Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 260 of 295
Found at i:83244179 original size:17 final size:17
Alignment explanation
Indices: 83244091--83244268 Score: 110
Period size: 17 Copynumber: 10.2 Consensus size: 17
83244081 AGCTCACTCC
* *
83244091 TTTGGTGAGCTTGCACA
1 TTTGGTGAGCTCGCATA
*
83244108 TTTGGTGAGCTTGCA-A
1 TTTGGTGAGCTCGCATA
*
83244124 CTTTGGTGAGCTCGCACA
1 -TTTGGTGAGCTCGCATA
* * *
83244142 TTTGATGACCTCACAGT-
1 TTTGGTGAGCTCGCA-TA
83244159 TTTGGTGAGCTCGCATA
1 TTTGGTGAGCTCGCATA
* *
83244176 TTT-GTTAGGCTCGCATC
1 TTTGGTGA-GCTCGCATA
* **
83244193 TTTGATTGAGCTCATATA
1 TTTG-GTGAGCTCGCATA
* *
83244211 TTTGGACGAGCTCGCATC
1 TTTGG-TGAGCTCGCATA
* * *
83244229 TTTGGATGAGTTCGTATC
1 TTTGG-TGAGCTCGCATA
*
83244247 TTTGGGTGAGCTCGCATC
1 TTT-GGTGAGCTCGCATA
83244265 TTTG
1 TTTG
83244269 TGATCTATGT
Statistics
Matches: 127, Mismatches: 25, Indels: 18
0.75 0.15 0.11
Matches are distributed among these distances:
16 5 0.04
17 68 0.54
18 50 0.39
19 4 0.03
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.37
Consensus pattern (17 bp):
TTTGGTGAGCTCGCATA
Found at i:83244231 original size:36 final size:35
Alignment explanation
Indices: 83244184--83244268 Score: 107
Period size: 36 Copynumber: 2.4 Consensus size: 35
83244174 TATTTGTTAG
83244184 GCTCGCATCTTTGATTGAGCTCATATATTTGGACGA
1 GCTCGCATCTTTGA-TGAGCTCATATATTTGGACGA
* * * **
83244220 GCTCGCATCTTTGGATGAGTTCGTATCTTTGGGTGA
1 GCTCGCATCTTT-GATGAGCTCATATATTTGGACGA
83244256 GCTCGCATCTTTG
1 GCTCGCATCTTTG
83244269 TGATCTATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 1 0.02
36 40 0.93
37 2 0.05
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (35 bp):
GCTCGCATCTTTGATGAGCTCATATATTTGGACGA
Found at i:83246627 original size:21 final size:22
Alignment explanation
Indices: 83246603--83246658 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
83246593 TACCATTGTT
83246603 TCTAATCTCACTGCTACAG-AA
1 TCTAATCTCACTGCTACAGTAA
*
83246624 TCTAATCTCACCGCTACAGTAA
1 TCTAATCTCACTGCTACAGTAA
83246646 -CTAATCTCACTGC
1 TCTAATCTCACTGC
83246659 CACCGCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (22 bp):
TCTAATCTCACTGCTACAGTAA
Found at i:83259043 original size:21 final size:22
Alignment explanation
Indices: 83259017--83259058 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
83259007 GCAAGCATGA
*
83259017 TTTTTTATTTTATC-TGAGTTT
1 TTTTTTATGTTATCTTGAGTTT
83259038 TTTTTTATGTTATCTTGAGTT
1 TTTTTTATGTTATCTTGAGTT
83259059 ATGGAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.14, C:0.05, G:0.12, T:0.69
Consensus pattern (22 bp):
TTTTTTATGTTATCTTGAGTTT
Found at i:83262052 original size:16 final size:16
Alignment explanation
Indices: 83262018--83262048 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
83262008 TTCAGATTTT
83262018 TTTAAAAAAATTATAA
1 TTTAAAAAAATTATAA
83262034 TTTAAAAAAA-TATAA
1 TTTAAAAAAATTATAA
83262049 ATTTTAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTTAAAAAAATTATAA
Found at i:83262054 original size:17 final size:17
Alignment explanation
Indices: 83262017--83262054 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
83262007 CTTCAGATTT
83262017 TTTTAAAAAAATTATAA
1 TTTTAAAAAAATTATAA
83262034 -TTTAAAAAAA-TATAAA
1 TTTTAAAAAAATTAT-AA
83262050 TTTTA
1 TTTTA
83262055 GAATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.16
16 12 0.63
17 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTTAAAAAAATTATAA
Found at i:83262079 original size:19 final size:19
Alignment explanation
Indices: 83262044--83262102 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
83262034 TTTAAAAAAA
*
83262044 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
83262062 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
83262081 TGA-AAATTATTTTGAATATTT
1 T-ATAAA-TATTTTGAAT-TTT
83262102 T
1 T
83262103 TGTAATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 7 0.19
19 14 0.39
20 11 0.31
21 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:83262081 original size:20 final size:20
Alignment explanation
Indices: 83262044--83262103 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
83262034 TTTAAAAAAA
*
83262044 TATAAAT-TTTAGAA-TTTT
1 TATAAATATTTTGAATTTTT
83262062 TATAAATATTTTGAATTTTT
1 TATAAATATTTTGAATTTTT
*
83262082 GA-AAATTATTTTGAATATTTT
1 TATAAA-TATTTTGAAT-TTTT
83262103 T
1 T
83262104 GTAATTTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 7 0.20
19 9 0.26
20 15 0.43
21 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TATAAATATTTTGAATTTTT
Found at i:83266197 original size:40 final size:40
Alignment explanation
Indices: 83266090--83266305 Score: 221
Period size: 39 Copynumber: 5.5 Consensus size: 40
83266080 CGGATGATAA
* * * *
83266090 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-T
* * *
83266130 CCGGGCTAA-ACCTGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
*
83266169 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGA-A-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT-ATAT
* *
83266208 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* *
83266248 CCGGG-TCAAGTCCCGAAGGCATTTGAGCAAG-TAGTTATAT
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-TTATAT
* *
83266288 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
83266306 TACTTGGGTT
Statistics
Matches: 149, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 80 0.54
40 67 0.45
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
Found at i:83266226 original size:79 final size:78
Alignment explanation
Indices: 83266086--83266270 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 78
83266076 TATTCGGATG
* * *
83266086 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACTAATTCCGGGCTAAACCTGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAATGACTAA-TCCGGGCTAAACCCGAAGGCAA
*
83266151 TTGTGCGAGTTATT
65 TTGTGCGAGTTACT
* * * * *
83266165 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGAA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAATGACT-AATCCGGGCTAA-ACCCGAAGGCA
*
83266229 TTTGTGCGAGTTACT
64 ATTGTGCGAGTTACT
83266244 ATAACCGGG-TCAAGTCCCGAAGGCATT
1 ATAACCGGGCT-AAGTCCCGAAGGCATT
83266271 TGAGCAAGTA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 10 0.11
79 80 0.87
80 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAATGACTAATCCGGGCTAAACCCGAAGGCAAT
TGTGCGAGTTACT
Found at i:83266294 original size:79 final size:79
Alignment explanation
Indices: 83266086--83266305 Score: 229
Period size: 79 Copynumber: 2.8 Consensus size: 79
83266076 TATTCGGATG
* * * *
83266086 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAA-TGACTAAT-TCCGGGCTAAACCTGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGT-AGTTATATCCGGGCTAATCCCGAAGGC
*
83266149 AATTGTGCGAGTTATT
64 AATTGTGCGAGTTACT
* * *
83266165 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGC--G-AGTTATTGAACCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGTTA-T-ATCCGGGCTAA-TCCCGAAGG
*
83266227 CATTTGTGCGAGTTACT
63 CAATTGTGCGAGTTACT
* *
83266244 ATAACCGGG-TCAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCT-AAGTCCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCT-AATCCCGAAGG
83266306 TACTTGGGTT
Statistics
Matches: 117, Mismatches: 14, Indels: 20
0.77 0.09 0.13
Matches are distributed among these distances:
75 3 0.03
76 1 0.01
78 10 0.09
79 91 0.78
80 5 0.04
81 2 0.02
82 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAATCCCGAAGGCAA
TTGTGCGAGTTACT
Found at i:83279397 original size:36 final size:33
Alignment explanation
Indices: 83279337--83279402 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
83279327 ACATATGTAA
*
83279337 TAATGTGTCATATTATAGCAAGGATAAAATATG
1 TAATGTGTCATATTATAGAAAGGATAAAATATG
*
83279370 TAATGTGTCATGTTATAGTAAGGAGGATAAAAT
1 TAATGTGTCATATTATAG-AA--AGGATAAAAT
83279403 GTGAACTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 17 0.61
34 1 0.04
36 10 0.36
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (33 bp):
TAATGTGTCATATTATAGAAAGGATAAAATATG
Found at i:83288209 original size:50 final size:50
Alignment explanation
Indices: 83288134--83288328 Score: 275
Period size: 50 Copynumber: 3.9 Consensus size: 50
83288124 AAGGGTAAGA
* * *
83288134 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGG
* *
83288184 TGCCGATGCCATGTCCCAAACATGGTCTTACGCTGGCTCTCATATATCGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGG
* *
83288234 T-CTCGATGCCATGTACCAGACATGGTCTTACACTGGCTCTCATATATCGG
1 TGC-CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGG
* * * *
83288284 TACTGATGCCATATCCCAAACATGGTCTTACACTGGCTCACATAT
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT
83288329 TGCCCTAGTA
Statistics
Matches: 129, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
49 1 0.01
50 127 0.98
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGG
Found at i:83288310 original size:100 final size:100
Alignment explanation
Indices: 83288137--83288328 Score: 312
Period size: 100 Copynumber: 1.9 Consensus size: 100
83288127 GGTAAGATGC
* * * * *
83288137 CGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGGTGCCGATGCCATGTCCCA
1 CGATGCCATGTACCAGACATGGTCTTACACTGGCTCTCATATATCGGTACCGATGCCATATCCCA
* *
83288202 AACATGGTCTTACGCTGGCTCTCATATATCGATCT
66 AACATGGTCTTACACTGGCTCACATATATCGATCT
*
83288237 CGATGCCATGTACCAGACATGGTCTTACACTGGCTCTCATATATCGGTACTGATGCCATATCCCA
1 CGATGCCATGTACCAGACATGGTCTTACACTGGCTCTCATATATCGGTACCGATGCCATATCCCA
83288302 AACATGGTCTTACACTGGCTCACATAT
66 AACATGGTCTTACACTGGCTCACATAT
83288329 TGCCCTAGTA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (100 bp):
CGATGCCATGTACCAGACATGGTCTTACACTGGCTCTCATATATCGGTACCGATGCCATATCCCA
AACATGGTCTTACACTGGCTCACATATATCGATCT
Found at i:83294737 original size:62 final size:63
Alignment explanation
Indices: 83294660--83294814 Score: 231
Period size: 64 Copynumber: 2.5 Consensus size: 63
83294650 AGCTTATGTG
* *
83294660 ATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATT-TTTAATGTTGTAATGTATTTA
1 ATTTATATAACAAAATTTATATTACAAAATTTGTTCCAATTAATTAATGTTGTAATGTATTTA
* * *
83294722 ATTTATATAAGAAAATTTATATTACAAAATTTGTTCTAATTAGATTGATGTTGTAATGTATTTA
1 ATTTATATAACAAAATTTATATTACAAAATTTGTTCCAATTA-ATTAATGTTGTAATGTATTTA
* *
83294786 ACTTATATAACAAAGTTTATATTACAAAA
1 ATTTATATAACAAAATTTATATTACAAAA
83294815 CTAAGTTTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
62 38 0.46
64 45 0.54
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (63 bp):
ATTTATATAACAAAATTTATATTACAAAATTTGTTCCAATTAATTAATGTTGTAATGTATTTA
Found at i:83295301 original size:33 final size:33
Alignment explanation
Indices: 83295191--83295306 Score: 97
Period size: 33 Copynumber: 3.5 Consensus size: 33
83295181 AAGAGTGCCA
* *
83295191 TACTACGGTGGATACGACCTAGGAGGAGTGGAG
1 TACTACGGTGGATACGACCCAGGAGGAGTGAAG
** ** * ** **
83295224 TACTGTGGTGGATACGGGCCAAGAAAAGTGTTG
1 TACTACGGTGGATACGACCCAGGAGGAGTGAAG
* * * *
83295257 TATTGCAGTGGATATGACCCAGGAGGAGTGAAG
1 TACTACGGTGGATACGACCCAGGAGGAGTGAAG
83295290 TACTACGGTGGATACGA
1 TACTACGGTGGATACGA
83295307 GCAGAGAAGT
Statistics
Matches: 58, Mismatches: 25, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.28, C:0.14, G:0.36, T:0.22
Consensus pattern (33 bp):
TACTACGGTGGATACGACCCAGGAGGAGTGAAG
Found at i:83297974 original size:25 final size:24
Alignment explanation
Indices: 83297946--83298007 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
83297936 GGATCCTTAA
83297946 AGAAACAAAT-TATATAAGTAAATTT
1 AGAAA-AAATATATATAA-TAAATTT
*
83297971 AGAAGAAAATATATATAATAGATTT
1 AGAA-AAAATATATATAATAAATTT
*
83297996 AAAAAGAAATAT
1 AGAAA-AAATAT
83298008 TTACATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 1 0.03
25 23 0.72
26 8 0.25
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (24 bp):
AGAAAAAATATATATAATAAATTT
Found at i:83298002 original size:26 final size:25
Alignment explanation
Indices: 83297952--83298004 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
83297942 TTAAAGAAAC
*
83297952 AAATTATATAAGTAAATTTAGAAGA
1 AAATTATATAAGTAAATTTAAAAGA
*
83297977 AAATATATATAA-TAGATTTAAAAAGA
1 AAAT-TATATAAGTAAATTT-AAAAGA
83298003 AA
1 AA
83298005 TATTTACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (25 bp):
AAATTATATAAGTAAATTTAAAAGA
Found at i:83298122 original size:23 final size:23
Alignment explanation
Indices: 83298086--83298132 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
83298076 TATAAAAAGT
* *
83298086 ATTTGAACATAATATCATACAAA
1 ATTTGAAAACAATATCATACAAA
* *
83298109 ATTTGAAAACAATATGATATAAA
1 ATTTGAAAACAATATCATACAAA
83298132 A
1 A
83298133 GGAAATTCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (23 bp):
ATTTGAAAACAATATCATACAAA
Found at i:83300040 original size:176 final size:175
Alignment explanation
Indices: 83299757--83300357 Score: 701
Period size: 176 Copynumber: 3.4 Consensus size: 175
83299747 TCTGGGAAAC
* * * **** * *
83299757 AAGGCTGGTGACTTAAATCTGCTCCATTGCCAATACATGGAGATAAGACTT-GTTGTCTTTGACC
1 AAGGCTGGTGGCTTAAATCTGTTCCATTGCCAATACATGAAGATAAGA-TTCACCATCTTCGATC
* *** * * * ** *
83299821 TAC-CAAAGGCTGCTTAAGG-GAAACATGATCCTCAATCTTCAGTCCACATTCTTGCTACCTCAG
65 TACTCCACTACTGCTTAAGGAGATA-A-GATCTTCAATATTCAGTCTGCTTTCTTGCTACCTCAG
*
83299884 GAAGATAAGACCAATATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
128 AAAGATAAGACC-AT-TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
* * * * *
83299934 AAGGCTAGTGGC-AAAATCTGTTCCATTGCCGATATATGAAGATAAGATTCACCATCTTTGATCT
1 AAGGCTGGTGGCTTAAATCTGTTCCATTGCCAATACATGAAGATAAGATTCACCATCTTCGATCT
* * * *
83299998 ACTCCACTACTGCTTAGGGAGATAAGATCTTCAATATTCAGTCTGCTTTCTTGTTGCCTTAGAAA
66 ACTCCACTACTGCTTAAGGAGATAAGATCTTCAATATTCAGTCTGCTTTCTTGCTACCTCAGAAA
* *
83300063 GATAAGACTTATTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGAT
131 GATAAGAC-CATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
* * * * *
83300109 AAGGCCGGTGGCTTAGATCT-TCTCCATTACTAATACAT-AGAGATAAGATTCCCCATCTTCGAT
1 AAGGCTGGTGGCTTAAATCTGT-TCCATTGCCAATACATGA-AGATAAGATTCACCATCTTCGAT
* *
83300172 CTACTCCGCTACTGCTTAAGGAGATAAGATCTTCAATATTCCGTCTGCTTTCTTGCTACCTCAGA
64 CTACTCCACTACTGCTTAAGGAGATAAGATCTTCAATATTCAGTCTGCTTTCTTGCTACCTCAGA
83300237 AAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
129 AAGATAAGAC-CATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
* * *
83300285 AAGGCTGGTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCT
1 AAGGCTGGTGGCTTAAATCTGTTCCATTGCCAATACATGAAGATAAGATTCACCATCTTCGATCT
*
83300350 GCTCCACT
66 ACTCCACT
83300358 GCAACCTCAG
Statistics
Matches: 359, Mismatches: 56, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
175 47 0.13
176 287 0.80
177 22 0.06
178 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (175 bp):
AAGGCTGGTGGCTTAAATCTGTTCCATTGCCAATACATGAAGATAAGATTCACCATCTTCGATCT
ACTCCACTACTGCTTAAGGAGATAAGATCTTCAATATTCAGTCTGCTTTCTTGCTACCTCAGAAA
GATAAGACCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
Found at i:83300353 original size:45 final size:44
Alignment explanation
Indices: 83300301--83300477 Score: 106
Period size: 45 Copynumber: 3.7 Consensus size: 44
83300291 GGTGGCTTAA
*
83300301 ATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCG
1 ATCTGCTCCACTG-CAATACATGGAGATAAGATTCGCCATCTTCG
* * * *
83300346 ATCTGCTCCACTGCAACCT-CA-GTAAAATAAGATCTTCCATCTTCAGTGGCTTAG
1 ATCTGCTCCACTGCAA--TACATG-GAGATAAGA--TT-C-GC--CA-T--CTTCG
* * * *
83300400 ATTTGCTCCATTTCCGATACATGGAGATAAGATTCGCCATCTTCG
1 ATCTGCTCCA-CTGCAATACATGGAGATAAGATTCGCCATCTTCG
* *
83300445 ATCTGCTCCACTGCAATCCCAGGGAGATAAGAT
1 ATCTGCTCCACTGCAAT-ACATGGAGATAAGAT
83300478 CTAACTTCAC
Statistics
Matches: 97, Mismatches: 19, Indels: 32
0.66 0.13 0.22
Matches are distributed among these distances:
44 8 0.08
45 47 0.48
46 1 0.01
47 3 0.03
48 3 0.03
49 1 0.01
50 1 0.01
51 3 0.03
52 3 0.03
53 1 0.01
54 22 0.23
55 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTGCAATACATGGAGATAAGATTCGCCATCTTCG
Found at i:83300475 original size:99 final size:99
Alignment explanation
Indices: 83300292--83300479 Score: 297
Period size: 99 Copynumber: 1.9 Consensus size: 99
83300282 GATAAGGCTG
83300292 GTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCAC
1 GTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCAC
*
83300357 TGCAACCTCAGTAAAATAAGATCTTCCATCTTCA
66 TGCAACCTCAGGAAAATAAGATCTTCCATCTTCA
* * * *
83300391 GTGGCTTAGATTTGCTCCATTTCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCAC
1 GTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCAC
* *
83300456 TGCAATCC-CAGGGAGATAAGATCT
66 TGCAA-CCTCAGGAAAATAAGATCT
83300480 AACTTCACCA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 79 0.98
100 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (99 bp):
GTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCAC
TGCAACCTCAGGAAAATAAGATCTTCCATCTTCA
Found at i:83303217 original size:40 final size:40
Alignment explanation
Indices: 83303173--83303355 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
83303163 GCTACTCGTT
*
83303173 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
83303213 CAAATGCCTTCAGGACTTAACCCGGATT-TAGTAACTCGAA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
83303253 CCAATGCCTTCGGG-CTTAGCCTGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
83303292 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
83303333 CAAA-GCCTTCGGGACTTATCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
83303356 AACATCATTC
Statistics
Matches: 117, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 72 0.62
41 14 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:83303317 original size:79 final size:80
Alignment explanation
Indices: 83303175--83303323 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 80
83303165 TACTCGTTCA
*
83303175 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
*
83303240 TTAGTAACTCGAACC
66 ATAGTAACTCGAACC
* * **
83303255 AATGCCTTCGGG-CTTAGCCTGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGG
83303317 ATATAGT
64 ATATAGT
83303324 CACTTAGCAC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 4 0.07
79 45 0.74
80 12 0.20
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
ATAGTAACTCGAACC
Found at i:83303341 original size:79 final size:80
Alignment explanation
Indices: 83303173--83303350 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 80
83303163 GCTACTCGTT
* * *
83303173 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCTGGAAT-TAGTAACTCGCACAAATGCCTTCAGGACTTAACCCG
* *
83303237 GATTTAGTAACTCGAAC
64 GATATAGTAACTAGAAC
* **
83303254 CAATGCCTTCGGG-CTTAGCCTGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCTGGAATTAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGG
* *
83303317 ATATAGTCACTTAGCA-
65 ATATAGTAAC-TAGAAC
83303333 CAAAGCCTTCGGGACTTA
1 CAAAGCCTTCGGGACTTA
83303351 TCCCGAACAT
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.04
79 59 0.72
80 17 0.21
81 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCTGGAATTAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGA
TATAGTAACTAGAAC
Found at i:83316810 original size:23 final size:23
Alignment explanation
Indices: 83316774--83316820 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
83316764 TATAAAAAGT
* *
83316774 ATTTGAACATAATATCATACAAA
1 ATTTGAAAACAATATCATACAAA
* *
83316797 ATTTGAAAACAATATGATATAAA
1 ATTTGAAAACAATATCATACAAA
83316820 A
1 A
83316821 GGAAATTCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (23 bp):
ATTTGAAAACAATATCATACAAA
Found at i:83324901 original size:22 final size:23
Alignment explanation
Indices: 83324854--83324902 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
83324844 TTATAAAACC
* *
83324854 TAAAGATGAAGTAAAAATAGTAT
1 TAAAGATGAAATAAAAATAATAT
83324877 TAAAGA-GAAATAAAAAGTAAT-T
1 TAAAGATGAAATAAAAA-TAATAT
83324899 TAAA
1 TAAA
83324903 AACATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.24
Consensus pattern (23 bp):
TAAAGATGAAATAAAAATAATAT
Found at i:83326412 original size:19 final size:19
Alignment explanation
Indices: 83326388--83326432 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
83326378 TATAGTCCTT
*
83326388 TTAAATATTTTTTTATCTA
1 TTAAATATTTTTATATCTA
*
83326407 TTAAATA-CTTTATATCTA
1 TTAAATATTTTTATATCTA
83326425 -TAAATATT
1 TTAAATATT
83326433 AATTATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 6 0.27
18 9 0.41
19 7 0.32
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAAATATTTTTATATCTA
Found at i:83326466 original size:13 final size:13
Alignment explanation
Indices: 83326448--83326534 Score: 68
Period size: 13 Copynumber: 6.2 Consensus size: 13
83326438 TAAAATATAG
83326448 TATATATTATTTT
1 TATATATTATTTT
83326461 TATATATTATTTAT
1 TATATATTATTT-T
83326475 TATATA-TATTTTT
1 TATATATTA-TTTT
*
83326488 TACTTATAAATTATATT
1 TA--TAT--ATTATTTT
* *
83326505 TATTTATATATTTCA
1 TATATAT-TATTT-T
83326520 TATATATTATTTT
1 TATATATTATTTT
83326533 TA
1 TA
83326535 AAAAAAATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
13 21 0.36
14 19 0.32
15 11 0.19
17 6 0.10
18 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (13 bp):
TATATATTATTTT
Found at i:83326671 original size:21 final size:21
Alignment explanation
Indices: 83326633--83326686 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
83326623 ATATTACATT
* *
83326633 TTATTATATGTAT-TTTTAAA
1 TTATTATATATATGGTTTAAA
*
83326653 TTACTTAT-TATATGGTTTATA
1 TTA-TTATATATATGGTTTAAA
83326674 TTATTATATATAT
1 TTATTATATATAT
83326687 TTTGGTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (21 bp):
TTATTATATATATGGTTTAAA
Found at i:83331482 original size:40 final size:40
Alignment explanation
Indices: 83331395--83331617 Score: 228
Period size: 40 Copynumber: 5.6 Consensus size: 40
83331385 TATTCGGATG
* * *
83331395 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGTAGTTGTGCTATTGACT
83331434 ATATCCGGGCTAAGTCCCGAAGGTAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGTAGTTGTGCTATTGACT
* * *
83331474 ATACCCGGGCTAAGTCCCGAAGG-CGTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGTAG-TTGTGCTA-TTGACT
* *
83331514 ATATCCGGGCTAAGTCCCGAAGGCT-TTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGG-TAGTTGTGCTATTGACT
* *
83331554 ATATCCGGGCTAAGACCCGAAGG-CGTTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGTAG-TTGTGCT-A-TTGACT
* *
83331594 ATA-CCCGGCTAAATCCCGAAGGTA
1 ATATCCGGGCTAAGTCCCGAAGGTA
83331618 CTTGGGTTTG
Statistics
Matches: 156, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
39 44 0.28
40 107 0.69
41 5 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGTAGTTGTGCTATTGACT
Found at i:83331531 original size:80 final size:80
Alignment explanation
Indices: 83331399--83331617 Score: 302
Period size: 80 Copynumber: 2.8 Consensus size: 80
83331389 CGGATGATAT
* * *
83331399 CCGGGCTAAGTCCCGAAGGC-ATGGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGTAGTT
1 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGTAGTT
*
83331462 GTGCTATTGACTATAC
65 GTGCTAGTGACTATAC
*
83331478 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT-TTT
1 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG-TAGTT
*
83331542 GTGCTAGTGACTATAT
65 GTGCTAGTGACTATAC
* * * *
83331558 CCGGGCTAAGACCCGAAGGCGTTTGTGTGAGTTGCTATA-CCCGGCTAAATCCCGAAGGTA
1 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGTA
83331618 CTTGGGTTTG
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 37 0.29
80 85 0.67
81 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGTAGTTG
TGCTAGTGACTATAC
Found at i:83340478 original size:28 final size:27
Alignment explanation
Indices: 83340446--83340501 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 27
83340436 GAAAAAGATT
83340446 ACTACATAGGGCATTTACACAAAGAGAA
1 ACTACAT-GGGCATTTACACAAAGAGAA
*
83340474 ACTACATGGGCATTTATACAAAGAGAA
1 ACTACATGGGCATTTACACAAAGAGAA
83340501 A
1 A
83340502 AGCTCTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (27 bp):
ACTACATGGGCATTTACACAAAGAGAA
Found at i:83340984 original size:16 final size:16
Alignment explanation
Indices: 83340942--83340978 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 16
83340932 TACTATAATT
83340942 AAATATAATAATTATTA
1 AAAT-TAATAATTATTA
83340959 AAATTAATAATTATTA
1 AAATTAATAATTATTA
83340975 AAAT
1 AAAT
83340979 CTATAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTAATAATTATTA
Found at i:83342633 original size:36 final size:37
Alignment explanation
Indices: 83342586--83342658 Score: 130
Period size: 38 Copynumber: 2.0 Consensus size: 37
83342576 TTGGGAATTA
83342586 TCAAAATATATTTTCCG-TTCTTTTTGAAATTTTCGG
1 TCAAAATATATTTTCCGTTTCTTTTTGAAATTTTCGG
83342622 TCAAAATATATTTTCCGTTTTCTTTTTGAAATTTTCG
1 TCAAAATATATTTTCCG-TTTCTTTTTGAAATTTTCG
83342659 ATTTTCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 17 0.49
38 18 0.51
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.52
Consensus pattern (37 bp):
TCAAAATATATTTTCCGTTTCTTTTTGAAATTTTCGG
Found at i:83347627 original size:43 final size:42
Alignment explanation
Indices: 83347531--83347640 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
83347521 GATTTTAAAT
* *
83347531 TTACGTGTAAGACCATGTTTGGGACATCAGTATCGTATTTAG
1 TTACGTGTAAGACCCTGTCTGGGACATCAGTATCGTATTTAG
* *
83347573 TTTCGTGTAAGACCCTGTCTGGGATAGTC-GTATCGATATTT-G
1 TTACGTGTAAGACCCTGTCTGGGACA-TCAGTATCG-TATTTAG
*
83347615 ATTACATGTAAGACCAC-GTCTGGGAC
1 -TTACGTGTAAGACC-CTGTCTGGGAC
83347641 GTTGGCATTC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
42 29 0.51
43 27 0.47
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
TTACGTGTAAGACCCTGTCTGGGACATCAGTATCGTATTTAG
Found at i:83356042 original size:28 final size:28
Alignment explanation
Indices: 83356011--83356064 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
83356001 AACAATCTAG
* *
83356011 GCCTTAGCCCTATACAGTAACAGTATGC
1 GCCTAAGCCCAATACAGTAACAGTATGC
* *
83356039 GCCTAAGCCCAATTCAGTATCAGTAT
1 GCCTAAGCCCAATACAGTAACAGTAT
83356065 AGTGCAGTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (28 bp):
GCCTAAGCCCAATACAGTAACAGTATGC
Found at i:83365914 original size:42 final size:43
Alignment explanation
Indices: 83365857--83365958 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 43
83365847 TGAGATTTAC
83365857 GTGTAAGACCATGTCTGAGACACCGGCATCG-TATTTGATTTT
1 GTGTAAGACCATGTCTGAGACACCGGCATCGATATTTGATTTT
* * * * ** **
83365899 GTGTATGACCTTGTCTGGGATAGTGGCATCGATATTTGATTGC
1 GTGTAAGACCATGTCTGAGACACCGGCATCGATATTTGATTTT
* *
83365942 ATGTAAGACCACGTCTG
1 GTGTAAGACCATGTCTG
83365959 GGATGTTGGC
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
42 25 0.53
43 22 0.47
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGAGACACCGGCATCGATATTTGATTTT
Found at i:83365958 original size:43 final size:44
Alignment explanation
Indices: 83365812--83365970 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 44
83365802 TATGTAATTT
* * *
83365812 CGTGTAAGACCACGTCTGGGA-CGTTGGTATCGAT-TTGAGATTTA
1 CGTGTAAGACCACGTCTGGGATAGTTGGCATCGATATT-TGA-TTA
* * * ** *
83365856 CGTGTAAGACCATGTCTGAGACA-CCGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGATAGTTGGCATCGATATTTGATTA
* * ** *
83365898 TGTGTATGACCTTGTCTGGGATAG-TGGCATCGATATTTGATTG
1 CGTGTAAGACCACGTCTGGGATAGTTGGCATCGATATTTGATTA
*
83365941 CATGTAAGACCACGTCTGGGAT-GTTGGCAT
1 CGTGTAAGACCACGTCTGGGATAGTTGGCAT
83365971 TGTATGAACT
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
42 28 0.31
43 35 0.39
44 27 0.30
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGATAGTTGGCATCGATATTTGATTA
Found at i:83369037 original size:31 final size:31
Alignment explanation
Indices: 83369002--83369063 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
83368992 TACCATACTT
83369002 ATTTTGAGAATAAAGTAAATTTGT-ATTTATA
1 ATTTT-AGAATAAAGTAAATTTGTAATTTATA
** *
83369033 ATTTTTTAATAAGGTAAATTTGTAATTTATA
1 ATTTTAGAATAAAGTAAATTTGTAATTTATA
83369064 CTATCTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.48
Consensus pattern (31 bp):
ATTTTAGAATAAAGTAAATTTGTAATTTATA
Found at i:83369154 original size:6 final size:6
Alignment explanation
Indices: 83369143--83369172 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
83369133 ATTGAAATAA
83369143 TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT
83369173 CATTAGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:83371574 original size:24 final size:25
Alignment explanation
Indices: 83371530--83371598 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 25
83371520 TTTTAAAATA
*
83371530 ATTATTTAATTTA--AGTATTTGG-T
1 ATTATTTAATTTATTA-TTTTTGGTT
*
83371553 ATTTATTTTATTT-TTATTTTTGGTT
1 A-TTATTTAATTTATTATTTTTGGTT
83371578 ATTATTTAATTTATTATTTTT
1 ATTATTTAATTTATTATTTTT
83371599 CTTTTCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.03
24 26 0.68
25 11 0.29
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (25 bp):
ATTATTTAATTTATTATTTTTGGTT
Found at i:83372216 original size:26 final size:26
Alignment explanation
Indices: 83372180--83372289 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
83372170 TGATACAAAT
83372180 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
83372206 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
83372232 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
83372258 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
83372284 TGATAA
1 TGATAA
83372290 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:83374047 original size:21 final size:21
Alignment explanation
Indices: 83374021--83374068 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
83374011 TATCCCCACA
83374021 TGGAGTGTA-TGGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
83374042 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
83374063 TTGAGT
1 TGGAGT
83374069 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.12, C:0.02, G:0.52, T:0.33
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:83374321 original size:137 final size:137
Alignment explanation
Indices: 83374075--83374362 Score: 540
Period size: 137 Copynumber: 2.1 Consensus size: 137
83374065 GAGTAGTCTC
83374075 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
83374140 TGTTATCTGAATAAGGTGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
83374205 ACTGTTA
131 ACTGTTA
*
83374212 CCCAAATGGGCTTGTATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
83374277 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
83374342 ACTGTTA
131 ACTGTTA
**
83374349 CCTGAATGGGCTTG
1 CCCAAATGGGCTTG
83374363 AGCTGACTTG
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:83375603 original size:22 final size:22
Alignment explanation
Indices: 83375558--83375604 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
83375548 CTTCAGGTAT
*
83375558 ACGACTGTGTGCCTCTCTTCAC
1 ACGACTGTGTGCCCCTCTTCAC
* * *
83375580 ACGAGTGTGTGCCCCTTTTTAC
1 ACGACTGTGTGCCCCTCTTCAC
83375602 ACG
1 ACG
83375605 GGCATGTGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.15, C:0.32, G:0.21, T:0.32
Consensus pattern (22 bp):
ACGACTGTGTGCCCCTCTTCAC
Found at i:83381768 original size:15 final size:14
Alignment explanation
Indices: 83381740--83381782 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
83381730 CAATATCATG
*
83381740 AGTATAGTAAATTTT
1 AGTATA-TATATTTT
83381755 AGTATTATATATTTT
1 AGTA-TATATATTTT
*
83381770 TGTATATATATTT
1 AGTATATATATTT
83381783 AAAATATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 9 0.36
15 14 0.56
16 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (14 bp):
AGTATATATATTTT
Found at i:83381779 original size:16 final size:15
Alignment explanation
Indices: 83381750--83381782 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
83381740 AGTATAGTAA
83381750 ATTTTAGTATTATAT
1 ATTTTAGTATTATAT
*
83381765 ATTTTTGTA-TATAT
1 ATTTTAGTATTATAT
83381779 ATTT
1 ATTT
83381783 AAAATATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
ATTTTAGTATTATAT
Found at i:83382019 original size:13 final size:15
Alignment explanation
Indices: 83381990--83382022 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
83381980 TGTGGGAAAA
83381990 ATAAATATTTGATAT
1 ATAAATATTTGATAT
83382005 ATAAATA-TT-ATAT
1 ATAAATATTTGATAT
83382018 ATAAA
1 ATAAA
83382023 GAAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAATATTTGATAT
Found at i:83383493 original size:389 final size:389
Alignment explanation
Indices: 83382387--83383553 Score: 2295
Period size: 388 Copynumber: 3.0 Consensus size: 389
83382377 ACACGAAATA
83382387 AAAAATAAAAATGTGAGTAGAAAAAGAATCAAACCTGAGACTCAATGACAAAACCACTAACATTT
1 AAAAATAAAAATGTGAGTAGAAAAAGAATCAAACCTGAGACTCAATGACAAAACCACTAACATTT
83382452 AATCATCTTACCAAAGTAATTGATTTTATTAATAAAAAAAGTCAAAAAATACGTCTAAGGGAAAA
66 AATCATCTTACCAAAGTAATTGATTTTATTAATAAAAAAAGTCAAAAAATACGTCTAAGGGAAAA
83382517 TGAATCCAGTTGGGCGCTCTTTCCTACCAACCGTGCATAAAACACTTCCAACTGGATGTATTTTC
131 TGAATCCAGTTGGGCGCTCTTTCCTACCAACCGTGCATAAAACACTTCCAACTGGATGTATTTTC
83382582 ACACCTTTTTTTTAAATTGACTTATTTTCTTAAATATTGCAAAAATTGCTCGAAATATTTGTTTT
196 ACACCTTTTTTTTAAATTGACTTATTTTCTTAAATATTGCAAAAATTGCTCGAAATATTTGTTTT
83382647 AAACGACGCAATTGAACCGGTTTCTGGAATTAGAAACTGTTTTTGTTGCTGCTTTTTTAATGAAA
261 AAACGACGCAATTGAACCGGTTTCTGGAATTAGAAACTGTTTTTGTTGCTGCTTTTTTAATGAAA
83382712 AAATTATTTGAAAAATTAAAGAAAAAATTGAAAAATAAAAATAGAAGCCTATTGTCTTATAATT
326 AAATTATTTGAAAAATTAAAGAAAAAATTGAAAAATAAAAATAGAAGCCTATTGTCTTATAATT
83382776 -AAAATAAAAATGTGAGTAGAAAAAGAATCAAACCTGAGACTCAATGACAAAACCACTAACATTT
1 AAAAATAAAAATGTGAGTAGAAAAAGAATCAAACCTGAGACTCAATGACAAAACCACTAACATTT
83382840 AATCATCTTACCAAAGTAATTGATTTTATTAATAAAAAAAGTCAAAAAATACGTCTAAGGGAAAA
66 AATCATCTTACCAAAGTAATTGATTTTATTAATAAAAAAAGTCAAAAAATACGTCTAAGGGAAAA
83382905 TGAATCCAGTTGGGCGCTCTTTCCTACCAACCGTGCATAAAACACTTCCAACTGGATGTATTTTC
131 TGAATCCAGTTGGGCGCTCTTTCCTACCAACCGTGCATAAAACACTTCCAACTGGATGTATTTTC
83382970 ACACCTTTTTTTTAAATTGACTTATTTTCTTAAATATTGCAAAAATTGCTCGAAATATTTGTTTT
196 ACACCTTTTTTTTAAATTGACTTATTTTCTTAAATATTGCAAAAATTGCTCGAAATATTTGTTTT
83383035 AAACGACGCAATTGAACCGGTTTCTGGAATTAGAAACTGTTTTTGTTGCTGCTTTTTTAATGAAA
261 AAACGACGCAATTGAACCGGTTTCTGGAATTAGAAACTGTTTTTGTTGCTGCTTTTTTAATGAAA
83383100 AAATTATTTGAAAAATTAAAGAAAAAATTGAAAAATAAAAATAGAAGCCTATTGTCTTATAATT
326 AAATTATTTGAAAAATTAAAGAAAAAATTGAAAAATAAAAATAGAAGCCTATTGTCTTATAATT
83383164 AAAAATAAAAATGTGAGTAGAAAAAGAATCAAACCTGAGACTCAATGACAAAACCACTAACATTT
1 AAAAATAAAAATGTGAGTAGAAAAAGAATCAAACCTGAGACTCAATGACAAAACCACTAACATTT
83383229 AATCATCTTACCAAAGTAATTGATTTTATTAAT-AAAAAAGTCAAAAAATACGTCTAAGGGAAAA
66 AATCATCTTACCAAAGTAATTGATTTTATTAATAAAAAAAGTCAAAAAATACGTCTAAGGGAAAA
83383293 TGAATCCAGTTGGGCGCTCTTTCCTACCAACCGTGCATAAAACACTTCCAACTGGATGTATTTTC
131 TGAATCCAGTTGGGCGCTCTTTCCTACCAACCGTGCATAAAACACTTCCAACTGGATGTATTTTC
83383358 ACACCTTTTTTTTTAAATTGACTTATTTTCTTAAATATTGCAAAAATTGCTCGAAATATTTGTTT
196 ACACC-TTTTTTTTAAATTGACTTATTTTCTTAAATATTGCAAAAATTGCTCGAAATATTTGTTT
83383423 TAAACGACGCAATTGAACCGGTTTCTGGAATTAGAAACTGTTTTTGTTGCTGC-TTTTTAATGAA
260 TAAACGACGCAATTGAACCGGTTTCTGGAATTAGAAACTGTTTTTGTTGCTGCTTTTTTAATG-A
83383487 AAAAATTATTTGAAAAATTAAAGAAAAAATTGAAAAATAAAAATAGAAGCCTATTGTCTTATAAT
324 AAAAATTATTTGAAAAATTAAAGAAAAAATTGAAAAATAAAAATAGAAGCCTATTGTCTTATAAT
83383552 T
389 T
83383553 A
1 A
83383554 TGGTTACAAT
Statistics
Matches: 775, Mismatches: 0, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
388 498 0.64
389 277 0.36
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (389 bp):
AAAAATAAAAATGTGAGTAGAAAAAGAATCAAACCTGAGACTCAATGACAAAACCACTAACATTT
AATCATCTTACCAAAGTAATTGATTTTATTAATAAAAAAAGTCAAAAAATACGTCTAAGGGAAAA
TGAATCCAGTTGGGCGCTCTTTCCTACCAACCGTGCATAAAACACTTCCAACTGGATGTATTTTC
ACACCTTTTTTTTAAATTGACTTATTTTCTTAAATATTGCAAAAATTGCTCGAAATATTTGTTTT
AAACGACGCAATTGAACCGGTTTCTGGAATTAGAAACTGTTTTTGTTGCTGCTTTTTTAATGAAA
AAATTATTTGAAAAATTAAAGAAAAAATTGAAAAATAAAAATAGAAGCCTATTGTCTTATAATT
Found at i:83389086 original size:20 final size:18
Alignment explanation
Indices: 83389061--83389097 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
83389051 ATTGCTAAGT
83389061 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
83389081 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
83389098 TATAAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:83395399 original size:26 final size:24
Alignment explanation
Indices: 83395369--83395418 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
83395359 AAATAAAAAA
*
83395369 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
83395395 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
83395419 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:83395438 original size:21 final size:21
Alignment explanation
Indices: 83395389--83395447 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
83395379 ATAATAAATC
*
83395389 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
83395409 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
83395431 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
83395448 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:83404335 original size:5 final size:5
Alignment explanation
Indices: 83404327--83404355 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
83404317 TGTTTTTGGG
83404327 TTTCT TTTCT TTTCT TTTCT TTTCT TTTC
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTC
83404356 AATCTATTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:83405521 original size:20 final size:21
Alignment explanation
Indices: 83405496--83405534 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
83405486 AGGAAGGCAG
*
83405496 ATGGGGGATA-GAGGGAGAGA
1 ATGGGGGAAATGAGGGAGAGA
83405516 ATGGGGGAAATGAGGGAGA
1 ATGGGGGAAATGAGGGAGA
83405535 TAAAAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.54, T:0.10
Consensus pattern (21 bp):
ATGGGGGAAATGAGGGAGAGA
Found at i:83418142 original size:24 final size:24
Alignment explanation
Indices: 83418081--83418179 Score: 103
Period size: 24 Copynumber: 4.0 Consensus size: 24
83418071 GCGAACTCAC
*
83418081 CTCAGCTCGTATGAGCTTACTGATAT
1 CTCAGCTCGTAAGAGCTTACTG-T-T
* * *
83418107 ATCAGCTTGTAAGAGCTTATTGTT
1 CTCAGCTCGTAAGAGCTTACTGTT
*
83418131 CTCAGCTCGTAAAAGCTTACTGTT
1 CTCAGCTCGTAAGAGCTTACTGTT
83418155 -TCCAGCTCG-ATAGAGCTTACTGTT
1 CT-CAGCTCGTA-AGAGCTTACTGTT
83418179 C
1 C
83418180 ATTAGCTCAA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.03
24 40 0.66
25 1 0.02
26 18 0.30
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (24 bp):
CTCAGCTCGTAAGAGCTTACTGTT
Found at i:83419950 original size:39 final size:39
Alignment explanation
Indices: 83419896--83420032 Score: 139
Period size: 39 Copynumber: 3.5 Consensus size: 39
83419886 AGTGAAAATA
*
83419896 CAATTTTATAACCAAATACTCAAATTCTTATTGGAAACC
1 CAATTTTGTAACCAAATACTCAAATTCTTATTGGAAACC
* * * * **
83419935 CAATTTTGTATCCAAATACTCAAATTTTTAATGAAAAAATA
1 CAATTTTGTAACCAAATACTCAAATTCTTATTG--GAAACC
* * * *
83419976 CAATTTTGTAACTAAATACTCAAAGTCCTATTGGAAGCC
1 CAATTTTGTAACCAAATACTCAAATTCTTATTGGAAACC
**
83420015 CAACCTTGTAACCAAATA
1 CAATTTTGTAACCAAATA
83420033 ATTTGTAAAA
Statistics
Matches: 76, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 46 0.61
41 30 0.39
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (39 bp):
CAATTTTGTAACCAAATACTCAAATTCTTATTGGAAACC
Found at i:83420935 original size:6 final size:6
Alignment explanation
Indices: 83420926--83420951 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
83420916 TCATCATATT
83420926 CATCTC CATCTC CATCTC CATCTC CA
1 CATCTC CATCTC CATCTC CATCTC CA
83420952 ACGTTATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.50, G:0.00, T:0.31
Consensus pattern (6 bp):
CATCTC
Found at i:83422999 original size:22 final size:22
Alignment explanation
Indices: 83422955--83422999 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
83422945 TTAATCATTA
* **
83422955 TTATTCAGTATCAGTCATTTAT
1 TTATTCAGTAACAGTCAAATAT
83422977 TTATTCAGTAACAGTCAAATAT
1 TTATTCAGTAACAGTCAAATAT
83422999 T
1 T
83423000 CGGTAGCAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (22 bp):
TTATTCAGTAACAGTCAAATAT
Found at i:83424250 original size:14 final size:13
Alignment explanation
Indices: 83424220--83424248 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
83424210 TTCTTTCTCC
83424220 TTTCCTTCCCCCA
1 TTTCCTTCCCCCA
83424233 TTTCCTTCCCCCA
1 TTTCCTTCCCCCA
83424246 TTT
1 TTT
83424249 TCGTTTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.48, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTCCTTCCCCCA
Found at i:83425424 original size:29 final size:29
Alignment explanation
Indices: 83425382--83425440 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
83425372 AGCTCGTGTC
83425382 TACCATGGACGAAAAAAAGAAAGTTTTGT
1 TACCATGGACGAAAAAAAGAAAGTTTTGT
* *
83425411 TACCATGGATGAAAGAAAGAAAGTTTTGT
1 TACCATGGACGAAAAAAAGAAAGTTTTGT
83425440 T
1 T
83425441 TTCTTTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.27
Consensus pattern (29 bp):
TACCATGGACGAAAAAAAGAAAGTTTTGT
Found at i:83426962 original size:16 final size:16
Alignment explanation
Indices: 83426939--83426992 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
83426929 TTTGGTTCAC
*
83426939 TGTAATGGAATAAGGT
1 TGTAATGGAATAAAGT
*
83426955 TTTAATGGAATAAAGT
1 TGTAATGGAATAAAGT
*
83426971 TGTAATGGAATAGAGT
1 TGTAATGGAATAAAGT
83426987 TGTAAT
1 TGTAAT
83426993 TAGCAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (16 bp):
TGTAATGGAATAAAGT
Found at i:83427210 original size:25 final size:26
Alignment explanation
Indices: 83427162--83427221 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
83427152 TTTTTATTAA
*
83427162 ATTTTAATAAGAATATTATGAAT-AT
1 ATTTTAATAAGAATATAATGAATAAT
*
83427187 ATTTTAATAATAATAATAAT-AATAAAT
1 ATTTTAATAAGAAT-ATAATGAAT-AAT
83427214 ATTTTAAT
1 ATTTTAAT
83427222 TATATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 16 0.53
26 4 0.13
27 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (26 bp):
ATTTTAATAAGAATATAATGAATAAT
Found at i:83427349 original size:21 final size:21
Alignment explanation
Indices: 83427306--83427354 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
83427296 TATTATCAAA
83427306 ATATAAATTAAAAAATCATAAT
1 ATATAAATTAAAAAA-CATAAT
*
83427328 ATATAATATTATAAAA-ATAAT
1 ATATAA-ATTAAAAAACATAAT
83427349 ATATAA
1 ATATAA
83427355 CCTACTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 11 0.44
22 6 0.24
23 8 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATAAATTAAAAAACATAAT
Found at i:83429265 original size:70 final size:70
Alignment explanation
Indices: 83429152--83429296 Score: 254
Period size: 70 Copynumber: 2.1 Consensus size: 70
83429142 AACAACAAGC
* *
83429152 AATAATGATTCTATTGTGCACCCTCACAGGATAGAATGATGGACTCCTAAGTATTCCCTGTCTAA
1 AATAATGATTCTATTGTGCACCCTCACAGGATAGAATAATGGACTCCTAAGTATTCCCTATCTAA
83429217 GTTTT
66 GTTTT
*
83429222 AATAATGATTCTATTGTGCACCCTCACAGGATAGAATAATGGACTCCTAAGTATTTCCTATCTAA
1 AATAATGATTCTATTGTGCACCCTCACAGGATAGAATAATGGACTCCTAAGTATTCCCTATCTAA
*
83429287 TTTTT
66 GTTTT
83429292 AATAA
1 AATAA
83429297 CCCAAAGCAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (70 bp):
AATAATGATTCTATTGTGCACCCTCACAGGATAGAATAATGGACTCCTAAGTATTCCCTATCTAA
GTTTT
Found at i:83431471 original size:16 final size:16
Alignment explanation
Indices: 83431450--83431481 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
83431440 CAATACTTTT
83431450 ATTAAACCAAGAAAAA
1 ATTAAACCAAGAAAAA
83431466 ATTAAACCAAGAAAAA
1 ATTAAACCAAGAAAAA
83431482 GTACCGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.12, G:0.06, T:0.12
Consensus pattern (16 bp):
ATTAAACCAAGAAAAA
Found at i:83432394 original size:20 final size:20
Alignment explanation
Indices: 83432369--83432415 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
83432359 AGGGCTCTTG
83432369 AATCAATTTGATTAAAATCA
1 AATCAATTTGATTAAAATCA
* *
83432389 AATCAAATTGATTAGAATCA
1 AATCAATTTGATTAAAATCA
83432409 AAT-AATT
1 AATCAATT
83432416 CAAGATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (20 bp):
AATCAATTTGATTAAAATCA
Found at i:83437286 original size:12 final size:12
Alignment explanation
Indices: 83437271--83437309 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
83437261 TCAATTACAA
83437271 AATCAGATGCAT
1 AATCAGATGCAT
* *
83437283 AATCAGATACAA
1 AATCAGATGCAT
*
83437295 AATCAGATGTAT
1 AATCAGATGCAT
83437307 AAT
1 AAT
83437310 TAGTTACAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.26
Consensus pattern (12 bp):
AATCAGATGCAT
Found at i:83437287 original size:24 final size:24
Alignment explanation
Indices: 83437260--83437321 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
83437250 GCAATTGCAG
83437260 ATCAATTACAAAATCAGATGCATA
1 ATCAATTACAAAATCAGATGCATA
*
83437284 ATCAGA-TACAAAATCAGATGTATA
1 ATCA-ATTACAAAATCAGATGCATA
* *
83437308 ATTAGTTACAAAAT
1 ATCAATTACAAAAT
83437322 TATATCCTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 32 0.97
25 1 0.03
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (24 bp):
ATCAATTACAAAATCAGATGCATA
Found at i:83439274 original size:28 final size:29
Alignment explanation
Indices: 83439215--83439279 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
83439205 TTTTCATTTA
* *
83439215 TTTCACAATTTAACCCATCAATTTACATT
1 TTTCTCAATTTAACCCATCAATTGACATT
83439244 TTTCTCAATTTAATCCC-T-AATTGACATT
1 TTTCTCAATTTAA-CCCATCAATTGACATT
*
83439272 TTTGTCAA
1 TTTCTCAA
83439280 AAATCATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 16 0.50
29 13 0.41
30 3 0.09
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCATCAATTGACATT
Found at i:83443704 original size:196 final size:195
Alignment explanation
Indices: 83443353--83443705 Score: 514
Period size: 196 Copynumber: 1.8 Consensus size: 195
83443343 CATGCTATAG
83443353 TTCTAAATAAAATAATACAGTCTTTGAATAAAGAAAATAATATTAAAATACTTTAATAAAATAAA
1 TTCTAAATAAAATAATACAGTCTTTGAATAAAGAAAATAATATTAAAATACTTTAATAAAATAAA
* * * * * *
83443418 TCTTTCTGAGCTGAGACTCTCTGGATGCAATGTTTGTGTCCTAACCTGATGTGTTATCTATAAGG
66 TCTTTCTGAGCTGAGACTCCCCGGATGCAATGTCTGCGTCCTAACCTGATGGGTTATCTATAAAG
* *
83443483 ATGAAAATTTAAAGGGGACTGAGCTATCATGCAAAGTGAACTCAAATCCTACGTCCCCTGCCATC
131 ATGAAAATTAAAAAGGGA-TGAGCTATCATGCAAAGTGAACTCAAATCCTACGTCCCCTGCCATC
83443548 T
195 T
*
83443549 TTCTAAATAAAATAATACAGTCTTTGAATAAA-AATAATAGTATTAAAATACTTTAATAAAATAA
1 TTCTAAATAAAATAATACAGTCTTTGAATAAAGAA-AATAATATTAAAATACTTTAATAAAATAA
* * * * *
83443613 GTAC-TTCTGAGCTGCGACTCCCCGGATGCGATGTCTGCGTCCTAACCTGGTGGGTTATCTGTAA
65 AT-CTTTCTGAGCTGAGACTCCCCGGATGCAATGTCTGCGTCCTAACCTGATGGGTTATCTATAA
83443677 AGATGAAAATTCAAACAAGGG-TGAGCTAT
129 AGATGAAAATT-AAA-AAGGGATGAGCTAT
83443706 AACGCTCAGT
Statistics
Matches: 139, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
195 2 0.01
196 130 0.94
197 3 0.02
198 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (195 bp):
TTCTAAATAAAATAATACAGTCTTTGAATAAAGAAAATAATATTAAAATACTTTAATAAAATAAA
TCTTTCTGAGCTGAGACTCCCCGGATGCAATGTCTGCGTCCTAACCTGATGGGTTATCTATAAAG
ATGAAAATTAAAAAGGGATGAGCTATCATGCAAAGTGAACTCAAATCCTACGTCCCCTGCCATCT
Found at i:83446378 original size:20 final size:21
Alignment explanation
Indices: 83446340--83446390 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
83446330 ATTTCAAAGA
*
83446340 AATTATAATCTAAAAAAATC-T
1 AATTA-AATATAAAAAAATCAT
83446361 -ATTAAATATAAAACAAATCAT
1 AATTAAATATAAAA-AAATCAT
83446382 AATTAAATA
1 AATTAAATA
83446391 AATTAACAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 8 0.31
20 9 0.35
21 1 0.04
22 8 0.31
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTAAATATAAAAAAATCAT
Found at i:83451876 original size:43 final size:44
Alignment explanation
Indices: 83451782--83451889 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 44
83451772 CAGGGACATG
* * **** *
83451782 GCCGTGTTGCAAAACCGTGTACAATTCAAGAATAGGGGTACACG
1 GCCGTGTTGCCAAGCCGTGTACAATTCAAGAATAGAACCACACA
*
83451826 GCCGTGTTGCCAGGCCGTGTACAATTCAA-AATAGAACCACACA
1 GCCGTGTTGCCAAGCCGTGTACAATTCAAGAATAGAACCACACA
* *
83451869 GTCGTGTTGCCAAGCTGTGTA
1 GCCGTGTTGCCAAGCCGTGTA
83451890 GCAACTTGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
43 27 0.51
44 26 0.49
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (44 bp):
GCCGTGTTGCCAAGCCGTGTACAATTCAAGAATAGAACCACACA
Found at i:83456581 original size:20 final size:20
Alignment explanation
Indices: 83456545--83456582 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
83456535 AATCTAATCA
*
83456545 AAACATAAAATTTTGAGTCG
1 AAACATAAAATTCTGAGTCG
83456565 AAACTATAAAA-TCTGAGT
1 AAAC-ATAAAATTCTGAGT
83456583 TACAAGGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (20 bp):
AAACATAAAATTCTGAGTCG
Found at i:83457602 original size:7 final size:8
Alignment explanation
Indices: 83457584--83457617 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
83457574 TTAGAAATTT
83457584 AAAATTAA
1 AAAATTAA
83457592 AAAATTAA
1 AAAATTAA
83457600 AAAATTAA
1 AAAATTAA
83457608 AAAATTAA
1 AAAATTAA
83457616 AA
1 AA
83457618 TTATATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATTAA
Found at i:83457627 original size:16 final size:14
Alignment explanation
Indices: 83457570--83457620 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
83457560 CTAGAAAGAG
* *
83457570 AAAATTAGAAATTT
1 AAAATTAAAAAATT
83457584 AAAATTAAAAAATT
1 AAAATTAAAAAATT
83457598 AAAAAATTAAAAAATT
1 --AAAATTAAAAAATT
83457614 AAAATTA
1 AAAATTA
83457621 TATAAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 19 0.58
16 14 0.42
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
AAAATTAAAAAATT
Found at i:83457669 original size:15 final size:15
Alignment explanation
Indices: 83457645--83457680 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
83457635 TTTTTAATTT
83457645 TAAAATATAAAATTATA
1 TAAAATA-AAAA-TATA
83457662 TAAAATAAAAATATA
1 TAAAATAAAAATATA
83457677 TAAA
1 TAAA
83457681 TTTTACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAATAAAAATATA
Found at i:83471954 original size:19 final size:20
Alignment explanation
Indices: 83471927--83471970 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
83471917 AAAATTCAAT
83471927 TAATAATACT-ATA-TGATAA
1 TAATAATACTAATAGTGA-AA
*
83471946 TAATGATACTAATAGTGAAA
1 TAATAATACTAATAGTGAAA
83471966 TAATA
1 TAATA
83471971 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 9 0.43
20 9 0.43
21 3 0.14
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (20 bp):
TAATAATACTAATAGTGAAA
Found at i:83473880 original size:94 final size:93
Alignment explanation
Indices: 83473729--83474579 Score: 927
Period size: 94 Copynumber: 9.1 Consensus size: 93
83473719 GTGTTACAGT
* * * * * * * * * * *
83473729 TTCATCTTGCTCTATTGCAACTTCAAGGAGATAAAATTTGTTGTTGTGGTTTTAATCTGACCCAC
1 TTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCAC
*
83473794 TGTAACTTCAAGGGTATAGGATTTGTAGC
66 TGCAACTT-AAGGGTATAGGATTTGTAGC
* *
83473823 TTCATCTTGCTCCACTGCAAATTCAGGGAGATAAGATTCGCTATGGTA-ATTTCAATCTAACCCA
1 TTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCA
*
83473887 CTGCAACTTTAGGGGTATAGGATTTGTAGC
65 CTGCAAC-TTAAGGGTATAGGATTTGTAGC
* * * *
83473917 TTCATCTTGCTCCACTGCAACTTCAGAGAGATAAGATTCGTTATGGTA-ACTTCAATCCGACTCA
1 TTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCA
*
83473981 CTGCAACTTTAGGGGTATAGGATTTGTAGC
65 CTGCAAC-TTAAGGGTATAGGATTTGTAGC
* * * * *
83474011 TTCATCTTGCTCCACTGTAACTTTAGAGAGATAACATTCGCTATGGTA-ACTTCAATCTGACTCA
1 TTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCA
*
83474075 CTGCAACTTTAGAGGTATAGGATTTGTAGC
65 CTGCAACTTAAG-GGTATAGGATTTGTAGC
* ** * * * * ** **
83474105 TTTATCTTATTTCACTGGAAGTTCAAGGAGATAAGATTCATTATGGTAGATTCAATCCAACCCAC
1 TTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCAC
* *
83474170 TGCAACTTTAGGGGTATAGGAGTTGTAGC
66 TGCAAC-TTAAGGGTATAGGATTTGTAGC
** * *
83474199 TTCATCTTTATCCACTGCAACTTCAGGGAGATAAGACTCGCTATGGTAGATTCAATCTAACCCAC
1 TTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCAC
*
83474264 CGCAACTTCAAGGGTATAGGATTTGTAGC
66 TGCAACTT-AAGGGTATAGGATTTGTAGC
* * * *
83474293 TTCATCTTGCTCCACTGCAACTTTAGAGAGATAACATTCGCTATGGTA-ACTTCAATCTGACTCA
1 TTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCA
*
83474357 CTGCAACTTTAGAGGTATAGGATTTGTAGC
65 CTGCAACTTAAG-GGTATAGGATTTGTAGC
* * * * ** ** *
83474387 TTTATCTTGCTTCACTGCAAGTTCAAGGAGATAAGATTCATTATGGTAGATTCAATCCAACCGAC
1 TTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCAC
* *
83474452 TACAACTTTAGAGGTATAGGATTTGTAGC
66 TGCAACTTAAG-GGTATAGGATTTGTAGC
** * * * *
83474481 TTCATCTTTATCCACTACAACTTCAGGGAGATAAGACTCGCTATGGTAGAATCAATTTGACCCAC
1 TTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCAC
* * * *
83474546 CGTAACTTCAGGGGAATAGGATTTGTAGC
66 TGCAACTT-AAGGGTATAGGATTTGTAGC
83474575 TTCAT
1 TTCAT
83474580 TGTAATACCC
Statistics
Matches: 641, Mismatches: 106, Indels: 20
0.84 0.14 0.03
Matches are distributed among these distances:
93 8 0.01
94 625 0.98
95 8 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (93 bp):
TTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCAC
TGCAACTTAAGGGTATAGGATTTGTAGC
Found at i:83474033 original size:44 final size:44
Alignment explanation
Indices: 83473790--83474411 Score: 194
Period size: 44 Copynumber: 13.3 Consensus size: 44
83473780 TTAATCTGAC
* *
83473790 CCACTGTAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
* * ** **
83473834 CCACTGCAAATTCAGGGAG-ATAAGATTCGCTATGGTAATTTCAATCTAAC-
1 CCACTGCAACTTCAGGG-GTATAGGA-T---T-T-GTAGCTTC-ATCTTGCT
*
83473884 CCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
* * * *
83473928 CCACTGCAACTTCAGAGAG-ATAAGATTCGTTATGGTAACTTCAATC-CGACT
1 CCACTGCAACTTCAG-GGGTATAGGA----TT-T-GTAGCTTC-ATCTTG-CT
*
83473979 -CACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
* * * ** *
83474022 CCACTGTAACTTTAGAGAG-ATAACATTCGCTATGGTAACTTCAATC-TGACT
1 CCACTGCAACTTCAG-GGGTATAGGA-T---T-T-GTAGCTTC-ATCTTG-CT
* * * **
83474073 -CACTGCAACTTTAGAGGTATAGGATTTGTAGCTTTATCTTATT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
* * * * * * ***
83474116 TCACTGGAAGTTCAAGGAG-ATAAGATTCATTATGGTAGATTCAATCCAAC-
1 CCACTGCAACTTC-AGGGGTAT-AG---GATT-T-GTAGCTTC-ATCTTGCT
* * **
83474166 CCACTGCAACTTTAGGGGTATAGGAGTTGTAGCTTCATCTTTAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
* * **
83474210 CCACTGCAACTTCAGGGAG-ATAAGACTCGCTATGGTAGATTCAATCTAAC-
1 CCACTGCAACTTCAGGG-GTATAGGA-T---T-T-GTAGCTTC-ATCTTGCT
* *
83474260 CCACCGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
* * ** *
83474304 CCACTGCAACTTTAGAGAG-ATAACATTCGCTATGGTAACTTCAATC-TGACT
1 CCACTGCAACTTCAG-GGGTATAGGA-T---T-T-GTAGCTTC-ATCTTG-CT
* * *
83474355 -CACTGCAACTTTAGAGGTATAGGATTTGTAGCTTTATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
* *
83474398 TCACTGCAAGTTCA
1 CCACTGCAACTTCA
83474412 AGGAGATAAG
Statistics
Matches: 422, Mismatches: 90, Indels: 132
0.66 0.14 0.20
Matches are distributed among these distances:
43 27 0.06
44 157 0.37
45 22 0.05
46 8 0.02
48 9 0.02
49 22 0.05
50 149 0.35
51 28 0.07
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
Found at i:83474085 original size:50 final size:49
Alignment explanation
Indices: 83473835--83474370 Score: 184
Period size: 50 Copynumber: 11.3 Consensus size: 49
83473825 CATCTTGCTC
* * * * * *
83473835 CACTGCAAATTCAGGGAGATAAGATTCGCTATGGTAATTTCAATCTAACC
1 CACTGCAACTTTAGAGAGATAAGATTCG-TATGGTAACTTCAATCTGACT
* * *
83473885 CACTGCAACTTTAG-GGGTATAGGA-T--T-T-GTAGCTTC-ATCTTG-CT
1 CACTGCAACTTTAGAGAG-ATAAGATTCGTATGGTAACTTCAATC-TGACT
* *
83473928 CCACTGCAACTTCAGAGAGATAAGATTCGTTATGGTAACTTCAATCCGACT
1 -CACTGCAACTTTAGAGAGATAAGATTCG-TATGGTAACTTCAATCTGACT
* * *
83473979 CACTGCAACTTTAG-GGGTATAGGA-T--T-T-GTAGCTTC-ATCTTG-CT
1 CACTGCAACTTTAGAGAG-ATAAGATTCGTATGGTAACTTCAATC-TGACT
* *
83474022 CCACTGTAACTTTAGAGAGATAACATTCGCTATGGTAACTTCAATCTGACT
1 -CACTGCAACTTTAGAGAGATAAGATTCG-TATGGTAACTTCAATCTGACT
* * * * *
83474073 CACTGCAACTTTAGAG-GTATAGGA-T--T-T-GTAGCTT-TATCTTATTT
1 CACTGCAACTTTAGAGAG-ATAAGATTCGTATGGTAACTTCAATCTGA-CT
* * * * ** *
83474117 CACTGGAAGTTCA-AGGAGATAAGATTCATTATGGTAGA-TTCAATCCAACC
1 CACTGCAACTTTAGA-GAGATAAGATTC-GTATGGTA-ACTTCAATCTGACT
* * * *
83474167 CACTGCAACTTTAG-GGGTATAGGA---GT-T-GTAGCTTC-ATCTTTA-T
1 CACTGCAACTTTAGAGAG-ATAAGATTCGTATGGTAACTTCAATC-TGACT
* * * * *
83474210 CCACTGCAACTTCAGGGAGATAAGACTCGCTATGGTAGA-TTCAATCTAACC
1 -CACTGCAACTTTAGAGAGATAAGATTCG-TATGGTA-ACTTCAATCTGACT
* * * * *
83474261 CACCGCAACTTCA-AGGGTATAGGA-T--T-T-GTAGCTTC-ATCTTG-CT
1 CACTGCAACTTTAGAGAG-ATAAGATTCGTATGGTAACTTCAATC-TGACT
*
83474304 CCACTGCAACTTTAGAGAGATAACATTCGCTATGGTAACTTCAATCTGACT
1 -CACTGCAACTTTAGAGAGATAAGATTCG-TATGGTAACTTCAATCTGACT
83474355 CACTGCAACTTTAGAG
1 CACTGCAACTTTAGAG
83474371 GTATAGGATT
Statistics
Matches: 353, Mismatches: 69, Indels: 128
0.64 0.13 0.23
Matches are distributed among these distances:
43 22 0.06
44 120 0.34
45 19 0.05
46 5 0.01
47 1 0.00
48 5 0.01
49 18 0.05
50 141 0.40
51 22 0.06
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (49 bp):
CACTGCAACTTTAGAGAGATAAGATTCGTATGGTAACTTCAATCTGACT
Found at i:83474233 original size:282 final size:282
Alignment explanation
Indices: 83473782--83474579 Score: 1242
Period size: 282 Copynumber: 2.8 Consensus size: 282
83473772 TTGTGGTTTT
* * * * * *
83473782 AATCTGACCCACTGTAACTTCA-AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAATT
1 AATCTGACTCACTGCAACTTTAGA-GGTATAGGATTTGTAGCTTTATCTTGCTTCACTGCAAGTT
* ** *
83473846 CAGGGAGATAAGATTCGCTATGGTA-ATTTCAATCTAACCCACTGCAACTTTAGGGGTATAGGAT
65 CAAGGAGATAAGATTCATTATGGTAGA-TTCAATCCAACCCACTGCAACTTTAGGGGTATAGGAT
** * * *
83473910 TTGTAGCTTCATCTTGCTCCACTGCAACTTCAGAGAGATAAGATTCGTTATGGTA-ACTTCAATC
129 TTGTAGCTTCATCTTTATCCACTGCAACTTCAGGGAGATAAGACTCGCTATGGTAGA-TTCAATC
* * * * *
83473974 CGACTCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGTAACTTTAGAG
193 TGACCCACCGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGAG
83474039 AGATAACATTCGCTATGGTAACTTC
258 AGATAACATTCGCTATGGTAACTTC
** *
83474064 AATCTGACTCACTGCAACTTTAGAGGTATAGGATTTGTAGCTTTATCTTATTTCACTGGAAGTTC
1 AATCTGACTCACTGCAACTTTAGAGGTATAGGATTTGTAGCTTTATCTTGCTTCACTGCAAGTTC
*
83474129 AAGGAGATAAGATTCATTATGGTAGATTCAATCCAACCCACTGCAACTTTAGGGGTATAGGAGTT
66 AAGGAGATAAGATTCATTATGGTAGATTCAATCCAACCCACTGCAACTTTAGGGGTATAGGATTT
*
83474194 GTAGCTTCATCTTTATCCACTGCAACTTCAGGGAGATAAGACTCGCTATGGTAGATTCAATCTAA
131 GTAGCTTCATCTTTATCCACTGCAACTTCAGGGAGATAAGACTCGCTATGGTAGATTCAATCTGA
*
83474259 CCCACCGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGAGAGA
196 CCCACCGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGAGAGA
83474324 TAACATTCGCTATGGTAACTTC
261 TAACATTCGCTATGGTAACTTC
83474346 AATCTGACTCACTGCAACTTTAGAGGTATAGGATTTGTAGCTTTATCTTGCTTCACTGCAAGTTC
1 AATCTGACTCACTGCAACTTTAGAGGTATAGGATTTGTAGCTTTATCTTGCTTCACTGCAAGTTC
* * *
83474411 AAGGAGATAAGATTCATTATGGTAGATTCAATCCAACCGACTACAACTTTAGAGGTATAGGATTT
66 AAGGAGATAAGATTCATTATGGTAGATTCAATCCAACCCACTGCAACTTTAGGGGTATAGGATTT
* * *
83474476 GTAGCTTCATCTTTATCCACTACAACTTCAGGGAGATAAGACTCGCTATGGTAGAATCAATTTGA
131 GTAGCTTCATCTTTATCCACTGCAACTTCAGGGAGATAAGACTCGCTATGGTAGATTCAATCTGA
* *
83474541 CCCACCGTAACTTCAGGGGAATAGGATTTGTAGCTTCAT
196 CCCACCGCAACTTCAGGGGTATAGGATTTGTAGCTTCAT
83474580 TGTAATACCC
Statistics
Matches: 473, Mismatches: 40, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
282 470 0.99
283 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (282 bp):
AATCTGACTCACTGCAACTTTAGAGGTATAGGATTTGTAGCTTTATCTTGCTTCACTGCAAGTTC
AAGGAGATAAGATTCATTATGGTAGATTCAATCCAACCCACTGCAACTTTAGGGGTATAGGATTT
GTAGCTTCATCTTTATCCACTGCAACTTCAGGGAGATAAGACTCGCTATGGTAGATTCAATCTGA
CCCACCGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGAGAGA
TAACATTCGCTATGGTAACTTC
Found at i:83475075 original size:11 final size:11
Alignment explanation
Indices: 83475061--83475105 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
83475051 AGATAAATAT
83475061 TATTTTATTAA
1 TATTTTATTAA
*
83475072 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
83475085 TATTTTATTAT
1 TATTTTATTAA
83475096 TATTTTATTA
1 TATTTTATTA
83475106 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:83477345 original size:46 final size:46
Alignment explanation
Indices: 83477278--83477540 Score: 366
Period size: 46 Copynumber: 5.7 Consensus size: 46
83477268 TGACAACCTG
83477278 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
83477324 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* * *
83477370 TGTGTAAGACCATGGTTGAAAGATGCCATGGCAACCTAATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* * *
83477416 TGTGTAAGACCATGGTCGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * * *
83477462 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
83477508 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
83477541 TCAAGTCAAA
Statistics
Matches: 196, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 195 0.99
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:83477470 original size:138 final size:130
Alignment explanation
Indices: 83477229--83477530 Score: 390
Period size: 138 Copynumber: 2.3 Consensus size: 130
83477219 AGTGTGCTCT
*
83477229 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGACAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGTGTGTAAGACCATGGT
* * * **
83477294 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 CGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
83477359 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGGCAACCTAATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACC-----T--G-TGTGTAAG
*
83477424 ACCATGGTCGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
58 ACCATGGTCGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
83477489 ATGGCAAC
123 ATGGCAAC
* * * * *
83477497 ATAACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
83477531 CACTATGGCA
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
130 44 0.30
135 1 0.01
137 2 0.01
138 102 0.68
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGTGTGTAAGACCATGGT
CGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:83478400 original size:94 final size:94
Alignment explanation
Indices: 83478225--83478477 Score: 276
Period size: 94 Copynumber: 2.7 Consensus size: 94
83478215 TTCATCTTGC
* * ** * * * *
83478225 TCCACTGTAGCTTTAGGGAGATAAGATTCATTATGGTAACTTT-AATACAACCCACTACAACTTT
1 TCCACTGCAACTTTAGGGAGATAAGATTCACCATTGTAA-TTTCAATCCGACCCACTACAACTTC
* * *
83478289 AAGGGTATAGGATTTGTAGCTTCAATC-CAA
65 AAAGGTACAGGAATTGTAGCTTC-ATCTCAA
* * *
83478319 TCCACTGCAACTTTAGGGAGATAAGATTCACCGTTGTAATTTCATTCCGACCCACTGCAACTTCA
1 TCCACTGCAACTTTAGGGAGATAAGATTCACCATTGTAATTTCAATCCGACCCACTACAACTTCA
***
83478384 AAGGTACAGGAATTGTAGCTTCATCTTGC
66 AAGGTACAGGAATTGTAGCTTCATCTCAA
* ** * *
83478413 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATTGTAGTTTCAATCTGACCCACTACAACTTCA
1 TCCACTGCAACTTTAGGGAGATAAGATTCACCATTGTAATTTCAATCCGACCCACTACAACTTCA
83478478 GGGGTATAAG
Statistics
Matches: 132, Mismatches: 25, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
93 6 0.05
94 126 0.95
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (94 bp):
TCCACTGCAACTTTAGGGAGATAAGATTCACCATTGTAATTTCAATCCGACCCACTACAACTTCA
AAGGTACAGGAATTGTAGCTTCATCTCAA
Found at i:83487202 original size:19 final size:19
Alignment explanation
Indices: 83487178--83487242 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
83487168 AAAATTCAAT
83487178 TAATAATACTATATGATAA
1 TAATAATACTATATGATAA
83487197 TAATAATACTAATAGTGA-AA
1 TAATAATACT-ATA-TGATAA
* *
83487217 TAAT-ATA-AAAATGTATAA
1 TAATAATACTATATG-ATAA
83487235 TAATAATA
1 TAATAATA
83487243 TAATTACATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 2 0.05
17 3 0.08
18 6 0.15
19 16 0.41
20 9 0.23
21 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (19 bp):
TAATAATACTATATGATAA
Found at i:83488777 original size:25 final size:25
Alignment explanation
Indices: 83488723--83488777 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
83488713 GGCATCAACA
** *
83488723 TTATTTATTATTAAGTTTATGTATG
1 TTATTTATTATTAAGAATATGTATC
*
83488748 ATATTTATTATTATAGAATAT-TATC
1 TTATTTATTATTA-AGAATATGTATC
83488773 TTATT
1 TTATT
83488778 ATAAAATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (25 bp):
TTATTTATTATTAAGAATATGTATC
Found at i:83493461 original size:12 final size:12
Alignment explanation
Indices: 83493444--83493475 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
83493434 GCATACTAGA
83493444 TTTTTTTTCTTT
1 TTTTTTTTCTTT
*
83493456 TTTTTTTTGTTT
1 TTTTTTTTCTTT
83493468 TTTTTTTT
1 TTTTTTTT
83493476 TGGGGGGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.94
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:83493462 original size:13 final size:13
Alignment explanation
Indices: 83493444--83493477 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
83493434 GCATACTAGA
*
83493444 TTTTTTTT-CTTT
1 TTTTTTTTGTTTT
83493456 TTTTTTTTGTTTT
1 TTTTTTTTGTTTT
83493469 TTTTTTTTG
1 TTTTTTTTG
83493478 GGGGGGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (13 bp):
TTTTTTTTGTTTT
Found at i:83497704 original size:10 final size:9
Alignment explanation
Indices: 83497689--83497765 Score: 52
Period size: 10 Copynumber: 8.6 Consensus size: 9
83497679 TTATTTATTT
83497689 ATTTTTTAAA
1 ATTTTTT-AA
83497699 ATTTTTTAA
1 ATTTTTTAA
83497708 A--TTTTAA
1 ATTTTTTAA
*
83497715 A-TTTTGAA
1 ATTTTTTAA
83497723 ATTTTTATAA
1 ATTTTT-TAA
*
83497733 ATATTTTAA
1 ATTTTTTAA
* **
83497742 AATTTAAAA
1 ATTTTTTAA
*
83497751 ATTATATTAA
1 ATT-TTTTAA
83497761 ATTTT
1 ATTTT
83497766 ACATTTTTTT
Statistics
Matches: 51, Mismatches: 12, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
7 7 0.14
8 6 0.12
9 18 0.35
10 20 0.39
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:83497712 original size:18 final size:18
Alignment explanation
Indices: 83497691--83497765 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 18
83497681 ATTTATTTAT
83497691 TTTTTAAAATTTTTTAAA
1 TTTTTAAAATTTTTTAAA
*
83497709 -TTTT-AAA-TTTTGAAA
1 TTTTTAAAATTTTTTAAA
*
83497724 TTTTTATAAATATTTTAAA
1 TTTTTA-AAATTTTTTAAA
* * *
83497743 ATTTAAAAATTATATTAAA
1 TTTTTAAAATT-TTTTAAA
83497762 TTTT
1 TTTT
83497766 ACATTTTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
15 7 0.16
16 7 0.16
17 4 0.09
18 7 0.16
19 19 0.43
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (18 bp):
TTTTTAAAATTTTTTAAA
Found at i:83497761 original size:28 final size:27
Alignment explanation
Indices: 83497708--83497766 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
83497698 AATTTTTTAA
* * * *
83497708 ATTTTAAATTTTGAAATTTTTATAAAT
1 ATTTTAAAATTTAAAAATTATATAAAT
*
83497735 ATTTTAAAATTTAAAAATTATATTAA-
1 ATTTTAAAATTTAAAAATTATATAAAT
83497761 ATTTTA
1 ATTTTA
83497767 CATTTTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTTTAAAATTTAAAAATTATATAAAT
Found at i:83499769 original size:17 final size:16
Alignment explanation
Indices: 83499739--83499772 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
83499729 ACATAAAAAA
83499739 TATTTTTTAATTATTT
1 TATTTTTTAATTATTT
*
83499755 TATTTATTTATTTATTT
1 TATTT-TTTAATTATTT
83499772 T
1 T
83499773 TACATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTTTTTAATTATTT
Found at i:83501757 original size:26 final size:26
Alignment explanation
Indices: 83501701--83501758 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
83501691 TAAAATTGAC
* *
83501701 AATTTTACCATCGATAAAATTTTACC
1 AATTTTACCACCGATAAAATTTTACA
* *
83501727 GATTTTACC-CCGATAAAATTTTGAGA
1 AATTTTACCACCGATAAAATTTT-ACA
83501753 AATTTT
1 AATTTT
83501759 GTTCAATATG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (26 bp):
AATTTTACCACCGATAAAATTTTACA
Found at i:83501925 original size:6 final size:6
Alignment explanation
Indices: 83501891--83501923 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
83501881 GGGTTGCAAG
*
83501891 TTTTCA TTTTCA TTTTCA TTTTCA TTTCCA TTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTT
83501924 CCTTTTTCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTCA
Found at i:83501930 original size:18 final size:18
Alignment explanation
Indices: 83501891--83501931 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
83501881 GGGTTGCAAG
* *
83501891 TTTTCATTTTCATTTTCA
1 TTTTCATTTCCATTTCCA
*
83501909 TTTTCATTTCCATTTCCT
1 TTTTCATTTCCATTTCCA
83501927 TTTTC
1 TTTTC
83501932 GGAAACCTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.22, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTCATTTCCATTTCCA
Found at i:83505224 original size:32 final size:32
Alignment explanation
Indices: 83505183--83505247 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
83505173 AAAATGAGAG
*
83505183 AAGATACCTTATCATTGTGTGTTGGGGTATAT
1 AAGATACCTTATCATTGGGTGTTGGGGTATAT
*
83505215 AAGATACCTTATCATTGGGTGTTGGGTTATAT
1 AAGATACCTTATCATTGGGTGTTGGGGTATAT
83505247 A
1 A
83505248 TAGGGGGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (32 bp):
AAGATACCTTATCATTGGGTGTTGGGGTATAT
Found at i:83513158 original size:23 final size:23
Alignment explanation
Indices: 83513132--83513175 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
83513122 AAAAAGGAAA
83513132 TCCACTTAATCTTGTTCAGAATG
1 TCCACTTAATCTTGTTCAGAATG
83513155 TCCACTTAATCTTGTTCAGAA
1 TCCACTTAATCTTGTTCAGAA
83513176 AGGATTAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (23 bp):
TCCACTTAATCTTGTTCAGAATG
Found at i:83513338 original size:3 final size:3
Alignment explanation
Indices: 83513332--83513389 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
83513322 GTTGAAATTG
* *
83513332 ATT ATT ATT ATT ATT ATT ATT ATT ATT AGTC CTT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
83513377 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
83513390 GTCCTTTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.94
4 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:83513370 original size:30 final size:30
Alignment explanation
Indices: 83513336--83513399 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
83513326 AAATTGATTA
83513336 TTATTATTATTATTATTATTATTAGTCCTT
1 TTATTATTATTATTATTATTATTAGTCCTT
83513366 TTATTATTATTATTATTATTATTAGTCCTT
1 TTATTATTATTATTATTATTATTAGTCCTT
83513396 TTAT
1 TTAT
83513400 AAATTTCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (30 bp):
TTATTATTATTATTATTATTATTAGTCCTT
Found at i:83513399 original size:15 final size:15
Alignment explanation
Indices: 83513351--83513399 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
83513341 ATTATTATTA
83513351 TTATTATTAGTCCTT
1 TTATTATTAGTCCTT
**
83513366 TTATTATTA-TTATT
1 TTATTATTAGTCCTT
83513380 ATTATTATTAGTCCTT
1 -TTATTATTAGTCCTT
83513396 TTAT
1 TTAT
83513400 AAATTTCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.11
15 22 0.79
16 3 0.11
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.63
Consensus pattern (15 bp):
TTATTATTAGTCCTT
Found at i:83517044 original size:21 final size:22
Alignment explanation
Indices: 83517001--83517045 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
83516991 ATTAATAAAA
*
83517001 TTTAAATATAAAAAGATTGAAG
1 TTTAAATATAAAAAAATTGAAG
83517023 TTTAAA-ATAATAAAAATT-AAG
1 TTTAAATATAA-AAAAATTGAAG
83517044 TT
1 TT
83517046 ATTATAGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
TTTAAATATAAAAAAATTGAAG
Found at i:83517655 original size:25 final size:23
Alignment explanation
Indices: 83517626--83517690 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
83517616 AATAAAAAAC
*
83517626 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
83517651 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
83517672 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
83517691 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:83517685 original size:19 final size:20
Alignment explanation
Indices: 83517652--83517690 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
83517642 TCAAATACAT
83517652 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
83517672 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
83517691 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:83520768 original size:37 final size:37
Alignment explanation
Indices: 83520718--83520789 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
83520708 ATCGTCGTAT
* *
83520718 CTTGAAACATGAGGAAAATTCTAGCGGACTATCATAA
1 CTTGAAACATGAGGAAAAGTCCAGCGGACTATCATAA
* * *
83520755 CTTGAAGCATGAGGACAAGTCCAGCGGACTGTCAT
1 CTTGAAACATGAGGAAAAGTCCAGCGGACTATCAT
83520790 TGTAACAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (37 bp):
CTTGAAACATGAGGAAAAGTCCAGCGGACTATCATAA
Found at i:83528432 original size:13 final size:13
Alignment explanation
Indices: 83528414--83528438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83528404 ACTATTATTT
83528414 TATGTGTTTAAAG
1 TATGTGTTTAAAG
83528427 TATGTGTTTAAA
1 TATGTGTTTAAA
83528439 CATGTGTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TATGTGTTTAAAG
Found at i:83529569 original size:43 final size:44
Alignment explanation
Indices: 83529470--83529572 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 44
83529460 TTGAATTTGA
* *
83529470 GGCACTAAGTGTGCGAGAAATAAAATAGCTACGGCTATTAAAAAT
1 GGCACTAAGTGTGCGAGAAATAAAACAGCGACGGCTA-TAAAAAT
* * * *
83529515 GGCACTGAGTGTGCGAG-AATATAACAGCGATGGCTGA-ATAAAT
1 GGCACTAAGTGTGCGAGAAATAAAACAGCGACGGCT-ATAAAAAT
83529558 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
83529573 GTACCGATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 19 0.38
44 14 0.28
45 17 0.34
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (44 bp):
GGCACTAAGTGTGCGAGAAATAAAACAGCGACGGCTATAAAAAT
Found at i:83545114 original size:29 final size:29
Alignment explanation
Indices: 83545054--83545132 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 29
83545044 GTAAAAATAT
* *
83545054 TTTTTATATTTTTAAAATAATTTTAATGA
1 TTTTTAAAATTTTAAAATAATTTTAATGA
*
83545083 -TTTTAAAATTTTAAAAGTAATTTT-TTGAA
1 TTTTTAAAATTTTAAAA-TAATTTTAATG-A
83545112 TTTTTTAAAA-TTTAAAA-AATT
1 -TTTTTAAAATTTTAAAATAATT
83545133 AATTAAATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
28 20 0.47
29 8 0.19
30 7 0.16
31 8 0.19
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (29 bp):
TTTTTAAAATTTTAAAATAATTTTAATGA
Found at i:83551812 original size:27 final size:27
Alignment explanation
Indices: 83551758--83551815 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
83551748 AAAATAACTA
* *
83551758 AAAATAATTTGTTTAGCAATACGAGAG
1 AAAATAATTGGTTTAGAAATACGAGAG
*
83551785 AAAATAATTGGTTTAAGAAAT-CGGGAG
1 AAAATAATTGGTTT-AGAAATACGAGAG
83551812 AAAA
1 AAAA
83551816 AAATGAGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (27 bp):
AAAATAATTGGTTTAGAAATACGAGAG
Found at i:83553163 original size:18 final size:18
Alignment explanation
Indices: 83553142--83553176 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
83553132 TAGTTATCCA
83553142 GTAACAGTCAATTATTCG
1 GTAACAGTCAATTATTCG
83553160 GTAACAGTCAATTATTC
1 GTAACAGTCAATTATTC
83553177 AAAAATAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
GTAACAGTCAATTATTCG
Found at i:83553429 original size:45 final size:45
Alignment explanation
Indices: 83553357--83553465 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
83553347 ACAAATCCGG
*
83553357 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
* **
83553402 AAC-GATAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAG-TAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
*
83553447 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
83553466 ACAGTAGTCG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 1 0.02
45 55 0.96
46 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.18
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
Found at i:83553460 original size:12 final size:12
Alignment explanation
Indices: 83553443--83553467 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83553433 AGTGCCGAAT
83553443 CGGTAACAGTAA
1 CGGTAACAGTAA
83553455 CGGTAACAGTAA
1 CGGTAACAGTAA
83553467 C
1 C
83553468 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:83553599 original size:22 final size:24
Alignment explanation
Indices: 83553577--83553633 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 24
83553567 ATAGGGTATT
*
83553577 TAACTCACTTTTCAGTAT-AATTTC
1 TAACTCACTTTTCAGTATCAA-TTA
*
83553601 TATCTCA--TTTCAGTATCAATTA
1 TAACTCACTTTTCAGTATCAATTA
*
83553623 TAATTCACTTT
1 TAACTCACTTT
83553634 CTCAATTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
22 16 0.62
23 2 0.08
24 8 0.31
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (24 bp):
TAACTCACTTTTCAGTATCAATTA
Found at i:83555165 original size:30 final size:34
Alignment explanation
Indices: 83555126--83555190 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 34
83555116 TCGATTTTCC
*
83555126 CTTTTTTCCCT-TTCTT-TC-TTTC-TTTGCTTT
1 CTTTCTTCCCTGTTCTTCTCGTTTCGTTTGCTTT
83555156 CTTTCTTCCCTGTTCTTCTCTGTTTCGTTTGCTTT
1 CTTTCTTCCCTGTTCTTCTC-GTTTCGTTTGCTTT
83555191 GTTTTTCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 10 0.34
31 5 0.17
32 2 0.07
34 4 0.14
35 8 0.28
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.65
Consensus pattern (34 bp):
CTTTCTTCCCTGTTCTTCTCGTTTCGTTTGCTTT
Found at i:83555212 original size:16 final size:15
Alignment explanation
Indices: 83555193--83555247 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
83555183 TTTGCTTTGT
83555193 TTTTCTTTTTCATTTC
1 TTTT-TTTTTCATTTC
* *
83555209 -TTTTATTTCATTTA
1 TTTTTTTTTCATTTC
83555223 TTTTTTATTTCATTTC
1 TTTTTT-TTTCATTTC
83555239 TTTATTTTT
1 TTT-TTTTT
83555248 ATTATTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 9 0.28
15 7 0.22
16 13 0.41
17 3 0.09
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTTTCATTTC
Found at i:83561727 original size:6 final size:6
Alignment explanation
Indices: 83561716--83561746 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
83561706 CCCACTACTC
*
83561716 CCTCTT CCTCTT CATCTT CCTCTT CCTCTT C
1 CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT C
83561747 TTCACTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (6 bp):
CCTCTT
Found at i:83566880 original size:28 final size:28
Alignment explanation
Indices: 83566811--83566881 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
83566801 CCCTTTAGGA
* *
83566811 CCAATCTCATTCACATGGCCCATCAGGC
1 CCAATCACATTCATATGGCCCATCAGGC
* *
83566839 CCAATCACATTCATATGGCCCGTCGGGC
1 CCAATCACATTCATATGGCCCATCAGGC
*
83566867 TCAATCACATTCATA
1 CCAATCACATTCATA
83566882 GTTATGCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (28 bp):
CCAATCACATTCATATGGCCCATCAGGC
Found at i:83567101 original size:16 final size:16
Alignment explanation
Indices: 83567080--83567111 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
83567070 GCCAAACTTC
83567080 TGGCTTTTCGGTATTT
1 TGGCTTTTCGGTATTT
83567096 TGGCTTTTCGGTATTT
1 TGGCTTTTCGGTATTT
83567112 CGGGATTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (16 bp):
TGGCTTTTCGGTATTT
Found at i:83568554 original size:69 final size:71
Alignment explanation
Indices: 83568443--83568738 Score: 269
Period size: 69 Copynumber: 4.2 Consensus size: 71
83568433 TTTGCTCACT
* * ** ** * *
83568443 CTAACTGTATTGAAGGCTGCGATTCTTCACCTATGAGCCTTAATATGATAGCTGAGAGCTT-T-G
1 CTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTGTAA
*
83568506 CTCTCA
66 CTCTCG
* * * * * * * * * *
83568512 CTAAATGTGTTGGAGGTTGCGGCTTTTCAGCTGCAAGCCTTAATGTAATAGTTGGGAGCTTGTAA
1 CTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTGTAA
83568577 CTCTCG
66 CTCTCG
* ** * *
83568583 CTAACTGTATTGGAGGCTATGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGGGAGCTT-TGC
1 CTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTGT-A
83568647 ACT-T-G
65 ACTCTCG
* * * * * * *
83568652 CTAACGGTGTTAGAGGCAGCGACTCTTCACCTACGAGCCTTAATATGACAGTTGAAAGCTTGTAA
1 CTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTGTAA
83568717 CTCTCG
66 CTCTCG
83568723 CTAACTGTGTTGGAGG
1 CTAACTGTGTTGGAGG
83568739 TTGCAGTTTT
Statistics
Matches: 177, Mismatches: 44, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
69 100 0.56
70 5 0.03
71 72 0.41
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (71 bp):
CTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTGTAA
CTCTCG
Done.