Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 87 of 190
Found at i:25560743 original size:50 final size:50
Alignment explanation
Indices: 25560686--25560806 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 50
25560676 TGAGGTTATA
* * *
25560686 AGAGGTCCCACATAAGACCATGCCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCACGTAAGACCATGCCTGGGACATGGCATGGGCACCCAGATG
* * * * *
25560736 AGAGGTCCCCCGTGAGACCATGTCTGGGACATGGGATGGGCACCCATATG
1 AGAGGTCCCACGTAAGACCATGCCTGGGACATGGCATGGGCACCCAGATG
** *
25560786 AGAACTCCCATGTAAGACCAT
1 AGAGGTCCCACGTAAGACCAT
25560807 ATTTGGGATA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.27, C:0.26, G:0.29, T:0.17
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGCCTGGGACATGGCATGGGCACCCAGATG
Found at i:25564250 original size:20 final size:20
Alignment explanation
Indices: 25564223--25564271 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
25564213 CCAATCTATG
*
25564223 TCACATATTGCATTTCCATT
1 TCACATATTACATTTCCATT
* *
25564243 TTACATATTATATTTCCATT
1 TCACATATTACATTTCCATT
25564263 TCACATATT
1 TCACATATT
25564272 TAAATTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (20 bp):
TCACATATTACATTTCCATT
Found at i:25564282 original size:20 final size:20
Alignment explanation
Indices: 25564223--25564279 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
25564213 CCAATCTATG
**
25564223 TCACATATTGCATTTCCATT
1 TCACATATTAAATTTCCATT
* *
25564243 TTACATATTATATTTCCATT
1 TCACATATTAAATTTCCATT
25564263 TCACATATTTAAATTTC
1 TCACATA-TTAAATTTC
25564280 ATTATTCATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 23 0.74
21 8 0.26
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (20 bp):
TCACATATTAAATTTCCATT
Found at i:25564619 original size:16 final size:16
Alignment explanation
Indices: 25564598--25564649 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
25564588 TCAATCTCAT
25564598 ATATATACATTATCAC
1 ATATATACATTATCAC
* *
25564614 ATATATTCAAT-TCA-
1 ATATATACATTATCAC
25564628 ATAT-TCACATTATCAC
1 ATATAT-ACATTATCAC
25564644 ATATAT
1 ATATAT
25564650 TTAAATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
13 1 0.04
14 7 0.25
15 6 0.21
16 13 0.46
17 1 0.04
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATATACATTATCAC
Found at i:25568201 original size:25 final size:25
Alignment explanation
Indices: 25568165--25568226 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
25568155 CCCACAACTT
* *
25568165 GTGAGAGTATACCAATTTACAGCTC
1 GTGAGAGCATACCAATTCACAGCTC
*
25568190 GTGAGAGCATACCGATTCACAGCTC
1 GTGAGAGCATACCAATTCACAGCTC
* *
25568215 GCGTGAGCATAC
1 GTGAGAGCATAC
25568227 ATGTACATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (25 bp):
GTGAGAGCATACCAATTCACAGCTC
Found at i:25587322 original size:45 final size:45
Alignment explanation
Indices: 25587258--25587446 Score: 213
Period size: 45 Copynumber: 4.2 Consensus size: 45
25587248 CTACTACGTG
* * * *
25587258 CACCGGGTAGCATTCATTATAAAGGTGGTTGTTGTATGCTGATTC
1 CACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTC
*
25587303 CACCGGGTATCATTGATTATAAAGGTGGTTACTGTGTGCTGATTC
1 CACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTC
* * * * *
25587348 CATCGGGTACCATTGATTATGAAGGTGGCTT-CTATGTGCTGGTTC
1 CACCGGGTATCATTGATTATAAAGGTGG-TTGCTGTGTGCTGATTC
** * *
25587393 CACCTAGTATCATTGACTATAAGGGTGG-TGCTGTGTGCTGA-TC
1 CACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTC
*
25587436 CACCGTGTATC
1 CACCGGGTATC
25587447 TGTTATTATT
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
43 12 0.10
44 9 0.07
45 98 0.81
46 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (45 bp):
CACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTC
Found at i:25589760 original size:21 final size:22
Alignment explanation
Indices: 25589734--25589784 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
25589724 TATATTTGTG
25589734 TATATATAATGTACG-AATATA
1 TATATATAATGTACGTAATATA
* **
25589755 TATATAT-GTGTGTGTAATATA
1 TATATATAATGTACGTAATATA
25589776 TATATATAA
1 TATATATAA
25589785 ATTCTTGAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (22 bp):
TATATATAATGTACGTAATATA
Found at i:25590637 original size:41 final size:41
Alignment explanation
Indices: 25590575--25590768 Score: 343
Period size: 41 Copynumber: 4.7 Consensus size: 41
25590565 TAGGCTTAGC
25590575 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
*
25590616 GCCTAGCAGGCTAAGTACCGGTGATCTGAATCAGGCTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGG-TTATAA
* *
25590658 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATTAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
25590699 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
25590740 GCCTAGCAGGCTAAGTGCCGGTGAATCTG
1 GCCTAGCAGGCTAAGTGCCGGTG-ATCTG
25590769 TTTAAATTAA
Statistics
Matches: 145, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
41 102 0.70
42 43 0.30
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
Found at i:25590714 original size:83 final size:82
Alignment explanation
Indices: 25590575--25590764 Score: 344
Period size: 83 Copynumber: 2.3 Consensus size: 82
25590565 TAGGCTTAGC
*
25590575 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCCTAGCAGGCTAAGTACCGGTGA
1 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTACCGGTGA
25590640 TCTGAATCAGGCTTATAA
66 TCTGAATCAGG-TTATAA
* *
25590658 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATTAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGA
1 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTACCGGTGA
25590723 TCTGAATCAGGTTATAA
66 TCTGAATCAGGTTATAA
25590740 GCCTAGCAGGCTAAGTGCCGGTGAA
1 GCCTAGCAGGCTAAGTGCCGGTGAA
25590765 TCTGTTTAAA
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
82 31 0.30
83 73 0.70
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (82 bp):
GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTACCGGTGA
TCTGAATCAGGTTATAA
Found at i:25591033 original size:36 final size:34
Alignment explanation
Indices: 25590939--25591052 Score: 113
Period size: 34 Copynumber: 3.3 Consensus size: 34
25590929 GTTGGATATA
* *
25590939 TATATGTATGCATTTGGCATATGTGGATT-ATAAG
1 TATATATATGCATTTGGCATATGTAG-TTGATAAG
* *
25590973 TATATATGTGCATTTGGCACATGTAGTTGATAAG
1 TATATATATGCATTTGGCATATGTAGTTGATAAG
* * * *
25591007 TATAAATATATGCTTTTGGCATATGTATTTGAAAAAT
1 TAT--ATATATGCATTTGGCATATGTAGTTG-ATAAG
25591044 TATATATAT
1 TATATATAT
25591053 AAATGCATTC
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
33 2 0.03
34 30 0.45
35 6 0.09
36 22 0.33
37 6 0.09
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (34 bp):
TATATATATGCATTTGGCATATGTAGTTGATAAG
Found at i:25596770 original size:41 final size:41
Alignment explanation
Indices: 25596707--25597031 Score: 327
Period size: 41 Copynumber: 7.9 Consensus size: 41
25596697 CTTTCGGAGT
* *
25596707 TTTAGCGGTGTTTTTGATAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* *
25596748 TTTAGCGGCGTTTTTGGGAAAGCGCCACTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* *
25596789 TTTAGCGGCGTTTTTGGGAAAGCCCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* *
25596830 TTTAGCGG-GTTTTTTTGAGAAAGCGCCGCTAATGTTCAGGGA
1 TTTAGCGGCG--TTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * * * *
25596872 TTTAGCTGCGTTTTTTATG-AGGCACCGCTAATGCTCAAGGC
1 TTTAGCGGCGTTTTTGA-GAAAGCGCCGCTAATGCTCAGGGC
* * * * ** * *
25596913 TTTAGCGGCATTTCCTAAAAAAATGCCTCGAATGCTCAGGGC
1 TTTAGCGGCGTTT-TTGAGAAAGCGCCGCTAATGCTCAGGGC
* * **
25596955 TTTAGCAGCGTTTTTGAGTAAGCGCCGCTAATGCTCTA--TT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC-AGGGC
*
25596995 TTTAGCGGCGTTTTCT-AAAAAGCGCCGCTAATGCTCA
1 TTTAGCGGCGTTTT-TGAGAAAGCGCCGCTAATGCTCA
25597032 AGGATTTAAA
Statistics
Matches: 232, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
39 1 0.00
40 32 0.14
41 134 0.58
42 64 0.28
43 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:25596886 original size:83 final size:82
Alignment explanation
Indices: 25596707--25597039 Score: 307
Period size: 83 Copynumber: 4.0 Consensus size: 82
25596697 CTTTCGGAGT
* * * *
25596707 TTTAGCGGTGTTTTTGATAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCG
1 TTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCG
*
25596772 CCACTAATGCTCAGGGC
66 CCACTAATGCTCAGGGA
* *
25596789 TTTAGCGGCGTTTTTGGGAAAGCCCCGCTAATGCTCAGGGCTTTAGCGG-GTTTTTTTGAGAAAG
1 TTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCG--TTTTTGAGAAAG
* *
25596853 CGCCGCTAATGTTCAGGGA
64 CGCCACTAATGCTCAGGGA
* * * * * * * * *
25596872 TTTAGCTGCGTTTTTTATG-AGGCACCGCTAATGCTCAAGGCTTTAGCGGCATTTCCTAAAAAAA
1 TTTAGCGGCGTTTTTGA-GAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTT-TTGAGAAAG
* * * *
25596936 TGCCTCGAATGCTCAGGGC
64 CGCCACTAATGCTCAGGGA
* * * ** *
25596955 TTTAGCAGCGTTTTTGAGTAAGCGCCGCTAATGCTCTA--TTTTTAGCGGCGTTTTCT-AAAAAG
1 TTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTC-AGGGCTTTAGCGGCGTTTT-TGAGAAAG
* *
25597017 CGCCGCTAATGCTCAAGGA
64 CGCCACTAATGCTCAGGGA
25597036 TTTA
1 TTTA
25597040 AAATAATCTA
Statistics
Matches: 205, Mismatches: 38, Indels: 17
0.79 0.15 0.07
Matches are distributed among these distances:
81 24 0.12
82 62 0.30
83 117 0.57
84 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (82 bp):
TTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCG
CCACTAATGCTCAGGGA
Found at i:25596969 original size:124 final size:121
Alignment explanation
Indices: 25596707--25597039 Score: 307
Period size: 124 Copynumber: 2.7 Consensus size: 121
25596697 CTTTCGGAGT
* * * * *
25596707 TTTAGCGGTGTTTTTGATAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCG
1 TTTAGC-GCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTAGGAAAGCA
* * ****
25596772 CCACTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCCCCGCTAATGCTCAGGGC
65 CCACTAATGCTCAAGGCTTTAGCGGCATTTTAAAAAAAGCCCCGC-AATGCTCAGGGC
* * * * *
25596830 TTTAGCGGGTTTTTTTGAGAAAGCGCCGCTAATGTTCAGGGATTTAGCTGCGTTTTTTATG-AGG
1 TTTAGCGCG--TTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCG-TTTTTAGGAAAG
* *
25596894 CACCGCTAATGCTCAAGGCTTTAGCGGCATTTCCTAAAAAAATGCCTCG-AATGCTCAGGGC
63 CACCACTAATGCTCAAGGCTTTAGCGGCATTT--TAAAAAAA-GCCCCGCAATGCTCAGGGC
* ** *
25596955 TTTAGCAGCGTTTTTGAGTAAGCGCCGCTAATGCTCTA--TTTTTAGCGGCGTTTTCTA-AAAAG
1 TTTAGC-GCGTTTTTGAGAAAGCGCCGCTAATGCTC-AGGGATTTAGCGGCGTTTT-TAGGAAAG
* * *
25597017 CGCCGCTAATGCTCAAGGATTTA
63 CACCACTAATGCTCAAGGCTTTA
25597040 AAATAATCTA
Statistics
Matches: 173, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
122 6 0.03
123 40 0.23
124 91 0.53
125 25 0.14
126 6 0.03
127 5 0.03
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (121 bp):
TTTAGCGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTAGGAAAGCAC
CACTAATGCTCAAGGCTTTAGCGGCATTTTAAAAAAAGCCCCGCAATGCTCAGGGC
Found at i:25597006 original size:40 final size:40
Alignment explanation
Indices: 25596955--25597030 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
25596945 TGCTCAGGGC
**
25596955 TTTAGCAGCGTTTT-TGAGTAAGCGCCGCTAATGCTCTATT
1 TTTAGCAGCGTTTTCT-AAAAAGCGCCGCTAATGCTCTATT
*
25596995 TTTAGCGGCGTTTTCTAAAAAGCGCCGCTAATGCTC
1 TTTAGCAGCGTTTTCTAAAAAGCGCCGCTAATGCTC
25597031 AAGGATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (40 bp):
TTTAGCAGCGTTTTCTAAAAAGCGCCGCTAATGCTCTATT
Found at i:25601276 original size:2 final size:2
Alignment explanation
Indices: 25601269--25601296 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25601259 TGATTGTTTC
25601269 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25601297 TTTCACCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25602815 original size:43 final size:43
Alignment explanation
Indices: 25602693--25603025 Score: 388
Period size: 43 Copynumber: 7.8 Consensus size: 43
25602683 CGTTTTTCCA
* ** *
25602693 TAAA-CGCCGCTAAAGAACATACT-TTTAGCGGCGTTTGT-GA
1 TAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGG
* * *
25602733 TAAAAGCGCCGATAAAAATCATG-TCTTTAGTGGCGTTTGTGGG
1 T-AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGG
* *
25602776 TAAAGCACCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGGG
1 TAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGG
* ** * * ** *
25602819 CAAAATGCCTCTAAATATCATGTTCTTTAATGGCGTTTATGGG
1 TAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGG
* * * *
25602862 TAAAGCGCCACTAAAGATCATGTTTTTTAGCGGCGTTT-TTGA
1 TAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGG
*
25602904 TAAAAGCGCCGCTAAAGCTCATGTTCTTTAGCGGCGTTTGTGGG
1 T-AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGG
* * *
25602948 TAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCATTTGTGGG
1 TAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGG
25602991 TAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 TAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCG
25603026 GTTTTTCACA
Statistics
Matches: 244, Mismatches: 42, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
40 1 0.00
41 4 0.02
42 48 0.20
43 188 0.77
44 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGG
Found at i:25606354 original size:25 final size:25
Alignment explanation
Indices: 25606276--25606354 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
25606266 GACACACCAC
25606276 AGCTCGTATGAGCTTACCGATTTCT
1 AGCTCGTATGAGCTTACCGATTTCT
* * *
25606301 AACTTGTGA-GAGCTTATCGA-TTCT
1 AGCTCGT-ATGAGCTTACCGATTTCT
25606325 CAGCTCGTATGAGCTTACCGATTTCT
1 -AGCTCGTATGAGCTTACCGATTTCT
25606351 AGCT
1 AGCT
25606355 TAACAGAGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
24 5 0.11
25 34 0.77
26 5 0.11
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATTTCT
Found at i:25606380 original size:50 final size:50
Alignment explanation
Indices: 25606275--25606373 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
25606265 AGACACACCA
*** * * *
25606275 CAGCTCGTATGAGCTTACCGATTTCTAACTTGTGAGAGCTTATCGATTCT
1 CAGCTCGTATGAGCTTACCGATTTCTAACTTAACAGAGCATACCAATTCT
*
25606325 CAGCTCGTATGAGCTTACCGATTTCTAGCTTAACAGAGCATACCAATTC
1 CAGCTCGTATGAGCTTACCGATTTCTAACTTAACAGAGCATACCAATTC
25606374 ATAGCTCTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGATTTCTAACTTAACAGAGCATACCAATTCT
Found at i:25607764 original size:22 final size:23
Alignment explanation
Indices: 25607736--25607779 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
25607726 AAGGACAATA
*
25607736 TATATG-ATTTTGATAGGTTTTT
1 TATATGAATATTGATAGGTTTTT
*
25607758 TATATGAATATTGATATGTTTT
1 TATATGAATATTGATAGGTTTT
25607780 GAAATGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (23 bp):
TATATGAATATTGATAGGTTTTT
Found at i:25610409 original size:25 final size:25
Alignment explanation
Indices: 25610362--25610421 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
25610352 CGTTCTGACC
*
25610362 CACAGCTCGTGAGAGCATACCGATT
1 CACAGCTCGTGAGAGCAGACCGATT
* * *
25610387 TACAGCTCGTGAGGGCAGGCCGATT
1 CACAGCTCGTGAGAGCAGACCGATT
*
25610412 CACAACTCGT
1 CACAGCTCGT
25610422 ATGAGCGTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.20
Consensus pattern (25 bp):
CACAGCTCGTGAGAGCAGACCGATT
Found at i:25613483 original size:26 final size:26
Alignment explanation
Indices: 25613454--25613547 Score: 179
Period size: 26 Copynumber: 3.6 Consensus size: 26
25613444 CATTCTGACC
*
25613454 CACAGCTCATGTGAGCAAGCCCATTT
1 CACAGCTCGTGTGAGCAAGCCCATTT
25613480 CACAGCTCGTGTGAGCAAGCCCATTT
1 CACAGCTCGTGTGAGCAAGCCCATTT
25613506 CACAGCTCGTGTGAGCAAGCCCATTT
1 CACAGCTCGTGTGAGCAAGCCCATTT
25613532 CACAGCTCGTGTGAGC
1 CACAGCTCGTGTGAGC
25613548 CATGCTGTAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.22
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAAGCCCATTT
Found at i:25621597 original size:17 final size:18
Alignment explanation
Indices: 25621575--25621613 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
25621565 TCGGTAACCA
25621575 TTTCTATC-ATCTATCTT
1 TTTCTATCTATCTATCTT
25621592 TTTCTATCTTATCTATCTT
1 TTTCTATC-TATCTATCTT
25621611 TTT
1 TTT
25621614 TTATTTGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
19 12 0.60
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTCTATCTATCTATCTT
Found at i:25622078 original size:25 final size:25
Alignment explanation
Indices: 25622044--25622094 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25622034 TTGTTTATTC
25622044 ATCCCTTTGTAATCCCGATCAAGTG
1 ATCCCTTTGTAATCCCGATCAAGTG
25622069 ATCCCTTTGTAATCCCGATCAAGTG
1 ATCCCTTTGTAATCCCGATCAAGTG
25622094 A
1 A
25622095 GTTCCATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (25 bp):
ATCCCTTTGTAATCCCGATCAAGTG
Found at i:25631205 original size:24 final size:24
Alignment explanation
Indices: 25631155--25631205 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
25631145 AGTTTTGCCC
* *
25631155 TTTGACTATTGGATAAATTTTAAA
1 TTTGAATATTGGATAAATTATAAA
*
25631179 TTTGAATATTGG-TATAATTATATA
1 TTTGAATATTGGATA-AATTATAAA
25631203 TTT
1 TTT
25631206 TAAAATAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (24 bp):
TTTGAATATTGGATAAATTATAAA
Found at i:25637631 original size:17 final size:17
Alignment explanation
Indices: 25637609--25637656 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
25637599 AACTATTACC
25637609 TAATATTATAATAT-AAA
1 TAATA-TATAATATCAAA
*
25637626 TAATATATAATTTCAAA
1 TAATATATAATATCAAA
*
25637643 TAATTACATAATAT
1 TAA-TATATAATAT
25637657 GTTATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 7 0.27
17 11 0.42
18 8 0.31
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATATATAATATCAAA
Found at i:25638091 original size:9 final size:9
Alignment explanation
Indices: 25638077--25638107 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
25638067 GTTAAACGAA
25638077 TCGAGTTAT
1 TCGAGTTAT
*
25638086 TCGAGTTAA
1 TCGAGTTAT
25638095 TCGAGTTAT
1 TCGAGTTAT
25638104 TCGA
1 TCGA
25638108 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:25638178 original size:9 final size:9
Alignment explanation
Indices: 25638161--25638197 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25638151 TGAGTTTTCG
25638161 AATTCGAAT
1 AATTCGAAT
*
25638170 AACTCGAAT
1 AATTCGAAT
25638179 AATTCGAAT
1 AATTCGAAT
25638188 AATTCGAAT
1 AATTCGAAT
25638197 A
1 A
25638198 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25639320 original size:3 final size:3
Alignment explanation
Indices: 25639312--25639353 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
25639302 GCGCTTTTGT
25639312 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25639354 AATTGGTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25651130 original size:23 final size:23
Alignment explanation
Indices: 25651104--25651202 Score: 146
Period size: 23 Copynumber: 4.3 Consensus size: 23
25651094 ATAAGTGCCA
*
25651104 CACTGATATGTAGCCGGAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
25651127 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
25651150 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
25651173 CACTGA-ATTGTAGTCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
25651196 CACTGAT
1 CACTGAT
25651203 CAATAACATT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
22 1 0.01
23 67 0.99
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:25651171 original size:46 final size:46
Alignment explanation
Indices: 25651104--25651202 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
25651094 ATAAGTGCCA
25651104 CACTGATATGTAGCCGGAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGGAGCTACCACTGAAATGTAGCCGAAGCTAC
* * *
25651150 CACTGATATGTAGCCGTAGCTACCACTGAATTGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGGAGCTACCACTGAAATGTAGCCGAAGCTAC
25651196 CACTGAT
1 CACTGAT
25651203 CAATAACATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.23
Consensus pattern (46 bp):
CACTGATATGTAGCCGGAGCTACCACTGAAATGTAGCCGAAGCTAC
Found at i:25651454 original size:18 final size:17
Alignment explanation
Indices: 25651428--25651466 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
25651418 ATCTTCCTTC
25651428 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
25651445 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
25651463 CACA
1 CACA
25651467 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:25656605 original size:51 final size:50
Alignment explanation
Indices: 25656550--25656988 Score: 429
Period size: 51 Copynumber: 8.7 Consensus size: 50
25656540 GTGAAAGTGT
* *
25656550 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAT-A
* * * ** * * * *
25656601 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATA
* *
25656652 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAT-A
* * * ** * * * *
25656703 TGGTCACAT-TGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATA
* **
25656753 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAT-A
* * * * *
25656804 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTG
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA--TA
* * *
25656855 TAGTCACGTATGTAGTACTATGTGAAGGCTACTACATGAACCG-TAAA-A
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA
* *
25656903 CTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAAA
1 --TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA
*
25656954 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTA
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTA
25656989 AGTGTATCGA
Statistics
Matches: 312, Mismatches: 65, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
50 120 0.38
51 190 0.61
52 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (50 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA
Found at i:25656771 original size:101 final size:102
Alignment explanation
Indices: 25656549--25656998 Score: 620
Period size: 101 Copynumber: 4.4 Consensus size: 102
25656539 AGTGAAAGTG
*
25656549 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGT
25656614 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
25656651 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACAT-TGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGT
25656715 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
*
25656752 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGT
* * *
25656817 AGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
* * * * * * *** * *
25656854 GTAGTCACGTATGTAGTACTATGTGAAGGCTACTACATGAACCG-TAAAACTTGATCACGTGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGT
* * ** * **
25656918 AGTACTATGTGAAGGCTACTACGTGAACCGTA-AA-AA
66 AGTACTAAGTGAAGGCTACAATATGTACCG-AGAAGCT
* * * *
25656954 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTAAGTGTATCGA
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
25656999 ATGATAATAG
Statistics
Matches: 315, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
100 36 0.11
101 144 0.46
102 135 0.43
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
Found at i:25656921 original size:203 final size:202
Alignment explanation
Indices: 25656549--25656998 Score: 616
Period size: 203 Copynumber: 2.2 Consensus size: 202
25656539 AGTGAAAGTG
25656549 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
* * * * *
25656614 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCTTTGGTCACGTGTGTAGTACTGTGTGAAG
66 AGTACTAAGTGAAGGCTACAATATGTACCGAAAAGCTGTAGTCACGTATGTAGTACTATGTGAAG
* * ** * * *
25656679 GCTACTACGTGAATCGATAAATGATGGTCACATTGTAGTACTAAGTGAAGGCTACAATATGTACC
131 GCTACTACATGAACCGATAAAACATGATCACATTGTAGTACTAAGTGAAGGCTACAACATGAACC
**
25656744 G-AGAAGCT
196 GTA-AA-AA
* *
25656752 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
* *
25656817 AGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTGTAGTCACGTATGTAGTACTATGTGAAG
66 AGTACTAAGTGAAGGCTACAATATGTACCGAAAAGCTGTAGTCACGTATGTAGTACTATGTGAAG
* * * * *
25656882 GCTACTACATGAACCG-TAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAAC
131 GCTACTACATGAACCGATAAAACATGATCACAT-TGTAGTACTAAGTGAAGGCTACAACATGAAC
25656946 CGTAAAAA
195 CGTAAAAA
* * * *
25656954 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTAAGTGTATCGA
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
25656999 ATGATAATAG
Statistics
Matches: 217, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
202 51 0.24
203 165 0.76
204 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (202 bp):
TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATATGTACCGAAAAGCTGTAGTCACGTATGTAGTACTATGTGAAG
GCTACTACATGAACCGATAAAACATGATCACATTGTAGTACTAAGTGAAGGCTACAACATGAACC
GTAAAAA
Found at i:25657907 original size:5 final size:5
Alignment explanation
Indices: 25657897--25657954 Score: 71
Period size: 5 Copynumber: 11.6 Consensus size: 5
25657887 TGCTTGATGA
* * * * *
25657897 AATGG AATGG AATGG AATGA AATGG TATGA AATGG AATAG TATGG AATGG
1 AATGG AATGG AATGG AATGG AATGG AATGG AATGG AATGG AATGG AATGG
25657947 AATGG AAT
1 AATGG AAT
25657955 ATATATATGA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (5 bp):
AATGG
Found at i:25657955 original size:20 final size:21
Alignment explanation
Indices: 25657895--25657955 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 21
25657885 AATGCTTGAT
25657895 GAAATGGAATGGAATGGAAT-
1 GAAATGGAATGGAATGGAATA
* *
25657915 GAAATGGTATGAAATGGAATA
1 GAAATGGAATGGAATGGAATA
*
25657936 G-TATGGAATGGAATGGAATA
1 GAAATGGAATGGAATGGAATA
25657956 TATATATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (21 bp):
GAAATGGAATGGAATGGAATA
Found at i:25659563 original size:18 final size:19
Alignment explanation
Indices: 25659542--25659577 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25659532 GTATACAGAG
*
25659542 GTAATAATAG-TTTGGAAA
1 GTAAAAATAGTTTTGGAAA
25659560 GTAAAAATAGTTTTGGAA
1 GTAAAAATAGTTTTGGAA
25659578 GAAATATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (19 bp):
GTAAAAATAGTTTTGGAAA
Found at i:25659897 original size:13 final size:13
Alignment explanation
Indices: 25659879--25659905 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25659869 TATCGTTCTT
25659879 TTCTGAGTATCAC
1 TTCTGAGTATCAC
25659892 TTCTGAGTATCAC
1 TTCTGAGTATCAC
25659905 T
1 T
25659906 GAGAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (13 bp):
TTCTGAGTATCAC
Found at i:25661914 original size:51 final size:51
Alignment explanation
Indices: 25661859--25662200 Score: 347
Period size: 51 Copynumber: 6.7 Consensus size: 51
25661849 GTGAAAGTGT
* *
25661859 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
* * * ** * * * *
25661910 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATAA
* ** *
25661961 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
* * * * * *
25662012 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGAGTACCGA-AAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA--TAA
* * * *
25662063 TAGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAA-ACT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA-A
*
25662113 TGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
*
25662162 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
25662201 TATCGAATGA
Statistics
Matches: 238, Mismatches: 45, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
50 87 0.37
51 149 0.63
52 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
Found at i:25662017 original size:102 final size:101
Alignment explanation
Indices: 25661858--25662200 Score: 451
Period size: 102 Copynumber: 3.4 Consensus size: 101
25661848 AGTGAAAGTG
* *
25661858 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACATGTGT
*
25661923 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACTATATGTACCGA-AAGCT
* *
25661960 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACATGTGT
25662025 AGTACTAAGTGAAGGCTACTATGA-GTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACTAT-ATGTACCG-AAAGCT
* * * * * *
25662062 TTAGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAA-ACTTGATCACGTGTG
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGATAAATA-ATGGTCACATGTG
* ** * **
25662125 TAGTACTATGTGAAGGCTACTACGTGAACCGTAAA-AA
65 TAGTACTAAGTGAAGGCTACTATATGTACCG-AAAGCT
*
25662162 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
25662201 TATCGAATGA
Statistics
Matches: 216, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
100 36 0.17
101 43 0.20
102 135 0.62
103 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (101 bp):
TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACTATATGTACCGAAAGCT
Found at i:25663115 original size:5 final size:5
Alignment explanation
Indices: 25663105--25663163 Score: 73
Period size: 5 Copynumber: 11.8 Consensus size: 5
25663095 TGCTTGATGA
* * * *
25663105 AATGG AATGG AATGG AATGG TATGA AATGG AATAG TATGG AATGG AATGG
1 AATGG AATGG AATGG AATGG AATGG AATGG AATGG AATGG AATGG AATGG
*
25663155 TATGG AATG
1 AATGG AATG
25663164 AAATATATAT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.39, C:0.00, G:0.36, T:0.25
Consensus pattern (5 bp):
AATGG
Found at i:25663133 original size:15 final size:15
Alignment explanation
Indices: 25663105--25663163 Score: 91
Period size: 15 Copynumber: 3.9 Consensus size: 15
25663095 TGCTTGATGA
*
25663105 AATGGAATGGAATGG
1 AATGGTATGGAATGG
*
25663120 AATGGTATGAAATGG
1 AATGGTATGGAATGG
*
25663135 AATAGTATGGAATGG
1 AATGGTATGGAATGG
25663150 AATGGTATGGAATG
1 AATGGTATGGAATG
25663164 AAATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.36, T:0.25
Consensus pattern (15 bp):
AATGGTATGGAATGG
Found at i:25666722 original size:25 final size:25
Alignment explanation
Indices: 25666681--25666752 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
25666671 CCCTATACAT
** * *
25666681 GTATGCTCACATGAGCTGTGAATTG
1 GTATGCTCACACAAGCTATGAATCG
* *
25666706 GTATGCTCGCGCAAGCTATGAATCG
1 GTATGCTCACACAAGCTATGAATCG
25666731 GTATGCTCACACAAGCTATGAA
1 GTATGCTCACACAAGCTATGAA
25666753 AATGGGCTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (25 bp):
GTATGCTCACACAAGCTATGAATCG
Found at i:25672533 original size:34 final size:34
Alignment explanation
Indices: 25672490--25672557 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
25672480 ACATTTTTGA
* *
25672490 CACTGTACTGAGATGGG-TTGAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTT-AGGCCCAAGACTGT
25672523 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTTAGGCCCAAGACTGT
25672558 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 5 0.17
34 18 0.60
35 7 0.23
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTTAGGCCCAAGACTGT
Found at i:25681369 original size:15 final size:15
Alignment explanation
Indices: 25681351--25681403 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
25681341 AATAATTTAA
25681351 ATATTAATATTAATT
1 ATATTAATATTAATT
25681366 ATATTAAT-TTAACTT
1 ATATTAATATTAA-TT
* *
25681381 ATA-AAATCTT-ATT
1 ATATTAATATTAATT
25681394 ATATTAATAT
1 ATATTAATAT
25681404 GAAATCGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.16
14 12 0.38
15 15 0.47
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATTAATATTAATT
Found at i:25681463 original size:11 final size:11
Alignment explanation
Indices: 25681447--25681471 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25681437 ATAATTGAGA
25681447 AATTAAATTAT
1 AATTAAATTAT
25681458 AATTAAATTAT
1 AATTAAATTAT
25681469 AAT
1 AAT
25681472 ATATTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTAAATTAT
Found at i:25685304 original size:20 final size:20
Alignment explanation
Indices: 25685276--25685337 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
25685266 ATTTAAAAGA
* *
25685276 TATAAAAAATGTATGTATAT
1 TATAGAAAATGTATATATAT
*
25685296 TATAGAAAATGTATAAATAT
1 TATAGAAAATGTATATATAT
*
25685316 TAT-G-AAATGTATATATAC
1 TATAGAAAATGTATATATAT
25685334 TATA
1 TATA
25685338 AAATACATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.42
19 1 0.03
20 20 0.56
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
TATAGAAAATGTATATATAT
Found at i:25685341 original size:18 final size:18
Alignment explanation
Indices: 25685281--25685341 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
25685271 AAAGATATAA
*
25685281 AAAATGTATGTATATTAT
1 AAAATGTATATATATTAT
*
25685299 AGAAAATGTATAAATATTAT
1 --AAAATGTATATATATTAT
* *
25685319 GAAATGTATATATACTAT
1 AAAATGTATATATATTAT
25685337 AAAAT
1 AAAAT
25685342 ACATATGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 19 0.54
20 16 0.46
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.38
Consensus pattern (18 bp):
AAAATGTATATATATTAT
Found at i:25686148 original size:18 final size:18
Alignment explanation
Indices: 25686125--25686159 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
25686115 ATTTTAACCG
25686125 AAAAGAAATAAA-AAAATA
1 AAAAGAAA-AAAGAAAATA
25686143 AAAAGAAAAAAGAAAAT
1 AAAAGAAAAAAGAAAAT
25686160 CCTTCCTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAATA
Found at i:25687065 original size:132 final size:130
Alignment explanation
Indices: 25686916--25687275 Score: 456
Period size: 133 Copynumber: 2.7 Consensus size: 130
25686906 TAGGATTGGT
* * ** * * *
25686916 TTCAATGTACTCTACTGTAACCACATGGAGGTAAAATCCACTATCTTTAATTTGCTCCACTATTG
1 TTCAATGTACTCCACTGTAACCTCATGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTA-TG
*
25686981 CTTAGAGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA-AGTAGAATTACT
65 CTTAG-GAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGAGAGA-TAGAATTACT
25687045 GGC
128 GGC
*
25687048 TTCAATGTACTCCACTGTAACCTCATGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGTCT
1 TTCAATGTACTCCACTGTAACCTCATGGAGGTAAAATCTGCCATCTTTGATCTGC-TC-C--ACT
* ** *
25687113 ATGC--AGGAAGGCAAGATCTGAAATCTTTGATCTATTCCACTGCTGCCCAGAGAGATAGAGTTA
62 ATGCTTAGG-AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGAGAGATAGAATTA
25687176 CTGGC
126 CTGGC
* * *
25687181 TTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTG
1 TTCAATGTACTCCACTGTAACCTCATGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTA-TG
*
25687246 CTTAGGGAGATAAGATCTGAAATCTTCAAT
65 CTTA-GGAGACAAGATCTGAAATCTTCAAT
25687276 TTGTTCAACT
Statistics
Matches: 197, Mismatches: 21, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
129 3 0.02
130 3 0.02
131 1 0.01
132 71 0.36
133 111 0.56
134 2 0.01
135 3 0.02
136 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (130 bp):
TTCAATGTACTCCACTGTAACCTCATGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTATGC
TTAGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGAGAGATAGAATTACTGGC
Found at i:25687331 original size:50 final size:50
Alignment explanation
Indices: 25687269--25687438 Score: 187
Period size: 50 Copynumber: 3.4 Consensus size: 50
25687259 GATCTGAAAT
* *
25687269 CTTCAATTTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* * ** *** * *
25687319 CTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* * * *
25687369 CTTCAATCTTTTAAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* *
25687419 CTTCAATCCGTTCCACTGCA
1 CTTCAATCTGTTCAACTGCA
25687439 CTGCTAAGGT
Statistics
Matches: 91, Mismatches: 29, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 91 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
Found at i:25688770 original size:45 final size:45
Alignment explanation
Indices: 25688681--25688770 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
25688671 CTTAGCCTCT
* * * *
25688681 TTTTTTTTTTACTCAAGCCTCCCTTTGTAGGGTTTCACCCTGGTC
1 TTTTTTTTTGACTCAAGCCGCCCTTTGTAGGCTTTCACACTGGTC
*
25688726 TTTTTTTTTGACTCAAAG-CGCCCTTTGTAGGCTTTCACATTGGTC
1 TTTTTTTTTGACTC-AAGCCGCCCTTTGTAGGCTTTCACACTGGTC
25688771 CCACCTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 36 0.92
46 3 0.08
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (45 bp):
TTTTTTTTTGACTCAAGCCGCCCTTTGTAGGCTTTCACACTGGTC
Found at i:25694285 original size:18 final size:18
Alignment explanation
Indices: 25694262--25694296 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
25694252 ATTTTAACCG
25694262 AAAAGAAATAAA-AAAATA
1 AAAAGAAA-AAAGAAAATA
25694280 AAAAGAAAAAAGAAAAT
1 AAAAGAAAAAAGAAAAT
25694297 CCTTCCTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAATA
Found at i:25710802 original size:21 final size:21
Alignment explanation
Indices: 25710776--25710817 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25710766 GCAATTTTGT
25710776 AATTAAA-TGGAAATTAAAACA
1 AATTAAAGT-GAAATTAAAACA
*
25710797 AATTAAAGTGCAATTAAAACA
1 AATTAAAGTGAAATTAAAACA
25710818 TTTTAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.24
Consensus pattern (21 bp):
AATTAAAGTGAAATTAAAACA
Found at i:25711779 original size:33 final size:33
Alignment explanation
Indices: 25711742--25711814 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
25711732 ACTCTATTTG
25711742 GTGTGTTGGTTGGATTAGCTCTTAAGAGCATTA
1 GTGTGTTGGTTGGATTAGCTCTTAAGAGCATTA
*
25711775 GTGTGTTGGTTGGATTAGCTCTTATGAGCATTA
1 GTGTGTTGGTTGGATTAGCTCTTAAGAGCATTA
25711808 GTGTGTT
1 GTGTGTT
25711815 TGAGGGATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.18, C:0.08, G:0.32, T:0.42
Consensus pattern (33 bp):
GTGTGTTGGTTGGATTAGCTCTTAAGAGCATTA
Found at i:25711823 original size:33 final size:33
Alignment explanation
Indices: 25711742--25711847 Score: 113
Period size: 33 Copynumber: 3.2 Consensus size: 33
25711732 ACTCTATTTG
** *
25711742 GTGTGTTGGTTGGATTAGCTCTTAAGAGCATTA
1 GTGTGTTGGAGGGATTAGCTCTTATGAGCATTA
**
25711775 GTGTGTTGGTTGGATTAGCTCTTATGAGCATTA
1 GTGTGTTGGAGGGATTAGCTCTTATGAGCATTA
* * * * *
25711808 GTGTGTTTGAGGGATTGGCTCATGTGAGCATCTG
1 GTGTGTTGGAGGGATTAGCTCTTATGAGCAT-TA
25711842 GTGTGT
1 GTGTGT
25711848 AAGATTCAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 57 0.89
34 7 0.11
ACGTcount: A:0.17, C:0.09, G:0.34, T:0.40
Consensus pattern (33 bp):
GTGTGTTGGAGGGATTAGCTCTTATGAGCATTA
Found at i:25714558 original size:230 final size:230
Alignment explanation
Indices: 25714148--25714606 Score: 747
Period size: 230 Copynumber: 2.0 Consensus size: 230
25714138 ACTAAACCGA
* * *
25714148 CCCACTATTTAGAGCATTCGAAACATCACTGGTTTCAATTCAAAATGAGGTGCCTTAATATTCGG
1 CCCACTATTTAGAGCATTCAAAACATCACTGGTTTCAATTCAAAATGAGGTGCCTCAATATTCAG
* * * *
25714213 CCTCTTGACTCCCAAATTTAATTCATTGAAGAGTAGCAAAGCGTATTCTCTTATGGCATGATCCC
66 CCTCCTGACTCCCAAATTTAATTCATTGAAGAGTAGCAAAACGTATTCTCTTATGGCAGGAACCC
25714278 TATCATCAACAATAAGGATTACGTTGTACATATGATTAACTCCATTACCTTGTCCACCATTTTGA
131 TATCATCAACAATAAGGATTACGTTGTACATATGATTAACTCCATTACCTTGTCCACCATTTTGA
25714343 TTTCCAAGGTCCATCTCAACTTGTCTTCAAGCAAG
196 TTTCCAAGGTCCATCTCAACTTGTCTTCAAGCAAG
* * *
25714378 CCCACTGTTTAGAGCATTTAAAACATCACTGGTTTCAATTCAAAATGAGGTGCCTCGATATTCAG
1 CCCACTATTTAGAGCATTCAAAACATCACTGGTTTCAATTCAAAATGAGGTGCCTCAATATTCAG
** *
25714443 CCTCCTGACTCCTGAATTTAATTCATTGAAGAGTAGCAAAACGTATTGTCTTATGGCAGGAACCC
66 CCTCCTGACTCCCAAATTTAATTCATTGAAGAGTAGCAAAACGTATTCTCTTATGGCAGGAACCC
* * *
25714508 TATCATCAACAATAAGGATTAGGTTGTACATATGATTGACTCCATTACCTTGTCCATCATTTTGA
131 TATCATCAACAATAAGGATTACGTTGTACATATGATTAACTCCATTACCTTGTCCACCATTTTGA
* **
25714573 TTTCTAAGGTCCATCTTGACTTGTCTTCAAGCAA
196 TTTCCAAGGTCCATCTCAACTTGTCTTCAAGCAA
25714607 ATCTCTCGTG
Statistics
Matches: 210, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
230 210 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (230 bp):
CCCACTATTTAGAGCATTCAAAACATCACTGGTTTCAATTCAAAATGAGGTGCCTCAATATTCAG
CCTCCTGACTCCCAAATTTAATTCATTGAAGAGTAGCAAAACGTATTCTCTTATGGCAGGAACCC
TATCATCAACAATAAGGATTACGTTGTACATATGATTAACTCCATTACCTTGTCCACCATTTTGA
TTTCCAAGGTCCATCTCAACTTGTCTTCAAGCAAG
Found at i:25720332 original size:20 final size:21
Alignment explanation
Indices: 25720279--25720318 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25720269 AAATAATGAC
25720279 AAAAGTATCGATACCTTTTCA
1 AAAAGTATCGATACCTTTTCA
*
25720300 AAAAGTATTGATACCTTTT
1 AAAAGTATCGATACCTTTT
25720319 ACCAGGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAAGTATCGATACCTTTTCA
Found at i:25720797 original size:250 final size:250
Alignment explanation
Indices: 25720356--25720857 Score: 914
Period size: 250 Copynumber: 2.0 Consensus size: 250
25720346 GGTCACTGAA
*
25720356 ATATGCATTAATTACAAAAAATATCGAGACTCAATGTTGTAGGTGTATTTAATGAACTGGTATTT
1 ATATGCATTAATTACAAAAAATATCGAGACTCAATGTTGTAGGTGAATTTAATGAACTGGTATTT
* *
25720421 CCATCCCAACAGCTATATCCAATTCGTTAACAACCAGAACGATTGAAAATCAATTAGAGAGTGTA
66 CCATCCCAACAGCTATATCCAATTCGTAAACAACCAGAACGATTGAAAATCAATTAGAGAGTATA
25720486 AATATCATATTCCAAAAGTCCCACAACAACAAGAGATATGTGTAAAGCTTAAAGATCAATAAAAA
131 AATATCATATTCCAAAAGTCCCACAACAACAAGAGATATGTGTAAAGCTTAAAGATCAATAAAAA
*
25720551 CAACCTAAGAGCTTAATTCTTTCATACCTTTTCTTGTAAACACTTATGAGCTTTC
196 CAACCTAAGAGCTTAATTCTTTCATACCTGTTCTTGTAAACACTTATGAGCTTTC
* *
25720606 ATATGCATTAATTACAAAAAATATCGATACTCAATGTTGTAGGTGAATTTAATGAACTGTTATTT
1 ATATGCATTAATTACAAAAAATATCGAGACTCAATGTTGTAGGTGAATTTAATGAACTGGTATTT
** *
25720671 CCATCCCAATGGCTATATCCAATTCGTAAACAACCAGAACGATTGGAAATCAATTAGAGAGTATA
66 CCATCCCAACAGCTATATCCAATTCGTAAACAACCAGAACGATTGAAAATCAATTAGAGAGTATA
*
25720736 AATATCATATTCCAAAAGTCCCACAACAATAAGAGATATGTGTAAAGCTTAAAGATCAATAAAAA
131 AATATCATATTCCAAAAGTCCCACAACAACAAGAGATATGTGTAAAGCTTAAAGATCAATAAAAA
25720801 CAACCTAAGAGCTTAATTCTTTCATACCTGTTCTTGTAAACACTTATGAGCTTTC
196 CAACCTAAGAGCTTAATTCTTTCATACCTGTTCTTGTAAACACTTATGAGCTTTC
25720856 AT
1 AT
25720858 TGTATTCATT
Statistics
Matches: 242, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
250 242 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (250 bp):
ATATGCATTAATTACAAAAAATATCGAGACTCAATGTTGTAGGTGAATTTAATGAACTGGTATTT
CCATCCCAACAGCTATATCCAATTCGTAAACAACCAGAACGATTGAAAATCAATTAGAGAGTATA
AATATCATATTCCAAAAGTCCCACAACAACAAGAGATATGTGTAAAGCTTAAAGATCAATAAAAA
CAACCTAAGAGCTTAATTCTTTCATACCTGTTCTTGTAAACACTTATGAGCTTTC
Found at i:25722506 original size:27 final size:27
Alignment explanation
Indices: 25722476--25722538 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
25722466 TCATAAAGGT
25722476 GTTCCTTTCATAATGCGCCACATAGAC
1 GTTCCTTTCATAATGCGCCACATAGAC
** * * *
25722503 GTTCCTTTTGTATTGTGCCACATAGGC
1 GTTCCTTTCATAATGCGCCACATAGAC
*
25722530 ATTCCTTTC
1 GTTCCTTTC
25722539 TTAACGTGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (27 bp):
GTTCCTTTCATAATGCGCCACATAGAC
Found at i:25730403 original size:26 final size:26
Alignment explanation
Indices: 25730366--25730433 Score: 91
Period size: 30 Copynumber: 2.4 Consensus size: 26
25730356 ACTGTTATAG
25730366 GGGTTCACTAGTAGGCCTGGCGAAATA
1 GGGTT-ACTAGTAGGCCTGGCGAAATA
25730393 GGGTTACTAGTGGGTAGGCCTGGCGAAATA
1 GGGTTACTA----GTAGGCCTGGCGAAATA
25730423 GGGTTACTAGT
1 GGGTTACTAGT
25730434 GGGTTTAGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
26 6 0.16
27 5 0.14
30 26 0.70
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.25
Consensus pattern (26 bp):
GGGTTACTAGTAGGCCTGGCGAAATA
Found at i:25730411 original size:30 final size:30
Alignment explanation
Indices: 25730376--25730437 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
25730366 GGGTTCACTA
25730376 GTAGGCCTGGCGAAATAGGGTTACTAGTGG
1 GTAGGCCTGGCGAAATAGGGTTACTAGTGG
25730406 GTAGGCCTGGCGAAATAGGGTTACTAGTGG
1 GTAGGCCTGGCGAAATAGGGTTACTAGTGG
25730436 GT
1 GT
25730438 TTAGTGAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.13, G:0.40, T:0.24
Consensus pattern (30 bp):
GTAGGCCTGGCGAAATAGGGTTACTAGTGG
Found at i:25730516 original size:26 final size:26
Alignment explanation
Indices: 25730476--25730545 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
25730466 GGCAAAGCAG
** *
25730476 GGATCGCCAAAGGGCCTGATGAACTG-
1 GGATCGCCAGTGGGCCTGACGAAC-GA
* *
25730502 GGATCTCCAGTGGGCCTGGCGAACGA
1 GGATCGCCAGTGGGCCTGACGAACGA
*
25730528 GGATCGCTAGTGGGCCTG
1 GGATCGCCAGTGGGCCTG
25730546 GCGAGCTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 1 0.03
26 35 0.97
ACGTcount: A:0.20, C:0.24, G:0.39, T:0.17
Consensus pattern (26 bp):
GGATCGCCAGTGGGCCTGACGAACGA
Found at i:25735144 original size:43 final size:43
Alignment explanation
Indices: 25735094--25735406 Score: 427
Period size: 43 Copynumber: 7.3 Consensus size: 43
25735084 GTTTTTAGAA
*
25735094 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGCCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
*
25735137 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGTGC-TTTCCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
*
25735179 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC-TTTCCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
* * *
25735221 AAAAACGCCGCTAAAGACCAGCACCTTTAGCGACGCTTTT-CC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
* * * *
25735263 ACAAACGCCGCTAAAGGCCAAGACCTTTAGCGGCGATTTTCTC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
** * **
25735306 ACAAGTGCCGCTAAAGACTAGGACCTTTAGCGGCGCTTTTTTC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
* * *
25735349 ACAAACGCCGCTAAAGACCCA-GACCTATAGCGACGCTTTTTCC
1 ACAAACGCCGCTAAAGA-CCAGGACCTTTAGCGGCGCTTTTCCC
25735392 ACAAACGCCGCTAAA
1 ACAAACGCCGCTAAA
25735407 AGTACTATTA
Statistics
Matches: 241, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
42 116 0.48
43 123 0.51
44 2 0.01
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
Found at i:25735195 original size:85 final size:85
Alignment explanation
Indices: 25735094--25735406 Score: 432
Period size: 84 Copynumber: 3.7 Consensus size: 85
25735084 GTTTTTAGAA
*
25735094 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGCCGCTTTTCCCACAAACGCCGCTAAAGACCAGG
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGG
* *
25735159 ACCTTTAGCGGTGCTTTCCC
66 ACCTTTAGCGGCGCTTTTCC
* * *
25735179 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC-TTTCCCAAAAACGCCGCTAAAGACCAGC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGG
*
25735243 ACCTTTAGCGACGCTTTTCC
66 ACCTTTAGCGGCGCTTTTCC
* * * * ** *
25735263 ACAAACGCCGCTAAAGGCCAAGACCTTTAGCGGCGATTTTCTCACAAGTGCCGCTAAAGACTAGG
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGG
*
25735328 ACCTTTAGCGGCGCTTTTTTC
66 ACCTTTAGCGGCGC-TTTTCC
* * *
25735349 ACAAACGCCGCTAAAGACCCA-GACCTATAGCGACGCTTTTTCCACAAACGCCGCTAAA
1 ACAAACGCCGCTAAAGA-CCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
25735407 AGTACTATTA
Statistics
Matches: 198, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
84 75 0.38
85 69 0.35
86 51 0.26
87 3 0.02
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (85 bp):
ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGG
ACCTTTAGCGGCGCTTTTCC
Found at i:25740035 original size:38 final size:37
Alignment explanation
Indices: 25739956--25740054 Score: 119
Period size: 37 Copynumber: 2.6 Consensus size: 37
25739946 GGCTGCCAAT
*
25739956 TTGGG-GAAATTGGGGGGAAAGATAAAGGGAATCGGGG
1 TTGGGAGAAATTGGGGGGAAA-ATAAAGGGAATCGAGG
**
25739993 TTGGGGAGAAATTGGGGGGAAAATAAAGGGAATCGATT
1 TT-GGGAGAAATTGGGGGGAAAATAAAGGGAATCGAGG
* **
25740031 TTGGGAAAAAGAGGGGGGAAAATA
1 TTGGGAGAAATTGGGGGGAAAATA
25740055 TAATTCATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
37 21 0.39
38 18 0.33
39 15 0.28
ACGTcount: A:0.37, C:0.02, G:0.43, T:0.17
Consensus pattern (37 bp):
TTGGGAGAAATTGGGGGGAAAATAAAGGGAATCGAGG
Found at i:25740206 original size:40 final size:39
Alignment explanation
Indices: 25740140--25740231 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
25740130 CGTTTGGAAG
* *
25740140 AAAAACGCCACTATTGCTCTTTTTTTGTGGCGTTTTTAA
1 AAAAACGCCACTATTGCTCTTCTTTTGCGGCGTTTTTAA
* * *
25740179 CAAAAACGCCGCTATTTC-CTATCTTTTGCGGCGTTTTTGA
1 -AAAAACGCCACTATTGCTCT-TCTTTTGCGGCGTTTTTAA
25740219 AAAAACGCCACTA
1 AAAAACGCCACTA
25740232 ACGCTCTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 14 0.31
40 31 0.69
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (39 bp):
AAAAACGCCACTATTGCTCTTCTTTTGCGGCGTTTTTAA
Found at i:25741222 original size:14 final size:14
Alignment explanation
Indices: 25741177--25741213 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
25741167 ATCCTAAATT
25741177 AACCATATACCTTA
1 AACCATATACCTTA
*
25741191 AACCATATACCCTA
1 AACCATATACCTTA
25741205 AACCATATA
1 AACCATATA
25741214 TATTAAACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCTTA
Found at i:25741661 original size:41 final size:42
Alignment explanation
Indices: 25741473--25741661 Score: 230
Period size: 41 Copynumber: 4.6 Consensus size: 42
25741463 ATTTTTGCGG
*
25741473 CGCTTTTCT-AAAAACGCCGCTAAA-AGCCTAAGCATTAGCTG-
1 CGCTTTT-TAAAAAACGCCGCTAAAGAGCCTGAGCATTAGC-GA
* * *
25741514 CGCTTTTTCAAAAACGCCGCTAAA-AGCCCGAGCATTAGCGG
1 CGCTTTTTAAAAAACGCCGCTAAAGAGCCTGAGCATTAGCGA
* *
25741555 CG-TTTTTGAAAAAGCGCCGCTAAAGA-TCTGAGCATTAGCGA
1 CGCTTTTT-AAAAAACGCCGCTAAAGAGCCTGAGCATTAGCGA
* *
25741596 CGCTTTTTCAAAAACGCCGCTAAAGA-TCTGAGCATTAGCGA
1 CGCTTTTTAAAAAACGCCGCTAAAGAGCCTGAGCATTAGCGA
25741637 CGCTTTTTAAAAAACGCCGCTAAAG
1 CGCTTTTTAAAAAACGCCGCTAAAG
25741662 CCCCGAAAGG
Statistics
Matches: 133, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
40 7 0.05
41 120 0.90
42 6 0.05
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
CGCTTTTTAAAAAACGCCGCTAAAGAGCCTGAGCATTAGCGA
Found at i:25741743 original size:40 final size:39
Alignment explanation
Indices: 25741696--25741835 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 39
25741686 GTTGGGCTTA
**
25741696 GATTTTTAGCGGCGTTTTTTCAAAAAATGCCGCTAATGCTC
1 GATTTTTAGCGGCGTTTTTT--AAAAGCGCCGCTAATGCTC
*
25741737 -ATTTTTAGCGGCGCTTTTTTGAAAGCGCCGCTAATGCTC
1 GATTTTTAGCGGCG-TTTTTTAAAAGCGCCGCTAATGCTC
* *
25741776 GATCTTTAGCGGCATTTTATGT-AAAGCGCCGCTAATGCTC
1 GATTTTTAGCGGCGTTTT-T-TAAAAGCGCCGCTAATGCTC
25741816 GATTTTTAGCGGCGTTTTTT
1 GATTTTTAGCGGCGTTTTTT
25741836 GTCCAAACGC
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
38 1 0.01
39 21 0.24
40 59 0.67
41 7 0.08
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (39 bp):
GATTTTTAGCGGCGTTTTTTAAAAGCGCCGCTAATGCTC
Found at i:25742215 original size:24 final size:25
Alignment explanation
Indices: 25742186--25742241 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
25742176 CAAACACCTA
25742186 ATTTTAATTTCTAATTATTT-TA-TT
1 ATTTTAATTT-TAATTATTTCTACTT
*
25742210 ATTTT-ATTTTATTTATTTCTACTT
1 ATTTTAATTTTAATTATTTCTACTT
25742234 ATTTTAAT
1 ATTTTAAT
25742242 ATCCAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 8 0.29
23 6 0.21
24 12 0.43
25 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (25 bp):
ATTTTAATTTTAATTATTTCTACTT
Found at i:25747294 original size:17 final size:19
Alignment explanation
Indices: 25747268--25747309 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
25747258 GACCCTTAAC
25747268 TTTTCATT-AA-TTATACA
1 TTTTCATTAAACTTATACA
* *
25747285 TTTTCCTTAAACTTTTACA
1 TTTTCATTAAACTTATACA
25747304 TTTTCA
1 TTTTCA
25747310 CAATTTAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 7 0.35
18 2 0.10
19 11 0.55
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTCATTAAACTTATACA
Found at i:25749039 original size:23 final size:23
Alignment explanation
Indices: 25749012--25749066 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
25749002 AATACAATAT
25749012 GATCAAATTCAAAATAATTCATG
1 GATCAAATTCAAAATAATTCATG
25749035 GATCAAATTCAAAATAATTCATG
1 GATCAAATTCAAAATAATTCATG
*
25749058 TATCAAATT
1 GATCAAATT
25749067 AAACTTGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (23 bp):
GATCAAATTCAAAATAATTCATG
Found at i:25751178 original size:12 final size:12
Alignment explanation
Indices: 25751161--25751185 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25751151 TATCCCAAAT
25751161 AAAAAAGAAAAA
1 AAAAAAGAAAAA
25751173 AAAAAAGAAAAA
1 AAAAAAGAAAAA
25751185 A
1 A
25751186 CTCAAAGTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:25753621 original size:19 final size:19
Alignment explanation
Indices: 25753574--25753625 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
25753564 TCTCAACAAA
*
25753574 AAAATACAAAATAATTTTC
1 AAAATTCAAAATAATTTTC
*
25753593 AAATATTCAAAATAATTTTT
1 AAA-ATTCAAAATAATTTTC
25753613 AAAATTCAAAATA
1 AAAATTCAAAATA
25753626 TTTAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:25753635 original size:19 final size:20
Alignment explanation
Indices: 25753571--25753644 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
25753561 CTCTCTCAAC
*
25753571 AAAAAAATACAAAATAATTT
1 AAAAAAATTCAAAATAATTT
** *
25753591 TCAAATATTCAAAATAATTT
1 AAAAAAATTCAAAATAATTT
**
25753611 -TTAAAATTCAAAAT-ATTT
1 AAAAAAATTCAAAATAATTT
25753629 AAAAAAATTACAAAAT
1 AAAAAAATT-CAAAAT
25753645 TTATATATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
18 4 0.09
19 17 0.40
20 22 0.51
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAAAATTCAAAATAATTT
Found at i:25753669 original size:25 final size:26
Alignment explanation
Indices: 25753623--25753672 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
25753613 AAAATTCAAA
25753623 ATATTTAAAAAAATTACAAAATTTAT
1 ATATTTAAAAAAATTACAAAATTTAT
*
25753649 ATATTTAAAAAAATTA-TAAATTTA
1 ATATTTAAAAAAATTACAAAATTTA
25753673 AAAAAAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATTTAAAAAAATTACAAAATTTAT
Found at i:25753680 original size:18 final size:17
Alignment explanation
Indices: 25753640--25753678 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
25753630 AAAAAATTAC
* *
25753640 AAAATTTATATATTTAA
1 AAAAATTATAAATTTAA
25753657 AAAAATTATAAATTTAA
1 AAAAATTATAAATTTAA
25753674 AAAAA
1 AAAAA
25753679 ATCTAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATTATAAATTTAA
Found at i:25753685 original size:17 final size:17
Alignment explanation
Indices: 25753646--25753685 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
25753636 TTACAAAATT
* *
25753646 TATATATTTAAAAAAAT
1 TATAAATTTAAAAAAAA
25753663 TATAAATTTAAAAAAAA
1 TATAAATTTAAAAAAAA
*
25753680 TCTAAA
1 TATAAA
25753686 GAACATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAAATTTAAAAAAAA
Found at i:25759471 original size:14 final size:15
Alignment explanation
Indices: 25759449--25759525 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
25759439 CAATCAAACA
25759449 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
25759463 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
25759478 ACAGAAAAGTAGAACATTTT
1 CCAGAAAA-T----CATTTT
25759498 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
25759512 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
25759526 ACTGGCTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:25765338 original size:14 final size:14
Alignment explanation
Indices: 25765319--25765358 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
25765309 TACAACCAAA
25765319 TAAAATTATTAGAC
1 TAAAATTATTAGAC
25765333 TAAAATTATTAGAC
1 TAAAATTATTAGAC
25765347 TAAAATT-TTAGA
1 TAAAATTATTAGA
25765359 AAAACAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (14 bp):
TAAAATTATTAGAC
Found at i:25765381 original size:5 final size:5
Alignment explanation
Indices: 25765371--25765418 Score: 78
Period size: 5 Copynumber: 9.6 Consensus size: 5
25765361 AACAATTATT
* *
25765371 AAACC AAACC AAACC AAACC AAACC AAACC AAACC AAAGC TAACC AAA
1 AAACC AAACC AAACC AAACC AAACC AAACC AAACC AAACC AAACC AAA
25765419 TTACTTAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.60, C:0.35, G:0.02, T:0.02
Consensus pattern (5 bp):
AAACC
Found at i:25767877 original size:19 final size:19
Alignment explanation
Indices: 25767855--25767916 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
25767845 AGGGTTACCG
25767855 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
* * *
25767874 AAGTGCAATTAGGGGTACCG-
1 AAGTACAA-CAGGGGCA-CGT
* *
25767894 AAGTACATCAGGGGCACTT
1 AAGTACAACAGGGGCACGT
25767913 AAGT
1 AAGT
25767917 GCAATCAGAG
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 1 0.03
19 17 0.53
20 12 0.38
21 2 0.06
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.18
Consensus pattern (19 bp):
AAGTACAACAGGGGCACGT
Found at i:25767906 original size:39 final size:39
Alignment explanation
Indices: 25767845--25767921 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
25767835 AAATGCGATC
*
25767845 AGGGTTACCGAAGTACAACAGGGGCACGTAAGTGCAATT
1 AGGGGTACCGAAGTACAACAGGGGCACGTAAGTGCAATT
* *
25767884 AGGGGTACCGAAGTACATCAGGGGCACTTAAGTGCAAT
1 AGGGGTACCGAAGTACAACAGGGGCACGTAAGTGCAAT
25767922 CAGAGGTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.32, C:0.18, G:0.31, T:0.18
Consensus pattern (39 bp):
AGGGGTACCGAAGTACAACAGGGGCACGTAAGTGCAATT
Found at i:25775259 original size:39 final size:39
Alignment explanation
Indices: 25775198--25775311 Score: 131
Period size: 39 Copynumber: 2.9 Consensus size: 39
25775188 AGGAGTGCCA
* * * * * *
25775198 AAGTACAATAGGGGTACATAAGTGCGATCAGGGTTACTG
1 AAGTACAACAGAGGCACGTAAGTGCGATCAGGGGTACCG
*
25775237 TAGTACAACA-AGGGCACGTAAGTGCGATCAGGGGTACCG
1 AAGTACAACAGA-GGCACGTAAGTGCGATCAGGGGTACCG
* *
25775276 AAGTACAACAGAGGCATGTAAGTGCGATCAGAGGTA
1 AAGTACAACAGAGGCACGTAAGTGCGATCAGGGGTA
25775312 TAATTATATA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
39 62 0.98
40 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (39 bp):
AAGTACAACAGAGGCACGTAAGTGCGATCAGGGGTACCG
Found at i:25776030 original size:35 final size:35
Alignment explanation
Indices: 25775984--25776054 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
25775974 TTCAAGCTCC
25775984 AAAATGGGGTTTTCCAAGCCTAAATTCAGTGGAGA
1 AAAATGGGGTTTTCCAAGCCTAAATTCAGTGGAGA
*
25776019 AAAATGGGGTTTTCCAAGCCTAATTTCAGTGGAGA
1 AAAATGGGGTTTTCCAAGCCTAAATTCAGTGGAGA
25776054 A
1 A
25776055 GAAAGCTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (35 bp):
AAAATGGGGTTTTCCAAGCCTAAATTCAGTGGAGA
Found at i:25783643 original size:24 final size:24
Alignment explanation
Indices: 25783616--25783663 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
25783606 ATAAAGCCTG
25783616 CATGTGATGTGATATGCCTAAGCA
1 CATGTGATGTGATATGCCTAAGCA
25783640 CATGTGATGTGATATGCCTAAGCA
1 CATGTGATGTGATATGCCTAAGCA
25783664 TGTAATGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (24 bp):
CATGTGATGTGATATGCCTAAGCA
Found at i:25783671 original size:22 final size:22
Alignment explanation
Indices: 25783615--25783674 Score: 93
Period size: 24 Copynumber: 2.6 Consensus size: 22
25783605 AATAAAGCCT
25783615 GCATGTGATGTGATATGCCTAA
1 GCATGTGATGTGATATGCCTAA
25783637 GCACATGTGATGTGATATGCCTAA
1 G--CATGTGATGTGATATGCCTAA
*
25783661 GCATGTAATGTGAT
1 GCATGTGATGTGAT
25783675 TATAAGTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
22 13 0.37
24 22 0.63
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (22 bp):
GCATGTGATGTGATATGCCTAA
Found at i:25784487 original size:31 final size:31
Alignment explanation
Indices: 25784449--25784512 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
25784439 TGGTATCGAT
25784449 AATTAGCATTCTAATTCTCGCCTAAAATCCA
1 AATTAGCATTCTAATTCTCGCCTAAAATCCA
*
25784480 AATTAGCATTCTATTTCTCGCCTAAAATCCA
1 AATTAGCATTCTAATTCTCGCCTAAAATCCA
25784511 AA
1 AA
25784513 CTCAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (31 bp):
AATTAGCATTCTAATTCTCGCCTAAAATCCA
Found at i:25791312 original size:17 final size:16
Alignment explanation
Indices: 25791290--25791321 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
25791280 TTATAGATTA
25791290 TTGGAAGCTCGACCAGT
1 TTGGAAGCTCG-CCAGT
25791307 TTGGAAGCTCGCCAG
1 TTGGAAGCTCGCCAG
25791322 AGACCTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.22
Consensus pattern (16 bp):
TTGGAAGCTCGCCAGT
Found at i:25793878 original size:11 final size:13
Alignment explanation
Indices: 25793862--25793894 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
25793852 ATTTCACGGA
25793862 AAAATTTCG-T-G
1 AAAATTTCGTTCG
25793873 AAAATTTCGTTCG
1 AAAATTTCGTTCG
25793886 AAAATTTCG
1 AAAATTTCG
25793895 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:25795041 original size:76 final size:71
Alignment explanation
Indices: 25794944--25795164 Score: 252
Period size: 70 Copynumber: 3.0 Consensus size: 71
25794934 ATAAGCTGGA
* *
25794944 GTATATTGAATATAAAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGT
1 GTATCTTGAATAT-AAAGGGGTTGCTAAGTGCTGATTCCCCGA-T-A-TGGTGGTTGCTAAGTGC
25795009 TGATTCCACC
62 TGATTCCACC
25795019 GTATCTTGGAATATAAAGGGGGTTGCTAAGTGCTGATTCTCCC-A-A-GG-GGTTGCTAAGTGCT
1 GTATCTT-GAATATAAA-GGGGTTGCTAAGTGCTGATTC-CCCGATATGGTGGTTGCTAAGTGCT
*
25795080 GATCCCACC
63 GATTCCACC
* * *
25795089 GTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATAACTGGTGGTTGCTAAGTGG
1 GTATCTTGAATAT-AAAGGGGTTGCTAAGTGCTGATTCCCCG-AT-A-TGGTGGTTGCTAAGTGC
*
25795154 TGAATCCACC
62 TGATTCCACC
25795164 G
1 G
25795165 GTAAAGGATA
Statistics
Matches: 127, Mismatches: 8, Indels: 22
0.81 0.05 0.14
Matches are distributed among these distances:
68 3 0.02
69 25 0.20
70 32 0.25
71 2 0.02
72 1 0.01
73 1 0.01
74 2 0.02
75 30 0.24
76 28 0.22
77 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (71 bp):
GTATCTTGAATATAAAGGGGTTGCTAAGTGCTGATTCCCCGATATGGTGGTTGCTAAGTGCTGAT
TCCACC
Found at i:25801000 original size:2 final size:2
Alignment explanation
Indices: 25800993--25801032 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
25800983 TGAAAGGACC
25800993 AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25801031 AT
1 AT
25801033 TATTTATTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 4 0.12
2 30 0.88
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:25801008 original size:10 final size:10
Alignment explanation
Indices: 25800993--25801032 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
25800983 TGAAAGGACC
25800993 ATATATATAT
1 ATATATATAT
25801003 ATATATAT-T
1 ATATATATAT
25801012 ATAT-TATAT
1 ATATATATAT
25801021 -TATAT-TAT
1 ATATATATAT
25801029 ATAT
1 ATAT
25801033 TATTTATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 9 0.33
9 10 0.37
10 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATATATATAT
Found at i:25801016 original size:5 final size:5
Alignment explanation
Indices: 25800994--25801030 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
25800984 GAAAGGACCA
25800994 TATAT ATATAT ATATAT TATAT TATAT TATAT TATAT
1 TATAT -TATAT -TATAT TATAT TATAT TATAT TATAT
25801031 ATTATTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 20 0.65
6 11 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:25801036 original size:10 final size:11
Alignment explanation
Indices: 25800993--25801035 Score: 63
Period size: 10 Copynumber: 4.0 Consensus size: 11
25800983 TGAAAGGACC
25800993 ATATATA-TAT
1 ATATATATTAT
25801003 ATATATATTAT
1 ATATATATTAT
25801014 AT-TATATTAT
1 ATATATATTAT
25801024 ATTATATATTAT
1 A-TATATATTAT
25801036 TTATTGGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 16 0.53
11 6 0.20
12 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATATATATTAT
Found at i:25801673 original size:20 final size:20
Alignment explanation
Indices: 25801644--25801682 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25801634 AATATTTTCT
*
25801644 GTAAATCATTTTACAGAAAA
1 GTAAAACATTTTACAGAAAA
*
25801664 GTAAAACATTTTCCAGAAA
1 GTAAAACATTTTACAGAAA
25801683 TCATTTTACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (20 bp):
GTAAAACATTTTACAGAAAA
Found at i:25806425 original size:19 final size:20
Alignment explanation
Indices: 25806389--25806426 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
25806379 CGTATTAGAA
* *
25806389 GTTTCGAAATAGTGAAAAAC
1 GTTTCGAAATAATAAAAAAC
25806409 GTTT-GAAATAATAAAAAA
1 GTTTCGAAATAATAAAAAA
25806427 TTTTTGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.26
Consensus pattern (20 bp):
GTTTCGAAATAATAAAAAAC
Found at i:25807079 original size:21 final size:21
Alignment explanation
Indices: 25807055--25807098 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
25807045 GTTTACAATG
* *
25807055 ACAATGAAGACGTTTACCTCC
1 ACAACGAAGACGTTCACCTCC
* *
25807076 ACAACGAGGCCGTTCACCTCC
1 ACAACGAAGACGTTCACCTCC
25807097 AC
1 AC
25807099 CTCGAGGCTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.36, G:0.16, T:0.18
Consensus pattern (21 bp):
ACAACGAAGACGTTCACCTCC
Found at i:25807104 original size:21 final size:21
Alignment explanation
Indices: 25807065--25807116 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
25807055 ACAATGAAGA
*
25807065 CGTTTACCTCCACAACGAGGC
1 CGTTCACCTCCACAACGAGGC
**
25807086 CGTTCACCTCCACCTCGAGGC
1 CGTTCACCTCCACAACGAGGC
* *
25807107 TGATCACCTC
1 CGTTCACCTC
25807117 ATGTTCCTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.42, G:0.17, T:0.21
Consensus pattern (21 bp):
CGTTCACCTCCACAACGAGGC
Found at i:25809675 original size:26 final size:26
Alignment explanation
Indices: 25809646--25809699 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
25809636 ACATATAATT
*
25809646 TACACATCATGTATC-TATATATCATG
1 TACAAATCAT-TATCATATATATCATG
* *
25809672 TACAAATCATTTTCATATATCTCATG
1 TACAAATCATTATCATATATATCATG
25809698 TA
1 TA
25809700 AATACCTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.41
Consensus pattern (26 bp):
TACAAATCATTATCATATATATCATG
Found at i:25809892 original size:25 final size:25
Alignment explanation
Indices: 25809862--25809941 Score: 151
Period size: 25 Copynumber: 3.2 Consensus size: 25
25809852 CTGTAAACAA
25809862 TAAGCTCCTCCAAGCTGAATAATGG
1 TAAGCTCCTCCAAGCTGAATAATGG
*
25809887 TAAGCTCCTCCAAGCTGAATAACGG
1 TAAGCTCCTCCAAGCTGAATAATGG
25809912 TAAGCTCCTCCAAGCTGAATAATGG
1 TAAGCTCCTCCAAGCTGAATAATGG
25809937 TAAGC
1 TAAGC
25809942 ACATACGAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (25 bp):
TAAGCTCCTCCAAGCTGAATAATGG
Found at i:25809924 original size:50 final size:50
Alignment explanation
Indices: 25809862--25809968 Score: 160
Period size: 50 Copynumber: 2.1 Consensus size: 50
25809852 CTGTAAACAA
* * *
25809862 TAAGCTCCTCCAAGCTGAATAATGGTAAGCTCCTCCAAGCTGAATAACGG
1 TAAGCTCCTCCAAGCTGAATAATGGTAAGCACATACAAGCTGAATAACGG
* * *
25809912 TAAGCTCCTCCAAGCTGAATAATGGTAAGCACATACGAGCTGAGTATCGG
1 TAAGCTCCTCCAAGCTGAATAATGGTAAGCACATACAAGCTGAATAACGG
25809962 TAAGCTC
1 TAAGCTC
25809969 ATAAAAGCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (50 bp):
TAAGCTCCTCCAAGCTGAATAATGGTAAGCACATACAAGCTGAATAACGG
Found at i:25809952 original size:25 final size:25
Alignment explanation
Indices: 25809862--25809980 Score: 123
Period size: 25 Copynumber: 4.8 Consensus size: 25
25809852 CTGTAAACAA
* *
25809862 TAAGCTCCTCCAAGCTGAATAATGG
1 TAAGCTCATACAAGCTGAATAATGG
* * *
25809887 TAAGCTCCTCCAAGCTGAATAACGG
1 TAAGCTCATACAAGCTGAATAATGG
* *
25809912 TAAGCTCCTCCAAGCTGAATAATGG
1 TAAGCTCATACAAGCTGAATAATGG
* * *
25809937 TAAGCACATACGAGCTGAGT-ATCGG
1 TAAGCTCATACAAGCTGAATAAT-GG
*
25809962 TAAGCTCATAAAAGCTGAA
1 TAAGCTCATACAAGCTGAA
25809981 ATCAGAAACA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
24 2 0.02
25 80 0.98
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (25 bp):
TAAGCTCATACAAGCTGAATAATGG
Found at i:25815540 original size:38 final size:38
Alignment explanation
Indices: 25815497--25815614 Score: 236
Period size: 38 Copynumber: 3.1 Consensus size: 38
25815487 CTTACTAAGC
25815497 ATTAATTGCTTACATAGTTTCTTTCCTATGTTTTATAG
1 ATTAATTGCTTACATAGTTTCTTTCCTATGTTTTATAG
25815535 ATTAATTGCTTACATAGTTTCTTTCCTATGTTTTATAG
1 ATTAATTGCTTACATAGTTTCTTTCCTATGTTTTATAG
25815573 ATTAATTGCTTACATAGTTTCTTTCCTATGTTTTATAG
1 ATTAATTGCTTACATAGTTTCTTTCCTATGTTTTATAG
25815611 ATTA
1 ATTA
25815615 TAGGAAGCTC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 80 1.00
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.53
Consensus pattern (38 bp):
ATTAATTGCTTACATAGTTTCTTTCCTATGTTTTATAG
Found at i:25821974 original size:16 final size:16
Alignment explanation
Indices: 25821953--25821983 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25821943 GTAAAAGTTA
25821953 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
25821969 ATATAACATTTATAA
1 ATATAAAATTTATAA
25821984 AAAAAAAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:25823382 original size:29 final size:29
Alignment explanation
Indices: 25823327--25823388 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
25823317 CATAATTTAA
*
25823327 CATAAAAAGTCTCAAATAGAAATAAAGTT
1 CATAAAAAGTCTCAAATAGAAATAAAGTC
*
25823356 CATAAAAA-TC-CAAATCATAAATAAAAGTC
1 CATAAAAAGTCTCAAAT-AGAAAT-AAAGTC
25823385 CATA
1 CATA
25823389 TTTATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
28 7 0.24
29 17 0.59
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.23
Consensus pattern (29 bp):
CATAAAAAGTCTCAAATAGAAATAAAGTC
Found at i:25823643 original size:19 final size:20
Alignment explanation
Indices: 25823616--25823655 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
25823606 ATGATCATGT
*
25823616 CAATGCATATTTTGT-AAAA
1 CAATACATATTTTGTGAAAA
25823635 CAATACATATTTTGTGAAAA
1 CAATACATATTTTGTGAAAA
25823655 C
1 C
25823656 GGTCCTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (20 bp):
CAATACATATTTTGTGAAAA
Found at i:25823832 original size:49 final size:52
Alignment explanation
Indices: 25823721--25823848 Score: 174
Period size: 51 Copynumber: 2.5 Consensus size: 52
25823711 CTAAACAACA
* * *
25823721 TTGTGGACAATCCACCACTGATTTGC-AGATAAACTATCAGTGATAACACTT
1 TTGTGGACAAGCCACCACTGATTTGCAAGATAAACTACCACTGATAACACTT
* * *
25823772 TTGTGGACAAGCCACCACTAATATGCAAG-TATACTACCACTGATAA-A-TT
1 TTGTGGACAAGCCACCACTGATTTGCAAGATAAACTACCACTGATAACACTT
25823821 TTGTGGACAAGCCACCACTGATTTGCAA
1 TTGTGGACAAGCCACCACTGATTTGCAA
25823849 ATACTGTCAT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 28 0.41
50 1 0.01
51 37 0.54
52 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (52 bp):
TTGTGGACAAGCCACCACTGATTTGCAAGATAAACTACCACTGATAACACTT
Found at i:25825425 original size:192 final size:187
Alignment explanation
Indices: 25825077--25825455 Score: 650
Period size: 192 Copynumber: 2.0 Consensus size: 187
25825067 ACGATGCACA
25825077 GTGGTCAGTGGTGAAGGATTCAGTCACGGTGGAAGAAAAGGGAAAAAGTTAAAAGAAAGGGTGGT
1 GTGGTCAGTGGTGAAGGATTCAGTCACGGTGGAAGAAAAGGGAAAAAGTTAAAAGAAAGGGTGGT
*
25825142 GGTTTTTTTTTTGCAAAATGGAGAGAAAATGGATGAAAAAGAAAGAAAATGGGAGTAAGAGAGAG
66 GGTTTTTTTTTTGCAAAATGGAGAAAAAATGGATGAAAAAGAAAGAAAATGGGAGTAAGAGAGAG
25825207 GTAGGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGACTAGGTTCAATGAAC
131 GTAGGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGACTAGGTTCAATGAAC
* * * *
25825264 GTGGTCAGTGGTGAAGGATTCAGTCACGGTGGAGGAAAGGGGCAAAAGTTAAAAGAAATGGTGGT
1 GTGGTCAGTGGTGAAGGATTCAGTCACGGTGGAAGAAAAGGGAAAAAGTTAAAAGAAAGGGTGGT
* *
25825329 GTTTTTTTTTTTTTTGCAAAATGGAGAAAAAATTGATGAAAAAAAGAAAGAAAATGGGAGTAAGA
66 G---GTTTTTTTTTTGCAAAATGGAGAAAAAATGGATG--AAAAAGAAAGAAAATGGGAGTAAGA
25825394 GAGAGGTAGGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGACTAGGTTCAATGAAC
126 GAGAGGTAGGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGACTAGGTTCAATGAAC
25825456 CTCAACTAAA
Statistics
Matches: 180, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
187 62 0.34
190 31 0.17
192 87 0.48
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.22
Consensus pattern (187 bp):
GTGGTCAGTGGTGAAGGATTCAGTCACGGTGGAAGAAAAGGGAAAAAGTTAAAAGAAAGGGTGGT
GGTTTTTTTTTTGCAAAATGGAGAAAAAATGGATGAAAAAGAAAGAAAATGGGAGTAAGAGAGAG
GTAGGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGACTAGGTTCAATGAAC
Found at i:25827593 original size:43 final size:43
Alignment explanation
Indices: 25827541--25827783 Score: 346
Period size: 43 Copynumber: 5.7 Consensus size: 43
25827531 TTCTAGAAAT
*
25827541 GCCGCTAAAGACCAAGACCTTTAACGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
25827584 GCCGCTAAAGACCACGACCTTGAACGGCGCTTCTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
25827627 GCCGCTAAAGACAAAGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* **
25827670 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
*
25827713 GCCGCTATAA-ACCATGACCTTTAGCGGCGCTTTTTCCCACAAAC
1 GCCGCTA-AAGACCAAGACCTTTAGCGGCGC-TTTTCCCACAAAC
*
25827757 GCCGCTAAAGAACAA-ACCTTTAGCGGC
1 GCCGCTAAAGACCAAGACCTTTAGCGGC
25827784 ATTTCTAGCA
Statistics
Matches: 181, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
43 158 0.87
44 23 0.13
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (43 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:25828998 original size:3 final size:3
Alignment explanation
Indices: 25828990--25829014 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25828980 TACATCAATA
25828990 ACT ACT ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT A
25829015 GAACGATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ACT
Found at i:25831859 original size:20 final size:21
Alignment explanation
Indices: 25831831--25831870 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25831821 CTAGTTAATC
*
25831831 TAAATCCT-AAACCATAAACT
1 TAAACCCTAAAACCATAAACT
25831851 TAAACCCTAAAACCATAAAC
1 TAAACCCTAAAACCATAAAC
25831871 CCTTAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACCCTAAAACCATAAACT
Found at i:25831900 original size:15 final size:14
Alignment explanation
Indices: 25831838--25831968 Score: 79
Period size: 14 Copynumber: 9.2 Consensus size: 14
25831828 ATCTAAATCC
* *
25831838 TAAACCATAAA-CT
1 TAAACCCTAAACCA
25831851 TAAACCCTAAAACCA
1 TAAACCCT-AAACCA
*
25831866 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
25831881 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* * *
25831895 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
* *
25831909 TAAACCATAAGCCA
1 TAAACCCTAAACCA
* *
25831923 TAAACCATAAACCG
1 TAAACCCTAAACCA
*
25831937 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
25831951 TAACCCCTAAACCCA
1 TAAACCCTAAA-CCA
25831966 TAA
1 TAA
25831969 TCCACAAACC
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
13 10 0.11
14 54 0.57
15 31 0.33
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:25831925 original size:7 final size:7
Alignment explanation
Indices: 25831909--25831983 Score: 78
Period size: 7 Copynumber: 10.6 Consensus size: 7
25831899 CCCCAGCCTT
25831909 TAAACCA
1 TAAACCA
*
25831916 TAAGCCA
1 TAAACCA
25831923 TAAACCA
1 TAAACCA
*
25831930 TAAACCG
1 TAAACCA
25831937 TAAACCA
1 TAAACCA
25831944 TAAACCA
1 TAAACCA
* *
25831951 TAACCCC
1 TAAACCA
25831958 TAAACCCA
1 TAAA-CCA
*
25831966 TAATCCA
1 TAAACCA
* *
25831973 CAAACCT
1 TAAACCA
25831980 TAAA
1 TAAA
25831984 ATGGTAACAC
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 49 0.91
8 5 0.09
ACGTcount: A:0.49, C:0.32, G:0.03, T:0.16
Consensus pattern (7 bp):
TAAACCA
Found at i:25832291 original size:41 final size:41
Alignment explanation
Indices: 25832186--25832479 Score: 387
Period size: 41 Copynumber: 7.2 Consensus size: 41
25832176 TAAATTATTT
* *** *
25832186 TAAACCCCTGAGCATTAGCGGCGCTTTTTAAAAAACACCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
** * ** *
25832227 TAAA--AATAGAGCATTCGCGGCGCTTTATC-AAAACACCGC
1 TAAAGCCCT-GAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
*
25832266 TAAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACACCGC
1 T-AAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* *
25832308 TAAAGCCCTGAGCATTAGCCGCGCTTCCCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
*
25832349 TAAAGCCCTGAGCATTAGCGGCGCTTCCCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* *
25832390 TAAAGCCCTGAGCATTAGCGGCGCTTACTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
*
25832431 TAAAGCCCTAAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
25832472 TAAAGCCC
1 TAAAGCCC
25832480 CGAAAGCTCA
Statistics
Matches: 229, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
39 12 0.05
40 21 0.09
41 184 0.80
42 12 0.05
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.17
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
Found at i:25832640 original size:40 final size:40
Alignment explanation
Indices: 25832534--25832644 Score: 144
Period size: 36 Copynumber: 2.9 Consensus size: 40
25832524 CGCTTTCTGG
* * *
25832534 AAAA-CGCCACTAATGCTTG-TTTTTAGCGGCGTTTTTCA
1 AAAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTTCCA
*
25832572 TAAAGCGCCACT-A---TCGATCTTTAGCGGCGTTTTCCA
1 AAAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTTCCA
25832608 AAAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTT
1 AAAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTT
25832645 TTATCCAAAC
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
35 2 0.03
36 28 0.45
37 1 0.02
38 4 0.06
39 7 0.11
40 20 0.32
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (40 bp):
AAAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTTCCA
Found at i:25839176 original size:21 final size:22
Alignment explanation
Indices: 25839150--25839200 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
25839140 ATATATTTTT
25839150 TATTTA-TTAAAATTT-TTTATA
1 TATTTACTTAAAATTTGTTTA-A
*
25839171 TATTTATCTTAACATTTGTTTAA
1 TATTTA-CTTAAAATTTGTTTAA
25839194 TATTTAC
1 TATTTAC
25839201 ATTAGAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.23
22 1 0.04
23 15 0.58
24 4 0.15
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTTACTTAAAATTTGTTTAA
Found at i:25839187 original size:23 final size:23
Alignment explanation
Indices: 25839156--25839199 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
25839146 TTTTTATTTA
25839156 TTAAAATTT-TTTATATATTTATC
1 TTAAAATTTGTTTA-ATATTTATC
*
25839179 TTAACATTTGTTTAATATTTA
1 TTAAAATTTGTTTAATATTTA
25839200 CATTAGAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (23 bp):
TTAAAATTTGTTTAATATTTATC
Found at i:25849535 original size:17 final size:17
Alignment explanation
Indices: 25849515--25849566 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
25849505 GAATAGTACT
25849515 GACTGGCGAACAGTATC
1 GACTGGCGAACAGTATC
* * *
25849532 GACTAGCAGAA-AATATT
1 GACTGGC-GAACAGTATC
*
25849549 GACTGGTGAACAGTATC
1 GACTGGCGAACAGTATC
25849566 G
1 G
25849567 CTTGGCAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
16 3 0.12
17 20 0.77
18 3 0.12
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (17 bp):
GACTGGCGAACAGTATC
Done.