Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 80 of 150
Found at i:24406559 original size:136 final size:138
Alignment explanation
Indices: 24406394--24406664 Score: 465
Period size: 136 Copynumber: 2.0 Consensus size: 138
24406384 CATAGATATG
* *
24406394 ATTAATATAAGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATAT
1 ATTAATATAAGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAAAATTTATTAATAT
*
24406459 AAAA-GTTATATTAACTAATTTCGGT-AAAACATAAAAGACATGGAATTTAATATTCTTTTGGAA
66 AAAATGTTATATTAACTAATTTCGGTCAAAACATAAAAGACATGGAAATTAATATTCTTTTGGAA
24406522 AGAATACA
131 AGAATACA
*
24406530 ATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAAAATTTATTAATAT
1 ATTAATATAAGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAAAATTTATTAATAT
* * *
24406595 AAAATGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAA
66 AAAATGTTATATTAACTAATTTCGGTCAAAACATAAAAGACATGGAAATTAATATTCTTTTGGAA
24406660 AGAAT
131 AGAAT
24406665 GTAATTCCTC
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
136 66 0.52
137 19 0.15
138 41 0.33
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
ATTAATATAAGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAAAATTTATTAATAT
AAAATGTTATATTAACTAATTTCGGTCAAAACATAAAAGACATGGAAATTAATATTCTTTTGGAA
AGAATACA
Found at i:24409356 original size:50 final size:49
Alignment explanation
Indices: 24409247--24409377 Score: 174
Period size: 50 Copynumber: 2.7 Consensus size: 49
24409237 TTCGATACAT
* * *
24409247 GTAGTAGCCTTTACATAGTACTATACACCTGATCAGTTTTACAGTCCAC
1 GTAGTAGCCTTTACATAGTACTACACACGTGATCAGTTTAACAGTCCAC
* *
24409296 GTAGTAGCCTTTAGATAGTACTACACACGTGATCAAGTTTAAC-GGCTCAC
1 GTAGTAGCCTTTACATAGTACTACACACGTGATC-AGTTTAACAGTC-CAC
* *
24409346 GTAGTAGCCTTCACATAGTACTACATACGTGA
1 GTAGTAGCCTTTACATAGTACTACACACGTGA
24409378 CCAAACCTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
49 33 0.46
50 39 0.54
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (49 bp):
GTAGTAGCCTTTACATAGTACTACACACGTGATCAGTTTAACAGTCCAC
Found at i:24409455 original size:51 final size:49
Alignment explanation
Indices: 24409400--24409558 Score: 142
Period size: 51 Copynumber: 3.1 Consensus size: 49
24409390 GGTACCCATT
* * *
24409400 GTAGCCTTCACTTAGTACTACACATGTAACCGTAGTTTACCGATACACGTA
1 GTAGCCTTCACTCAGTACTACACATGT-ACCATAGTTTA-CGATACAAGTA
* * * * * * * *
24409451 GTAGCATTCACACAGTATTACACACGTGCTCAAAGCTTT-CGGTACAAATA
1 GTAGCCTTCACTCAGTACTACACATGTAC-CATAG-TTTACGATACAAGTA
24409501 GTAGCCTTCACTCAGTACTACACATGTGACCATTA-TTTATCGATACAAGTA
1 GTAGCCTTCACTCAGTACTACACATGT-ACCA-TAGTTTA-CGATACAAGTA
24409552 GTAGCCT
1 GTAGCCT
24409559 CCACACAGCA
Statistics
Matches: 83, Mismatches: 19, Indels: 12
0.73 0.17 0.11
Matches are distributed among these distances:
49 3 0.04
50 34 0.41
51 43 0.52
52 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (49 bp):
GTAGCCTTCACTCAGTACTACACATGTACCATAGTTTACGATACAAGTA
Found at i:24409494 original size:101 final size:102
Alignment explanation
Indices: 24409343--24409566 Score: 283
Period size: 101 Copynumber: 2.2 Consensus size: 102
24409333 TTTAACGGCT
* * ** *
24409343 CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAACCTTTTCGGTACCCATTGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAACCTTTTCGGTACAAATAGTAGCCTT
*
24409408 CACTTAGTACTACACATGTAACC-GTAGTTTACCGATA
66 CACTCAGTACTACACATGTAACCAGTA-TTTACCGATA
* * *
24409445 CACGTAGTAGCATTCACACAGTATTACACACGTG-CTCAAAGC-TTTCGGTACAAATAGTAGCCT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGAC-CAAACCTTTTCGGTACAAATAGTAGCCT
* * *
24409508 TCACTCAGTACTACACATGTGACCATTATTTATCGATA
65 TCACTCAGTACTACACATGTAACCAGTATTTACCGATA
* *
24409546 CAAGTAGTAGCCTCCACACAG
1 CACGTAGTAGCCTTCACACAG
24409567 CACACGTGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
101 68 0.65
102 37 0.35
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAACCTTTTCGGTACAAATAGTAGCCTT
CACTCAGTACTACACATGTAACCAGTATTTACCGATA
Found at i:24409891 original size:29 final size:29
Alignment explanation
Indices: 24409859--24409915 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
24409849 GCTTCGACTC
24409859 AACTTTTATAAAATTACAAT-TTTGTCCCT
1 AACTTTTATAAAATTAC-ATCTTTGTCCCT
* *
24409888 AACTTTTGTATAATTACATCTTTGTCCC
1 AACTTTTATAAAATTACATCTTTGTCCC
24409916 CAAGCTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (29 bp):
AACTTTTATAAAATTACATCTTTGTCCCT
Found at i:24416998 original size:50 final size:49
Alignment explanation
Indices: 24416862--24417248 Score: 314
Period size: 51 Copynumber: 7.7 Consensus size: 49
24416852 TCATTCGATA
* *
24416862 CACGTAGTAGCCTTCACATAATACTACACACGTGATCAGTTTTGCAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
24416911 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
* * *
24416960 CACGTAGTAGCCTTTCACATAGTATTACACACGTGATCAAGTTTTACGGCT
1 CACGTAGTAGCC-TTCACATAGTACTACACACGTGATC-AGTTTTACAGTT
* * ** *
24417011 CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTT-TGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTT
* * * * * * * * *
24417062 CCCATTGTAGCCTTCACTTAGTACTACACATGT-AACCGTAGTTTACCGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT--TTTACAG-TT
* * * * ** *
24417113 CACATAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTTT-TGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTT
* * * * * *
24417164 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATC-GATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT-TTTA-CAG-TT
* *
24417215 CACGTAGTAGCCTCCACAAAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
24417249 TTCATCGACA
Statistics
Matches: 277, Mismatches: 45, Indels: 30
0.79 0.13 0.09
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 66 0.24
50 50 0.18
51 147 0.53
52 6 0.02
53 3 0.01
54 1 0.00
55 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (49 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
Found at i:24417146 original size:102 final size:102
Alignment explanation
Indices: 24416860--24417248 Score: 355
Period size: 102 Copynumber: 3.9 Consensus size: 102
24416850 TATCATTCGA
* * * * * * * * * *
24416860 TACACGTAGTAGCCTTCACATAATACTACACACGTGATCAGT-TTTGCAG-TTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTAACCAGTATTTACCGATACACATAGTAGCC
* * **
24416923 TTCACATAGTACTACACACGTGATC--AG-TTTTACAG
66 TTCACAAAGTACTACACACGTGCTCAAAGCTTTT-TGG
* * * * * * * * * *
24416958 TTCACGTAGTAGCCTTTCACATAGTATTACACACGTGATCAAGT-TTTACGGCT-CACGTAGTAG
1 TACACATAGTAGCC-TTCACTTAGTACTACACATGT-AACCAGTATTTACCGATACACATAGTAG
* *
24417021 CCTTCACATAGTACTACATACGTGAC-CAAAGCTTTTTGG
64 CCTTCACAAAGTACTACACACGTG-CTCAAAGCTTTTTGG
* *
24417060 TACCCATTGTAGCCTTCACTTAGTACTACACATGTAACC-GTAGTTTACCGATACACATAGTAGC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTAACCAGTA-TTTACCGATACACATAGTAGC
* *
24417124 ATTCACACAGTACTACACACGTGCTCAAAGCTTTTTGG
65 CTTCACAAAGTACTACACACGTGCTCAAAGCTTTTTGG
* * * *
24417162 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTAACCAGTATTTACCGATACACATAGTAGCC
*
24417227 TCCACAAAGTACTACACACGTG
66 TTCACAAAGTACTACACACGTG
24417249 TTCATCGACA
Statistics
Matches: 242, Mismatches: 37, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
98 13 0.05
99 21 0.09
100 44 0.18
101 27 0.11
102 131 0.54
103 6 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (102 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTAACCAGTATTTACCGATACACATAGTAGCC
TTCACAAAGTACTACACACGTGCTCAAAGCTTTTTGG
Found at i:24417225 original size:153 final size:150
Alignment explanation
Indices: 24416860--24417247 Score: 376
Period size: 153 Copynumber: 2.6 Consensus size: 150
24416850 TATCATTCGA
* * * *
24416860 TACACGTAGTAGCCTTCACATAATACTACACACGTGATCA-GTTTT-GCAGTTCACGTAGTAGCC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATATTTTCG-A-TACACGTAGTAGCC
* * * * * * *
24416923 TTCACATAGTACTACACACGTGATCAGTTTTACAGTTCACGTAGTAGCCTTTCACATAGTATTAC
64 TTCACATAGTACTACACACGTAACCAGTTTTACAGTACACATAGTAGCCATTCACACAGTACTAC
24416988 ACACGTGATCAAGTTTTACGGC
129 ACACGTGATCAAGTTTTACGGC
* * * * * * *
24417010 T-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTTGGTACCCATTGTAGCC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATA--TTTTCGATACACGTAGTAGCC
* * *
24417074 TTCACTTAGTACTACACATGTAACC-GTAGTTTACCGATACACATAGTAG-CATTCACACAGTAC
64 TTCACATAGTACTACACACGTAACCAGT--TTTACAG-TACACATAGTAGCCATTCACACAGTAC
* *
24417137 TACACACGTGCTCAAAGCTTTT-TGG-
126 TACACACGTGATC-AAG-TTTTACGGC
* * *
24417162 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-TATTT-TCGATACACGTAGTAGCC
* *
24417227 TCCACAAAGTACTACACACGT
64 TTCACATAGTACTACACACGT
24417248 GTTCATCGAC
Statistics
Matches: 191, Mismatches: 35, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
149 35 0.18
150 3 0.02
151 31 0.16
152 37 0.19
153 80 0.42
154 5 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (150 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATATTTTCGATACACGTAGTAGCCTT
CACATAGTACTACACACGTAACCAGTTTTACAGTACACATAGTAGCCATTCACACAGTACTACAC
ACGTGATCAAGTTTTACGGC
Found at i:24417568 original size:30 final size:30
Alignment explanation
Indices: 24417534--24417591 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
24417524 GCTTCGACTC
*
24417534 AACTTTTATAAAATTACA-ATTTTGTCCCTT
1 AACTTTTACAAAATTACATA-TTTGTCCCTT
*
24417564 AACTTTTACATAATTACATATTTGTCCC
1 AACTTTTACAAAATTACATATTTGTCCC
24417592 CAAGCTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.45
Consensus pattern (30 bp):
AACTTTTACAAAATTACATATTTGTCCCTT
Found at i:24442569 original size:39 final size:39
Alignment explanation
Indices: 24442501--24442738 Score: 233
Period size: 39 Copynumber: 6.1 Consensus size: 39
24442491 TGTAATTATT
* * *
24442501 CCCTGATCACACATACGTGCCCTTATTGTACTTCGATAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
* * *
24442540 CCTTGATTACACATACGTGCCACTGTTGTACTTCGGTAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
* *** * * * *
24442579 CCCTAATTGTACATATGTGCCCTTGCTGTACTTTGGTAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
* * *
24442618 CCCTGATCGCACATATGTGCCCCTGTTGTACTTCAGTAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
* * *
24442657 CCCTGATCACACATTCGTGCCCCTATTGTACTTTGGTAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
* ** * * **
24442696 CCCTAATTGCACATTCATGCCCCTGTTGTACTTTAGTAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
24442735 CCCT
1 CCCT
24442739 AATTTTCACT
Statistics
Matches: 165, Mismatches: 34, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 165 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.34
Consensus pattern (39 bp):
CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
Found at i:24442644 original size:78 final size:78
Alignment explanation
Indices: 24442509--24442742 Score: 265
Period size: 78 Copynumber: 3.0 Consensus size: 78
24442499 TTCCCTGATC
* * * * * * *
24442509 ACACATACGTGCCCTTATTGTACTTCGATACCCTTGATTACACATACGTGCCACTGTTGTACTTC
1 ACACATATGTGCCCTTATTGTACTTTGGTACCCCTGATTGCACATATGTGCCCCTGTTGTACTTC
*
24442574 GGTACCCCTAATT
66 AGTACCCCTAATT
** ** *
24442587 GTACATATGTGCCCTTGCTGTACTTTGGTACCCCTGATCGCACATATGTGCCCCTGTTGTACTTC
1 ACACATATGTGCCCTTATTGTACTTTGGTACCCCTGATTGCACATATGTGCCCCTGTTGTACTTC
* *
24442652 AGTACCCCTGATC
66 AGTACCCCTAATT
* * *
24442665 ACACAT-TCGTGCCCCTATTGTACTTTGGTACCCCTAATTGCACAT-TCATGCCCCTGTTGTACT
1 ACACATAT-GTGCCCTTATTGTACTTTGGTACCCCTGATTGCACATAT-GTGCCCCTGTTGTACT
*
24442728 TTAGTACCCCTAATT
64 TCAGTACCCCTAATT
24442743 TTCACTTACG
Statistics
Matches: 128, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
77 2 0.02
78 126 0.98
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (78 bp):
ACACATATGTGCCCTTATTGTACTTTGGTACCCCTGATTGCACATATGTGCCCCTGTTGTACTTC
AGTACCCCTAATT
Found at i:24442661 original size:19 final size:19
Alignment explanation
Indices: 24442637--24442738 Score: 55
Period size: 19 Copynumber: 5.3 Consensus size: 19
24442627 CACATATGTG
24442637 CCCCTGTTGTACTTCAGTA
1 CCCCTGTTGTACTTCAGTA
*** *
24442656 CCCCTGATCACACATTC-GTG
1 CCCCTG-TTGTAC-TTCAGTA
* **
24442676 CCCCTATTGTACTTTGGTA
1 CCCCTGTTGTACTTCAGTA
* * *
24442695 CCCCTAATTGCACATTCA-TG
1 CCCCT-GTTGTAC-TTCAGTA
*
24442715 CCCCTGTTGTACTTTAGTA
1 CCCCTGTTGTACTTCAGTA
24442734 CCCCT
1 CCCCT
24442739 AATTTTCACT
Statistics
Matches: 59, Mismatches: 18, Indels: 12
0.66 0.20 0.13
Matches are distributed among these distances:
18 5 0.08
19 27 0.46
20 22 0.37
21 5 0.08
ACGTcount: A:0.18, C:0.34, G:0.14, T:0.34
Consensus pattern (19 bp):
CCCCTGTTGTACTTCAGTA
Found at i:24442717 original size:117 final size:117
Alignment explanation
Indices: 24442501--24442738 Score: 309
Period size: 117 Copynumber: 2.0 Consensus size: 117
24442491 TGTAATTATT
* * * *
24442501 CCCTGATCACACATACGTGCCCTTATTGTACTTCGATACCCTTGATTACACATACGTGCCACTGT
1 CCCTGATCACACATACGTGCCCCTATTGTACTTCGATACCCCTGATCACACATACGTGCCACTAT
* * * *
24442566 TGTACTTCGGTACCCCTAATTGTACATATGTGCCCTTGCTGTACTTTGGTAC
66 TGTACTTCGGTACCCCTAATTGCACATATATGCCCCTGCTGTACTTTAGTAC
* * * * *
24442618 CCCTGATCGCACATATGTGCCCCTGTTGTACTTC-AGTACCCCTGATCACACATTCGTGCCCCTA
1 CCCTGATCACACATACGTGCCCCTATTGTACTTCGA-TACCCCTGATCACACATACGTGCCACTA
* *
24442682 TTGTACTTTGGTACCCCTAATTGCACAT-TCATGCCCCTGTTGTACTTTAGTAC
65 TTGTACTTCGGTACCCCTAATTGCACATAT-ATGCCCCTGCTGTACTTTAGTAC
24442735 CCCT
1 CCCT
24442739 AATTTTCACT
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
116 2 0.02
117 102 0.98
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.34
Consensus pattern (117 bp):
CCCTGATCACACATACGTGCCCCTATTGTACTTCGATACCCCTGATCACACATACGTGCCACTAT
TGTACTTCGGTACCCCTAATTGCACATATATGCCCCTGCTGTACTTTAGTAC
Found at i:24452899 original size:53 final size:51
Alignment explanation
Indices: 24452768--24452901 Score: 162
Period size: 53 Copynumber: 2.6 Consensus size: 51
24452758 ATGTGTTCTG
* * *
24452768 CATTTAATGAAGTCATGCATTATGTAACTCTAATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCGAATGTTAGTTAAGTTTGCAT
* * * *
24452819 C-CTAAATTATGACATGCATTTATGTAACTCGCATGTTAGTTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCA-TTATGTAACTCGAATGTTAG-TT-AAGTTTGCAT
*
24452872 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
24452902 ATTTGTTCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
50 12 0.18
51 19 0.28
52 2 0.03
53 21 0.31
54 14 0.21
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCGAATGTTAGTTAAGTTTGCAT
Found at i:24455149 original size:18 final size:17
Alignment explanation
Indices: 24455123--24455178 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
24455113 GCCCATGTTG
*
24455123 CATGGCCGTGTGGGCCCA
1 CATGCCCGTGT-GGCCCA
* *
24455141 CATGCCCGTGTGACCTA
1 CATGCCCGTGTGGCCCA
* *
24455158 CACGCCCATGTGGCCCA
1 CATGCCCGTGTGGCCCA
24455175 CATG
1 CATG
24455179 GCCCAAAATG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
17 20 0.67
18 10 0.33
ACGTcount: A:0.16, C:0.38, G:0.29, T:0.18
Consensus pattern (17 bp):
CATGCCCGTGTGGCCCA
Found at i:24462000 original size:54 final size:53
Alignment explanation
Indices: 24461934--24462112 Score: 277
Period size: 54 Copynumber: 3.3 Consensus size: 53
24461924 ACATTAAAAG
* * * *
24461934 TTTAATCCAGCAACTAAGTGAACTAAGTTGAACTTAATTAACTAAGATGAGCAA
1 TTTATTCCAGCAACTAAGT-AACTAAGATGAACTCAATTAACTAAGATGAGTAA
*
24461988 TTTATTCCAGCAACTTAAGTAACTAAGGTGAACTCAATTAACTAAGATGAGTAA
1 TTTATTCCAGCAAC-TAAGTAACTAAGATGAACTCAATTAACTAAGATGAGTAA
*
24462042 TTTATTCCAGCAACTCAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAA
1 TTTATTCCAGCAACT-AAGTAACTAAGATGAACTCAATTAACTAAGATGAGTAA
24462096 TTTATTCCAGCAACTAA
1 TTTATTCCAGCAACTAA
24462113 ATACTTATTC
Statistics
Matches: 117, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
53 3 0.03
54 109 0.93
55 5 0.04
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (53 bp):
TTTATTCCAGCAACTAAGTAACTAAGATGAACTCAATTAACTAAGATGAGTAA
Found at i:24462029 original size:19 final size:19
Alignment explanation
Indices: 24462007--24462091 Score: 79
Period size: 19 Copynumber: 4.6 Consensus size: 19
24461997 GCAACTTAAG
*
24462007 TAACTAAGGTGAACTCAAT
1 TAACTAAGATGAACTCAAT
*
24462026 TAACTAAGATG-AGT-AAT
1 TAACTAAGATGAACTCAAT
* * * *
24462043 TTATTCCAG--CAACTCAAT
1 TAACT-AAGATGAACTCAAT
24462061 TAACTAAGATGAACTCAAT
1 TAACTAAGATGAACTCAAT
24462080 TAACTAAGATGA
1 TAACTAAGATGA
24462092 GTAATTTATT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
17 10 0.20
18 10 0.20
19 30 0.60
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (19 bp):
TAACTAAGATGAACTCAAT
Found at i:24464625 original size:22 final size:22
Alignment explanation
Indices: 24464595--24464650 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 22
24464585 TTGTGGTGTA
*
24464595 GTGGCAAGGTGGCGACACAGGT
1 GTGGTAAGGTGGCGACACAGGT
* *
24464617 GTGGTAAGGAGGTGGCGTCATAGGT
1 GTGGT-A--AGGTGGCGACACAGGT
24464642 GTGGTAAGG
1 GTGGTAAGG
24464651 AGGTCAGAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 7 0.25
23 1 0.04
24 1 0.04
25 19 0.68
ACGTcount: A:0.21, C:0.11, G:0.48, T:0.20
Consensus pattern (22 bp):
GTGGTAAGGTGGCGACACAGGT
Found at i:24464629 original size:25 final size:25
Alignment explanation
Indices: 24464601--24464654 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
24464591 TGTAGTGGCA
24464601 AGGTGGCGACACAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGGTAAGG
* *
24464626 AGGTGGCGTCATAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGGTAAGG
24464651 AGGT
1 AGGT
24464655 CAGAGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.48, T:0.20
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGTAAGG
Found at i:24470060 original size:15 final size:15
Alignment explanation
Indices: 24470040--24470074 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
24470030 TTGAGCTAAG
24470040 ACACAATAATTACCT
1 ACACAATAATTACCT
24470055 ACACAATAATTACCT
1 ACACAATAATTACCT
24470070 ACACA
1 ACACA
24470075 TGTAATAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.23
Consensus pattern (15 bp):
ACACAATAATTACCT
Found at i:24470123 original size:27 final size:27
Alignment explanation
Indices: 24470072--24470130 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
24470062 AATTACCTAC
24470072 ACATGTAATAGACTAAGACAAATTAAAA
1 ACATGTAATAGACTAAGACAAATT-AAA
* * *
24470100 ACATGTACTAG-CTATGACATATTAAA
1 ACATGTAATAGACTAAGACAAATTAAA
24470126 ACATG
1 ACATG
24470131 CATTAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.29
27 10 0.36
28 10 0.36
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (27 bp):
ACATGTAATAGACTAAGACAAATTAAA
Found at i:24471483 original size:52 final size:49
Alignment explanation
Indices: 24471417--24471533 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 49
24471407 ATGAACAAAT
* *
24471417 GAGTTACTTAATGCAAGAC-TTAATTTAATGATGTAGACTTAAACTAACATCG
1 GAGTTACATAATGCAAGACATT-ATTT-ATGATGCAGACTT-AACTAACAT-G
* * * *
24471469 GAGTTACATAATGCATGTCATTATTTATGATGCATACTTAACTAGCATG
1 GAGTTACATAATGCAAGACATTATTTATGATGCAGACTTAACTAACATG
24471518 GAAGTTACATAATGCA
1 G-AGTTACATAATGCA
24471534 TAACTTTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
49 2 0.04
50 22 0.39
51 11 0.19
52 20 0.35
53 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (49 bp):
GAGTTACATAATGCAAGACATTATTTATGATGCAGACTTAACTAACATG
Found at i:24486417 original size:15 final size:15
Alignment explanation
Indices: 24486397--24486433 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
24486387 ACTTACATAA
*
24486397 TTTTTTTCTTTTTTC
1 TTTTTTTCTATTTTC
*
24486412 TTTTTTTGTATTTTC
1 TTTTTTTCTATTTTC
24486427 TTTTTTT
1 TTTTTTT
24486434 TTGTACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.86
Consensus pattern (15 bp):
TTTTTTTCTATTTTC
Found at i:24486425 original size:17 final size:17
Alignment explanation
Indices: 24486404--24486445 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
24486394 TAATTTTTTT
24486404 CTTTTTTCTTTTTTTGTA
1 CTTTTTT-TTTTTTTGTA
24486422 -TTTTCTTTTTTTTTGTA
1 CTTTT-TTTTTTTTTGTA
24486439 CTTTTTT
1 CTTTTTT
24486446 GATCACTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.81
Consensus pattern (17 bp):
CTTTTTTTTTTTTTGTA
Found at i:24489635 original size:48 final size:50
Alignment explanation
Indices: 24489557--24489686 Score: 165
Period size: 49 Copynumber: 2.6 Consensus size: 50
24489547 TATTGAGGTT
* *
24489557 ATGAGAGGTCCCACGTAAGACTATGTCTGGGACA-AGCATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCGAG
* * *
24489606 ATGAGAGGTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACTGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCGAG
** * *
24489655 ATGAGAACTCCCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGA
24489687 TATGGCATTG
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
48 20 0.29
49 33 0.47
50 17 0.24
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCGAG
Found at i:24489735 original size:49 final size:50
Alignment explanation
Indices: 24489620--24489741 Score: 149
Period size: 49 Copynumber: 2.5 Consensus size: 50
24489610 GAGGTCCCCG
* * *
24489620 TAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATGGGCACTGACACGAGAACTCCCATA
* * * *
24489670 TAAGACCATATCTGGGATATGGCATTGGCAGT-ACACGA-AACATCCCATA
1 TAAGACCATGTCTGGGACATGGCATGGGCACTGACACGAGAAC-TCCCATA
*
24489719 TAAGACCATGTTTGGGACATGGC
1 TAAGACCATGTCTGGGACATGGC
24489742 TTTTGCATGT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.05
49 30 0.49
50 28 0.46
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATGGGCACTGACACGAGAACTCCCATA
Found at i:24489976 original size:20 final size:20
Alignment explanation
Indices: 24489951--24489989 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
24489941 TGATTTATTT
24489951 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
24489971 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
24489990 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:24496388 original size:16 final size:15
Alignment explanation
Indices: 24496340--24496394 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
24496330 ATAAAAAAAG
24496340 ATTATAA-T-TATTA
1 ATTATAATTATATTA
**
24496353 ATATATAATTATATCC
1 AT-TATAATTATATTA
24496369 ATTATAATATATATTA
1 ATTATAAT-TATATTA
*
24496385 ATTATTATTA
1 ATTATAATTA
24496395 GCTTTATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
13 2 0.06
14 5 0.15
15 9 0.27
16 17 0.52
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTATAATTATATTA
Found at i:24502117 original size:41 final size:40
Alignment explanation
Indices: 24502058--24502339 Score: 249
Period size: 41 Copynumber: 6.8 Consensus size: 40
24502048 GGATCCCGGT
* * * *
24502058 GGAATCAGCACTTGGCAACCACCTTATAATCAATGATACAG
1 GGAATCAGCACATAGCAACC-CCTTACAATCAATGATACGG
* * *
24502099 GGAAACAGCACATAGCAACCCCTTTCACAATCAAGGATATGG
1 GGAATCAGCACATAGCAACCCC-TT-ACAATCAATGATACGG
* * * *
24502141 TGGAATCAACACTTAGCAGCCACCTTACAATCAATGGTACGG
1 -GGAATCAGCACATAGCAACC-CCTTACAATCAATGATACGG
*
24502183 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACATAGCAACCCC-TT-ACAATCAATGATACGG
* * * *
24502225 TGGAATCAGCACTTAGCAACCACCTTATAGTAAATGATACGG
1 -GGAATCAGCACATAGCAACC-CCTTACAATCAATGATACGG
* ** * *
24502267 GGAATCAGAACATAGCAACCCCTTATTGATCAATGATTCGA
1 GGAATCAGCACATAGCAACCCCTTA-CAATCAATGATACGG
* * * *
24502308 GGAATCTGTACTTAGCAACCCCTTACATTCAA
1 GGAATCAGCACATAGCAACCCCTTACAATCAA
24502340 AGAATCCCAG
Statistics
Matches: 195, Mismatches: 37, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
40 13 0.07
41 88 0.45
42 51 0.26
43 39 0.20
44 4 0.02
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (40 bp):
GGAATCAGCACATAGCAACCCCTTACAATCAATGATACGG
Found at i:24502164 original size:84 final size:84
Alignment explanation
Indices: 24502009--24502290 Score: 377
Period size: 84 Copynumber: 3.3 Consensus size: 84
24501999 TAACCGTTAC
* * *** * *
24502009 ACGGTGGAATCAGCACTTAGCAACCAC-TTCATGTTCAAAGGATCCCGGTGGAATCAGCACTTGG
1 ACGG-GGAATCAGCACATAGCAACCCCTTTCACAATC-AAGGAT-ACGGTGGAATCAGCACTTAG
24502073 CAACCACCTTATAATCAATGAT
63 CAACCACCTTATAATCAATGAT
* * * * *
24502095 ACAGGGAAACAGCACATAGCAACCCCTTTCACAATCAAGGATATGGTGGAATCAACACTTAGCAG
1 ACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAGCACTTAGCAA
* *
24502160 CCACCTTACAATCAATGGT
66 CCACCTTATAATCAATGAT
24502179 ACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAGCACTTAGCAA
1 ACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAGCACTTAGCAA
* *
24502244 CCACCTTATAGTAAATGAT
66 CCACCTTATAATCAATGAT
*
24502263 ACGGGGAATCAGAACATAGCAACCCCTT
1 ACGGGGAATCAGCACATAGCAACCCCTT
24502291 ATTGATCAAT
Statistics
Matches: 171, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
84 137 0.80
85 25 0.15
86 9 0.05
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (84 bp):
ACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAGCACTTAGCAA
CCACCTTATAATCAATGAT
Found at i:24503769 original size:3 final size:3
Alignment explanation
Indices: 24503761--24503813 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
24503751 ACTATTTTCT
* * * * * *
24503761 TTA TTA TTA TTG TTA TTA TTA TTA ATG TTA CTA TAA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24503809 TTA TT
1 TTA TT
24503814 TGTATTAGTT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:24510608 original size:44 final size:44
Alignment explanation
Indices: 24510560--24510786 Score: 129
Period size: 44 Copynumber: 5.2 Consensus size: 44
24510550 AGACACCAGC
*
24510560 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAACATACCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATACCAGAT
* *** * * * ** * *
24510604 CTTGCCTTCCTAC-ACCGATAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCT-CGGTTG-TAGTGGAGCAGGTTAAAGATACCAGAT
*
24510648 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATACCAGAT
* ** * * * * * ** * *
24510692 CTTGCCTTCCTAC-AATGACAGCGAAGTAGATCGAAGACACCAG-C
1 CTTGCCTCCCT-CGGTTG-TAGTGGAGCAGGTTAAAGATACCAGAT
* * * *
24510736 CTTGCCTCCCTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATACCAGAT
24510780 CTTGCCT
1 CTTGCCT
24510787 TCCAGCATCG
Statistics
Matches: 128, Mismatches: 47, Indels: 16
0.67 0.25 0.08
Matches are distributed among these distances:
43 39 0.30
44 53 0.41
45 36 0.28
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (44 bp):
CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATACCAGAT
Found at i:24510818 original size:45 final size:44
Alignment explanation
Indices: 24510680--24510904 Score: 118
Period size: 45 Copynumber: 5.1 Consensus size: 44
24510670 GAGCAGGTTA
* *
24510680 AAGATAGCAGATCTTGCCTTCCTACAAT-GACAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGCCTTCC-A-GATCGACAGCGAAGCAGATCG
* * * * * * * * * * * *
24510725 AAGACACCAG-CCTTGCCTCCCTCGGTTG-CAGTGGAGTAGGTTG
1 AAGATAGCAGATCTTGCCTTCC-AGATCGACAGCGAAGCAGATCG
24510768 AAGATAGCAGATCTTGCCTTCCAGCATCGACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCAG-ATCGACAGCGAAGCAGATCG
* * * * * * * * **
24510813 AAGATACCAG-CCTTGCCTCCCTGAGT-TACAGTGGAGCAGGTTA
1 AAGATAGCAGATCTTGCCTTCCAGA-TCGACAGCGAAGCAGATCG
* * *
24510856 AAGATAGCAGATCTTACCTTCCTATACCGACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCC-AGATCGACAGCGAAGCAGATCG
24510901 AAGA
1 AAGA
24510905 CACCAGCCTT
Statistics
Matches: 126, Mismatches: 46, Indels: 16
0.67 0.24 0.09
Matches are distributed among these distances:
43 42 0.33
44 41 0.33
45 43 0.34
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.21
Consensus pattern (44 bp):
AAGATAGCAGATCTTGCCTTCCAGATCGACAGCGAAGCAGATCG
Found at i:24510828 original size:44 final size:43
Alignment explanation
Indices: 24510708--24510918 Score: 111
Period size: 43 Copynumber: 4.8 Consensus size: 43
24510698 TTCCTACAAT
* * * * * *
24510708 GACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTCGGTT
1 GACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTTCC-AGATC
* * * * * * *
24510752 G-CAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCAGCATC
1 GACAGCGAAGCAGATCGAAGATACCAG-CCTTGCCTTCCAG-ATC
* *
24510796 GACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGAGT-
1 GACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTTCCAGA-TC
* * * * ** * * * * *
24510839 TACAGTGGAGCAGGTTAAAGATAGCAGATCTTACCTTCCTATACC
1 GACAGCGAAGCAGATCGAAGATACCAG-CCTTGCCTTCC-AGATC
*
24510884 GACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 GACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
24510919 CCCTGGGTTG
Statistics
Matches: 117, Mismatches: 43, Indels: 14
0.67 0.25 0.08
Matches are distributed among these distances:
43 41 0.35
44 37 0.32
45 39 0.33
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (43 bp):
GACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTTCCAGATC
Found at i:24511001 original size:264 final size:264
Alignment explanation
Indices: 24510502--24511036 Score: 727
Period size: 264 Copynumber: 2.0 Consensus size: 264
24510492 AACAAATCAG
* * *
24510502 TGAAGATAGTATATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCAGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
** * *
24510567 CCCTCGGTTGTAGTGGAGCAGGTTAAACATACCAGATCTTGCCTTCCTACACCGATAGCGAAGCA
66 CCCTCGGTTACAGTGGAGCAGGTTAAACATACCAGATCTTACCTTCCTACACCGACAGCGAAGCA
* * *
24510632 GATCGAAGACACCAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATAGCAGATCTTGC
131 GATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGCGGAGCAAGTTAAAGATAGCAGATCTTGC
* * * *** *
24510697 CTTCCTACAATGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTCG-GTTGCAGTGGAG
196 CTTCCTACAATGACAGCGAAGCAGAGCAAAGACACCAGCCTTGCCTCCCT-GACCAGCAGTGGAA
24510761 TAGGT
260 TAGGT
* * *
24510766 TGAAGATAGCAGATCTTGCCTTCCAGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCAGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
24510831 CCCT-GAGTTACAGTGGAGCAGGTTAAAGATAGCAGATCTTACCTTCCTATACCGACAGCGAAGC
66 CCCTCG-GTTACAGTGGAGCAGGTTAAACATACCAGATCTTACCTTCCTACACCGACAGCGAAGC
*
24510895 AGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAAGTTGAAA-ATAAG-AGATCT
130 AGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGCGGAGCAAGTT-AAAGAT-AGCAGATCT
** * * * * *
24510958 TGCCTTCCTGTATTGACGGTGAAGCAGAGCAAAGACCCCAGCCTTGTCTCCCTGACCAGCAGTGG
193 TGCCTTCCTACAATGACAGCGAAGCAGAGCAAAGACACCAGCCTTGCCTCCCTGACCAGCAGTGG
24511023 AATAGGT
258 AATAGGT
24511030 TGAAGAT
1 TGAAGAT
24511037 TGTAAGCCCT
Statistics
Matches: 236, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
263 2 0.01
264 229 0.97
265 5 0.02
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (264 bp):
TGAAGATAGCAGATCTTGCCTTCCAGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTCGGTTACAGTGGAGCAGGTTAAACATACCAGATCTTACCTTCCTACACCGACAGCGAAGCA
GATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGCGGAGCAAGTTAAAGATAGCAGATCTTGC
CTTCCTACAATGACAGCGAAGCAGAGCAAAGACACCAGCCTTGCCTCCCTGACCAGCAGTGGAAT
AGGT
Found at i:24511011 original size:88 final size:88
Alignment explanation
Indices: 24510504--24510966 Score: 664
Period size: 88 Copynumber: 5.3 Consensus size: 88
24510494 CAAATCAGTG
* * * *
24510504 AAGATAGTATATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
*
24510569 CTCGGTTGTAGTGGAGCAGGTTA
66 CTCGGTTGCAGTGGAGCAGGTTA
* * *
24510592 AACATACCAGATCTTGCCTTCCTACACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
*
24510657 CTCGGTTGTAGTGGAGCAGGTTA
66 CTCGGTTGCAGTGGAGCAGGTTA
** *
24510680 AAGATAGCAGATCTTGCCTTCCTACAATGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* *
24510745 CTCGGTTGCAGTGGAGTAGGTTG
66 CTCGGTTGCAGTGGAGCAGGTTA
* *
24510768 AAGATAGCAGATCTTGCCTTCC-AGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTC
1 AAGATAGCAGATCTTGCCTTCCTA-CACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
*
24510832 CCT-GAGTTACAGTGGAGCAGGTTA
65 CCTCG-GTTGCAGTGGAGCAGGTTA
* *
24510856 AAGATAGCAGATCTTACCTTCCTATACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * *
24510921 CTGGGTTGCAGCGGAGCAAGTTGA
66 CTCGGTTGCAGTGGAGCAGGTT-A
24510945 AA-ATAAG-AGATCTTGCCTTCCT
1 AAGAT-AGCAGATCTTGCCTTCCT
24510967 GTATTGACGG
Statistics
Matches: 338, Mismatches: 31, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
87 2 0.01
88 329 0.97
89 7 0.02
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (88 bp):
AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
CTCGGTTGCAGTGGAGCAGGTTA
Found at i:24511023 original size:176 final size:176
Alignment explanation
Indices: 24510504--24511023 Score: 661
Period size: 176 Copynumber: 3.0 Consensus size: 176
24510494 CAAATCAGTG
* * * *
24510504 AAGATAGTATATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* ** * * *
24510569 CTCGGTTGTAGTGGAGCAGGTT-AAACATACCAGATCTTGCCTTCCTACACCGATAGCGAAGCAG
66 CTCGGTTGCAGTGGAGCAGGTTGAAA-ATAAGAGATCTTGCCTTCCTGCATCGACAGCGAAGCAG
* * *
24510633 ATCGAAGACACCAGCCTTGCCTCCCTCG-GTTGTAGTGGAGCAGGTTA
130 ATCGAAGACACCAGCCTTGCCTCCCT-GACTAGCAGTGGAGCAGGTTA
** *
24510680 AAGATAGCAGATCTTGCCTTCCTACAATGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * *
24510745 CTCGGTTGCAGTGGAGTAGGTTGAAGAT-AGCAGATCTTGCCTTCCAGCATCGACAGCGAAGCAG
66 CTCGGTTGCAGTGGAGCAGGTTGAAAATAAG-AGATCTTGCCTTCCTGCATCGACAGCGAAGCAG
* *
24510809 ATCGAAGATACCAGCCTTGCCTCCCTGAGTTA-CAGTGGAGCAGGTTA
130 ATCGAAGACACCAGCCTTGCCTCCCTGA-CTAGCAGTGGAGCAGGTTA
* *
24510856 AAGATAGCAGATCTTACCTTCCTATACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * * * * * *
24510921 CTGGGTTGCAGCGGAGCAAGTTGAAAATAAGAGATCTTGCCTTCCTGTATTGACGGTGAAGCAGA
66 CTCGGTTGCAGTGGAGCAGGTTGAAAATAAGAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGA
* * * * *
24510986 GCAAAGACCCCAGCCTTGTCTCCCTGACCAGCAGTGGA
131 TCGAAGACACCAGCCTTGCCTCCCTGACTAGCAGTGGA
24511024 ATAGGTTGAA
Statistics
Matches: 296, Mismatches: 42, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
175 2 0.01
176 289 0.98
177 5 0.02
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.21
Consensus pattern (176 bp):
AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
CTCGGTTGCAGTGGAGCAGGTTGAAAATAAGAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGA
TCGAAGACACCAGCCTTGCCTCCCTGACTAGCAGTGGAGCAGGTTA
Found at i:24511032 original size:88 final size:88
Alignment explanation
Indices: 24510514--24511033 Score: 509
Period size: 88 Copynumber: 5.9 Consensus size: 88
24510504 AAGATAGTAT
* * * * * *
24510514 ATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTCG-GTTGT
1 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GACTAGC
*
24510578 AGTGGAGCAGGTT-AAACATACCAG
65 AGTGGAGCAGGTTGAAA-ATAGCAG
** * * * * *
24510602 ATCTTGCCTTCCTACACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTCG-GTTGT
1 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GACTAGC
24510666 AGTGGAGCAGGTT-AAAGATAGCAG
65 AGTGGAGCAGGTTGAAA-ATAGCAG
** * * *
24510690 ATCTTGCCTTCCTACAAT-GACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTCG-GTTG
1 ATCTTGCCTTCCT-GTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GACTAG
* *
24510753 CAGTGGAGTAGGTTGAAGATAGCAG
64 CAGTGGAGCAGGTTGAAAATAGCAG
* * * *
24510778 ATCTTGCCTTCCAGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGAGTTA-C
1 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGA-CTAGC
24510842 AGTGGAGCAGGTT-AAAGATAGCAG
65 AGTGGAGCAGGTTGAAA-ATAGCAG
* * * ** *
24510866 ATCTTACCTTCCTATACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
1 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGACTAGCA
* *
24510931 GCGGAGCAAGTTGAAAATAAG-AG
66 GTGGAGCAGGTTGAAAAT-AGCAG
* * * * * * * *
24510954 ATCTTGCCTTCCTGTATTGACGGTGAAGCAGAGCAAAGACCCCAGCCTTGTCTCCCTGACCAGCA
1 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGACTAGCA
**
24511019 GTGGAATAGGTTGAA
66 GTGGAGCAGGTTGAA
24511034 GATTGTAAGC
Statistics
Matches: 372, Mismatches: 51, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
87 6 0.02
88 357 0.96
89 9 0.02
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (88 bp):
ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGACTAGCA
GTGGAGCAGGTTGAAAATAGCAG
Found at i:24511070 original size:44 final size:44
Alignment explanation
Indices: 24511004--24511378 Score: 494
Period size: 44 Copynumber: 8.7 Consensus size: 44
24510994 CCCAGCCTTG
*
24511004 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGCCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* *
24511048 TCTCCCTGACCAACAGTTGAATAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* *
24511092 GCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* * *
24511136 TCTACCTAACCAACAGTGGAATAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* *
24511180 TCTCCCTGACTAGCAATGGAATAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
***
24511224 TCTCCCTGACCAGCAGCAAAATAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* * *
24511268 TCTCCCTGACCAACAGTGGAATAGG-T--CGA----AAGTCATA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
** * * *
24511305 TCTCTTTGACCAACAGTGAAATAGGTTGAAGATTGCAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* *
24511349 TCTCCCTGACCAGTAGTTGAATAGGTTGAA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAA
24511379 AATTACAAAT
Statistics
Matches: 285, Mismatches: 39, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
37 29 0.10
38 1 0.00
40 2 0.01
41 2 0.01
43 1 0.00
44 250 0.88
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
Found at i:24511315 original size:37 final size:37
Alignment explanation
Indices: 24511260--24511330 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
24511250 TGAAGATTGT
* *
24511260 AAGTCCTATCTCCCTGACCAACAGTGGAATAGGTCGA
1 AAGTCATATCTCCCTGACCAACAGTGAAATAGGTCGA
**
24511297 AAGTCATATCTCTTTGACCAACAGTGAAATAGGT
1 AAGTCATATCTCCCTGACCAACAGTGAAATAGGT
24511331 TGAAGATTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (37 bp):
AAGTCATATCTCCCTGACCAACAGTGAAATAGGTCGA
Found at i:24513032 original size:3 final size:3
Alignment explanation
Indices: 24513024--24513076 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
24513014 ACTATTTTCT
* * * * * *
24513024 TTA TTA TTA TTG TTA TTA TTA TTA ATG TTA CTA TAA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24513072 TTA TT
1 TTA TT
24513077 TGTATTAGTT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:24513475 original size:22 final size:22
Alignment explanation
Indices: 24513450--24513491 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24513440 TCAAATTTTC
* *
24513450 ATTTATTTATTATTTATTTTAA
1 ATTTATATATAATTTATTTTAA
*
24513472 ATTTATATATAATTTCTTTT
1 ATTTATATATAATTTATTTT
24513492 CTTTCATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTATATATAATTTATTTTAA
Found at i:24515477 original size:11 final size:11
Alignment explanation
Indices: 24515461--24515499 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
24515451 TTTTACACTA
24515461 AATGAGCTACG
1 AATGAGCTACG
24515472 AATGAGCTA--
1 AATGAGCTACG
*
24515481 AGTGAGCTACG
1 AATGAGCTACG
24515492 AATGAGCT
1 AATGAGCT
24515500 CGTTGAGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (11 bp):
AATGAGCTACG
Found at i:24515509 original size:20 final size:20
Alignment explanation
Indices: 24515458--24515499 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
24515448 GGCTTTTACA
*
24515458 CTAAATGAGCTACGAATGAG
1 CTAAGTGAGCTACGAATGAG
24515478 CTAAGTGAGCTACGAATGAG
1 CTAAGTGAGCTACGAATGAG
24515498 CT
1 CT
24515500 CGTTGAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (20 bp):
CTAAGTGAGCTACGAATGAG
Found at i:24518463 original size:15 final size:15
Alignment explanation
Indices: 24518439--24518470 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24518429 GCTCTTTTTC
*
24518439 TTCACTCATTTTATT
1 TTCACACATTTTATT
24518454 TTCACACATTTTATT
1 TTCACACATTTTATT
24518469 TT
1 TT
24518471 TTTCTCTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (15 bp):
TTCACACATTTTATT
Found at i:24529672 original size:100 final size:100
Alignment explanation
Indices: 24529541--24529745 Score: 268
Period size: 100 Copynumber: 2.0 Consensus size: 100
24529531 ACAGTGGAGT
* * *
24529541 AGATTGAAGCTGCAACGACAAATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATTGAAGTTACGA
1 AGATTGAAGCTGCAACGACAAATCTTACTTCCCTGGCGGTATAGTGGAACAGATTGAAGCTACGA
*
24529606 CGGCCAATCTTGTTTCCCCGACATTGCAATTAAAA
66 CGGCCAATCTTGTTTCCCCGACATTCCAATTAAAA
* * * * *
24529641 AGATTGAAGGC-GCAACGTCGAATCTTCCTTCCTTGGCGGTATAGTGGAATAGATTGAAGCTACG
1 AGATTGAA-GCTGCAACGACAAATCTTACTTCCCTGGCGGTATAGTGGAACAGATTGAAGCTACG
* ** * *
24529705 ATGGTGAATCTTGTTTCCCCGACATTCCAGTTAAAC
65 ACGGCCAATCTTGTTTCCCCGACATTCCAATTAAAA
24529741 AGATT
1 AGATT
24529746 AAAGATATTA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 88 0.98
101 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (100 bp):
AGATTGAAGCTGCAACGACAAATCTTACTTCCCTGGCGGTATAGTGGAACAGATTGAAGCTACGA
CGGCCAATCTTGTTTCCCCGACATTCCAATTAAAA
Found at i:24529864 original size:45 final size:44
Alignment explanation
Indices: 24529758--24530088 Score: 185
Period size: 44 Copynumber: 7.6 Consensus size: 44
24529748 AGATATTAGG
* * * *
24529758 TCTTATCTCCCTGAGGTTGGAGTGGAGCAGACTGAATAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAAA
* * * * *
24529802 CCTTATC-CCCTTGAAGTTGTAGTGGGGGAGACTGAAGATGACAAA
1 TCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTGAAGA-AACAAA
** **
24529847 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTTAG-GCCATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACA-AA
* * * * * ** *
24529890 TCCTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGTGATAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAAA
* * * * * * * *
24529934 TCTTATCTCTCTGAAATTGCAG-AGAGCAGA-T-CA-CATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAAA
* * * *
24529974 TTTTATCTCCTTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA-CAAA
* * * *
24530019 TCTTA-CCCCCTGAAATTGCAGTGGGGCAGACT-ACATAAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-AGAAACAAA
* * * *
24530062 TCCTGTCTCCCTTAAGTTGTAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
24530089 TGGATTAGAG
Statistics
Matches: 216, Mismatches: 58, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
40 19 0.09
41 8 0.04
42 5 0.02
43 47 0.22
44 98 0.45
45 36 0.17
46 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAAA
Found at i:24531738 original size:31 final size:31
Alignment explanation
Indices: 24531700--24531762 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
24531690 AAATGATGTA
* *
24531700 ATTATTATTTTTACTCTT-ATAATTTATATAT
1 ATTATTATTATTA-TCTTCATAATCTATATAT
*
24531731 ATTATTATTATTATTTTCATAATCTATATAT
1 ATTATTATTATTATCTTCATAATCTATATAT
24531762 A
1 A
24531763 CACGTGCACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTATTATTATTATCTTCATAATCTATATAT
Found at i:24540224 original size:14 final size:14
Alignment explanation
Indices: 24540205--24540259 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
24540195 GACATAAAAT
24540205 AAACCTCACAGCAA
1 AAACCTCACAGCAA
**
24540219 AAACCTCACGATTAAAA
1 AAACCTCAC-A--GCAA
24540236 TAAACCTCACAGCAA
1 -AAACCTCACAGCAA
24540251 AAACCTCAC
1 AAACCTCAC
24540260 GATTCTCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.55
15 3 0.09
17 3 0.09
18 9 0.27
ACGTcount: A:0.49, C:0.33, G:0.05, T:0.13
Consensus pattern (14 bp):
AAACCTCACAGCAA
Found at i:24540240 original size:32 final size:32
Alignment explanation
Indices: 24540199--24540263 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
24540189 TTTTGAGACA
24540199 TAAAATAAACCTCACAGCAAAAACCTCACGAT
1 TAAAATAAACCTCACAGCAAAAACCTCACGAT
24540231 TAAAATAAACCTCACAGCAAAAACCTCACGAT
1 TAAAATAAACCTCACAGCAAAAACCTCACGAT
24540263 T
1 T
24540264 CTCTCAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.28, G:0.06, T:0.17
Consensus pattern (32 bp):
TAAAATAAACCTCACAGCAAAAACCTCACGAT
Found at i:24543949 original size:20 final size:20
Alignment explanation
Indices: 24543897--24543938 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
24543887 TAAATACAAA
* *
24543897 CTAAATGAGCTAGGAATGAG
1 CTAAGTGAGCTAGGAACGAG
24543917 CTAAGTGAGCTAGGAACGAG
1 CTAAGTGAGCTAGGAACGAG
24543937 CT
1 CT
24543939 CGTTGAGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.19
Consensus pattern (20 bp):
CTAAGTGAGCTAGGAACGAG
Found at i:24545550 original size:19 final size:19
Alignment explanation
Indices: 24545523--24545615 Score: 63
Period size: 19 Copynumber: 5.1 Consensus size: 19
24545513 TTATTCTAGC
*
24545523 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
24545542 AACTTAATTGACTAAGATGAG
1 AACTTAATTAACTAAGAT--G
* *
24545563 TAACTT-ATT--CCAACA-G
1 -AACTTAATTAACTAAGATG
24545579 --CTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
* *
24545596 AACTCAGTTAACTAAGATG
1 AACTTAATTAACTAAGATG
24545615 A
1 A
24545616 GTAATTTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
13 3 0.05
14 3 0.05
16 5 0.09
17 1 0.02
19 36 0.63
21 4 0.07
22 5 0.09
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:24547368 original size:11 final size:11
Alignment explanation
Indices: 24547352--24547389 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
24547342 CTCCCGAAAT
24547352 AAAAAAATTCA
1 AAAAAAATTCA
24547363 AAAAAAATT-A
1 AAAAAAATTCA
*
24547373 AAAAAAGTTCA
1 AAAAAAATTCA
24547384 AAAAAA
1 AAAAAA
24547390 TATTAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:24547378 original size:21 final size:22
Alignment explanation
Indices: 24547352--24547396 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
24547342 CTCCCGAAAT
24547352 AAAAAAATTCAAAAAAA-ATTA
1 AAAAAAATTCAAAAAAATATTA
*
24547373 AAAAAAGTTCAAAAAAATATTA
1 AAAAAAATTCAAAAAAATATTA
24547395 AA
1 AA
24547397 TTAAAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAAAAATTCAAAAAAATATTA
Found at i:24548765 original size:21 final size:21
Alignment explanation
Indices: 24548714--24548766 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
24548704 AATGATTATC
***
24548714 GAAAAAGAAAGAGTGGAAAAA
1 GAAAAAGAAAGAAAAGAAAAA
**
24548735 GAAATTGAAAGAAAAGAAAAA
1 GAAAAAGAAAGAAAAGAAAAA
24548756 GAAAAAGAAAG
1 GAAAAAGAAAG
24548767 TGGAAAAGAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.06
Consensus pattern (21 bp):
GAAAAAGAAAGAAAAGAAAAA
Found at i:24548791 original size:17 final size:15
Alignment explanation
Indices: 24548759--24548816 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
24548749 AGAAAAAGAA
*
24548759 AAAGAAAGTGGAAAAG
1 AAAGAGAGT-GAAAAG
24548775 AAAGAGAGCCTGAAAAG
1 AAAGAGAG--TGAAAAG
**
24548792 AAATCGAGTGAAAAAG
1 AAAGAGAGTG-AAAAG
24548808 AAAGAGAGT
1 AAAGAGAGT
24548817 TTGAAAAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 2 0.06
16 19 0.56
17 12 0.35
18 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.29, T:0.09
Consensus pattern (15 bp):
AAAGAGAGTGAAAAG
Found at i:24548807 original size:33 final size:33
Alignment explanation
Indices: 24548765--24548836 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
24548755 AGAAAAAGAA
*
24548765 AGTGGAAAAGAAAGAGAGCCTG-AAAAGAAATCG
1 AGTGAAAAAGAAAGAGAGCCTGAAAAAGAAA-CG
**
24548798 AGTGAAAAAGAAAGAGAGTTTGAAAAAGAAACG
1 AGTGAAAAAGAAAGAGAGCCTGAAAAAGAAACG
24548831 AGTGAA
1 AGTGAA
24548837 GAGAGTAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 27 0.77
34 8 0.23
ACGTcount: A:0.54, C:0.06, G:0.29, T:0.11
Consensus pattern (33 bp):
AGTGAAAAAGAAAGAGAGCCTGAAAAAGAAACG
Found at i:24548808 original size:16 final size:15
Alignment explanation
Indices: 24548787--24548836 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
24548777 AGAGAGCCTG
24548787 AAAAGAAATCGAGTGA
1 AAAAGAAA-CGAGTGA
*
24548803 AAAAGAAAGAGAGTTTGA
1 AAAAGAAA-CGAG--TGA
24548821 AAAAGAAACGAGTGA
1 AAAAGAAACGAGTGA
24548836 A
1 A
24548837 GAGAGTAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 3 0.10
18 11 0.38
ACGTcount: A:0.58, C:0.04, G:0.26, T:0.12
Consensus pattern (15 bp):
AAAAGAAACGAGTGA
Found at i:24554584 original size:19 final size:19
Alignment explanation
Indices: 24554557--24554595 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
24554547 TTATTCCAAC
*
24554557 AACTAAATTAGCTAAGATG
1 AACTAAATTAACTAAGATG
* *
24554576 AACTTAATTAACTAATATG
1 AACTAAATTAACTAAGATG
24554595 A
1 A
24554596 GTAATTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:24554609 original size:54 final size:54
Alignment explanation
Indices: 24554547--24554672 Score: 189
Period size: 54 Copynumber: 2.3 Consensus size: 54
24554537 CAATAATAAA
* * * *
24554547 TTATTCCAACAACTAAATTAGCTAAGATGAACTTAATTAACTAATATGAGTAAT
1 TTATTCCAATAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
* *
24554601 TTATTCCAATAGCTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAATAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
*
24554655 TTATTCCAGTAACTAAAT
1 TTATTCCAATAACTAAAT
24554673 ACTTATTCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (54 bp):
TTATTCCAATAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:24558526 original size:13 final size:12
Alignment explanation
Indices: 24558490--24558525 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
24558480 AAAATTATAG
24558490 AAAAAATAAAAT
1 AAAAAATAAAAT
*
24558502 ATGAAAATAAAAT
1 A-AAAAATAAAAT
24558515 AAAAAATAAAA
1 AAAAAATAAAA
24558526 AAATATTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:24558526 original size:18 final size:18
Alignment explanation
Indices: 24558492--24558526 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24558482 AATTATAGAA
* *
24558492 AAAATAAAATATGAAAAT
1 AAAATAAAAAATAAAAAT
24558510 AAAATAAAAAATAAAAA
1 AAAATAAAAAATAAAAA
24558527 AATATTCTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATAAAAAATAAAAAT
Found at i:24567786 original size:22 final size:22
Alignment explanation
Indices: 24567758--24567808 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
24567748 AATGTTATTA
24567758 TCTCATGGCTAACGTACTAAGC
1 TCTCATGGCTAACGTACTAAGC
** *
24567780 TCTCATGTTTCACGTACTAAGC
1 TCTCATGGCTAACGTACTAAGC
24567802 TCTCATG
1 TCTCATG
24567809 TTTGAACAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (22 bp):
TCTCATGGCTAACGTACTAAGC
Found at i:24567809 original size:22 final size:22
Alignment explanation
Indices: 24567769--24567811 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
24567759 CTCATGGCTA
24567769 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
24567791 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
24567812 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:24567921 original size:29 final size:29
Alignment explanation
Indices: 24567871--24568135 Score: 148
Period size: 30 Copynumber: 8.9 Consensus size: 29
24567861 AGCTTCGGTT
*
24567871 ATCGAATTATGAAAAAGGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
24567901 ATC-AATAATGAAAAGGGATGGTGACGACC
1 ATCGAAT-ATGAAAAGGGATGGTGACGACC
* * *
24567930 ATCGGAATATGAAAAGGGATAGCT-CCGACT
1 ATC-GAATATGAAAAGGGAT-GGTGACGACC
* * * *
24567960 ATTGAAATATGAAAAGGGTTATCGT--CGGCT
1 ATCG-AATATGAAAAGGG--ATGGTGACGACC
* *
24567990 ATCGAATTATGAAAAAGCATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
* * * *
24568020 ATCAAATTATGAAAAGGGATAGCT-TC-AGCT
1 ATCGAA-TATGAAAAGGGAT-GGTGACGA-CC
* * **
24568050 ATCGAATAATGAAAAGGGAAGGTGACAATG
1 ATCGAAT-ATGAAAAGGGATGGTGACGACC
* * * *
24568080 ATCAAATTATGAAAAGGGATAGCT-TCGACT
1 ATCGAA-TATGAAAAGGGAT-GGTGACGACC
24568110 ATCGAACTATGAAAAGGGATGGTGAC
1 ATCGAA-TATGAAAAGGGATGGTGAC
24568136 AAGCATTGTG
Statistics
Matches: 180, Mismatches: 37, Indels: 36
0.71 0.15 0.14
Matches are distributed among these distances:
28 5 0.03
29 35 0.19
30 126 0.70
31 12 0.07
32 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.22
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:24568031 original size:60 final size:60
Alignment explanation
Indices: 24567845--24568135 Score: 286
Period size: 60 Copynumber: 4.9 Consensus size: 60
24567835 AGCAACTTCG
* * *
24567845 AATTATGAAAATGGATAGCTTCGGTTATCGAATTATGAAAAAGGATGGTGACGACCATC-
1 AATTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCA
* * * * * * * * *
24567904 AATAATGAAAAGGGAT-GGTGACGACCATCGGAA-TATGAAAAGGGATAGCT-CCGACTATTGA
1 AATTATGAAAAGGGATAGCT-TCGGCTATC-GAATTATGAAAAGGGAT-GGTGACGACCA-TCA
* * * * *
24567965 AA-TATGAAAAGGGTTATCGTCGGCTATCGAATTATGAAAAAGCATGGTGACGACCATCA
1 AATTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCA
* * * * **
24568024 AATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGAAGGTGACAATGATCA
1 AATTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCA
* *
24568084 AATTATGAAAAGGGATAGCTTCGACTATCGAACTATGAAAAGGGATGGTGAC
1 AATTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGAC
24568136 AAGCATTGTG
Statistics
Matches: 181, Mismatches: 42, Indels: 17
0.75 0.17 0.07
Matches are distributed among these distances:
58 2 0.01
59 45 0.25
60 132 0.73
61 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (60 bp):
AATTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCA
Found at i:24568062 original size:90 final size:89
Alignment explanation
Indices: 24567845--24568068 Score: 233
Period size: 90 Copynumber: 2.5 Consensus size: 89
24567835 AGCAACTTCG
* * * * * *
24567845 AATTATGAAAATGGATAGCTTCGGTTATCGAATTATGAAAAAGGATGGTGACGACCATCAATAAT
1 AATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGATCGT-ACGACCATCAATAAT
* * *
24567910 GAAAAGGGATGGTGACGACCATCGG
65 GAAAAAGCATGGTGACGACCATCGA
* * * *
24567935 AA-TATGAAAAGGGATAGC-TCCGACTATTGAA-ATATGAAAAGGGTTATCGT-CGGCTATCGAA
1 AATTATGAAAAGGGATAGCTTCAG-CTATCGAATA-ATGAAAAGGG--ATCGTACGACCATC-AA
*
24567996 TTATGAAAAAGCATGGTGACGACCATC-A
61 TAATGAAAAAGCATGGTGACGACCATCGA
24568024 AATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGA
1 AATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGA
24568069 AGGTGACAAT
Statistics
Matches: 111, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
88 4 0.04
89 38 0.34
90 61 0.55
91 8 0.07
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (89 bp):
AATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGATCGTACGACCATCAATAATG
AAAAAGCATGGTGACGACCATCGA
Found at i:24568088 original size:90 final size:88
Alignment explanation
Indices: 24567845--24568094 Score: 231
Period size: 90 Copynumber: 2.8 Consensus size: 88
24567835 AGCAACTTCG
* * * * * * *
24567845 AATTATGAAAATGGATAGCTTCGGTTATCGAATTATGAAAAAGGATGGTGACGACCATCAATAAT
1 AATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGATGGTGAC-A-TATCAATTAT
* * *
24567910 GAAAAGGGATGGTGACGACCATCGG
64 GAAAAAGCATGGTGACGACCATCGA
* * * *
24567935 AA-TATGAAAAGGGATAGC-TCCGACTATTGAA-ATATGAAAAGGGTTATCGTCGGC-TATCGAA
1 AATTATGAAAAGGGATAGCTTCAG-CTATCGAATA-ATGAAAAGGG--ATGGT-GACATATC-AA
24567996 TTATGAAAAAGCATGGTGACGACCATC-A
60 TTATGAAAAAGCATGGTGACGACCATCGA
*
24568024 AATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGAAGGTGACAATGATCAAATTA
1 AATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGATGGTGAC-AT-ATC-AATTA
24568089 TGAAAA
63 TGAAAA
24568095 GGGATAGCTT
Statistics
Matches: 129, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
87 2 0.02
88 6 0.05
89 36 0.28
90 75 0.58
91 8 0.06
92 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.23
Consensus pattern (88 bp):
AATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGATGGTGACATATCAATTATGA
AAAAGCATGGTGACGACCATCGA
Found at i:24574333 original size:12 final size:12
Alignment explanation
Indices: 24574316--24574345 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24574306 TCAGTGAGTT
24574316 ACACGGCCTAGC
1 ACACGGCCTAGC
*
24574328 ACACGGCCTGGC
1 ACACGGCCTAGC
24574340 ACACGG
1 ACACGG
24574346 GCGTGTGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:24583044 original size:42 final size:42
Alignment explanation
Indices: 24582973--24583123 Score: 203
Period size: 42 Copynumber: 3.6 Consensus size: 42
24582963 ACGACCGAAC
* * **
24582973 CACACGCCCGTGTGCCAGGCCATACAACTCTCGAAATGGCCT
1 CACACGCCCGTGTGCCAAGCCGTGTAACTCTCGAAATGGCCT
* * *
24583015 CACACACCTGTGTGCCAAGCCGTGTAACTCTCAAAATGGCCT
1 CACACGCCCGTGTGCCAAGCCGTGTAACTCTCGAAATGGCCT
* *
24583057 CACACGCCCATGTGCTAAGCCGTGTAACTCTCGAAATGGCCT
1 CACACGCCCGTGTGCCAAGCCGTGTAACTCTCGAAATGGCCT
* *
24583099 CACACGCCCGTGTGTCAAGTCGTGT
1 CACACGCCCGTGTGCCAAGCCGTGT
24583124 GCTAGGTCGT
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 93 1.00
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (42 bp):
CACACGCCCGTGTGCCAAGCCGTGTAACTCTCGAAATGGCCT
Found at i:24585941 original size:26 final size:26
Alignment explanation
Indices: 24585912--24586011 Score: 112
Period size: 26 Copynumber: 3.8 Consensus size: 26
24585902 CCAATATCGT
* *
24585912 AGCAAAGCTGCCAGTAATAGTAACGC
1 AGCAAAGCTACCAGTAACAGTAACGC
24585938 AGCATAA-CTACCAGTAACAGTAACGC
1 AGCA-AAGCTACCAGTAACAGTAACGC
* *
24585964 AACAGAGCTACCAGTAACAGTAACGC
1 AGCAAAGCTACCAGTAACAGTAACGC
* * * *
24585990 AGTAGAGTTGCCAGTAACAGTA
1 AGCAAAGCTACCAGTAACAGTA
24586012 TTTGTGGCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.02
26 61 0.95
27 2 0.03
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (26 bp):
AGCAAAGCTACCAGTAACAGTAACGC
Found at i:24586273 original size:27 final size:27
Alignment explanation
Indices: 24586188--24586373 Score: 182
Period size: 27 Copynumber: 7.0 Consensus size: 27
24586178 GGGTATAACA
* *
24586188 GTCATTTCACCCTAT-GAGGGTA-TTCC
1 GTCATTTTACCCT-TCGAGGGTATTTCG
* * *
24586214 ATCATTTTACCCTTCGA-AGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
24586240 GTTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
24586267 GTCATTTTACCCTTTG-GAGGTATTTCA
1 GTCATTTTACCCTTCGAG-GGTATTTCG
* *
24586294 GTCATTTAACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
24586321 ATCATTTTACCCTTCAAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
24586348 GTAATTTTATCCTTCAAGGGTATTTC
1 GTCATTTTACCCTTCGAGGGTATTTC
24586374 AATAATTTGT
Statistics
Matches: 131, Mismatches: 24, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
25 4 0.03
26 31 0.24
27 95 0.73
28 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:24590353 original size:23 final size:23
Alignment explanation
Indices: 24590324--24590369 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24590314 TTCCTTCTAG
* *
24590324 TTTCTCAAATTCTTTTTCTCTTT
1 TTTCTCAAATTCTCTTTCACTTT
*
24590347 TTTCTCACATTCTCTTTCACTTT
1 TTTCTCAAATTCTCTTTCACTTT
24590370 CTTTTTCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.26, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTCTCAAATTCTCTTTCACTTT
Found at i:24590459 original size:21 final size:21
Alignment explanation
Indices: 24590422--24590468 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
24590412 ACTCTTTTTC
*
24590422 TTTTTCATGTTCTTCAATCTA
1 TTTTTCATGTTCTTCAAGCTA
* *
24590443 TTTTT-ATTTTCTCTCAAGCTC
1 TTTTTCATGTTCT-TCAAGCTA
24590464 TTTTT
1 TTTTT
24590469 TTCTAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.15, C:0.19, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTTCATGTTCTTCAAGCTA
Found at i:24590465 original size:48 final size:45
Alignment explanation
Indices: 24590369--24590468 Score: 114
Period size: 48 Copynumber: 2.2 Consensus size: 45
24590359 TCTTTCACTT
* *
24590369 TCTTTTTCTTTTTCATTTTCATCTTTTTTTTCTTTTCTCACACAC
1 TCTTTTTCTTTTTCATTTTCATCTTATTTTTATTTTCTCACACAC
*
24590414 TCTTTTTCTTTTTCATGTTCTTCAATC-TATTTTTATTTTCTCTCA-AGC
1 TCTTTTTCTTTTTCA--TT-TTC-ATCTTATTTTTATTTTCTCACACA-C
24590462 TCTTTTT
1 TCTTTTT
24590469 TTCTAGATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
45 15 0.32
47 3 0.06
48 26 0.55
49 3 0.06
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.64
Consensus pattern (45 bp):
TCTTTTTCTTTTTCATTTTCATCTTATTTTTATTTTCTCACACAC
Found at i:24590884 original size:14 final size:14
Alignment explanation
Indices: 24590865--24590906 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
24590855 CTTATAGGGT
24590865 TGTGGGTGCTTCAA
1 TGTGGGTGCTTCAA
24590879 TGTGGGTAAG-TTCAA
1 TGTGGGT--GCTTCAA
24590894 TGTGGGTGCTTCA
1 TGTGGGTGCTTCA
24590907 TCGAGTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.04
14 11 0.44
15 12 0.48
16 1 0.04
ACGTcount: A:0.17, C:0.12, G:0.36, T:0.36
Consensus pattern (14 bp):
TGTGGGTGCTTCAA
Found at i:24591544 original size:23 final size:23
Alignment explanation
Indices: 24591518--24591562 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
24591508 TCCAAACTCT
*
24591518 TTTTTGAATCACAATTCATTTTC
1 TTTTTGAATCACAATTAATTTTC
*
24591541 TTTTTGAATCTCAATTAATTTT
1 TTTTTGAATCACAATTAATTTT
24591563 TTTAGTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTTTGAATCACAATTAATTTTC
Found at i:24601834 original size:20 final size:21
Alignment explanation
Indices: 24601793--24601835 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
24601783 GCTACGTAGA
*
24601793 GGGTATGTCACGACATAGGAG
1 GGGTATGTCACGACATACGAG
*
24601814 GGGTATGTCATGACAT-CGAG
1 GGGTATGTCACGACATACGAG
24601834 GG
1 GG
24601836 TAGGTTCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.26, C:0.14, G:0.40, T:0.21
Consensus pattern (21 bp):
GGGTATGTCACGACATACGAG
Found at i:24605838 original size:22 final size:22
Alignment explanation
Indices: 24605807--24605848 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
24605797 TGCTACGTTC
*
24605807 AGTCCTAGAATCAATTAAATTT
1 AGTCCAAGAATCAATTAAATTT
24605829 AGTCCAAGAATCAATTAAAT
1 AGTCCAAGAATCAATTAAAT
24605849 CATAGCTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (22 bp):
AGTCCAAGAATCAATTAAATTT
Found at i:24609711 original size:17 final size:17
Alignment explanation
Indices: 24609689--24609721 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24609679 CACTATCATT
*
24609689 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
24609706 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
24609722 GTGTACAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:24631127 original size:15 final size:16
Alignment explanation
Indices: 24631103--24631132 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24631093 AAAACTAACC
24631103 TTTTTCTTTTCACAAA
1 TTTTTCTTTTCACAAA
24631119 TTTTT-TTTTCACAA
1 TTTTTCTTTTCACAA
24631133 CTTGATATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTCTTTTCACAAA
Found at i:24633093 original size:9 final size:10
Alignment explanation
Indices: 24633046--24633093 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
24633036 TAAAATGTTG
*
24633046 AATTTTAATT
1 AATTTTTATT
24633056 AATTTTATAATT
1 AATTTT-T-ATT
*
24633068 AATTTTGATT
1 AATTTTTATT
24633078 AATTTTTATT
1 AATTTTTATT
24633088 -ATTTTT
1 AATTTTT
24633094 GACAAATTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 6 0.18
10 18 0.55
12 9 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
AATTTTTATT
Found at i:24633284 original size:15 final size:15
Alignment explanation
Indices: 24633266--24633295 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24633256 ATTTAATTTG
24633266 TGTTAAATAAATTAT
1 TGTTAAATAAATTAT
*
24633281 TGTTAATTAAATTAT
1 TGTTAAATAAATTAT
24633296 GAAAAGGGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TGTTAAATAAATTAT
Found at i:24639569 original size:15 final size:15
Alignment explanation
Indices: 24639549--24639582 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
24639539 GTATTGTTCC
24639549 TTGATAACACGGTGA
1 TTGATAACACGGTGA
*
24639564 TTGATAACACGGTGT
1 TTGATAACACGGTGA
24639579 TTGA
1 TTGA
24639583 GGCATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:24639890 original size:22 final size:22
Alignment explanation
Indices: 24639865--24639916 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
24639855 AGTGGTTTTC
24639865 ACACGGGCGTGTAAGGGGTTGG
1 ACACGGGCGTGTAAGGGGTTGG
*
24639887 ACACGGGCGTGTAAGGTGTTGG
1 ACACGGGCGTGTAAGGGGTTGG
24639909 ACACGGGC
1 ACACGGGC
24639917 ATGTGGAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.17, G:0.46, T:0.17
Consensus pattern (22 bp):
ACACGGGCGTGTAAGGGGTTGG
Found at i:24642441 original size:20 final size:19
Alignment explanation
Indices: 24642411--24642471 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
24642401 GAAGATGAGT
24642411 AACAGAGGCACTGAAGTGCA
1 AACAGAGGCAC-GAAGTGCA
24642431 AAC-GAAGGCAC-AATTGTGCA
1 AACAG-AGGCACGAA--GTGCA
24642451 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCA-CGAAGTGCA
24642471 A
1 A
24642472 TTCTGTACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
18 2 0.06
19 1 0.03
20 28 0.80
21 2 0.06
22 2 0.06
ACGTcount: A:0.41, C:0.21, G:0.28, T:0.10
Consensus pattern (19 bp):
AACAGAGGCACGAAGTGCA
Found at i:24649200 original size:66 final size:66
Alignment explanation
Indices: 24649094--24649227 Score: 171
Period size: 66 Copynumber: 2.0 Consensus size: 66
24649084 ATTCTGAAGC
* * * * * * *
24649094 TGTAGTTGGAGTTCACCGTATTTTCTTGTTGCCTCTATTTCCCTCGCTGTTGCCTCCATTTTAAG
1 TGTAGTTGGAGTTCACCATATTTTATTGTAGCCTCTATTTCCATCGATGCTGCCTCCACTTTAAG
24649159 T
66 T
* *
24649160 TGTAGTTGGAGTTCATCATATTTTATT-TAAGCCTCTATTTCTATCGATGCTGCCTCCACTTTAA
1 TGTAGTTGGAGTTCACCATATTTTATTGT-AGCCTCTATTTCCATCGATGCTGCCTCCACTTTAA
24649224 GT
65 GT
24649226 TG
1 TG
24649228 AGCAATTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 1 0.02
66 57 0.98
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (66 bp):
TGTAGTTGGAGTTCACCATATTTTATTGTAGCCTCTATTTCCATCGATGCTGCCTCCACTTTAAG
T
Found at i:24655281 original size:13 final size:13
Alignment explanation
Indices: 24655263--24655289 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24655253 TTTAAAGATA
24655263 TTAAATTGATTAT
1 TTAAATTGATTAT
24655276 TTAAATTGATTAT
1 TTAAATTGATTAT
24655289 T
1 T
24655290 CTGGTTTTTT
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:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTAAATTGATTAT
Found at i:24655912 original size:72 final size:71
Alignment explanation
Indices: 24655761--24656065 Score: 297
Period size: 72 Copynumber: 4.3 Consensus size: 71
24655751 ACATATTACC
* * * ** * * * *
24655761 AAATAAACAATTCTACTTAATATTAAAACTCAATAAATCAAATTAATTTAA-TCTTCTCAAAACA
1 AAATAAACGATTTTACTTAATATCAAAACTCAATAAATTTAACTAAATTAACT-TTTTAAAAACA
*
24655825 TATAACTT
65 CATAA-TT
* * * * * * * * *
24655833 GAGTAAACGGTTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTTTAAAAATA
1 AAATAAACGATTTTACTTAATATCAAAACTCAATAAATTTAACTAAATTA-ACTTTTTAAAAACA
24655898 CATAATT
65 CATAATT
** * * * *
24655905 GGATAAACGGTTCTACTTAATATCAAAATTCAATAAATTTAACTAAATTAAATTTTTAAAAACAC
1 AAATAAACGATTTTACTTAATATCAAAACTCAATAAATTTAACTAAATTAACTTTTTAAAAACAC
24655970 ATAATT
66 ATAATT
** * *
24655976 AAATAAACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACTAAATTAAACTTTTTAAAAACA
1 AAATAAACGATTTTACTTAATATCAAAACTCAATAAATTTAACTAAATT-AACTTTTTAAAAACA
24656041 CATAATT
65 CATAATT
*
24656048 AAATAAACGAATTTACTT
1 AAATAAACGATTTTACTT
24656066 GATAATTAAT
Statistics
Matches: 188, Mismatches: 42, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
71 58 0.31
72 117 0.62
73 12 0.06
74 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (71 bp):
AAATAAACGATTTTACTTAATATCAAAACTCAATAAATTTAACTAAATTAACTTTTTAAAAACAC
ATAATT
Found at i:24656065 original size:143 final size:145
Alignment explanation
Indices: 24655761--24656065 Score: 332
Period size: 143 Copynumber: 2.1 Consensus size: 145
24655751 ACATATTACC
* * * *
24655761 AAATAAAC-AATTCTACTTAATATTAAAACTCAATAAATCAAATTAATTTAATCTTCTCAAAACA
1 AAATAAACGAATTCTACTTAATATCAAAACTCAATAAATCAAATAAATTAAATCTTCTAAAAACA
* * * * * * * * **
24655825 TATAACTTGAGTAAACGGTTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTT
66 CATAACTTAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAAACTTTT
*
24655890 TAAAAATACATAATT
131 TAAAAACACATAATT
** * * * * *
24655905 GGATAAACG-GTTCTACTTAATATCAAAATTCAATAAATTTAACTAAATTAAAT-TTTTAAAAAC
1 AAATAAACGAATTCTACTTAATATCAAAACTCAATAAA-TCAAATAAATTAAATCTTCTAAAAAC
* * * *
24655968 ACATAA-TTAAATAAACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACTAAATTAAACTTT
65 ACATAACTTAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAAACTTT
24656032 TTAAAAACACATAATT
130 TTAAAAACACATAATT
24656048 AAATAAACGAATT-TACTT
1 AAATAAACGAATTCTACTT
24656066 GATAATTAAT
Statistics
Matches: 129, Mismatches: 29, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
143 72 0.56
144 46 0.36
145 11 0.09
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (145 bp):
AAATAAACGAATTCTACTTAATATCAAAACTCAATAAATCAAATAAATTAAATCTTCTAAAAACA
CATAACTTAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAAACTTTT
TAAAAACACATAATT
Found at i:24656095 original size:71 final size:70
Alignment explanation
Indices: 24655886--24656065 Score: 202
Period size: 71 Copynumber: 2.5 Consensus size: 70
24655876 TAAAATAGCC
* ** * * * * *
24655886 TTTTTAAAAATACATAATTGGATAAACG-GTTCTACTTAATATCAAAATTCAATAAATTTAACTA
1 TTTTTAAAAACACATAATTAAATAAACGATTTC-ACTT-AGATCAAAACTGAATAAATCTAACTA
24655950 AATTAAA
64 AATTAAA
* * *
24655957 TTTTTAAAAACACATAATTAAATAAACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACTAA
1 TTTTTAAAAACACATAATTAAATAAACGATTTCACTT-AGATCAAAACTGAATAAATCTAACTAA
24656022 ATTAAA
65 ATTAAA
24656028 CTTTTTAAAAACACATAATTAAATAAACGAATTT-ACTT
1 -TTTTTAAAAACACATAATTAAATAAACG-ATTTCACTT
24656066 GATAATTAAT
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
71 59 0.61
72 34 0.35
73 4 0.04
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (70 bp):
TTTTTAAAAACACATAATTAAATAAACGATTTCACTTAGATCAAAACTGAATAAATCTAACTAAA
TTAAA
Found at i:24656490 original size:23 final size:23
Alignment explanation
Indices: 24656460--24656504 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
24656450 AGTTTGCAAG
24656460 TACAGGACAATAAAGGCTTTAAA
1 TACAGGACAATAAAGGCTTTAAA
* *
24656483 TACAGGACAATGACGGCTTTAA
1 TACAGGACAATAAAGGCTTTAA
24656505 CAGTTTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (23 bp):
TACAGGACAATAAAGGCTTTAAA
Found at i:24658101 original size:21 final size:23
Alignment explanation
Indices: 24658076--24658124 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
24658066 ATAACATAAT
*
24658076 AAAAATTAAT-GATA-TAACCCA
1 AAAAATTAATAAATATTAACCCA
24658097 AAAAA-TAATAAATATTAACCCA
1 AAAAATTAATAAATATTAACCCA
24658119 AAAAAT
1 AAAAAT
24658125 AGATGTTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 8 0.33
22 12 0.50
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAATTAATAAATATTAACCCA
Found at i:24658306 original size:25 final size:24
Alignment explanation
Indices: 24658249--24658312 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
24658239 TATTGTTTTG
* *
24658249 GGGCAGAAGAGTGTCGACGGTGAT
1 GGGCAGAGGAGTGTCGACGGTAAT
* *
24658273 GCAGTAGAGGAGTGTCGACGGTAAT
1 G-GGCAGAGGAGTGTCGACGGTAAT
24658298 AGGGCAGAGGAGTGT
1 -GGGCAGAGGAGTGT
24658313 TGATGGCGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.45, T:0.17
Consensus pattern (24 bp):
GGGCAGAGGAGTGTCGACGGTAAT
Found at i:24658565 original size:40 final size:41
Alignment explanation
Indices: 24658505--24658584 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 41
24658495 TGATACTTTG
* * *
24658505 CGGCATTTTTCTCATAAACGCCGCTATTGGTT-ACCTTTTA
1 CGGCATTTTTCTCATAAACGCCACTACTGCTTGACCTTTTA
*
24658545 CGGCGTTTTTCTCATAAACGCCACTACTGCTTGACCTTTT
1 CGGCATTTTTCTCATAAACGCCACTACTGCTTGACCTTTT
24658585 GTAGCATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 28 0.80
41 7 0.20
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.39
Consensus pattern (41 bp):
CGGCATTTTTCTCATAAACGCCACTACTGCTTGACCTTTTA
Found at i:24658595 original size:41 final size:40
Alignment explanation
Indices: 24658507--24658595 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
24658497 ATACTTTGCG
* * * *
24658507 GCATTTTTCTCATAAACGCCGCTATTGGTTACCTTTTACG
1 GCATTTTTCTCATAAACGCCACTACTGCTTACCTTTTACA
* **
24658547 GCGTTTTTCTCATAAACGCCACTACTGCTTGACCTTTTGTA
1 GCATTTTTCTCATAAACGCCACTACTGCTT-ACCTTTTACA
24658588 GCATTTTT
1 GCATTTTT
24658596 TCGTTAGCTC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 26 0.65
41 14 0.35
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (40 bp):
GCATTTTTCTCATAAACGCCACTACTGCTTACCTTTTACA
Found at i:24660287 original size:17 final size:17
Alignment explanation
Indices: 24660265--24660313 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
24660255 AAAAAGGAAT
24660265 AATAAGAATA-AAAACAA
1 AATAAGAA-ACAAAACAA
*
24660282 AATAAGAAACAAAATAA
1 AATAAGAAACAAAACAA
* *
24660299 AATAAAAAATAAAAC
1 AATAAGAAACAAAAC
24660314 TAACTAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 1 0.04
17 26 0.96
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.12
Consensus pattern (17 bp):
AATAAGAAACAAAACAA
Found at i:24660293 original size:12 final size:11
Alignment explanation
Indices: 24660271--24660312 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
24660261 GAATAATAAG
24660271 AATAAAAACAA
1 AATAAAAACAA
24660282 AATAAGAAACAA
1 AATAA-AAACAA
*
24660294 AATAAAATAAAA
1 AATAAAA-ACAA
24660306 AATAAAA
1 AATAAAA
24660313 CTAACTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (11 bp):
AATAAAAACAA
Found at i:24660477 original size:33 final size:33
Alignment explanation
Indices: 24660433--24660502 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
24660423 TAAAAATAAA
*
24660433 AATAATGATAATAATAGTGGTAAAAATAAAAAT
1 AATAATAATAATAATAGTGGTAAAAATAAAAAT
* * *
24660466 AATAATAATAATAATATTGGTAATAATAAAAGT
1 AATAATAATAATAATAGTGGTAAAAATAAAAAT
24660499 AATA
1 AATA
24660503 GCAATAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (33 bp):
AATAATAATAATAATAGTGGTAAAAATAAAAAT
Found at i:24660480 original size:6 final size:6
Alignment explanation
Indices: 24660427--24660642 Score: 107
Period size: 6 Copynumber: 36.0 Consensus size: 6
24660417 ACAGTTTAAA
* * * ** * *
24660427 AATAAA AATAAT GATAAT AATAGT GGTAAA AATAAA AATAAT AATAAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* ** ** * *
24660475 AATAAT ATTGGT AATAAT AA-AAGT AATAGC AATAGT AATAAT AACAAT
1 AATAAT AATAAT AATAAT AATAA-T AATAAT AATAAT AATAAT AATAAT
* * * ** * *
24660523 ATTAAT ATTAAT ATTAAT TGTAAT AATAAT GATAAT AATAAT AA-AGT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* ** * * *
24660570 AAGTAAT AATAAT AA-ATAC AATAAT AATAAT AGCAAT ATTAAA AATAAA
1 AA-TAAT AATAAT AATA-AT AATAAT AATAAT AATAAT AATAAT AATAAT
* *
24660619 AATAAA AATAA- AAGTAAA AATAAT
1 AATAAT AATAAT AA-TAAT AATAAT
24660643 GGTAATACTA
Statistics
Matches: 161, Mismatches: 41, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
5 9 0.06
6 144 0.89
7 8 0.05
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (6 bp):
AATAAT
Found at i:24660514 original size:33 final size:33
Alignment explanation
Indices: 24660423--24660514 Score: 100
Period size: 33 Copynumber: 2.9 Consensus size: 33
24660413 TAAAACAGTT
*
24660423 TAAAAATAAAAATAAT---GATAATAATAGTGG
1 TAAAAATAAAAATAATAACAATAATAATAGTGG
* *
24660453 TAAAAATAAAAATAATAATAATAATAATATTGG
1 TAAAAATAAAAATAATAACAATAATAATAGTGG
* * * *
24660486 TAATAATAAAAGTAATAGCAATAGTAATA
1 TAAAAATAAAAATAATAACAATAATAATA
24660515 ATAACAATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 16 0.31
33 36 0.69
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (33 bp):
TAAAAATAAAAATAATAACAATAATAATAGTGG
Found at i:24670639 original size:22 final size:22
Alignment explanation
Indices: 24670612--24670663 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
24670602 GGACATGCCA
24670612 CCACTGATTTATAGATAAACTG
1 CCACTGATTTATAGATAAACTG
*
24670634 CCACTGATTTGTAGATAAACTG
1 CCACTGATTTATAGATAAACTG
24670656 CCACTGAT
1 CCACTGAT
24670664 AACACTGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (22 bp):
CCACTGATTTATAGATAAACTG
Found at i:24673362 original size:50 final size:50
Alignment explanation
Indices: 24673247--24673490 Score: 301
Period size: 50 Copynumber: 4.7 Consensus size: 50
24673237 GGTAAAAACA
* * * ** *
24673247 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
*
24673298 TGTCC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
24673348 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
24673398 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATCTC--GG
*
24673453 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA
24673491 TCTTTTTACC
Statistics
Matches: 168, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
49 2 0.01
50 92 0.55
51 30 0.18
52 2 0.01
53 5 0.03
55 2 0.01
56 35 0.21
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:24673422 original size:100 final size:104
Alignment explanation
Indices: 24673246--24673491 Score: 374
Period size: 100 Copynumber: 2.4 Consensus size: 104
24673236 TGGTAAAAAC
* * * *
24673246 ATGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGTCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGCTCTCATCTCGGTGCCCATGCCATG
*
24673311 TCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTC-GG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTCAGG
*
24673348 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATCTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGCTCTCATCTCGGTGCCCATGCCATG
24673411 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTCAAGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTC-AGG
*
24673453 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAT
24673492 CTTTTTACCC
Statistics
Matches: 130, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
100 52 0.40
101 35 0.27
103 5 0.04
105 2 0.02
106 36 0.28
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGCTCTCATCTCGGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTCAGG
Found at i:24682221 original size:40 final size:40
Alignment explanation
Indices: 24682171--24682336 Score: 224
Period size: 40 Copynumber: 4.2 Consensus size: 40
24682161 GAGTTACAGG
* * * * * *
24682171 AGTATAAATAGGGGCACGTAAGTGCTTTTAGGGGTCCCGT
1 AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
* * *
24682211 AGTACAAATAGGGGCACGTATGTGCATTTCGGGGTACTGA
1 AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
* *
24682251 AGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
*
24682291 AGTACAAACATGGGCACGTATGTGCATTTAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
24682331 AGTACA
1 AGTACA
24682337 GGGGCAAGTA
Statistics
Matches: 111, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
Found at i:24685593 original size:25 final size:25
Alignment explanation
Indices: 24685565--24685618 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
24685555 TGTAGTGGTA
24685565 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
* * *
24685590 AGGTGGTGTCACAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
24685615 AGGT
1 AGGT
24685619 CAGAGGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.48, T:0.19
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGCAAGG
Found at i:24687162 original size:27 final size:27
Alignment explanation
Indices: 24687118--24687332 Score: 256
Period size: 27 Copynumber: 8.0 Consensus size: 27
24687108 TGTTCGAATG
*
24687118 ATCGAAATACCCTTGAAGGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
*
24687145 ATCAAAATACCCTCGAAGGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
*
24687172 A-CAAAAATACTCC-CGAAGGGTAAAATT
1 ATC-GAAATAC-CCTCGAAGGGTAAAATT
* *
24687199 ATCGAAATACCCCCGAAAGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
* * *
24687226 ATTGAAATAACCTTGAAGGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
* *
24687253 ACCGAAATACTCTCGAAGGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
* *
24687280 ATAGAAATACCCTCGATGGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
* *
24687307 ATCGAATTACCC-CTGTAGGGTAAAAT
1 ATCGAAATACCCTC-GAAGGGTAAAAT
24687333 GATTGTAATG
Statistics
Matches: 161, Mismatches: 22, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
26 4 0.02
27 154 0.96
28 3 0.02
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (27 bp):
ATCGAAATACCCTCGAAGGGTAAAATT
Found at i:24687253 original size:81 final size:81
Alignment explanation
Indices: 24687118--24687332 Score: 295
Period size: 81 Copynumber: 2.7 Consensus size: 81
24687108 TGTTCGAATG
* * *
24687118 ATCGAAATACCCTTGAAGGGTAAAATTATCAAAATACCCTCGAAGGGTAAAATTACAAAAATACT
1 ATCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACAAAAATACT
24687183 CCCGAAGGGTAAAATT
66 CCCGAAGGGTAAAATT
* * * * **
24687199 ATCGAAATACCCCCGAAAGGTAAAATTATTGAAATAACCTTGAAGGGTAAAATTACCGAAATACT
1 ATCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACAAAAATACT
*
24687264 CTCGAAGGGTAAAATT
66 CCCGAAGGGTAAAATT
* * * * *
24687280 ATAGAAATACCCTCGATGGGTAAAATTATCGAATTACCCCTGTAGGGTAAAAT
1 ATCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAAT
24687333 GATTGTAATG
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 115 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (81 bp):
ATCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACAAAAATACT
CCCGAAGGGTAAAATT
Found at i:24687355 original size:54 final size:53
Alignment explanation
Indices: 24687121--24687357 Score: 235
Period size: 54 Copynumber: 4.4 Consensus size: 53
24687111 TCGAATGATC
* **
24687121 GAAATACCCTTGAAGGGTAAAATTATCAAAATA-CCCTCGAAGGGTAAAATTACA
1 GAAATACCC-TGAAGGGTAAAATTATCGAAATACCCCT-GAAGGGTAAAATTATT
* * * *
24687175 AAAATACTCCCGAAGGGTAAAATTATCGAAATACCCCCGAAAGGTAAAATTATT
1 GAAATAC-CCTGAAGGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATTATT
* * * *
24687229 GAAATAACCTTGAAGGGTAAAATTACCGAAATA-CTCTCGAAGGGTAAAATTATA
1 GAAAT-ACCCTGAAGGGTAAAATTATCGAAATACCCCT-GAAGGGTAAAATTATT
* * * *
24687283 GAAATACCCTCGATGGGTAAAATTATCGAATTACCCCTGTAGGGTAAAATGATT
1 GAAATACCCT-GAAGGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATTATT
* * *
24687337 GTAATGCCCCTAAAGGGTAAA
1 GAAAT-ACCCTGAAGGGTAAA
24687358 TAACTGTTTT
Statistics
Matches: 149, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
53 6 0.04
54 129 0.87
55 14 0.09
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (53 bp):
GAAATACCCTGAAGGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATTATT
Found at i:24687425 original size:24 final size:24
Alignment explanation
Indices: 24687378--24687450 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 24
24687368 GCCCCTCGAG
* *
24687378 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAATGACTGATTTGTCTGTGA
*
24687402 TGTAAATGACTGATTTGTTTGTGA
1 TGTAAATGACTGATTTGTCTGTGA
24687426 TTGGT--ATGACTGATTTGTCTGTGA
1 -T-GTAAATGACTGATTTGTCTGTGA
24687450 T
1 T
24687451 TTATAAGACA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
23 1 0.02
24 39 0.91
25 1 0.02
26 2 0.05
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.45
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCTGTGA
Found at i:24687464 original size:24 final size:24
Alignment explanation
Indices: 24687388--24687464 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
24687378 TGTAAATGAT
* *
24687388 TGATTTGTCCGTGATGTA-AATGAC
1 TGATTTGTCTGTGATTTATAA-GAC
* ** *
24687412 TGATTTGTTTGTGATTGGTATGAC
1 TGATTTGTCTGTGATTTATAAGAC
24687436 TGATTTGTCTGTGATTTATAAGAC
1 TGATTTGTCTGTGATTTATAAGAC
*
24687460 AGATT
1 TGATT
24687465 CTGAGCATGG
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 40 0.98
25 1 0.02
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.44
Consensus pattern (24 bp):
TGATTTGTCTGTGATTTATAAGAC
Found at i:24692663 original size:20 final size:20
Alignment explanation
Indices: 24692638--24692806 Score: 70
Period size: 20 Copynumber: 8.4 Consensus size: 20
24692628 GGAGTATAAA
*
24692638 CAGGGGCACGGAAGTGCATT
1 CAGGGGCACCGAAGTGCATT
* * ** **
24692658 CAGGGGTACCAAAGTATAAA
1 CAGGGGCACCGAAGTGCATT
*
24692678 CAGGGGCA-CGTATGTGCATT
1 CAGGGGCACCG-AAGTGCATT
* * * * **
24692698 TAGGGGTACTGAAGTACAAA
1 CAGGGGCACCGAAGTGCATT
** *
24692718 CAGGGGCACATATGTGCATT
1 CAGGGGCACCGAAGTGCATT
* * * **
24692738 AAGGGGTACCGAAGTACAAA
1 CAGGGGCACCGAAGTGCATT
** *
24692758 CAGGGGCACATATGTGCATT
1 CAGGGGCACCGAAGTGCATT
* **
24692778 CAGGGGTACCGAAGTGCAAA
1 CAGGGGCACCGAAGTGCATT
24692798 CAGGGGCAC
1 CAGGGGCAC
24692807 GTATGTGCAT
Statistics
Matches: 95, Mismatches: 52, Indels: 4
0.63 0.34 0.03
Matches are distributed among these distances:
19 1 0.01
20 93 0.98
21 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.33, T:0.17
Consensus pattern (20 bp):
CAGGGGCACCGAAGTGCATT
Found at i:24692814 original size:20 final size:20
Alignment explanation
Indices: 24692675--24692815 Score: 74
Period size: 20 Copynumber: 7.0 Consensus size: 20
24692665 ACCAAAGTAT
24692675 AAACAGGGGCACGTATGTGC
1 AAACAGGGGCACGTATGTGC
*** * * *
24692695 ATTTAGGGGTAC-TGAAGTAC
1 AAACAGGGGCACGT-ATGTGC
*
24692715 AAACAGGGGCACATATGTGC
1 AAACAGGGGCACGTATGTGC
* * * *
24692735 ATTA-AGGGGTACCG-AAGTAC
1 A-AACAGGGGCA-CGTATGTGC
*
24692755 AAACAGGGGCACATATGTGC
1 AAACAGGGGCACGTATGTGC
** * *
24692775 ATTCAGGGGTACCG-AAGTGC
1 AAACAGGGGCA-CGTATGTGC
24692795 AAACAGGGGCACGTATGTGC
1 AAACAGGGGCACGTATGTGC
24692815 A
1 A
24692816 TTTAGGGGTA
Statistics
Matches: 82, Mismatches: 31, Indels: 16
0.64 0.24 0.12
Matches are distributed among these distances:
19 5 0.06
20 73 0.89
21 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (20 bp):
AAACAGGGGCACGTATGTGC
Found at i:24692848 original size:120 final size:120
Alignment explanation
Indices: 24692630--24692937 Score: 526
Period size: 120 Copynumber: 2.6 Consensus size: 120
24692620 GAGTTACTGG
* ** * *
24692630 AGTATAAACAGGGGCACGGAAGTGCATTCAGGGGTACCAAAGTATAAACAGGGGCACGTATGTGC
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
24692695 ATTTAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
66 ATTTAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
* *
24692750 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGAAGTGCAAACAGGGGCACGTATGTGC
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
* *
24692815 ATTTAGGGGTACTGAAGTACGAACAGGGGCACATATGTGCATTAAGGGTTACCGA
66 ATTTAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
*
24692870 AGTACAAACAGGGGCACATATGTGCATTCATGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
24692935 ATT
66 ATT
24692938 CATTAAATAA
Statistics
Matches: 176, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 176 1.00
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.20
Consensus pattern (120 bp):
AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
ATTTAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
Found at i:24692862 original size:20 final size:20
Alignment explanation
Indices: 24692719--24692862 Score: 55
Period size: 20 Copynumber: 7.2 Consensus size: 20
24692709 AAGTACAAAC
24692719 AGGGGCACATATGTGCATTA
1 AGGGGCACATATGTGCATTA
* ** * * *
24692739 AGGGGTACCGAAGTACA-AA
1 AGGGGCACATATGTGCATTA
*
24692758 CAGGGGCACATATGTGCATTC
1 -AGGGGCACATATGTGCATTA
* ** * *
24692779 AGGGGTACCGAAGTGCA-AA
1 AGGGGCACATATGTGCATTA
* *
24692798 CAGGGGCACGTATGTGCATTT
1 -AGGGGCACATATGTGCATTA
* * *
24692819 AGGGGTAC-TGAAGTACGA--A
1 AGGGGCACAT-ATGTGC-ATTA
24692838 CAGGGGCACATATGTGCATTA
1 -AGGGGCACATATGTGCATTA
24692859 AGGG
1 AGGG
24692863 TTACCGAAGT
Statistics
Matches: 82, Mismatches: 32, Indels: 20
0.61 0.24 0.15
Matches are distributed among these distances:
19 3 0.04
20 76 0.93
21 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (20 bp):
AGGGGCACATATGTGCATTA
Found at i:24692940 original size:40 final size:40
Alignment explanation
Indices: 24692630--24692939 Score: 440
Period size: 40 Copynumber: 7.8 Consensus size: 40
24692620 GAGTTACTGG
* ** * *
24692630 AGTATAAACAGGGGCACGGAAGTGCATTCAGGGGTACCAA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
* * * *
24692670 AGTATAAACAGGGGCACGTATGTGCATTTAGGGGTACTGA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
*
24692710 AGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
24692750 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
* * * *
24692790 AGTGCAAACAGGGGCACGTATGTGCATTTAGGGGTACTGA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
* * *
24692830 AGTACGAACAGGGGCACATATGTGCATTAAGGGTTACCGA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
* *
24692870 AGTACAAACAGGGGCACATATGTGCATTCATGGGTACCAA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
*
24692910 AGTACAAACAGGGGCACGTATGTGCATTCA
1 AGTACAAACAGGGGCACATATGTGCATTCA
24692940 TTAAATAATT
Statistics
Matches: 244, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 244 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (40 bp):
AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
Found at i:24699281 original size:21 final size:22
Alignment explanation
Indices: 24699255--24699305 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
24699245 ACTTAATGAC
*
24699255 TTGTTTTATAGTGTTT-TTATT
1 TTGTTTTATAGTGTTTATTACT
*
24699276 TTGTTTT-TAGTTTTTATTACT
1 TTGTTTTATAGTGTTTATTACT
24699297 TTGTGTTTA
1 TTGT-TTTA
24699306 ATTTATGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 7 0.28
21 15 0.60
22 3 0.12
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.71
Consensus pattern (22 bp):
TTGTTTTATAGTGTTTATTACT
Found at i:24704059 original size:46 final size:46
Alignment explanation
Indices: 24703960--24704210 Score: 312
Period size: 45 Copynumber: 5.5 Consensus size: 46
24703950 TGCTATGACT
* * * * *
24703960 TCTTTCAACCATGGTCTTATTCACTTTCCG-TGTGATGTCATAATG
1 TCTTTCAACCATGGTCTTATTCATTTTTCGATATGATGCCATAGTG
*
24704005 TCTTTCAACCATGGTCTTACTCATTTTTCGATATGATGCCATAGTG
1 TCTTTCAACCATGGTCTTATTCATTTTTCGATATGATGCCATAGTG
* *
24704051 TCTTTCAACCATAGTCTTATTCATTTTTTCAATATGATG-C-TAGTG
1 TCTTTCAACCATGGTCTTATTCA-TTTTTCGATATGATGCCATAGTG
* * *
24704096 TCTTTTAACCATGGTCTTATTCATTTTCCGATATGATGTCATAGTG
1 TCTTTCAACCATGGTCTTATTCATTTTTCGATATGATGCCATAGTG
* * *
24704142 TCTTTCAACCATGGTCTTATTCA-TTTTCAATAAGATGCCATAATG
1 TCTTTCAACCATGGTCTTATTCATTTTTCGATATGATGCCATAGTG
* * *
24704187 TCCTTCAACTATGGTCTTACTCAT
1 TCTTTCAACCATGGTCTTATTCAT
24704211 CTAAATCATG
Statistics
Matches: 179, Mismatches: 22, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
44 13 0.07
45 91 0.51
46 61 0.34
47 14 0.08
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTTTCGATATGATGCCATAGTG
Found at i:24704106 original size:91 final size:91
Alignment explanation
Indices: 24703960--24704210 Score: 344
Period size: 91 Copynumber: 2.8 Consensus size: 91
24703950 TGCTATGACT
* ** * *
24703960 TCTTTCAACCATGGTCTTATTCACTTTCCGTGTGATGTCATAATGTCTTTCAACCATGGTCTTAC
1 TCTTTCAACCATGGTCTTATTCATTTTCAATATGATGCCATAATGTCTTTCAACCATGGTCTTAC
*
24704025 TCATTTTTCGATATGATGCCATAGTG
66 TCATTTTCCGATATGATGCCATAGTG
* * *
24704051 TCTTTCAACCATAGTCTTATTCATTTTTTCAATATGATG-C-TAGTGTCTTTTAACCATGGTCTT
1 TCTTTCAACCATGGTCTTATTCA--TTTTCAATATGATGCCATAATGTCTTTCAACCATGGTCTT
* *
24704114 ATTCATTTTCCGATATGATGTCATAGTG
64 ACTCATTTTCCGATATGATGCCATAGTG
* * *
24704142 TCTTTCAACCATGGTCTTATTCATTTTCAATAAGATGCCATAATGTCCTTCAACTATGGTCTTAC
1 TCTTTCAACCATGGTCTTATTCATTTTCAATATGATGCCATAATGTCTTTCAACCATGGTCTTAC
24704207 TCAT
66 TCAT
24704211 CTAAATCATG
Statistics
Matches: 139, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
89 13 0.09
90 1 0.01
91 114 0.82
92 1 0.01
93 10 0.07
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (91 bp):
TCTTTCAACCATGGTCTTATTCATTTTCAATATGATGCCATAATGTCTTTCAACCATGGTCTTAC
TCATTTTCCGATATGATGCCATAGTG
Found at i:24704530 original size:15 final size:17
Alignment explanation
Indices: 24704499--24704531 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
24704489 CATAATGTTT
24704499 AACTTAACTCTCATTTC
1 AACTTAACTCTCATTTC
24704516 AACTTAA-TC-CATTTC
1 AACTTAACTCTCATTTC
24704531 A
1 A
24704532 TTGCTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (17 bp):
AACTTAACTCTCATTTC
Done.