Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 46 of 62
Found at i:10678522 original size:36 final size:37
Alignment explanation
Indices: 10678482--10678555 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
10678472 TACAATTTTG
*
10678482 TAAATTTATAATTAATAATAAAAACATAA-CAAAAAA
1 TAAATGTATAATTAATAATAAAAACATAACCAAAAAA
* * *
10678518 TAAATGTATAATTAATATTATAAGCATAACCAAAAAA
1 TAAATGTATAATTAATAATAAAAACATAACCAAAAAA
10678555 T
1 T
10678556 TATAACATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.30
Consensus pattern (37 bp):
TAAATGTATAATTAATAATAAAAACATAACCAAAAAA
Found at i:10679192 original size:15 final size:15
Alignment explanation
Indices: 10679174--10679203 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10679164 TTTTATTTAT
10679174 GAACAAAATTATAAC
1 GAACAAAATTATAAC
10679189 GAACAAAATTATAAC
1 GAACAAAATTATAAC
10679204 ACTTAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (15 bp):
GAACAAAATTATAAC
Found at i:10680738 original size:41 final size:42
Alignment explanation
Indices: 10680669--10680774 Score: 169
Period size: 42 Copynumber: 2.5 Consensus size: 42
10680659 ATAAGTTTAG
* *
10680669 TGGGTAGTGGGC-GGTGTGGATGTAAAAAATCATACCTGCCA
1 TGGGTAGTGAGCAGGTGTGGATGTAAAAAATCATACATGCCA
10680710 TGGGTAGTGAGCAGGTGTGGATGTAAAAAATCATACATGCCA
1 TGGGTAGTGAGCAGGTGTGGATGTAAAAAATCATACATGCCA
*
10680752 TAGGTAGTGAGCAGGTGATGGAT
1 TGGGTAGTGAGCAGGTG-TGGAT
10680775 TTGAGATCTT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 11 0.18
42 44 0.73
43 5 0.08
ACGTcount: A:0.29, C:0.11, G:0.35, T:0.25
Consensus pattern (42 bp):
TGGGTAGTGAGCAGGTGTGGATGTAAAAAATCATACATGCCA
Found at i:10680814 original size:15 final size:14
Alignment explanation
Indices: 10680791--10680842 Score: 68
Period size: 15 Copynumber: 3.6 Consensus size: 14
10680781 TCTTACTCAC
*
10680791 CCCACATCCGCCCG
1 CCCACATCCACCCG
10680805 CCCTACATCCACCCG
1 CCC-ACATCCACCCG
*
10680820 CTCCACATCCTCCCG
1 C-CCACATCCACCCG
10680835 CCCACATC
1 CCCACATC
10680843 TGCTTGCCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 10 0.29
15 22 0.65
16 2 0.06
ACGTcount: A:0.17, C:0.62, G:0.08, T:0.13
Consensus pattern (14 bp):
CCCACATCCACCCG
Found at i:10682484 original size:26 final size:26
Alignment explanation
Indices: 10682441--10682492 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
10682431 GTTATGTTCG
*
10682441 TTTATGTTCACGACCAAGCTCGTTTA
1 TTTATGTTCACGAACAAGCTCGTTTA
*
10682467 TTTATGTTCATGAACAAGCTCGTTTA
1 TTTATGTTCACGAACAAGCTCGTTTA
10682493 CTCTGTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.40
Consensus pattern (26 bp):
TTTATGTTCACGAACAAGCTCGTTTA
Found at i:10682721 original size:11 final size:11
Alignment explanation
Indices: 10682675--10682728 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
10682665 ATTGAATGTA
*
10682675 TAAACGAACAA
1 TAAACGAACAC
*
10682686 TAAACAAACAC
1 TAAACGAACAC
10682697 TAAACGAACAC
1 TAAACGAACAC
* *
10682708 TAAATGAACGC
1 TAAACGAACAC
*
10682719 TAAACAAACA
1 TAAACGAACA
10682729 TGTTCATGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.59, C:0.22, G:0.07, T:0.11
Consensus pattern (11 bp):
TAAACGAACAC
Found at i:10682721 original size:22 final size:22
Alignment explanation
Indices: 10682675--10682752 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
10682665 ATTGAATGTA
* ** *
10682675 TAAACGAACAATAAACAAACAC
1 TAAACGAACACTAAATGAACGC
10682697 TAAACGAACACTAAATGAACGC
1 TAAACGAACACTAAATGAACGC
* * **
10682719 TAAACAAACATGTTCATGAACGC
1 TAAACGAACA-CTAAATGAACGC
*
10682742 TAAATGAACAC
1 TAAACGAACAC
10682753 ATTCGTGAAC
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 27 0.61
23 17 0.39
ACGTcount: A:0.53, C:0.22, G:0.10, T:0.15
Consensus pattern (22 bp):
TAAACGAACACTAAATGAACGC
Found at i:10682751 original size:23 final size:23
Alignment explanation
Indices: 10682711--10682779 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
10682701 CGAACACTAA
**
10682711 ATGAACGCTAAACAAACATGTTC
1 ATGAACGCTAAATGAACATGTTC
**
10682734 ATGAACGCTAAATGAACACATTC
1 ATGAACGCTAAATGAACATGTTC
* **
10682757 GTGAACATATAAATGAACATGTT
1 ATGAAC-GCTAAATGAACATGTT
10682780 TGTGAGCATA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 24 0.67
24 12 0.33
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (23 bp):
ATGAACGCTAAATGAACATGTTC
Found at i:10682774 original size:24 final size:24
Alignment explanation
Indices: 10682742--10682840 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
10682732 TCATGAACGC
* *
10682742 TAAATGAACACATTCGTGAACATA
1 TAAATGAACACGTTCGCGAACATA
* * * *
10682766 TAAATGAACATGTTTGTGAGCATA
1 TAAATGAACACGTTCGCGAACATA
* * *
10682790 TGAATGAGCACGTTCGCGAACGT-
1 TAAATGAACACGTTCGCGAACATA
*
10682813 TAAATGAACATGTTCGCGAACA-A
1 TAAATGAACACGTTCGCGAACATA
10682836 TAAAT
1 TAAAT
10682841 AAACGAACAA
Statistics
Matches: 59, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
23 23 0.39
24 36 0.61
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (24 bp):
TAAATGAACACGTTCGCGAACATA
Found at i:10683221 original size:29 final size:29
Alignment explanation
Indices: 10683129--10683223 Score: 79
Period size: 29 Copynumber: 3.2 Consensus size: 29
10683119 AATTGGTCTT
* *
10683129 TAAACTTTTGAATATTCTGATTTCAT-CC
1 TAAACTTTTGAACATTCTAATTTCATCCC
* * *
10683157 TCAAAC-TTTGACACTCATTTTAAATT-AGTCCT
1 T-AAACTTTTGA-A--CATTCTAATTTCA-TCCC
10683189 TAAACTTTTGAACATTCTAATTTCATCCC
1 TAAACTTTTGAACATTCTAATTTCATCCC
10683218 TAAACT
1 TAAACT
10683224 ATGACCATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
28 6 0.12
29 23 0.45
30 2 0.04
31 13 0.25
32 7 0.14
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (29 bp):
TAAACTTTTGAACATTCTAATTTCATCCC
Found at i:10683241 original size:60 final size:60
Alignment explanation
Indices: 10683110--10683260 Score: 173
Period size: 60 Copynumber: 2.5 Consensus size: 60
10683100 ACCTATCACC
* * * * *
10683110 CTCATTCTAAATTGGTCTTTAAACTTTTGAATATTCTGATTTCATCCTCAAACTTTGACA
1 CTCATTTTAAATTGGTCCTTAAACTTTTGAACATTCTAATTTCATCCTCAAACTATGACA
*
10683170 CTCATTTTAAATTAGTCCTTAAACTTTTGAACATTCTAATTTCATCC-CTAAACTATGAC-
1 CTCATTTTAAATTGGTCCTTAAACTTTTGAACATTCTAATTTCATCCTC-AAACTATGACA
* **
10683229 CAT-TTTTATAAATTGGTCCCAAAACTTTTGAA
1 C-TCATTT-TAAATTGGTCCTTAAACTTTTGAA
10683261 TATGCCAATT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
59 5 0.06
60 73 0.94
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (60 bp):
CTCATTTTAAATTGGTCCTTAAACTTTTGAACATTCTAATTTCATCCTCAAACTATGACA
Found at i:10683271 original size:60 final size:61
Alignment explanation
Indices: 10683130--10683277 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 61
10683120 ATTGGTCTTT
* * **
10683130 AAACTTTTGAATATTCTGATTTCAT-CCTCAAACTTTGACACTCATTTTAAATTAGTCCTT
1 AAACTTTTGAATATTCTAATTTCATCCCTCAAACTATGACACTCATTTTAAATTAGTCCCA
* * *
10683190 AAACTTTTGAACATTCTAATTTCATCCCT-AAACTATGAC-CAT-TTTTATAAATTGGTCCCA
1 AAACTTTTGAATATTCTAATTTCATCCCTCAAACTATGACAC-TCATTT-TAAATTAGTCCCA
* * *
10683250 AAACTTTTGAATATGCCAATTTCTTCCC
1 AAACTTTTGAATATTCTAATTTCATCCC
10683278 AAAATTCATC
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.05
60 67 0.91
61 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (61 bp):
AAACTTTTGAATATTCTAATTTCATCCCTCAAACTATGACACTCATTTTAAATTAGTCCCA
Found at i:10688053 original size:20 final size:20
Alignment explanation
Indices: 10688028--10688076 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
10688018 GGCCAACAAA
10688028 TTCGCAACGCAAACTCCAAT
1 TTCGCAACGCAAACTCCAAT
* ***
10688048 TTCGCAACCCAGTTTCCAAT
1 TTCGCAACGCAAACTCCAAT
10688068 TTCGCAACG
1 TTCGCAACG
10688077 TGAATATGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (20 bp):
TTCGCAACGCAAACTCCAAT
Found at i:10688112 original size:20 final size:21
Alignment explanation
Indices: 10688068--10688115 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
10688058 AGTTTCCAAT
*
10688068 TTCGCAACGTGAATATGTAAA
1 TTCGCAACGCGAATATGTAAA
10688089 -TCGCAACGCG-ATA-GTCAAA
1 TTCGCAACGCGAATATGT-AAA
10688108 TTCGCAAC
1 TTCGCAAC
10688116 ACAAATCGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 2 0.08
19 6 0.25
20 16 0.67
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (21 bp):
TTCGCAACGCGAATATGTAAA
Found at i:10688127 original size:32 final size:32
Alignment explanation
Indices: 10688086--10688152 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
10688076 GTGAATATGT
*
10688086 AAATCGCAACGC-GATAGTCAAATTCGCAACAC
1 AAATCGCAACACAGA-AGTCAAATTCGCAACAC
10688118 AAATCGCAACACAGAAGTCAAATTCGCAACAC
1 AAATCGCAACACAGAAGTCAAATTCGCAACAC
10688150 AAA
1 AAA
10688153 AGTCAAATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 31 0.94
33 2 0.06
ACGTcount: A:0.46, C:0.27, G:0.13, T:0.13
Consensus pattern (32 bp):
AAATCGCAACACAGAAGTCAAATTCGCAACAC
Found at i:10688146 original size:20 final size:20
Alignment explanation
Indices: 10688117--10688167 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
10688107 ATTCGCAACA
*
10688117 CAAA-TCGCAACACAGAAGT
1 CAAATTCGCAACACAAAAGT
10688136 CAAATTCGCAACACAAAAGT
1 CAAATTCGCAACACAAAAGT
10688156 CAAATTCGCAAC
1 CAAATTCGCAAC
10688168 GTGGAATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.47, C:0.27, G:0.12, T:0.14
Consensus pattern (20 bp):
CAAATTCGCAACACAAAAGT
Found at i:10688196 original size:19 final size:20
Alignment explanation
Indices: 10688135--10688227 Score: 91
Period size: 19 Copynumber: 4.7 Consensus size: 20
10688125 AACACAGAAG
* **
10688135 TCAAATTCGCAACACAAAAG
1 TCAAATTCGCAACATAAATT
* *
10688155 TCAAATTCGCAACGTGGAATT
1 TCAAATTCGCAACAT-AAATT
10688176 TCAAATTCGCAAC-TAAATT
1 TCAAATTCGCAACATAAATT
**
10688195 TCAAATTCGCAACACGAATT
1 TCAAATTCGCAACATAAATT
*
10688215 T-AATTTCGCAACA
1 TCAAATTCGCAACA
10688228 GGTTTTAATT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
19 28 0.45
20 19 0.31
21 15 0.24
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.26
Consensus pattern (20 bp):
TCAAATTCGCAACATAAATT
Found at i:10689188 original size:24 final size:24
Alignment explanation
Indices: 10689161--10689214 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
10689151 GTATTCGAAA
10689161 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
10689185 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
10689209 TTTGAT
1 TTTGAT
10689215 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:10690184 original size:23 final size:22
Alignment explanation
Indices: 10690158--10690221 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
10690148 CAGCTCATAT
10690158 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
10690181 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
10690204 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
10690222 TATAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:10690373 original size:103 final size:103
Alignment explanation
Indices: 10690237--10690557 Score: 615
Period size: 103 Copynumber: 3.1 Consensus size: 103
10690227 TAATGCCCAT
*
10690237 AAGGACCACATATCATTCCTTAAGAACCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
10690302 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
10690340 AAGAACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
10690405 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
10690443 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
10690508 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
10690546 AAGGACCACATA
1 AAGGACCACATA
10690558 GACCCTCTAC
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 213 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:10691260 original size:21 final size:21
Alignment explanation
Indices: 10691234--10691278 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10691224 GATTTCTGGG
* *
10691234 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
10691255 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
10691276 CAA
1 CAA
10691279 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:10691879 original size:18 final size:18
Alignment explanation
Indices: 10691856--10691890 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10691846 CTAGGAGATT
10691856 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
10691874 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
10691891 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:10691976 original size:21 final size:22
Alignment explanation
Indices: 10691947--10691990 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10691937 GTTGTATGAT
10691947 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
10691968 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
10691990 A
1 A
10691991 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:10692887 original size:149 final size:149
Alignment explanation
Indices: 10692701--10693004 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
10692691 GAGTCGAGGG
10692701 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
10692766 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
10692831 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* * *
10692850 TCTATGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
10692915 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
10692980 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
10692999 TCTACG
1 TCTACG
10693005 GGCACTTCGG
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:10693026 original size:22 final size:22
Alignment explanation
Indices: 10692983--10693026 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10692973 ATCATTATAT
*
10692983 GGCACTACGGTGCAATTCTACG
1 GGCACTACGGTGCAATTATACG
* *
10693005 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
10693027 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (22 bp):
GGCACTACGGTGCAATTATACG
Found at i:10694241 original size:21 final size:21
Alignment explanation
Indices: 10694217--10694259 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10694207 TTCATATTCG
* *
10694217 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
10694238 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
10694259 T
1 T
10694260 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:10696909 original size:12 final size:12
Alignment explanation
Indices: 10696892--10696925 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
10696882 AGCAAAAGGA
10696892 AATCAAAATCGC
1 AATCAAAATCGC
10696904 AATCAAAATCGC
1 AATCAAAATCGC
10696916 AATCAAAATC
1 AATCAAAATC
10696926 AAAATCTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (12 bp):
AATCAAAATCGC
Found at i:10696931 original size:12 final size:12
Alignment explanation
Indices: 10696890--10696931 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
10696880 CAAGCAAAAG
10696890 GAAATCAAAATC
1 GAAATCAAAATC
*
10696902 GCAATCAAAATC
1 GAAATCAAAATC
*
10696914 GCAATCAAAATC
1 GAAATCAAAATC
*
10696926 AAAATC
1 GAAATC
10696932 TCAATTACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.17
Consensus pattern (12 bp):
GAAATCAAAATC
Found at i:10697253 original size:20 final size:20
Alignment explanation
Indices: 10697224--10697273 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
10697214 ATGTTGCGAT
* *
10697224 CAACGCGAAAGTCAAATTTG
1 CAACGTGAAAGTCAAATTCG
10697244 CAACGTGAAAGTCAAATTCG
1 CAACGTGAAAGTCAAATTCG
10697264 CAACGTGAAA
1 CAACGTGAAA
10697274 TAAGCGTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (20 bp):
CAACGTGAAAGTCAAATTCG
Found at i:10697353 original size:20 final size:19
Alignment explanation
Indices: 10697330--10697409 Score: 62
Period size: 20 Copynumber: 4.3 Consensus size: 19
10697320 AATCGCAACA
10697330 CGAATTTGACTTTCGCGTTG
1 CGAATTT-ACTTTCGCGTTG
* **
10697350 CGAATTTGACTAT--CGTAA
1 CGAATTT-ACTTTCGCGTTG
*
10697368 CG-CT-TAC-TTCGCGTTG
1 CGAATTTACTTTCGCGTTG
10697384 CGAATTTACCTTTCGCGTTG
1 CGAATTTA-CTTTCGCGTTG
10697404 CGAATT
1 CGAATT
10697410 ATTTACCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
14 1 0.02
15 2 0.04
16 6 0.13
17 2 0.04
18 7 0.15
19 1 0.02
20 27 0.59
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (19 bp):
CGAATTTACTTTCGCGTTG
Found at i:10697417 original size:23 final size:21
Alignment explanation
Indices: 10697375--10697440 Score: 89
Period size: 23 Copynumber: 3.0 Consensus size: 21
10697365 TAACGCTTAC
10697375 TTCGCGTTGCG-AATTTACCT
1 TTCGCGTTGCGAAATTTACCT
10697395 TTCGCGTTGCGAATTATTTACCT
1 TTCGCGTTGCGAA--ATTTACCT
*
10697418 TTCACGTTGCGAAAGTTTACCT
1 TTCGCGTTGCGAAA-TTTACCT
10697440 T
1 T
10697441 CAACATGTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
20 11 0.27
21 2 0.05
22 8 0.20
23 20 0.49
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (21 bp):
TTCGCGTTGCGAAATTTACCT
Found at i:10697538 original size:25 final size:25
Alignment explanation
Indices: 10697500--10697549 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
10697490 AAATCAATTA
*
10697500 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
*
10697525 AACATTGTTATGGGTATATTATTTG
1 AACATTGTTATGGGTACATTATTTG
10697550 GAAAATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.46
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:10698284 original size:20 final size:20
Alignment explanation
Indices: 10698259--10698374 Score: 139
Period size: 20 Copynumber: 5.8 Consensus size: 20
10698249 TTAATATTGT
10698259 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGCG
*
10698279 TTGCGAATTTGATTTTCGCG
1 TTGCGAATTTGACTTTCGCG
*
10698299 TTGCGAATTTGACTTAT-GTG
1 TTGCGAATTTGACTT-TCGCG
*
10698319 TTGCG-ATTT-ACAAATTCGCG
1 TTGCGAATTTGAC--TTTCGCG
* *
10698339 TTGCGAATATGACTATCGCG
1 TTGCGAATTTGACTTTCGCG
10698359 TTGCGAATTTGACTTT
1 TTGCGAATTTGACTTT
10698375 GAATTTGACT
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.03
19 5 0.06
20 67 0.84
21 4 0.05
22 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGCG
Found at i:10698389 original size:32 final size:32
Alignment explanation
Indices: 10698343--10698405 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
10698333 TTCGCGTTGC
10698343 GAATATGACTATCGCGTTGCGAATTTGACTTT
1 GAATATGACTATCGCGTTGCGAATTTGACTTT
*
10698375 GAATTTGACTATCGCGTTGCGAATTTGACTT
1 GAATATGACTATCGCGTTGCGAATTTGACTT
10698406 CTATGTTGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (32 bp):
GAATATGACTATCGCGTTGCGAATTTGACTTT
Found at i:10698400 original size:20 final size:20
Alignment explanation
Indices: 10698259--10698404 Score: 134
Period size: 20 Copynumber: 7.7 Consensus size: 20
10698249 TTAATATTGT
*
10698259 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTATCGCG
* *
10698279 TTGCGAATTTGATTTTCGCG
1 TTGCGAATTTGACTATCGCG
*
10698299 TTGCGAATTTGACTTAT-GTG
1 TTGCGAATTTGAC-TATCGCG
*
10698319 TTGCG-ATTT-ACAAATTCGCG
1 TTGCGAATTTGAC-TA-TCGCG
*
10698339 TTGCGAATATGACTATCGCG
1 TTGCGAATTTGACTATCGCG
10698359 TTGCGAATTTGAC--T----
1 TTGCGAATTTGACTATCGCG
10698373 TT--GAATTTGACTATCGCG
1 TTGCGAATTTGACTATCGCG
10698391 TTGCGAATTTGACT
1 TTGCGAATTTGACT
10698405 TCTATGTTGC
Statistics
Matches: 103, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
12 9 0.09
14 3 0.03
18 6 0.06
19 5 0.05
20 72 0.70
21 6 0.06
22 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (20 bp):
TTGCGAATTTGACTATCGCG
Found at i:10705673 original size:90 final size:90
Alignment explanation
Indices: 10705520--10705702 Score: 366
Period size: 90 Copynumber: 2.0 Consensus size: 90
10705510 TAAGCTTGTT
10705520 CATTGGTTTAGTCCTTTTGTTCGACTGATATGGCGTTTTCTTGCGAAGACGGGACTTCAAGTTCC
1 CATTGGTTTAGTCCTTTTGTTCGACTGATATGGCGTTTTCTTGCGAAGACGGGACTTCAAGTTCC
10705585 TGTGTCCATTGATCATGAACCTATA
66 TGTGTCCATTGATCATGAACCTATA
10705610 CATTGGTTTAGTCCTTTTGTTCGACTGATATGGCGTTTTCTTGCGAAGACGGGACTTCAAGTTCC
1 CATTGGTTTAGTCCTTTTGTTCGACTGATATGGCGTTTTCTTGCGAAGACGGGACTTCAAGTTCC
10705675 TGTGTCCATTGATCATGAACCTATA
66 TGTGTCCATTGATCATGAACCTATA
10705700 CAT
1 CAT
10705703 AGGAGAGTAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (90 bp):
CATTGGTTTAGTCCTTTTGTTCGACTGATATGGCGTTTTCTTGCGAAGACGGGACTTCAAGTTCC
TGTGTCCATTGATCATGAACCTATA
Found at i:10706135 original size:29 final size:29
Alignment explanation
Indices: 10706102--10706187 Score: 82
Period size: 36 Copynumber: 2.7 Consensus size: 29
10706092 GAAGTTGATA
*
10706102 GAATTCCGGAAAATGAATTACTGGAATTT
1 GAATTCCGAAAAATGAATTACTGGAATTT
10706131 GAATTACTAGAACTGAAAAATGAATTACTGGAATTT
1 GAATT-C-----C-GAAAAATGAATTACTGGAATTT
* *
10706167 AAATTCTGAAAAATGAATTAC
1 GAATTCCGAAAAATGAATTAC
10706188 ATTTATGGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
29 19 0.40
30 1 0.02
35 2 0.04
36 25 0.53
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30
Consensus pattern (29 bp):
GAATTCCGAAAAATGAATTACTGGAATTT
Found at i:10706228 original size:14 final size:14
Alignment explanation
Indices: 10706193--10706229 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
10706183 ATTACATTTA
*
10706193 TGGAAAACGTTTTC
1 TGGAAAATGTTTTC
10706207 TGGAAAATGTTTTC
1 TGGAAAATGTTTTC
*
10706221 TGTAAAATG
1 TGGAAAATG
10706230 AATTACATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (14 bp):
TGGAAAATGTTTTC
Found at i:10706441 original size:49 final size:50
Alignment explanation
Indices: 10706344--10706442 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
10706334 TTCAAATATT
*
10706344 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
* * * *
10706394 AAATATTA-AAATAAT-TTATTTATTATTAAATA-TTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCA-TAAA-ACTTAATATTATAATTTTA
10706443 TTAATAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 9 0.21
49 25 0.60
50 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
Found at i:10706486 original size:32 final size:30
Alignment explanation
Indices: 10706421--10706489 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 30
10706411 ATTTATTATT
*
10706421 AAATATT-ATTTTTATAATTTTATTAATAA
1 AAATATTAATTTTTATAATTTTATGAATAA
*
10706450 AAATATTAATTTTTGTATATTTTAGTGAAGT-A
1 AAATATTAATTTTTATA-ATTTTA-TGAA-TAA
10706482 AAATATTA
1 AAATATTA
10706490 TAAATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 7 0.21
30 8 0.24
31 6 0.18
32 12 0.35
33 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (30 bp):
AAATATTAATTTTTATAATTTTATGAATAA
Found at i:10706560 original size:23 final size:23
Alignment explanation
Indices: 10706530--10706581 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
10706520 AGTGTTATAT
10706530 TATATTTTAAAAATATTAATTAA
1 TATATTTTAAAAATATTAATTAA
* * *
10706553 TATATTTTAAATATCTTTATTAA
1 TATATTTTAAAAATATTAATTAA
*
10706576 AATATT
1 TATATT
10706582 ATTTAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAA
Found at i:10706621 original size:19 final size:20
Alignment explanation
Indices: 10706569--10706621 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
10706559 TTAAATATCT
10706569 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
10706588 ATATATAAATAATATTA-TTCA
1 TTAT-TAAAT-ATATTATTTAA
10706609 TTATTAAATATAT
1 TTATTAAATATAT
10706622 AAATTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.25
20 9 0.32
21 6 0.21
22 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:10706640 original size:29 final size:29
Alignment explanation
Indices: 10706577--10706654 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 29
10706567 CTTTATTAAA
10706577 ATATTATTTAAATATATAAATAATATTATT
1 ATATTA-TTAAATATATAAATAATATTATT
* * *
10706607 -CATTATTAAATATATAAAT-TTTTTATAT
1 ATATTATTAAATATATAAATAATATTAT-T
*
10706635 ATATTATTAAA-ATAAAAATA
1 ATATTATTAAATATATAAATA
10706655 TAATATCTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
27 5 0.12
28 22 0.55
29 13 0.32
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (29 bp):
ATATTATTAAATATATAAATAATATTATT
Found at i:10706659 original size:5 final size:5
Alignment explanation
Indices: 10706651--10706740 Score: 55
Period size: 5 Copynumber: 18.4 Consensus size: 5
10706641 TTAAAATAAA
** * *
10706651 AATAT AATAT CTTAT ATTAT AATAT AATTGAT TATAT AATATT AA-A-
1 AATAT AATAT AATAT AATAT AATAT AA-T-AT AATAT AATA-T AATAT
* * *
10706697 AATAT AATAT TATAT ATTAT AATAT TA-AT AA-AT AATAT AA-AT AA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AA
10706741 ATTTTGATGA
Statistics
Matches: 67, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
3 2 0.03
4 12 0.18
5 45 0.67
6 5 0.07
7 3 0.04
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (5 bp):
AATAT
Found at i:10706706 original size:31 final size:29
Alignment explanation
Indices: 10706668--10706736 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
10706658 TATCTTATAT
10706668 TATAATATAAT-TGATTATATAATATTAAAAA
1 TATAATATAATAT-A-T-TATAATATTAAAAA
* *
10706699 TATAATATTATATATTATAATATTAATAA
1 TATAATATAATATATTATAATATTAAAAA
10706728 -ATAATATAA
1 TATAATATAA
10706737 ATAAATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 8 0.24
29 13 0.38
30 1 0.03
31 11 0.32
32 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
TATAATATAATATATTATAATATTAAAAA
Found at i:10706739 original size:39 final size:39
Alignment explanation
Indices: 10706645--10706739 Score: 90
Period size: 39 Copynumber: 2.4 Consensus size: 39
10706635 ATATTATTAA
* *
10706645 AATAAA-AATATAATATCTTATATTATAATATAATTGATT
1 AATAAATAATATAA-ATATAATATTATAATATAATTGATT
* *
10706684 -ATATAATATTAAAAATATAATATTATATATTATAA-T-ATT
1 AATA-AATAATATAAATATAATATTATA-A-TATAATTGATT
10706723 AATAAATAATATAAATA
1 AATAAATAATATAAATA
10706740 AATTTTGATG
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
38 3 0.07
39 27 0.60
40 10 0.22
41 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (39 bp):
AATAAATAATATAAATATAATATTATAATATAATTGATT
Found at i:10711566 original size:16 final size:16
Alignment explanation
Indices: 10711538--10711570 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10711528 CAAAATTAAC
10711538 AATATTTTCTATTTTT
1 AATATTTTCTATTTTT
10711554 AATATATTT-TATTTTT
1 AATAT-TTTCTATTTTT
10711570 A
1 A
10711571 CAATTTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
AATATTTTCTATTTTT
Found at i:10713859 original size:27 final size:27
Alignment explanation
Indices: 10713821--10713874 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
10713811 GATAATTTTG
*
10713821 AAAATTTTA-TTTAAAATACAAAAAATT
1 AAAATTATATTTTAAAA-ACAAAAAATT
*
10713848 AAAATTATATTTTAAAAACCAAAAATT
1 AAAATTATATTTTAAAAACAAAAAATT
10713875 TTGAAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (27 bp):
AAAATTATATTTTAAAAACAAAAAATT
Found at i:10718398 original size:41 final size:42
Alignment explanation
Indices: 10718332--10718444 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 42
10718322 TCGCAAACGG
* * *
10718332 TAGCGGCGTTTTTCGTTCACAAACGCCGCTGAAGGTGATG-TTTT
1 TAGCGGCGTTTTT--TT-ACAAACGCCGCTAAAGGTAATGATATT
* *
10718376 TAGCAGCGTTTTTTTACAAACGCCACTAAAGGTAATGATATT
1 TAGCGGCGTTTTTTTACAAACGCCGCTAAAGGTAATGATATT
* *
10718418 TAGCGGCG-TATTTTCCAAACGCCGCTA
1 TAGCGGCGTTTTTTTACAAACGCCGCTA
10718445 TTTATATTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 35 0.59
42 12 0.20
44 12 0.20
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
TAGCGGCGTTTTTTTACAAACGCCGCTAAAGGTAATGATATT
Found at i:10718742 original size:21 final size:21
Alignment explanation
Indices: 10718690--10718743 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
10718680 ATTATCCAAT
*
10718690 AAACTTAACATCCATAACAAC
1 AAACTTAAAATCCATAACAAC
* *
10718711 AAACTTGAAATCCATAACAAG
1 AAACTTAAAATCCATAACAAC
*
10718732 ATACTTAAAATC
1 AAACTTAAAATC
10718744 TATGATAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.52, C:0.22, G:0.04, T:0.22
Consensus pattern (21 bp):
AAACTTAAAATCCATAACAAC
Found at i:10720060 original size:22 final size:22
Alignment explanation
Indices: 10720035--10720094 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
10720025 AAAAATATGA
*
10720035 AAAATAAAATTGACACCCCTTT
1 AAAATAAAATTGACACCCCTCT
* *
10720057 AAAATAATATTGACACCTCTCT
1 AAAATAAAATTGACACCCCTCT
10720079 AAAA-ATAAA-TGACACC
1 AAAATA-AAATTGACACC
10720095 GTACTATAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.48, C:0.22, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAATAAAATTGACACCCCTCT
Found at i:10723173 original size:43 final size:43
Alignment explanation
Indices: 10723116--10723198 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
10723106 GGTTAAAGGG
* *
10723116 ACAAACGCCGCTAAAGTACCAGTCTATAGCAGCGTTTTTAAAC
1 ACAAACACCACTAAAGTACCAGTCTATAGCAGCGTTTTTAAAC
** *
10723159 ACAAACACCACTAAAGTACGTGTCTATAGCGGCGTTTTTA
1 ACAAACACCACTAAAGTACCAGTCTATAGCAGCGTTTTTA
10723199 TAAAAACGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (43 bp):
ACAAACACCACTAAAGTACCAGTCTATAGCAGCGTTTTTAAAC
Found at i:10723226 original size:41 final size:41
Alignment explanation
Indices: 10723118--10723544 Score: 437
Period size: 41 Copynumber: 10.4 Consensus size: 41
10723108 TTAAAGGGAC
** * * *
10723118 AAACGCCGCTAAAGTACCAGTCTATAGCAGCGTTTTTAAACA
1 AAACGCCGCTAAAGTACGTGTCTATAGCGGCGTTTGTATA-A
* * *
10723160 CAAACACCACTAAAGTACGTGTCTATAGCGGCGTTTTTATAA
1 -AAACGCCGCTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
* *
10723202 AAACGCTGCTAAAGTACGTGTCTATATCGGCGTTTGTATAA
1 AAACGCCGCTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
* * *
10723243 AAAAGCCGCTAAATTACGTGTCTATATCGGCGTTTGTATAA
1 AAACGCCGCTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
* *
10723284 AAACGCCGCTAAATTACGTTTCTATAGCGGCGTTTGTATAA
1 AAACGCCGCTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
* * **
10723325 AAACGCCACTAAATTACGTGTCTATAGCGGTATTTGTATAA
1 AAACGCCGCTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
* * *
10723366 AAACGCCACTAAATTACGTGTCTATAGCGGCGCTTGTATAA
1 AAACGCCGCTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
* * * *
10723407 AAACACCGCTAAAGTAC-TACTCTGTTGCGGCGTTTGTATAA
1 AAACGCCGCTAAAGTACGT-GTCTATAGCGGCGTTTGTATAA
* * * * * *** *
10723448 AAATGCCACT-ATGGATGAACCTATTGCGGCGTTTGTATAA
1 AAACGCCGCTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
* * * *
10723488 AAACGCCACTAAAGTAC-TACTCTGTTGCGGCGTTTTGTATAA
1 AAACGCCGCTAAAGTACGT-GTCTATAGCGGCG-TTTGTATAA
10723530 AAACGCCGCTAAAGT
1 AAACGCCGCTAAAGT
10723545 TACCAATTTA
Statistics
Matches: 329, Mismatches: 50, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
40 32 0.10
41 239 0.73
42 24 0.07
43 34 0.10
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (41 bp):
AAACGCCGCTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
Found at i:10724955 original size:15 final size:14
Alignment explanation
Indices: 10724937--10724984 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 14
10724927 TAATAAACTT
10724937 AAATAAAATAATTAA
1 AAATAAAATAA-TAA
10724952 AAATAATAATAATAA
1 AAATAA-AATAATAA
*
10724967 AAATAAAAACAATAA
1 AAAT-AAAATAATAA
10724982 AAA
1 AAA
10724985 AACAACATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 23 0.77
16 7 0.23
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAATAA
Found at i:10726711 original size:3 final size:3
Alignment explanation
Indices: 10726703--10726746 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
10726693 ATTTTTCAAA
*
10726703 TAT TAT TA- TAT TAT TAT AAAT TAT TAT TAT TAT TATT TAT TAT T
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT T
10726747 TACATCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 29 0.81
4 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:10726732 original size:16 final size:16
Alignment explanation
Indices: 10726707--10726746 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
10726697 TTCAAATATT
10726707 ATTA-TATTATTATAA
1 ATTATTATTATTATAA
*
10726722 ATTATTATTATTATTA
1 ATTATTATTATTATAA
*
10726738 TTTATTATT
1 ATTATTATT
10726747 TACATCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATTATTATTATAA
Found at i:10726746 original size:13 final size:13
Alignment explanation
Indices: 10726703--10726746 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
10726693 ATTTTTCAAA
10726703 TATTATTATATTAT
1 TATTATTAT-TTAT
*
10726717 TATAAATTA-TTAT
1 TAT-TATTATTTAT
10726730 TATTATTATTTAT
1 TATTATTATTTAT
10726743 TATT
1 TATT
10726747 TACATCCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 4 0.15
13 15 0.58
14 3 0.12
15 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTATTATTTAT
Found at i:10729731 original size:49 final size:49
Alignment explanation
Indices: 10729672--10729772 Score: 193
Period size: 49 Copynumber: 2.1 Consensus size: 49
10729662 TTTGTGTTCG
*
10729672 TAATTAGCATTCATTATTCTTTGAATTCTTTGAATTAATTTAACTTTAC
1 TAATTAGCATTCATTATTCTTTGAATTCTTTAAATTAATTTAACTTTAC
10729721 TAATTAGCATTCATTATTCTTTGAATTCTTTAAATTAATTTAACTTTAC
1 TAATTAGCATTCATTATTCTTTGAATTCTTTAAATTAATTTAACTTTAC
10729770 TAA
1 TAA
10729773 CTTATCTCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (49 bp):
TAATTAGCATTCATTATTCTTTGAATTCTTTAAATTAATTTAACTTTAC
Found at i:10731343 original size:16 final size:16
Alignment explanation
Indices: 10731322--10731361 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
10731312 ATGACAAGAG
10731322 CTATGTGAA-AAATGAT
1 CTATGTGAATAAAT-AT
*
10731338 CTATGTGAATAAATTT
1 CTATGTGAATAAATAT
10731354 CTATGTGA
1 CTATGTGA
10731362 TAAGCTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (16 bp):
CTATGTGAATAAATAT
Found at i:10731547 original size:23 final size:23
Alignment explanation
Indices: 10731459--10731549 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 23
10731449 TTCTATGCAA
*
10731459 TCCTTCGGGACAAATCTATGTGG
1 TCCTTCGGGACAATTCTATGTGG
* * *
10731482 TCTTTCGGGACATTTCTACT-TGA
1 TCCTTCGGGACAATTCTA-TGTGG
* *
10731505 TCATTCGGGACAATACTATGTGG
1 TCCTTCGGGACAATTCTATGTGG
* *
10731528 TCCTTCGGGACATTTTTATGTG
1 TCCTTCGGGACAATTCTATGTG
10731550 CCACTTCGGT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
22 1 0.02
23 52 0.96
24 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (23 bp):
TCCTTCGGGACAATTCTATGTGG
Found at i:10731558 original size:46 final size:47
Alignment explanation
Indices: 10731461--10731558 Score: 123
Period size: 46 Copynumber: 2.1 Consensus size: 47
10731451 CTATGCAATC
* *
10731461 CTTCGGGACAAATCTATGTGGTCTTTCGGGACATTTCTACTTGATCA
1 CTTCGGGACAAATCTATGTGGTCCTTCGGGACATTTCTACTTGACCA
*
10731508 -TTCGGGAC-AATACTATGTGGTCCTTCGGGACATTTTTA-TGTG-CCA
1 CTTCGGGACAAAT-CTATGTGGTCCTTCGGGACATTTCTACT-TGACCA
10731553 CTTCGG
1 CTTCGG
10731559 TGCATATTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
45 6 0.13
46 39 0.87
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (47 bp):
CTTCGGGACAAATCTATGTGGTCCTTCGGGACATTTCTACTTGACCA
Found at i:10732060 original size:23 final size:22
Alignment explanation
Indices: 10732034--10732084 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
10732024 CTCTGATCAA
*
10732034 ATTTTGTAAACATATTTGGTTAT
1 ATTTTGTAAA-ATATTAGGTTAT
* *
10732057 ATTTATGTAAATTATTAGGTTTT
1 ATTT-TGTAAAATATTAGGTTAT
10732080 ATTTT
1 ATTTT
10732085 TAATATGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 17 0.71
24 6 0.25
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (22 bp):
ATTTTGTAAAATATTAGGTTAT
Found at i:10732193 original size:16 final size:15
Alignment explanation
Indices: 10732166--10732201 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
10732156 AAATTATTGA
10732166 CAAT-TTTTAAAAGT
1 CAATGTTTTAAAAGT
10732180 CAATGTTTTGAAAAGT
1 CAATGTTTT-AAAAGT
10732196 CAATGT
1 CAATGT
10732202 GTCACCTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 4 0.20
16 12 0.60
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (15 bp):
CAATGTTTTAAAAGT
Found at i:10732611 original size:17 final size:17
Alignment explanation
Indices: 10732589--10732628 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
10732579 ACCCTCGAAG
10732589 AGTATATCGCCATGCTT
1 AGTATATCGCCATGCTT
10732606 AGTATATCGCCATGCTT
1 AGTATATCGCCATGCTT
10732623 AGTATA
1 AGTATA
10732629 CAAAATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (17 bp):
AGTATATCGCCATGCTT
Found at i:10733880 original size:28 final size:28
Alignment explanation
Indices: 10733848--10733909 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
10733838 GATGGAGTAG
10733848 AAAGAAGTACGAGAAGAAGCAAGGAAAA
1 AAAGAAGTACGAGAAGAAGCAAGGAAAA
*
10733876 AAAGAAGTACGAGAAGAAGCAAGGGAAA
1 AAAGAAGTACGAGAAGAAGCAAGGAAAA
10733904 AAAGAA
1 AAAGAA
10733910 ACGAGCTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.61, C:0.06, G:0.29, T:0.03
Consensus pattern (28 bp):
AAAGAAGTACGAGAAGAAGCAAGGAAAA
Found at i:10739331 original size:24 final size:22
Alignment explanation
Indices: 10739304--10739367 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 22
10739294 ACTAGGGGTG
10739304 CGTAGAATTTGTCCCGAAGGACCA
1 CGTAGAA--TGTCCCGAAGGACCA
10739328 CGTAG-ATGTCCCGAAGGACCA
1 CGTAGAATGTCCCGAAGGACCA
* *
10739349 CGTAG-ATTTCCCAAAGGAC
1 CGTAGAATGTCCCGAAGGAC
10739368 TACATATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 32 0.84
23 1 0.03
24 5 0.13
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.19
Consensus pattern (22 bp):
CGTAGAATGTCCCGAAGGACCA
Found at i:10739339 original size:21 final size:21
Alignment explanation
Indices: 10739313--10739367 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
10739303 GCGTAGAATT
10739313 TGTCCCGAAGGACCACGTAGA
1 TGTCCCGAAGGACCACGTAGA
10739334 TGTCCCGAAGGACCACGTAGA
1 TGTCCCGAAGGACCACGTAGA
* *
10739355 TTTCCCAAAGGAC
1 TGTCCCGAAGGAC
10739368 TACATATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.16
Consensus pattern (21 bp):
TGTCCCGAAGGACCACGTAGA
Found at i:10739450 original size:18 final size:18
Alignment explanation
Indices: 10739381--10739442 Score: 106
Period size: 18 Copynumber: 3.4 Consensus size: 18
10739371 ATATAACACA
*
10739381 TATGTCCCGAAGGACCAC
1 TATGTCCCGAACGACCAC
10739399 TATGTCCCGAACGACCAC
1 TATGTCCCGAACGACCAC
10739417 TATGTCCCGAACGACCAC
1 TATGTCCCGAACGACCAC
*
10739435 TATATCCC
1 TATGTCCC
10739443 AAAGGACCGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.27, C:0.37, G:0.16, T:0.19
Consensus pattern (18 bp):
TATGTCCCGAACGACCAC
Found at i:10740251 original size:24 final size:24
Alignment explanation
Indices: 10740216--10740269 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 24
10740206 CATTGAAGTG
*
10740216 CATCGATGCATTC--T-ACA-GTG
1 CATCGATGCATTCATTGACATGTA
10740236 CATCGATGCATTCATTGACATGTA
1 CATCGATGCATTCATTGACATGTA
10740260 CATCGATGCA
1 CATCGATGCA
10740270 CTACCCATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 13 0.45
22 1 0.03
23 3 0.10
24 12 0.41
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (24 bp):
CATCGATGCATTCATTGACATGTA
Found at i:10743794 original size:18 final size:18
Alignment explanation
Indices: 10743771--10743840 Score: 122
Period size: 18 Copynumber: 3.9 Consensus size: 18
10743761 ATATAACACA
10743771 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
10743789 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
*
10743807 TATCTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
*
10743825 TATGTCCCGAAAGACC
1 TATGTCCCGAAGGACC
10743841 GCGTAGACCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:10743955 original size:25 final size:26
Alignment explanation
Indices: 10743904--10743955 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
10743894 ATAACATGGG
*
10743904 CATTTTCACTTATCTCATTTCACTATA
1 CATTTTCAC-TATCACATTTCACTATA
10743931 CATTTTCA-TATCACATGTTCA-TATA
1 CATTTTCACTATCACAT-TTCACTATA
10743956 AGCTCATAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 11 0.48
26 4 0.17
27 8 0.35
ACGTcount: A:0.29, C:0.23, G:0.02, T:0.46
Consensus pattern (26 bp):
CATTTTCACTATCACATTTCACTATA
Found at i:10744621 original size:20 final size:23
Alignment explanation
Indices: 10744592--10744647 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 23
10744582 CCCCTTGAAA
*
10744592 TGCATTGATGCATTC-T-ACA-G
1 TGCATCGATGCATTCATGACATG
10744612 TGCATCGATGCATTCATTGACATG
1 TGCATCGATGCATTCA-TGACATG
10744636 TGCATCGATGCA
1 TGCATCGATGCA
10744648 CTACCCATGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 14 0.45
22 1 0.03
23 3 0.10
24 13 0.42
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (23 bp):
TGCATCGATGCATTCATGACATG
Found at i:10744758 original size:64 final size:63
Alignment explanation
Indices: 10744635--10744771 Score: 143
Period size: 64 Copynumber: 2.2 Consensus size: 63
10744625 TCATTGACAT
* * *
10744635 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACATTCGATGTTTTCATTTTAA-AGA
* * * *** *
10744699 GTGCATCGATGCACT-CCTTATGCATCGATGCACTAATTGTATTCGATG-TTTCTTCTTTAAAGA
1 GTGCATCGATGCACTACC-CATGCATCGATACACAAATCACATTCGATGTTTTCAT-TTTAAAGA
10744762 GTGCATCGAT
1 GTGCATCGAT
10744772 ATACATTGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
63 18 0.30
64 43 0.70
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATCACATTCGATGTTTTCATTTTAAAGA
Found at i:10745275 original size:5 final size:5
Alignment explanation
Indices: 10745256--10745293 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
10745246 CTTCATGTAT
10745256 GAAGA -AAGAA GAAGA GAAGA GAAGA GAAGA GAAGA GAA
1 GAAGA GAAG-A GAAGA GAAGA GAAGA GAAGA GAAGA GAA
10745294 CTCAACTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 3 0.10
5 25 0.81
6 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:10746964 original size:34 final size:32
Alignment explanation
Indices: 10746904--10746973 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
10746894 CCTTACAAAC
* *
10746904 TCCCTAGTTTTTCCAGGCTAAACTAGAACCTT
1 TCCCTAGCTTTTACAGGCTAAACTAGAACCTT
*
10746936 TCCCTAGCTTTTACACGTGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACA-G-GCTAAACTAGAACCTT
10746970 TCCC
1 TCCC
10746974 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 13 0.39
33 1 0.03
34 19 0.58
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (32 bp):
TCCCTAGCTTTTACAGGCTAAACTAGAACCTT
Found at i:10752398 original size:2 final size:2
Alignment explanation
Indices: 10752391--10752444 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
10752381 TAATGGGATA
10752391 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10752433 AT AT AT AT AT AT
1 AT AT AT AT AT AT
10752445 CAAGGAAGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10756206 original size:24 final size:25
Alignment explanation
Indices: 10756175--10756230 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
10756165 TAGCTCGTAT
* *
10756175 AAAT-TGCACCAAAGTGCCGCGTAG
1 AAATATGCACCAAAGTGCCACATAG
*
10756199 -AATATGCACCGAAGTGCCACATAG
1 AAATATGCACCAAAGTGCCACATAG
10756223 AAATATGC
1 AAATATGC
10756231 CTAAGGACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 17 0.63
25 7 0.26
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (25 bp):
AAATATGCACCAAAGTGCCACATAG
Found at i:10756263 original size:23 final size:23
Alignment explanation
Indices: 10756237--10756281 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
10756227 ATGCCTAAGG
10756237 ACCACGTAGT-ATTGTCCCGAAGT
1 ACCACGTA-TAATTGTCCCGAAGT
10756260 ACCACGTATAAATTGTCCCGAA
1 ACCACGTAT-AATTGTCCCGAA
10756282 TAACCGCGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 8 0.40
24 11 0.55
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (23 bp):
ACCACGTATAATTGTCCCGAAGT
Found at i:10757159 original size:15 final size:15
Alignment explanation
Indices: 10757139--10757172 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10757129 GATACTTATA
*
10757139 CCTTAGTATTGATAC
1 CCTTAGTATCGATAC
*
10757154 CCTTAGTATCGATGC
1 CCTTAGTATCGATAC
10757169 CCTT
1 CCTT
10757173 CCTTTGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (15 bp):
CCTTAGTATCGATAC
Found at i:10762753 original size:96 final size:96
Alignment explanation
Indices: 10762631--10762805 Score: 233
Period size: 96 Copynumber: 1.8 Consensus size: 96
10762621 CAATAAATTT
** * * * * * * *
10762631 CATGATCCATAAATCAGGAATGATCATATTTTTCAATGAAAATATGTGACTAGATAACACATTTC
1 CATGATCCATAAATCAGGAACAATCATATTTTACAATGAAAACAAGTAACCAAAGAACACATTTC
*
10762696 AGGTAACCATAGTTTGTAAACTAGTAGTTTC
66 AAGTAACCATAGTTTGTAAACTAGTAGTTTC
* * *
10762727 CATGATTCATAAATCAGGAACAATCATATTTTACAGTGAAAACAAGTAACCAAAGAACATATTTC
1 CATGATCCATAAATCAGGAACAATCATATTTTACAATGAAAACAAGTAACCAAAGAACACATTTC
10762792 AAGTAACCATAGTT
66 AAGTAACCATAGTT
10762806 CAAAGACAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 66 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (96 bp):
CATGATCCATAAATCAGGAACAATCATATTTTACAATGAAAACAAGTAACCAAAGAACACATTTC
AAGTAACCATAGTTTGTAAACTAGTAGTTTC
Found at i:10769963 original size:7 final size:7
Alignment explanation
Indices: 10769951--10769985 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
10769941 ATTACGCTTA
10769951 AAAAAAG
1 AAAAAAG
10769958 AAAAAAG
1 AAAAAAG
10769965 AAAAAAG
1 AAAAAAG
*
10769972 AAATGAAG
1 AAA-AAAG
10769980 AAAAAA
1 AAAAAA
10769986 AGAAGAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:10770015 original size:32 final size:30
Alignment explanation
Indices: 10769950--10770020 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
10769940 TATTACGCTT
10769950 AAAAAAAGAAAAAAGAAAAAAGAAATGAAG
1 AAAAAAAGAAAAAAGAAAAAAGAAATGAAG
* *
10769980 AAAAAAAG-AAGAAG-AAGAAGAAATGAGAG
1 AAAAAAAGAAAAAAGAAAAAAGAAATGA-AG
*
10770009 AGGAAAAAGAAA
1 A-AAAAAAGAAA
10770021 TGAAAAGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 11 0.31
29 8 0.23
30 14 0.40
31 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (30 bp):
AAAAAAAGAAAAAAGAAAAAAGAAATGAAG
Found at i:10771340 original size:161 final size:161
Alignment explanation
Indices: 10770958--10771342 Score: 537
Period size: 161 Copynumber: 2.4 Consensus size: 161
10770948 AGAACTTATA
* * * * *
10770958 CTCATCAATCACATAAGGAGTTGAATTAGTGTCACCTTAGGTCATCCATCGCATAAGGAGTTGGA
1 CTCATCCATCACATAAGGAGTTGGATCAGTGTCACCTTAGGTCATCCATCGTATAAGGAGTTGCA
*
10771023 TCGGCATTCCCGATAGGAGAAGATCGTAATGAGAAGAACTTGCTCAAAGTTTGTTTGATTTCATC
66 TCGGCATTCCCGATAGGAGAAGATCGTAATGAGAAGAACTTGCTCAAAGTTTGTTTGATTCCATC
* *
10771088 ACATAAGGAGTTGGACCAACACCGACCTTGG
131 ACATAAGGAGGTGGAACAACACCGACCTTGG
* * *
10771119 CTCATCCATCACATAAGGAGTTAGATCAGTGTCACCTTAGATCATCCATCGTAGAAGGAGTTGCA
1 CTCATCCATCACATAAGGAGTTGGATCAGTGTCACCTTAGGTCATCCATCGTATAAGGAGTTGCA
*
10771184 TCGAG-ATTCCCGATAGGAGAAGTTCGTAATGAGAAGAACTTGCTCAACA-TTT-TCTTGATTCC
66 TCG-GCATTCCCGATAGGAGAAGATCGTAATGAGAAGAACTTGCTCAA-AGTTTGT-TTGATTCC
*
10771246 ATCACATAAGGAGGTGTAACAACACCGACCTTGG
128 ATCACATAAGGAGGTGGAACAACACCGACCTTGG
* * * *
10771280 TTCATCCATCACATAAGGAGTTGGATCA-TCGTCACCATAGGTTA-CTCATCATATAAGGAGTTG
1 CTCATCCATCACATAAGGAGTTGGATCAGT-GTCACCTTAGGTCATC-CATCGTATAAGGAGTTG
10771343 GGTCAAAATT
Statistics
Matches: 199, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
160 3 0.02
161 194 0.97
162 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (161 bp):
CTCATCCATCACATAAGGAGTTGGATCAGTGTCACCTTAGGTCATCCATCGTATAAGGAGTTGCA
TCGGCATTCCCGATAGGAGAAGATCGTAATGAGAAGAACTTGCTCAAAGTTTGTTTGATTCCATC
ACATAAGGAGGTGGAACAACACCGACCTTGG
Found at i:10771369 original size:161 final size:161
Alignment explanation
Indices: 10770958--10771391 Score: 457
Period size: 161 Copynumber: 2.7 Consensus size: 161
10770948 AGAACTTATA
* * * * ** * *
10770958 CTCATCAATCACATAAGGAGTT-GAATTAGTGTCACCTTAGGTCATCCATCGCATAAGGAGTTGG
1 CTCATCCATCACATAAGGAGTTAG-ATCAGTGTCACCATAGATCATCCATCATAGAAGGAGTTGC
*** * * *
10771022 ATCGGCATTCCCGATAGGAGAAGATCGTAATGAGAAGAACTTGCTCAAAGTTTGTTTGATTTCAT
65 ATCAAAATTCCCGAGAGGAGAAGTTCGTAATGAGAAGAACTTGCTCAAAGTTTGTTTGATTCCAT
* *
10771087 CACATAAGGAGTTGGACCAACACCGACCTTGG
130 CACATAAGGAGGTGGAACAACACCGACCTTGG
* *
10771119 CTCATCCATCACATAAGGAGTTAGATCAGTGTCACCTTAGATCATCCATCGTAGAAGGAGTTGCA
1 CTCATCCATCACATAAGGAGTTAGATCAGTGTCACCATAGATCATCCATCATAGAAGGAGTTGCA
* * *
10771184 TCGAGATTCCCGATAGGAGAAGTTCGTAATGAGAAGAACTTGCTCAACA-TTT-TCTTGATTCCA
66 TCAAAATTCCCGAGAGGAGAAGTTCGTAATGAGAAGAACTTGCTCAA-AGTTTGT-TTGATTCCA
*
10771247 TCACATAAGGAGGTGTAACAACACCGACCTTGG
129 TCACATAAGGAGGTGGAACAACACCGACCTTGG
* * * * *
10771280 TTCATCCATCACATAAGGAGTTGGATCA-TCGTCACCATAGGTTA-CTCATCATATAAGGAGTTG
1 CTCATCCATCACATAAGGAGTTAGATCAGT-GTCACCATAGATCATC-CATCATAGAAGGAGTTG
** *** * * *
10771343 GGTCAAAATTTTTGAGA-GAGGAAGTTCATAATGAGAAGAATTTGTTCAA
64 CATCAAAATTCCCGAGAGGA-GAAGTTCGTAATGAGAAGAACTTGCTCAA
10771392 TCGTGTCTTA
Statistics
Matches: 236, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
160 5 0.02
161 229 0.97
162 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (161 bp):
CTCATCCATCACATAAGGAGTTAGATCAGTGTCACCATAGATCATCCATCATAGAAGGAGTTGCA
TCAAAATTCCCGAGAGGAGAAGTTCGTAATGAGAAGAACTTGCTCAAAGTTTGTTTGATTCCATC
ACATAAGGAGGTGGAACAACACCGACCTTGG
Found at i:10771586 original size:3 final size:3
Alignment explanation
Indices: 10771573--10771617 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
10771563 TTTTTCAAAC
* *
10771573 ATT ATT A-T ATT ATT ATAA ATT ATT ATT ATT ATT ATT ATT AAT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
10771618 TACATCCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:10774302 original size:25 final size:25
Alignment explanation
Indices: 10774263--10774355 Score: 80
Period size: 25 Copynumber: 3.5 Consensus size: 25
10774253 AATTTAATTA
* *
10774263 TTTTAACCTTTAATTTTTATTACAT
1 TTTTACCCTCTAATTTTTATTACAT
*
10774288 TTTGACCCTCTAATTTTTTCAATTTA-ATT
1 TTTTACCCTCTAA-TTTTT--A-TTACA-T
* *
10774317 ATTTTAACCTTTAATTTTTATTACAT
1 -TTTTACCCTCTAATTTTTATTACAT
10774343 TTTTACCCTCTAA
1 TTTTACCCTCTAA
10774356 CCTTTTCAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
25 21 0.40
26 9 0.17
27 2 0.04
28 2 0.04
29 9 0.17
30 10 0.19
ACGTcount: A:0.27, C:0.16, G:0.01, T:0.56
Consensus pattern (25 bp):
TTTTACCCTCTAATTTTTATTACAT
Found at i:10774315 original size:55 final size:55
Alignment explanation
Indices: 10774231--10774391 Score: 277
Period size: 55 Copynumber: 2.9 Consensus size: 55
10774221 TAGAATAACA
10774231 ATTTTGACCCTCTAACTTTTTCAATTTAATTATTTTAACCTTTAATTTTTATTAC
1 ATTTTGACCCTCTAACTTTTTCAATTTAATTATTTTAACCTTTAATTTTTATTAC
*
10774286 ATTTTGACCCTCTAATTTTTTCAATTTAATTATTTTAACCTTTAATTTTTATTAC
1 ATTTTGACCCTCTAACTTTTTCAATTTAATTATTTTAACCTTTAATTTTTATTAC
* * *
10774341 ATTTTTACCCTCTAACCTTTTCAATTTAATTATTTTTACCTTTACATTTTT
1 ATTTTGACCCTCTAACTTTTTCAATTTAATTATTTTAACCTTTA-ATTTTT
10774392 TACCCTCAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
55 94 0.94
56 6 0.06
ACGTcount: A:0.26, C:0.17, G:0.01, T:0.56
Consensus pattern (55 bp):
ATTTTGACCCTCTAACTTTTTCAATTTAATTATTTTAACCTTTAATTTTTATTAC
Found at i:10774370 original size:39 final size:40
Alignment explanation
Indices: 10774326--10774425 Score: 105
Period size: 46 Copynumber: 2.4 Consensus size: 40
10774316 TATTTTAACC
* *
10774326 TTTAATTTTTATTACA-TTTTTACCCTCTAACCTTTTCAA
1 TTTAATTTTTATTACATTTTTTACCCTCAAACCTTTCCAA
10774365 TTTAATTATTTTTACCTTTACATTTTTTACCCTCAAACCTTTCCAA
1 TTT-A--ATTTTTA---TTACATTTTTTACCCTCAAACCTTTCCAA
10774411 TTTAATTATTT-TTAC
1 TTTAATT-TTTATTAC
10774426 CTTTACATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
39 3 0.06
40 5 0.10
42 7 0.14
43 3 0.06
44 3 0.06
45 6 0.12
46 24 0.47
ACGTcount: A:0.26, C:0.20, G:0.00, T:0.54
Consensus pattern (40 bp):
TTTAATTTTTATTACATTTTTTACCCTCAAACCTTTCCAA
Found at i:10774392 original size:46 final size:44
Alignment explanation
Indices: 10774337--10774451 Score: 185
Period size: 46 Copynumber: 2.5 Consensus size: 44
10774327 TTAATTTTTA
10774337 TTACATTTTTACCCTCTAACCTTTTCAATTTAATTATTTTTACCT
1 TTACATTTTTACCCTC-AACCTTTTCAATTTAATTATTTTTACCT
*
10774382 TTACATTTTTTACCCTCAAACCTTTCCAATTTAATTATTTTTACCT
1 TTACA-TTTTTACCCTC-AACCTTTTCAATTTAATTATTTTTACCT
*
10774428 TTACATTTTTACCCTCAAACTTTT
1 TTACATTTTTACCCTCAACCTTTT
10774452 ATTTTTCTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
44 6 0.09
45 16 0.25
46 43 0.66
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.51
Consensus pattern (44 bp):
TTACATTTTTACCCTCAACCTTTTCAATTTAATTATTTTTACCT
Found at i:10775164 original size:15 final size:15
Alignment explanation
Indices: 10775144--10775174 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10775134 TTATTAAAAT
10775144 AAAAATTACTTTTTA
1 AAAAATTACTTTTTA
10775159 AAAAATTACTTTTTA
1 AAAAATTACTTTTTA
10775174 A
1 A
10775175 GAATAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAAATTACTTTTTA
Found at i:10776298 original size:124 final size:127
Alignment explanation
Indices: 10776078--10776329 Score: 483
Period size: 124 Copynumber: 2.0 Consensus size: 127
10776068 AGTACATACA
10776078 ATAACTGATTCTTAAATTAATATATAAAAGTGTTATGATCCCCAAGAAATATATCATCTCGTATT
1 ATAACTGATTCTTAAATTAATATATAAAAGTGTTATGATCCCCAAGAAATATATCATCTCGTATT
10776143 TCTCTTATCTCATCAGAGAGTTAATACTCAAGAGAA-T-TATCTTCTT-GAAGATCACAACC
66 TCTCTTATCTCATCAGAGAGTTAATACTCAAGAGAATTATATCTTCTTGGAAGATCACAACC
10776202 ATAACTGATTCTTAAATTAATATATAAAAGTGTTATGATCCCCAAGAAATATATCATCTCGTATT
1 ATAACTGATTCTTAAATTAATATATAAAAGTGTTATGATCCCCAAGAAATATATCATCTCGTATT
10776267 TCTCTTATCTCATCAGAGAGTTAATACTCAAGAGAATTATATCTTCTTGGAAGATCACAACC
66 TCTCTTATCTCATCAGAGAGTTAATACTCAAGAGAATTATATCTTCTTGGAAGATCACAACC
10776329 A
1 A
10776330 AGAGAGATTC
Statistics
Matches: 125, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
124 101 0.81
125 1 0.01
126 9 0.07
127 14 0.11
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (127 bp):
ATAACTGATTCTTAAATTAATATATAAAAGTGTTATGATCCCCAAGAAATATATCATCTCGTATT
TCTCTTATCTCATCAGAGAGTTAATACTCAAGAGAATTATATCTTCTTGGAAGATCACAACC
Found at i:10777764 original size:60 final size:61
Alignment explanation
Indices: 10777700--10777817 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 61
10777690 AACATTCCAA
* * * *
10777700 TTTCATCCCTAAACTATGA-CTATCATTCTAAATTAATCCTTAAAC-TTTTGAATATTTTTG
1 TTTCATCCCCAAACAATGATCT-TCATTCTAAATTAATCCTCAAACTTTTTGAACATTTTTG
*
10777760 TTTCATCCCCAAACAATGATCTTCATTCTAATTTAATCCTCAAACTTTTTGAACATTT
1 TTTCATCCCCAAACAATGATCTTCATTCTAAATTAATCCTCAAACTTTTTGAACATTT
10777818 CAATTTCAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
60 38 0.75
61 13 0.25
ACGTcount: A:0.31, C:0.21, G:0.04, T:0.43
Consensus pattern (61 bp):
TTTCATCCCCAAACAATGATCTTCATTCTAAATTAATCCTCAAACTTTTTGAACATTTTTG
Found at i:10778062 original size:60 final size:60
Alignment explanation
Indices: 10777950--10778140 Score: 188
Period size: 60 Copynumber: 3.2 Consensus size: 60
10777940 TATTTGGATG
* ** * * * * *
10777950 AATTTAGGGATGAAATTGGAA-GATTCCAAAGTTTAGGGACCATTTTAGAATGAGAGTCAT
1 AATTTGGGGATGAAATTAAAATG-TTCAAAAGTTTAAGGACTAATTTAAAATGAGAGTCAT
* *
10778010 ACTTTGGGGATGAAATTAAAATGTTCAAAAGTTTAAGGACTAATTTAAAATGAGAGTTAT
1 AATTTGGGGATGAAATTAAAATGTTCAAAAGTTTAAGGACTAATTTAAAATGAGAGTCAT
* * * * ** *
10778070 AGTTTAGGGATTAAATTAGAATGTTTTAAAGTTTAAGGA-TAAATTTAAAATGAGATTCAT
1 AATTTGGGGATGAAATTAAAATGTTCAAAAGTTTAAGGACT-AATTTAAAATGAGAGTCAT
*
10778130 AATTTGAGGAT
1 AATTTGGGGAT
10778141 ATATGATGCA
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.01
60 106 0.98
61 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (60 bp):
AATTTGGGGATGAAATTAAAATGTTCAAAAGTTTAAGGACTAATTTAAAATGAGAGTCAT
Found at i:10778121 original size:29 final size:29
Alignment explanation
Indices: 10778022--10778121 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
10778012 TTTGGGGATG
**
10778022 AAATTAAAATGTTCAAAAGTTTAAGGACT
1 AAATTAAAATGTTTTAAAGTTTAAGGACT
* ** * * *
10778051 AATTTAAAATGAGAGTTATAGTTTAGGGATT
1 AAATTAAAAT--GTTTTAAAGTTTAAGGACT
*
10778082 AAATTAGAATGTTTTAAAGTTTAAGGA-T
1 AAATTAAAATGTTTTAAAGTTTAAGGACT
10778110 AAATTTAAAATG
1 AAA-TTAAAATG
10778122 AGATTCATAA
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
28 4 0.08
29 29 0.55
31 20 0.38
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (29 bp):
AAATTAAAATGTTTTAAAGTTTAAGGACT
Found at i:10778966 original size:20 final size:21
Alignment explanation
Indices: 10778931--10778976 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
10778921 TTAATTAATT
10778931 TAAAAATAAAATATAAAAATA
1 TAAAAATAAAATATAAAAATA
* *
10778952 TAAAAATTAAA-ATAAAATTA
1 TAAAAATAAAATATAAAAATA
10778972 TAAAA
1 TAAAA
10778977 TTACAACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAAATAAAATATAAAAATA
Found at i:10779127 original size:19 final size:19
Alignment explanation
Indices: 10779087--10779132 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
10779077 ATAATTTTGA
*
10779087 AATTAAAAATTAAAAATTT
1 AATTAAAAATTAAAAATGT
*
10779106 AATTTAAAA-TAAAAATAGT
1 AATTAAAAATTAAAAAT-GT
10779125 AA-TAAAAA
1 AATTAAAAA
10779133 AAGGAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AATTAAAAATTAAAAATGT
Found at i:10781856 original size:29 final size:29
Alignment explanation
Indices: 10781821--10781902 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
10781811 AAACTAAATT
*
10781821 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
10781850 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
10781879 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
10781903 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:10786483 original size:26 final size:27
Alignment explanation
Indices: 10786440--10786506 Score: 100
Period size: 26 Copynumber: 2.4 Consensus size: 27
10786430 CAAACTAAAT
*
10786440 TGATGTCATTACTTACATCATTTAATTAA
1 TGATGTCATTGC--ACATCATTTAATTAA
10786469 -GATGTCATTGCACATCATTTAATTAA
1 TGATGTCATTGCACATCATTTAATTAA
10786495 TGATGTCATTGC
1 TGATGTCATTGC
10786507 TTACATCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 15 0.42
27 11 0.31
28 10 0.28
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (27 bp):
TGATGTCATTGCACATCATTTAATTAA
Found at i:10788615 original size:35 final size:35
Alignment explanation
Indices: 10788549--10788615 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
10788539 AAACATTTTA
* * **
10788549 ATTTATTTTCTTTTTCTATTCGAAAGTCTTTTCTG
1 ATTTATTTCCTTTTTCCATTCGAAAACCTTTTCTG
*
10788584 ATTTATTTCCTTTTTCCGTTCGAAAACCTTTT
1 ATTTATTTCCTTTTTCCATTCGAAAACCTTTT
10788616 GATTATCGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.57
Consensus pattern (35 bp):
ATTTATTTCCTTTTTCCATTCGAAAACCTTTTCTG
Found at i:10793613 original size:17 final size:20
Alignment explanation
Indices: 10793578--10793614 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
10793568 TTTAAAACGA
10793578 TATTGTTTTGATGCTTATAT
1 TATTGTTTTGATGCTTATAT
10793598 TATT-TTTTG-TGC-TATAT
1 TATTGTTTTGATGCTTATAT
10793615 CATAACACCG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 5 0.29
20 4 0.24
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (20 bp):
TATTGTTTTGATGCTTATAT
Found at i:10793794 original size:16 final size:16
Alignment explanation
Indices: 10793773--10793803 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10793763 GATTAAATTG
10793773 TTTTATCTTAGTTTTA
1 TTTTATCTTAGTTTTA
*
10793789 TTTTATTTTAGTTTT
1 TTTTATCTTAGTTTT
10793804 TGAAGACGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTATCTTAGTTTTA
Found at i:10794989 original size:21 final size:20
Alignment explanation
Indices: 10794964--10795043 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
10794954 CGCAGACGAA
10794964 TGTAAGATTTTATGTTAAGAG
1 TGTAA-ATTTTATGTTAAGAG
*
10794985 TGTAAATTTATAAATTTCTAAGGGACG
1 TGTAAATTT-T--ATGT-TAA--GA-G
10795012 AATGTAAGATTTTATGTTAAGAG
1 --TGTAA-ATTTTATGTTAAGAG
10795035 TGTAAATTT
1 TGTAAATTT
10795044 ATAAATTTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 21
0.67 0.03 0.30
Matches are distributed among these distances:
20 8 0.17
21 11 0.23
23 4 0.09
24 5 0.11
26 5 0.11
27 4 0.09
29 6 0.13
30 4 0.09
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (20 bp):
TGTAAATTTTATGTTAAGAG
Found at i:10795033 original size:50 final size:50
Alignment explanation
Indices: 10794958--10795063 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
10794948 TTTTCACGCA
*
10794958 GACGAATGTAAGATTTTATGTTAAGAGTGTAAATTTATAAATTTCTAAGG
1 GACGAATGTAAGATTTTATGTTAAGAGTGTAAATTTATAAATTTCTAAAG
10795008 GACGAATGTAAGATTTTATGTTAAGAGTGTAAATTTATAAATTTCTAAAG
1 GACGAATGTAAGATTTTATGTTAAGAGTGTAAATTTATAAATTTCTAAAG
10795058 GACGAA
1 GACGAA
10795064 AATATATTAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.36
Consensus pattern (50 bp):
GACGAATGTAAGATTTTATGTTAAGAGTGTAAATTTATAAATTTCTAAAG
Found at i:10796665 original size:3 final size:3
Alignment explanation
Indices: 10796657--10796752 Score: 185
Period size: 3 Copynumber: 32.3 Consensus size: 3
10796647 AGAGACACCT
10796657 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
10796705 GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
10796752 G
1 G
10796753 GAAGTGATGG
Statistics
Matches: 92, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 90 0.98
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10806947 original size:19 final size:19
Alignment explanation
Indices: 10806923--10806982 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
10806913 TTCATATTAA
10806923 AAAAAGAGAAATAAAAAAG
1 AAAAAGAGAAATAAAAAAG
* * *
10806942 AAAAAGAGAGA-AAACAAC
1 AAAAAGAGAAATAAAAAAG
* *
10806960 AAAAAAATAAATAAAAGAAG
1 AAAAAGAGAAATAAAA-AAG
10806980 AAA
1 AAA
10806983 GAGAAAAAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
18 13 0.42
19 13 0.42
20 5 0.16
ACGTcount: A:0.78, C:0.03, G:0.13, T:0.05
Consensus pattern (19 bp):
AAAAAGAGAAATAAAAAAG
Found at i:10806966 original size:21 final size:19
Alignment explanation
Indices: 10806921--10806988 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 19
10806911 AATTCATATT
10806921 AAAAAAAGAGAAATAAAAA
1 AAAAAAAGAGAAATAAAAA
* *
10806940 AGAAAAAGAGAGAA-AACAA
1 AAAAAAAGAGA-AATAAAAA
* *
10806959 CAAAAAA-ATAAAT-AAAA
1 AAAAAAAGAGAAATAAAAA
* *
10806976 GAAGAAAGAGAAA
1 AAAAAAAGAGAAA
10806989 AAATCAAGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
17 10 0.27
18 6 0.16
19 19 0.51
20 2 0.05
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.04
Consensus pattern (19 bp):
AAAAAAAGAGAAATAAAAA
Found at i:10809676 original size:257 final size:255
Alignment explanation
Indices: 10808968--10809912 Score: 1041
Period size: 263 Copynumber: 3.7 Consensus size: 255
10808958 AGTTATTTTG
* * * ** *
10808968 AAAATGAGAAAGTGATTTCCAAAGTTTTCGATTTAAACATTTTCTGAAAATGAAA-TTTTGAAAA
1 AAAAT-AGAAAGCGATTTCCAAAGATATC-ATTT-AATGTTTTCAGAAAATGAAATTTTTG-AAA
* * * * **
10809032 AGTAAGAAAGCGATTTCCAAAGTTTTTTACCCAAAAAACTATTTTCAAAATTAATAAGTCCTTCG
62 AGTAAGAAAACGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGGTAAGTCCTTCG
* * * *
10809097 GG-CAATCAGTAAGTCTTTCGAGGATGATGATTAAATCCTTCAGGTCATCTGTCAGTATTTC-AA
127 GGTC-ATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAA
* * *
10809160 TCAAGATGTTAAGTTCTTTGGGCCATCTATAAGACCTTCGGGCAAGATGTTTCACATGATTTTCA
191 -CAAGATGTTAAGTCCTTCGGGCCATCTATAAGACCTTCGGGC-TGATGTTTCACATGATTTTC-
*
10809225 AAAAAA
253 ---GAA
*
10809231 AAAATGAGAAAGCGATTTCCAAA-ACTATTCATTTAATGTTTTTAGAAAATGAAATTTTTTGAAA
1 AAAAT-AGAAAGCGATTTCCAAAGA-TA-TCATTTAATGTTTTCAGAAAATGAAA-TTTTTGAAA
* *
10809295 AGTAAGAAAGA-GATTTCCAAAGTTTCTTAACCAGTAAACTATTTCCAAAATTGGTAAGTCCTTC
62 AGTAAGAAA-ACGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGGTAAGTCCTTC
*** * * *
10809359 GAACCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTGTTAGTCTTTCGAG
126 GGGTCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAA
*
10809424 CAAGATGTTAAGTCCTTCGGGCCATTTATAAGACCTTCGGGCTGGATGTTTCACATGATTTTCGA
191 CAAGATGTTAAGTCCTTCGGGCCATCTATAAGACCTTCGGGCT-GATGTTTCACATGATTTTCGA
10809489 A
255 A
*
10809490 AAAATAAGAAAGCGATTTCCAAAGATACTCATTTAATGTTTTCAGAAGATGAAATTTTTGAAAAG
1 AAAAT-AGAAAGCGATTTCCAAAGATA-TCATTTAATGTTTTCAGAAAATGAAATTTTTGAAAAG
* *
10809555 TAAGAAAACGATTTCCAAAGTTTCTTACCCAATAAACTATTT-CAAAATTGTTAAATCCTTCGGG
64 TAAGAAAACGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGGTAAGTCCTTCGGG
* * * * *
10809619 TCATCAGTAAGCCTTTTGAGCATGATGATTAAATCCTTTGGGTCATTTGTCAGTCTTTTGAACGA
129 TCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAACAA
* * *
10809684 GAT-TATAAGTCGTTCGGGCCATCTATAAGACCTTCGGGCATGATGTTTTCATATGATGTTTGTG
194 GATGT-TAAGTCCTTCGGGCCATCTATAAGACCTTCGGGC-TGATG-TTTCACATGAT-TTT-CG
*
10809748 GA
254 AA
* *
10809750 AAAAT-G--A--GA-----AAAG-TA--ATTTAATATTTTC-GAAAAATGAAATTTTTGAAAAAT
1 AAAATAGAAAGCGATTTCCAAAGATATCATTTAATGTTTTCAG-AAAATGAAATTTTTGAAAAGT
* * * * *
10809801 AAGAAAGCAATTTCCAAAGTTTCTTACCGAGTAAACTATTTCCAAAATTGGTAAGTACTTCGGGT
65 AAGAAAACGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGGTAAGTCCTTCGGGT
** * *
10809866 CATCAGTAAGTATTTCAAGCATGATGATTAAATCCTTCGGGTTATCT
130 CATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCT
10809913 TTATGTCTAA
Statistics
Matches: 595, Mismatches: 70, Indels: 51
0.83 0.10 0.07
Matches are distributed among these distances:
244 1 0.00
245 68 0.11
246 60 0.10
248 2 0.00
249 4 0.01
254 2 0.00
256 2 0.00
257 114 0.19
258 61 0.10
259 53 0.09
260 8 0.01
262 16 0.03
263 195 0.33
264 9 0.02
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (255 bp):
AAAATAGAAAGCGATTTCCAAAGATATCATTTAATGTTTTCAGAAAATGAAATTTTTGAAAAGTA
AGAAAACGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGGTAAGTCCTTCGGGTC
ATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAACAAGA
TGTTAAGTCCTTCGGGCCATCTATAAGACCTTCGGGCTGATGTTTCACATGATTTTCGAA
Found at i:10822579 original size:21 final size:20
Alignment explanation
Indices: 10822532--10822586 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
10822522 TGATTCAATC
10822532 AGTATCGATACCAATAAGGT
1 AGTATCGATACCAATAAGGT
10822552 AGTATCGATACCATGATAAGG-
1 AGTATCGATACCA--ATAAGGT
*
10822573 GGTATCGATACCAA
1 AGTATCGATACCAA
10822587 GAAACATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 1 0.03
20 13 0.41
21 12 0.38
22 6 0.19
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (20 bp):
AGTATCGATACCAATAAGGT
Found at i:10823133 original size:59 final size:59
Alignment explanation
Indices: 10823028--10823225 Score: 294
Period size: 59 Copynumber: 3.4 Consensus size: 59
10823018 ATATTAAGGG
* *
10823028 AATTCATACTAAGTGTATGAA-TTCCATATAGGGAACTTTGTGTGCTAACATGGGAAGG
1 AATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTTGTGTGCTAACATGGGAAGA
10823086 AATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTTGTGTGCTAACATGGGAAGA
1 AATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTTGTGTGCTAACATGGGAAGA
* * * **
10823145 AATTCATACTAAGTGTATGAATTTCCAGAT-GGGCACCTTGTGTGCTAAAATGATAAGA
1 AATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTTGTGTGCTAACATGGGAAGA
* *
10823203 AATT-TTCCTAAGTGTATGAATTT
1 AATTCATACTAAGTGTATGAATTT
10823226 TTCGTATGGG
Statistics
Matches: 130, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
57 17 0.13
58 49 0.38
59 64 0.49
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (59 bp):
AATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTTGTGTGCTAACATGGGAAGA
Found at i:10823749 original size:34 final size:34
Alignment explanation
Indices: 10823697--10823829 Score: 104
Period size: 34 Copynumber: 3.6 Consensus size: 34
10823687 ACATAGCTGA
*
10823697 AATGTATATGGGTACATTATCAGCATAAAAGAAT
1 AATGCATATGGGTACATTATCAGCATAAAAGAAT
* **
10823731 AATGCATATGGGTGCATTATTTGCATGAAAGGATGCCATAGCT
1 AATGCATATGGGTACATTATCAGCAT-AAA--A-G--A-A--T
* *
10823774 GAAATGTATATGGGTACATTATCAGTATAAAAGAAT
1 --AATGCATATGGGTACATTATCAGCATAAAAGAAT
*
10823810 AATGCATATGGGTGCATTAT
1 AATGCATATGGGTACATTAT
10823830 TTGCATGAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
34 40 0.52
35 3 0.04
36 1 0.01
37 1 0.01
38 2 0.03
39 1 0.01
40 1 0.01
41 2 0.03
42 1 0.01
43 1 0.01
44 3 0.04
45 21 0.27
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.31
Consensus pattern (34 bp):
AATGCATATGGGTACATTATCAGCATAAAAGAAT
Found at i:10823787 original size:79 final size:79
Alignment explanation
Indices: 10823646--10824177 Score: 885
Period size: 79 Copynumber: 6.8 Consensus size: 79
10823636 GTACTGTTGA
* *
10823646 ATAAAAAAATAATGCATATGGGTGCATTATT-G---GAAAGGATGACATAGCTGAAATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATG
*
10823707 GGTACATTATCAGC
66 GGTACATTGTCAGC
*
10823721 ATAAAAGAATAATGCATATGGGTGCATTATTTGCATGAAAGGATGCCATAGCTGAAATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATG
* *
10823786 GGTACATTATCAGT
66 GGTACATTGTCAGC
* *
10823800 ATAAAAGAATAATGCATATGGGTGCATTATTTGCATGAAATGATGCCATAGCTGAAATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATG
*
10823865 GGTACATTGTCAAC
66 GGTACATTGTCAGC
*
10823879 ATAAAAGAATAATTCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATG
10823944 GGTACATTGTCAGC
66 GGTACATTGTCAGC
*
10823958 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATG
10824023 GGTACATTGTCAGC
66 GGTACATTGTCAGC
*
10824037 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATG
10824102 GGTACATTGTCAGC
66 GGTACATTGTCAGC
* * **
10824116 ATAATAGAATAATGCATATGGGTGCA-TATTGGCATGAAAAGATGCCATAAATGAAATGTATA
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATA
10824178 ACGATGTACA
Statistics
Matches: 434, Mismatches: 19, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
75 30 0.07
76 1 0.00
78 33 0.08
79 370 0.85
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATG
GGTACATTGTCAGC
Found at i:10825573 original size:23 final size:23
Alignment explanation
Indices: 10825542--10825610 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
10825532 CACCACAACT
* *
10825542 CATATAATTGCACCTAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* * *
10825565 CGTAGAATTGCACCGGAGTGCCG
1 CATAGAATTGCACCGAAGTGCCA
** *
10825588 CATAGAATTATACCGGAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
10825611 TATAATAATG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:10825746 original size:103 final size:103
Alignment explanation
Indices: 10825626--10825843 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
10825616 TAATGTCCAT
*
10825626 AAGGACCACATATCATTCCTTAATAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
10825691 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
10825729 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
10825794 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
10825832 AAGGACCACATA
1 AAGGACCACATA
10825844 GACCCTCTAC
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:10826439 original size:64 final size:62
Alignment explanation
Indices: 10826307--10826466 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 62
10826297 TAATGGAGGT
* * ** *
10826307 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGAGGTTTGTATTTAATGGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGAGGTTTCTATTTAAACGA
* * * *
10826371 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGTTGTTTTCTTTTTAAACTA
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCG-AGGTTTCTATTTAAACGA
* *
10826435 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
10826467 CCTTAAATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.01
63 27 0.33
64 53 0.65
65 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGAGGTTTCTATTTAAACGA
Found at i:10832602 original size:23 final size:22
Alignment explanation
Indices: 10832576--10832649 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
10832566 CACCACAGCT
10832576 CATAAAATTGCACCTAAGTGCCA
1 CATAAAATTGCACCT-AGTGCCA
* * *
10832599 CATAGAATTGCACCGGAGTGCCG
1 CATAAAATTGCACC-TAGTGCCA
* *
10832622 CGTAGAATTGCACCGTAGTGCCA
1 CATAAAATTGCACC-TAGTGCCA
*
10832645 TATAA
1 CATAA
10832650 TAATGTCCAT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (22 bp):
CATAAAATTGCACCTAGTGCCA
Found at i:10832831 original size:103 final size:103
Alignment explanation
Indices: 10832660--10832877 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
10832650 TAATGTCCAT
*
10832660 AAGGACCACATATCATTCCTTAAGAATCATATACATATTCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
10832725 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
10832763 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
10832828 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
10832866 AAGGACCACATA
1 AAGGACCACATA
10832878 GACCCTCTAC
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:10833462 original size:65 final size:68
Alignment explanation
Indices: 10833322--10833462 Score: 184
Period size: 64 Copynumber: 2.1 Consensus size: 68
10833312 AGCCATTTTC
*
10833322 ATCTTTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCTTATTCGAGG
1 ATCTTTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGAGG
10833387 TTT
66 TTT
* * * *
10833390 AT-ATTTAATGG-GG-ATGCATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTTGAT
1 ATCTTTTAATGGAGGTATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGAG
10833450 GTTT
65 GTTT
*
10833454 TTCTTTTAA
1 ATCTTTTAA
10833463 ATTAATGCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
63 1 0.02
64 31 0.48
65 20 0.31
66 2 0.03
67 8 0.12
68 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (68 bp):
ATCTTTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGAGG
TTT
Found at i:10833471 original size:64 final size:62
Alignment explanation
Indices: 10833338--10833498 Score: 153
Period size: 64 Copynumber: 2.5 Consensus size: 62
10833328 TAATGGAGGT
* * *
10833338 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCTTATTCGAGGTTTATATTTAATGGGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGAGGTTTATATTTAAT-GGA
* * * * *
10833403 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTTGATGTTTTTCTTTTAAAT-TA
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGAGGTTTAT-ATTT-AATGGA
* * *
10833467 ATGCATCTATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
10833499 CCTTATACAA
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.72
65 19 0.23
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGAGGTTTATATTTAATGGA
Found at i:10836945 original size:113 final size:113
Alignment explanation
Indices: 10836742--10836972 Score: 453
Period size: 113 Copynumber: 2.0 Consensus size: 113
10836732 AATACGTAAT
*
10836742 CAAAGTTGTTAAAGGAAAGCTTAATATTTTCAGTTAAACGCAACTTAAAATGTTAACTTTTTCTT
1 CAAAATTGTTAAAGGAAAGCTTAATATTTTCAGTTAAACGCAACTTAAAATGTTAACTTTTTCTT
10836807 AGTTTTTTTCTGGTTACACACGTTCTTCATAACATTTTCGGTTGGCAA
66 AGTTTTTTTCTGGTTACACACGTTCTTCATAACATTTTCGGTTGGCAA
10836855 CAAAATTGTTAAAGGAAAGCTTAATATTTTCAGTTAAACGCAACTTAAAATGTTAACTTTTTCTT
1 CAAAATTGTTAAAGGAAAGCTTAATATTTTCAGTTAAACGCAACTTAAAATGTTAACTTTTTCTT
10836920 AGTTTTTTTCTGGTTACACACGTTCTTCATAACATTTTCGGTTGGCAA
66 AGTTTTTTTCTGGTTACACACGTTCTTCATAACATTTTCGGTTGGCAA
10836968 CAAAA
1 CAAAA
10836973 AATGTTACAT
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 117 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (113 bp):
CAAAATTGTTAAAGGAAAGCTTAATATTTTCAGTTAAACGCAACTTAAAATGTTAACTTTTTCTT
AGTTTTTTTCTGGTTACACACGTTCTTCATAACATTTTCGGTTGGCAA
Found at i:10836987 original size:40 final size:39
Alignment explanation
Indices: 10836942--10837018 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 39
10836932 GTTACACACG
*
10836942 TTCTTCATAACA-TTTTCGGTTGGCAACAAAAAATGTTACA
1 TTCTTCATAACATTTTTCAGTT-G-AACAAAAAATGTTACA
* *
10836982 TTCTTCATAATATTTTTCAGTTGAACTAAAAATGTTA
1 TTCTTCATAACATTTTTCAGTTGAACAAAAAATGTTA
10837019 AAGTTAACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 13 0.39
40 12 0.36
41 8 0.24
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (39 bp):
TTCTTCATAACATTTTTCAGTTGAACAAAAAATGTTACA
Done.