0.11
50 39 0.13
51 1 0.00
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:55290120 original size:48 final size:47
Alignment explanation
Indices: 55289878--55290238 Score: 189
Period size: 48 Copynumber: 7.6 Consensus size: 47
55289868 TTGTGTGCCA
*
55289878 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATG-AGAGCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGG-CACATATA-GAAGTGCT
* * * *
55289923 AGTGTAAGACCATGTCTGAGATATGACATCGG-A-A-ATGAGACGAGAGCT
1 -GTGTAAGACCATGTCTGGGACATGGCATCGGCACATAT-AGA--AGTGCT
* * * * *
55289971 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGAT-GTAAG-CCA
1 -GTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-ATATAG-AAGTGCT
* * *
55290018 GTGTAAGA-CATGTCTGGGACAT-GCATCGG--C-TACGAGATGTGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACATA-TAGAAGTG-CT
*
55290062 ATGTAAGACCATGTCTGGGACATGGCATCGGCACATATAGAAGTGTCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACATATAGAAGTG-CT
* * * * * *
55290110 GTGTAAGACCATGTCTAGGACATGGCATCCGCATAGATATGTGAGAGCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACATATA-G-AAGTGCT
* * * * * *
55290159 AGTGTAAGACCATGTCTTGGACATGGCATTGGCCTCGATTTCGATAGT-CA
1 -GTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-ATATAGA-AGTGCT
*
55290209 GTGTAAGACCATGTCTAGGACATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
55290239 ACTTGACGGA
Statistics
Matches: 248, Mismatches: 39, Indels: 53
0.73 0.11 0.16
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 2 0.01
44 9 0.04
45 17 0.07
46 51 0.21
47 24 0.10
48 66 0.27
49 34 0.14
50 34 0.14
51 6 0.02
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCACATATAGAAGTGCT
Found at i:55291764 original size:46 final size:45
Alignment explanation
Indices: 55291688--55291859 Score: 136
Period size: 46 Copynumber: 3.7 Consensus size: 45
55291678 GGTAACCCGC
* * *
55291688 CCATAAGCGAACTCAGACTCAACTCGACGAGCTTAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTAGGACGTT-GCAT
* * *
55291734 CCATGAGTGAACTCGGACTCAACTCAACGAGTTTAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTAG--GAC--GTTGCAT
* * * * *
55291784 CC--CA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTAGGAC-GTTGCAT
*
55291827 CCATAAGTGAACTCGAACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
55291860 CGGATGCCCA
Statistics
Matches: 101, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 8 0.08
44 2 0.02
45 1 0.01
46 57 0.56
47 22 0.22
48 2 0.02
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTAGGACGTTGCAT
Found at i:55291866 original size:93 final size:93
Alignment explanation
Indices: 55291695--55291867 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 93
55291685 CGCCCATAAG
* * * * *
55291695 CGAACTCAGACTCAACTCGACGAGCTTAGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTTAGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
55291760 ACGAGTTTAGATGCCTAGTTACATCCCA
66 ACGAGTTCAGATGCCTAGTTACATCCCA
* * *
55291788 CGAACTCGGACTCAACTCAACAAG-TTCGGACATTTGCATCCATAAGTGAACTCGAACTCAACTC
1 CGAACTCAGACTCAACTCAACAAGCTTAGG-CATTCGCATCCATAAGTGAACTCGAACTCAACTC
*
55291852 AACGAGTTCGGATGCC
65 AACGAGTTCAGATGCC
55291868 CAAACATCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
92 4 0.06
93 65 0.94
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACAAGCTTAGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCCCA
Found at i:55291882 original size:46 final size:46
Alignment explanation
Indices: 55291739--55291882 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 46
55291729 CGCATCCATG
** *
55291739 AGTGAACTCGGACTCAACTCAACGAGTTTAGATGCCTAGTTACATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATCCT
* * * * *
55291787 A-CGAACTCGGACTCAACTCAACAAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* * *
55291831 AAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
55291878 AGTGA
1 AGTGA
55291883 CATGTCACTT
Statistics
Matches: 75, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
43 6 0.08
45 3 0.04
46 32 0.43
47 27 0.36
48 7 0.09
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:55306827 original size:20 final size:20
Alignment explanation
Indices: 55306802--55306847 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
55306792 TCGGATTTAG
55306802 ATCGAGGAAAATCGAAGGTT
1 ATCGAGGAAAATCGAAGGTT
55306822 ATCGAGGAAAATCGAAGGTT
1 ATCGAGGAAAATCGAAGGTT
55306842 ATCGAG
1 ATCGAG
55306848 TAATCGATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.30, T:0.20
Consensus pattern (20 bp):
ATCGAGGAAAATCGAAGGTT
Found at i:55308968 original size:119 final size:120
Alignment explanation
Indices: 55308792--55309014 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
55308782 TACTCGTTCA
** * *
55308792 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCAGTT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGAT
*
55308857 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * *
55308912 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCAG
* * *
55308974 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
55309015 CATCATTCAG
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 64 0.72
120 22 0.25
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:55308974 original size:79 final size:80
Alignment explanation
Indices: 55308790--55309011 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 80
55308780 GCTACTCGTT
* * *
55308790 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCA
*
55308854 GTTATAGTAACTCGCA
65 GATATAGTAACTCGCA
*
55308870 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCAG
55308934 A-ATTAGTAACTCGCA
66 ATA-TAGTAACTCGCA
* * * * * *
55308949 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCC
55309012 GGACATCATT
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 4 0.03
79 60 0.48
80 59 0.47
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCAG
ATATAGTAACTCGCA
Found at i:55309014 original size:40 final size:40
Alignment explanation
Indices: 55308771--55309014 Score: 282
Period size: 40 Copynumber: 6.1 Consensus size: 40
55308761 CAGAATTTAA
** *
55308771 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55308811 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55308851 CCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55308891 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55308930 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55308970 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55309010 CCGGA
1 CCGGA
55309015 CATCATTCAG
Statistics
Matches: 176, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 130 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55317017 original size:79 final size:80
Alignment explanation
Indices: 55316875--55317055 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
55316865 TACTCGTTCA
* ** *
55316875 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
55316940 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
55316955 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGATGTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
55317017 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
55317034 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
55317056 GACATCATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 56 0.66
80 26 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:55317057 original size:40 final size:40
Alignment explanation
Indices: 55316854--55317057 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
55316844 CAGAATTTAA
** *
55316854 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55316894 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55316934 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55316973 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATGTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55317013 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55317053 CCGGA
1 CCGGA
55317058 CATCATTCAA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.24
40 90 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55326877 original size:42 final size:43
Alignment explanation
Indices: 55326775--55326882 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
55326765 AGCTCATACA
* * *
55326775 ATGCCAATGTCCTAGAC-GTGGTTTTACATGTAATCAAATATTG
1 ATGCCAATGTCCTAGACAG-GGTCTTACACGAAATCAAATATTG
* * *
55326818 ATGCCACTATCCTAGACAGGGTCTTACACGAAATCATATA-TG
1 ATGCCAATGTCCTAGACAGGGTCTTACACGAAATCAAATATTG
* *
55326860 ATGCCAATGTCCCAGACATGGTC
1 ATGCCAATGTCCTAGACAGGGTC
55326883 ACGTGGTCTT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 21 0.39
43 32 0.59
44 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACAGGGTCTTACACGAAATCAAATATTG
Found at i:55330210 original size:20 final size:21
Alignment explanation
Indices: 55330170--55330212 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
55330160 AAACTTGTAT
*
55330170 ATCTATCAACAAGCATTCAAA
1 ATCTATCAACAAACATTCAAA
*
55330191 ATCTATCAAGAAAC-TTCAAA
1 ATCTATCAACAAACATTCAAA
55330211 AT
1 AT
55330213 ACACATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (21 bp):
ATCTATCAACAAACATTCAAA
Found at i:55341263 original size:37 final size:37
Alignment explanation
Indices: 55341199--55341274 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
55341189 TTAAAACCCA
55341199 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
55341236 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
55341273 AA
1 AA
55341275 CATCGATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:55342291 original size:22 final size:22
Alignment explanation
Indices: 55342263--55342306 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
55342253 CAACTCACAT
55342263 GCATCATAATATTATCAAATAA
1 GCATCATAATATTATCAAATAA
55342285 GCATCATAATATTATCAAATAA
1 GCATCATAATATTATCAAATAA
55342307 CATACATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.32
Consensus pattern (22 bp):
GCATCATAATATTATCAAATAA
Found at i:55352922 original size:24 final size:24
Alignment explanation
Indices: 55352895--55352941 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
55352885 GCCGGTTAGG
55352895 TTCCCGGC-AGTGCTCCGGCGAGCT
1 TTCCCGGCGA-TGCTCCGGCGAGCT
*
55352919 TTCCCGGCGATGCTCCGGTGAGC
1 TTCCCGGCGATGCTCCGGCGAGC
55352942 CATCCCGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.09, C:0.36, G:0.34, T:0.21
Consensus pattern (24 bp):
TTCCCGGCGATGCTCCGGCGAGCT
Found at i:55352947 original size:24 final size:24
Alignment explanation
Indices: 55352896--55352949 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
55352886 CCGGTTAGGT
**
55352896 TCCCGGCAGTGCTCCGGCGAGCTT
1 TCCCGGCAGTGCTCCGGCGAGCCA
*
55352920 TCCCGGC-GATGCTCCGGTGAGCCA
1 TCCCGGCAG-TGCTCCGGCGAGCCA
55352944 TCCCGG
1 TCCCGG
55352950 AATATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.09, C:0.39, G:0.33, T:0.19
Consensus pattern (24 bp):
TCCCGGCAGTGCTCCGGCGAGCCA
Found at i:55353435 original size:43 final size:43
Alignment explanation
Indices: 55353371--55354236 Score: 870
Period size: 43 Copynumber: 20.7 Consensus size: 43
55353361 GGACGTACGA
* * * *
55353371 GAGCCTC-GGCACCATTGGCAACCTAAGACCTTGGTCGTACGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* *
55353413 TAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTACGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
*
55353456 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * *
55353499 GAGCCTC-GACACCATCCGCAACCTAGGCCCTTGGTCGTGCGA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
*
55353541 GAGCCTC-GGCACCATCCGCAACCTAGGCCCTTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* *
55353583 GAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTACGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * *
55353626 GAGCCTCGGACACCATCGGC-ACCTTGGCACTTGGAT-GTACGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGG
* *
55353668 GAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTACGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * *
55353711 GAGCCTCGGACACCATCGGC-ACCTTGGCACTTGGAT-GTACGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGG
*
55353753 GAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGAT-GTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGG
* * ** *
55353796 AAGCCTCGGACACCATCGGCAACCTAGGAACTTGGTCGTGGGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * *
55353839 GAGTCTC-GGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
*
55353881 GAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * *
55353924 GATCCTCGGGCACAATCGGCAACCTAGGCCCCTGGTCGTGCGA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * *
55353967 GAGCCTCGGGCACCATCGAC-ACCTAGGCCCCTGATCGTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
*
55354009 GAGCCTCGGG--CCA-C--C-ACCT-GG-CC-T-GTCG-GCGA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
*** ** ** * ** * *
55354041 GCCTCGGGCACCATCGGC---AACCTAGGCCCCTGGTCGTGCAG
1 GAGCCTCG-GGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * * * *
55354082 GAGCCTCGGGCACCATCAGTAGCTTCGTG--CTTGGAT-GTACGG
1 GAGCCTCGGGCACCATCGGCAACCTAG-GCCCTTGG-TCGTGCGG
* * * *
55354124 GAGCCTCAGACACCATCGGTAACCTAGGCCCTTGGTC-AGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * * *
55354166 GAGCCTCGGGTACCATCGGTAACCTAGGCCCTTAGTCATGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
*
55354209 GAGCCTCGGGCACCATAGGCAACCTAGG
1 GAGCCTCGGGCACCATCGGCAACCTAGG
55354237 ACGTTGGATG
Statistics
Matches: 706, Mismatches: 90, Indels: 55
0.83 0.11 0.06
Matches are distributed among these distances:
32 6 0.01
33 3 0.00
34 1 0.00
35 3 0.00
36 7 0.01
37 7 0.01
38 2 0.00
39 2 0.00
40 11 0.02
41 6 0.01
42 295 0.42
43 362 0.51
44 1 0.00
ACGTcount: A:0.18, C:0.34, G:0.31, T:0.17
Consensus pattern (43 bp):
GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
Found at i:55353524 original size:85 final size:86
Alignment explanation
Indices: 55353323--55354024 Score: 841
Period size: 85 Copynumber: 8.2 Consensus size: 86
55353313 GTGCTCGGAT
* * * ** ** * *
55353323 GTGCGGGAGCCTTGGGCACCACCGGC-ACCTTGGTGCAAGGACGTACGAGAGCCTC-GGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGGCACCAT
* * *
55353386 TGGCAACCTAAGACCTTGGTC
66 CGGCAACCTAGGCCCTTGGTC
* *
55353407 GTACGGTAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGGCACCAT
55353472 CGGCAACCTAGGCCCTTGGTC
66 CGGCAACCTAGGCCCTTGGTC
* * * * *
55353493 GTGCGAGAGCCTC-GACACCATCCGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTC-GGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGGCACCAT
*
55353556 CCGCAACCTAGGCCCTTGGTC
66 CGGCAACCTAGGCCCTTGGTC
* *
55353577 GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGACACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGGCACCAT
* *
55353642 CGGC-ACCTTGGCACTTGGAT-
66 CGGCAACCTAGGCCCTTGG-TC
* * *
55353662 GTACGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGACACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGGCACCAT
* *
55353727 CGGC-ACCTTGGCACTTGGAT-
66 CGGCAACCTAGGCCCTTGG-TC
* * * * *
55353747 GTACGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGAT-GTGCGGAAGCCTCGGACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTACGGGAGCCTCGGGCACCA
**
55353811 TCGGCAACCTAGGAACTTGGTC
65 TCGGCAACCTAGGCCCTTGGTC
* * * * *
55353833 GTGGGGGAGTCTC-GGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGAGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGGCACCAT
*
55353897 CGGCAACCTAGGCCCCTGGTC
66 CGGCAACCTAGGCCCTTGGTC
* * * * *
55353918 GTGCGGGATCCTCGGGCACAATCGGCAACCTAGGCCCCTGGTCGTGCGAGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGGCACCAT
* * *
55353983 CGAC-ACCTAGGCCCCTGATC
66 CGGCAACCTAGGCCCTTGGTC
55354003 GTGCGGGAGCCTCGGGCCACCA
1 GTGCGGGAGCCTCGGG-CACCA
55354025 CCTGGCCTGT
Statistics
Matches: 553, Mismatches: 54, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
84 63 0.11
85 363 0.66
86 127 0.23
ACGTcount: A:0.18, C:0.34, G:0.31, T:0.16
Consensus pattern (86 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGGCACCAT
CGGCAACCTAGGCCCTTGGTC
Found at i:55353564 original size:170 final size:171
Alignment explanation
Indices: 55353368--55354236 Score: 994
Period size: 170 Copynumber: 5.2 Consensus size: 171
55353358 CAAGGACGTA
* * * * *
55353368 CGAGAGCCTC-GGCACCATTGGCAACCTAAGACCTTGGTCGTACGGTAGCCTCGGGCACCATCGG
1 CGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
*
55353432 CAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGC
66 CAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGC
* *
55353497 GAGAGCCTCGACACCATCCGCAACCTAGGCCCTTGGTCGTG
131 GGGAGCCTCGACACCATCGGCAACCTAGGCCCTTGGTCGTG
* *
55353538 CGAGAGCCTC-GGCACCATCCGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGG
1 CGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
* * *
55353602 CAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGACACCATCGGC-ACCTTGGCACTTGGAT-GTA
66 CAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTG
*
55353665 CGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTA
130 CGGGAGCCTC-GACACCATCGGCAACCTAGGCCCTTGGTCGTG
* * * * * *
55353708 CGGGAGCCTCGGACACCATCGGC-ACCTTGGCACTTGGAT-GTACGGGAGCCTCGGACACCATCG
1 CGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCG
* * **
55353771 GCAACCTAGGCCCTTGGAT-GTGCGGAAGCCTCGGACACCATCGGCAACCTAGGAACTTGGTCGT
65 GCAACCTAGGCCCTTGG-TCGTACGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGT
* * * *
55353835 GGGGGAGTCTCGGCACCATCGGCAACCTAGGCCCCTGGTCGTG
129 GCGGGAGCCTCGACACCATCGGCAACCTAGGCCCTTGGTCGTG
* * *
55353878 CGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGATCCTCGGGCACAATCGG
1 CGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
* * * * * * *
55353943 CAACCTAGGCCCCTGGTCGTGCGAGAGCCTCGGGCACCATCGAC-ACCTAGGCCCCTGATCGTGC
66 CAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGC
**
55354007 GGGAGCCTCG-GGCCA-C--C-ACCT-GG-CC-T-GTCG-G
131 GGGAGCCTCGACACCATCGGCAACCTAGGCCCTTGGTCGTG
* * *
55354038 C--GAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCAGGAGCCTCGGGCACCATCAG
1 CGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
* * * * * * *
55354101 TAGCTTCGTG--CTTGGAT-GTACGGGAGCCTCAGACACCATCGGTAACCTAGGCCCTTGGTC-A
66 CAACCTAG-GCCCTTGG-TCGTACGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGT
** * * *
55354162 GCGGGAGCCTCGGGTACCATCGGTAACCTAGGCCCTTAGTCATG
129 GCGGGAGCCTC-GACACCATCGGCAACCTAGGCCCTTGGTCGTG
* *
55354206 CGGGAGCCTCGGGCACCATAGGCAACCTAGG
1 CGAGAGCCTCGGGCACCATCGGCAACCTAGG
55354237 ACGTTGGATG
Statistics
Matches: 598, Mismatches: 75, Indels: 52
0.82 0.10 0.07
Matches are distributed among these distances:
157 35 0.06
158 78 0.13
159 4 0.01
160 3 0.01
161 4 0.01
162 1 0.00
163 6 0.01
164 4 0.01
165 6 0.01
166 2 0.00
167 3 0.01
168 3 0.01
169 26 0.04
170 320 0.54
171 103 0.17
ACGTcount: A:0.18, C:0.34, G:0.31, T:0.17
Consensus pattern (171 bp):
CGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
CAACCTAGGCCCTTGGTCGTACGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGC
GGGAGCCTCGACACCATCGGCAACCTAGGCCCTTGGTCGTG
Found at i:55354167 original size:42 final size:43
Alignment explanation
Indices: 55354039--55354236 Score: 190
Period size: 42 Copynumber: 4.7 Consensus size: 43
55354029 GCCTGTCGGC
* * * * *
55354039 GAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCAG
1 GAGCCTCGGGCACCATCGGTAACCTAGGCCCTTAGTCATGCGG
* * * * *
55354082 GAGCCTCGGGCACCATCAGTAGCTTCGTG--CTT-G-GATGTACGG
1 GAGCCTCGGGCACCATCGGTAACCTAG-GCCCTTAGTCATG--CGG
* * *
55354124 GAGCCTCAGACACCATCGGTAACCTAGGCCCTTGGTCA-GCGG
1 GAGCCTCGGGCACCATCGGTAACCTAGGCCCTTAGTCATGCGG
*
55354166 GAGCCTCGGGTACCATCGGTAACCTAGGCCCTTAGTCATGCGG
1 GAGCCTCGGGCACCATCGGTAACCTAGGCCCTTAGTCATGCGG
* *
55354209 GAGCCTCGGGCACCATAGGCAACCTAGG
1 GAGCCTCGGGCACCATCGGTAACCTAGG
55354237 ACGTTGGATG
Statistics
Matches: 124, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 62 0.50
43 54 0.44
44 3 0.02
45 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.18
Consensus pattern (43 bp):
GAGCCTCGGGCACCATCGGTAACCTAGGCCCTTAGTCATGCGG
Found at i:55356516 original size:40 final size:41
Alignment explanation
Indices: 55356456--55356639 Score: 209
Period size: 40 Copynumber: 4.6 Consensus size: 41
55356446 TATTCGAATG
*
55356456 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAG-TGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGCTGACT
* * * *
55356496 ATATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGCTGACT
* * *
55356536 ATATCCGGGCTAAGACCCGAAGGCATCTGTGCTAGCT-ACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGCTGACT
* *
55356576 ATATCCGGGCTAAG-TCCCAAAGGCATTTATGCTAG-TGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGCTGACT
*
55356616 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
55356640 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 118 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGCTGACT
Found at i:55356589 original size:80 final size:80
Alignment explanation
Indices: 55356456--55356639 Score: 239
Period size: 80 Copynumber: 2.3 Consensus size: 80
55356446 TATTCGAATG
* * * *
55356456 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATCTATGCTAGTGACTATATCCGGACTAAG-TCCCAAAGGC
* *
55356520 ATTTGTGCAAGTTG-CT
65 ATTTATGCAAG-TGACC
* *
55356536 ATATCCGGGCTAAGACCCGAAGGCATCTGTGCTAGCT-ACTATATCCGGGCTAAGTCCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATCTATGCTAG-TGACTATATCCGGACTAAGTCCCAAAGGC
*
55356600 ATTTATGCTAGTGACC
65 ATTTATGCAAGTGACC
55356616 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
55356640 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
79 3 0.03
80 88 0.96
81 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATCTATGCTAGTGACTATATCCGGACTAAGTCCCAAAGGCA
TTTATGCAAGTGACC
Found at i:55367273 original size:27 final size:27
Alignment explanation
Indices: 55367243--55367494 Score: 299
Period size: 27 Copynumber: 9.3 Consensus size: 27
55367233 TACTGAAATG
* *
55367243 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
55367270 CCCTCGATTTGTAGAATTACTGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
55367297 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
55367324 CCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
55367351 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
55367378 CCCTCGATTTATAGAATTGCCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
55367405 CCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * * * *
55367432 TCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
55367459 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACCGTTTTA
55367486 CCCTCGATT
1 CCCTCGATT
55367495 GTGAAATTAC
Statistics
Matches: 196, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 194 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:55367339 original size:81 final size:81
Alignment explanation
Indices: 55367243--55367494 Score: 335
Period size: 81 Copynumber: 3.1 Consensus size: 81
55367233 TACTGAAATG
* * ** *
55367243 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTGTAGAATTACTGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
55367308 CAAAATTACCGTTTTA
66 CAAAATTACCGTTTTA
*
55367324 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
* * * *
55367389 TAGAATTGCCGTTTCA
66 CAAAATTACCGTTTTA
* * * * * * *
55367405 CCCTCGATTTACAGAATTATCGTTTTATCCTCAATTTACAAAATTACCATTTTACCCTC-AGTTT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGA-TTT
55367469 ACAAAATTACCGTTTTA
65 ACAAAATTACCGTTTTA
55367486 CCCTCGATT
1 CCCTCGATT
55367495 GTGAAATTAC
Statistics
Matches: 148, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 1 0.01
81 147 0.99
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
CAAAATTACCGTTTTA
Found at i:55367516 original size:27 final size:27
Alignment explanation
Indices: 55367493--55367649 Score: 156
Period size: 27 Copynumber: 5.8 Consensus size: 27
55367483 TTACCCTCGA
* *
55367493 TTGTGAAATTACTAAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCCCTAGT
** *
55367519 AGGATAGAATTACCAAAATACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTAGT
55367547 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
** * *
55367574 TTGTAAAATTACTGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * ** *
55367601 TTGTGAAAGTACTGAAATA-CCCTAAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
55367628 TTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACCAAAATACCC
55367650 TTGATTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
26 4 0.04
27 97 0.92
28 5 0.05
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:55367584 original size:54 final size:54
Alignment explanation
Indices: 55367493--55367649 Score: 174
Period size: 54 Copynumber: 2.9 Consensus size: 54
55367483 TTACCCTCGA
** *
55367493 TTGTGAAATTACTAAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACTAAAATACCCCTAGTTTG-TAAAATTACCAAAATACCCCTAGT
* * ** * *
55367547 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCACTGGT
1 TTGTGAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGT
* * *
55367601 TTGTGAAAGTACTGAAATA-CCCTAAATTTGTAAAATTACCAAAATACCC
1 TTGTGAAATTACTAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC
55367650 TTGATTTACA
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
53 4 0.05
54 77 0.92
55 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGT
Found at i:55367650 original size:27 final size:26
Alignment explanation
Indices: 55367526--55367677 Score: 144
Period size: 27 Copynumber: 5.7 Consensus size: 26
55367516 TGTAGGATAG
55367526 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
55367553 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
** * *
55367580 AATTACTGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAGTTTGTAA
* ** *
55367607 AAGTACTGAAATACCCTAAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
* **
55367634 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTAG-TTTGTAA
55367661 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
55367678 TGACTTTCTA
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.06
27 100 0.94
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:55367672 original size:54 final size:53
Alignment explanation
Indices: 55367526--55367762 Score: 158
Period size: 54 Copynumber: 4.4 Consensus size: 53
55367516 TGTAGGATAG
* **
55367526 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCA-AAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTACAAAATTA-CAGAAATA-CCCTAGTTTGTAA
** * *** * * *
55367580 AATTACTGAAATACCAC-TGGTTTGTGAAAGTACTGAAATACCCTAAATTTGTAA
1 AATTACCAAAATACC-CTTGATTTACAAAATTACAGAAATACCCT-AGTTTGTAA
* *
55367634 AATTACCAAAATACCCTTGATTTACAAAATTACAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCCTTGATTTACAAAATTACAGAAATACCC-T-AGTTTGT-AA
* * * * * *
55367690 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCA-AAATACCCTTGATTTACAAAATTACAGAAATACCC-TAGTTTGTAA
* *
55367744 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
55367763 TAGGATGAAA
Statistics
Matches: 144, Mismatches: 30, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
53 6 0.04
54 84 0.58
55 13 0.09
56 41 0.28
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
AATTACCAAAATACCCTTGATTTACAAAATTACAGAAATACCCTAGTTTGTAA
Found at i:55367730 original size:110 final size:109
Alignment explanation
Indices: 55367526--55367762 Score: 257
Period size: 110 Copynumber: 2.2 Consensus size: 109
55367516 TGTAGGATAG
* ** * *
55367526 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAA
1 AATTACCAAAATACCCTTGAGTTTACAAAATTACCAAAATACCCCTACTTTCTAAAATTACTGAA
***
55367590 ATACCACTGGTTTGTGAAAGTACTGAAATACCCTAAATTTGTAA
66 ATACCACTGGTTTACAAAAGTACTGAAATACCCTAAATTTGTAA
*
55367634 AATTACCAAAATACCCTTGA-TTTACAAAATTA-CAGAAATACCCTTGACTTTCTAAAAATTA-T
1 AATTACCAAAATACCCTTGAGTTTACAAAATTACCA-AAATACCCCT-ACTTTCT-AAAATTACT
* * *** *
55367696 AGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAG
63 -GAAATACCACTGGTTTACAAAAGTACTGAAATACCCTAAATTTGTAA
* *
55367744 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
55367763 TAGGATGAAA
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
107 2 0.02
108 36 0.34
109 7 0.07
110 62 0.58
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (109 bp):
AATTACCAAAATACCCTTGAGTTTACAAAATTACCAAAATACCCCTACTTTCTAAAATTACTGAA
ATACCACTGGTTTACAAAAGTACTGAAATACCCTAAATTTGTAA
Found at i:55367736 original size:27 final size:27
Alignment explanation
Indices: 55367534--55367740 Score: 141
Period size: 27 Copynumber: 7.6 Consensus size: 27
55367524 AGAATTACCA
* * * **
55367534 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGCAAAATTACTG
* * *
55367561 AAATACCCCTAGTTTGTAAAATTACTG
1 AAATACCCTTGGTTTGCAAAATTACTG
** *
55367588 AAATACCAC-TGGTTTGTGAAAGTACTG
1 AAATACC-CTTGGTTTGCAAAATTACTG
*** * **
55367615 AAATACCCTAAATTTGTAAAATTACCA
1 AAATACCCTTGGTTTGCAAAATTACTG
* * *
55367642 AAATACCCTTGATTTACAAAATTACAG
1 AAATACCCTTGGTTTGCAAAATTACTG
*
55367669 AAATACCCTTGACTTT-CTAAAAATTA-TAG
1 AAATACCCTTG-GTTTGC--AAAATTACT-G
* *
55367698 AAATACCATTGGTTTACAAAATTACTG
1 AAATACCCTTGGTTTGCAAAATTACTG
55367725 AAATACCCTTGGTTTG
1 AAATACCCTTGGTTTG
55367741 TAGATTTACC
Statistics
Matches: 148, Mismatches: 24, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
26 1 0.01
27 120 0.81
28 8 0.05
29 19 0.13
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGGTTTGCAAAATTACTG
Found at i:55367831 original size:27 final size:27
Alignment explanation
Indices: 55367756--55367857 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 27
55367746 TTACCAAAAC
* * * * *
55367756 ACCCTTGTAGGATGAAATGACTAAAAT
1 ACCCCTGTAGGGTAAAATGACCATAAT
* *
55367783 ACCCCTAATA-GGTAAAAAGACCATAA-
1 ACCCCT-GTAGGGTAAAATGACCATAAT
* *
55367809 AGCCCCTGTAGGGTAAAGTGACCGTAAT
1 A-CCCCTGTAGGGTAAAATGACCATAAT
* *
55367837 ACCCTTGTATGGTAAAATGAC
1 ACCCCTGTAGGGTAAAATGAC
55367858 GAATATGCCC
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
26 3 0.05
27 51 0.89
28 3 0.05
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
ACCCCTGTAGGGTAAAATGACCATAAT
Found at i:55368701 original size:25 final size:24
Alignment explanation
Indices: 55368667--55368736 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
55368657 AGGAAGTGCT
55368667 AAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
55368691 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
55368716 AGAAAGGGCTTTGCCCTAGTT
1 A-AAAGGGCTTTGCCCCAGTT
55368737 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:55368749 original size:24 final size:24
Alignment explanation
Indices: 55368666--55368749 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
55368656 GAGGAAGTGC
*
55368666 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
55368691 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
* *
55368715 CAGAAAGGGCTTTGCCCTAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
55368739 TAAAAGAGGCT
1 TAAAAG-GGCT
55368750 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:55368943 original size:42 final size:42
Alignment explanation
Indices: 55368884--55368975 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
55368874 TAGTATCCCC
55368884 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
55368926 AAATGGGCTTGCATACATCCATTGATATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
55368968 AAATGGGC
1 AAATGGGC
55368976 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:55369034 original size:31 final size:31
Alignment explanation
Indices: 55368999--55369082 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
55368989 CGTTTACAGT
55368999 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
55369030 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
55369061 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
55369083 TCAAGACTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:55374351 original size:40 final size:40
Alignment explanation
Indices: 55374297--55374414 Score: 200
Period size: 40 Copynumber: 3.0 Consensus size: 40
55374287 CGAATGTAAC
* *
55374297 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
55374337 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAGT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
55374377 AACCCGCACGGATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
55374415 TTTTTTTCCA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:55398681 original size:40 final size:40
Alignment explanation
Indices: 55398627--55398744 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
55398617 CGAATGTAAC
* *
55398627 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
55398667 AACCCGCATGAATGCCTTCGGGACTTAACCCGGTTATAGT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
55398707 AACCCGCACGGATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
55398745 TTTTTTTCCA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:55403977 original size:44 final size:45
Alignment explanation
Indices: 55403916--55404012 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
55403906 ACTGCTTAAG
* ** **
55403916 GAGATAAGATCTTCAATCTTCAGTCTGCT-TCCTTGCTACCTCAG-
1 GAGATAAGATCTACAATCGCCAACCTGCTCT-CTTGCTACCTCAGA
55403960 GAAGATAAGA-CTACAATCGCCAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGATCTACAATCGCCAACCTGCTCTCTTGCTACCTCAGA
55404005 GAGATAAG
1 GAGATAAG
55404013 GCTAATGGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
44 35 0.78
45 10 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (45 bp):
GAGATAAGATCTACAATCGCCAACCTGCTCTCTTGCTACCTCAGA
Done.