Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 257 of 292
Found at i:74286143 original size:13 final size:13
Alignment explanation
Indices: 74286125--74286150 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
74286115 GGTTTTTGTT
74286125 TTATCTAAACTAA
1 TTATCTAAACTAA
74286138 TTATCTAAACTAA
1 TTATCTAAACTAA
74286151 GAATTCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:74287052 original size:20 final size:22
Alignment explanation
Indices: 74287027--74287069 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
74287017 AATTTCGTAC
74287027 TTTGGCCCATTT-TC-TTCTTT
1 TTTGGCCCATTTCTCGTTCTTT
74287047 TTTGGCCCATTTCTCGTTCTTT
1 TTTGGCCCATTTCTCGTTCTTT
74287069 T
1 T
74287070 CGCTCTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.57
21 2 0.10
22 7 0.33
ACGTcount: A:0.05, C:0.26, G:0.12, T:0.58
Consensus pattern (22 bp):
TTTGGCCCATTTCTCGTTCTTT
Found at i:74287367 original size:18 final size:18
Alignment explanation
Indices: 74287344--74287391 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
74287334 TCCATCAATG
*
74287344 TGAACATCATTTGAAATC
1 TGAACATCATTTAAAATC
*
74287362 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATC
74287380 TGAACATCATTT
1 TGAACATCATTT
74287392 CTCACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATC
Found at i:74288505 original size:11 final size:11
Alignment explanation
Indices: 74288489--74288518 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
74288479 AGGGAAGTCT
74288489 ATTTATTTCCC
1 ATTTATTTCCC
74288500 ATTTATTTCCC
1 ATTTATTTCCC
74288511 ATTTATTT
1 ATTTATTT
74288519 TAAATTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTATTTCCC
Found at i:74291827 original size:3 final size:3
Alignment explanation
Indices: 74291819--74291894 Score: 68
Period size: 3 Copynumber: 25.0 Consensus size: 3
74291809 ATTTTCGGCA
* *
74291819 AAG AAG AAG AAG AAA AAG AGAG AAG AAG GA- AAG AAG -AG AAG AAAG
1 AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG -AAG
*
74291864 AAAG AAG -AG AAG AAG AAG AAAG AAA AAG AAG
1 -AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG
74291895 GAGAGGAGGA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 5 0.08
3 43 0.70
4 13 0.21
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:74291854 original size:24 final size:24
Alignment explanation
Indices: 74291823--74291898 Score: 86
Period size: 24 Copynumber: 3.1 Consensus size: 24
74291813 TCGGCAAAGA
74291823 AGAAGAAGAAAAAGAGAGAAGAAGG
1 AGAAGAAGAAAAAGAGA-AAGAAGG
74291848 A-AAGAAGAGAAGAA-AGAAAGAA-G
1 AGAAGAAGA-AA-AAGAGAAAGAAGG
*
74291871 AGAAGAAGAAGAAAGAAAAAGAAGG
1 AGAAGAAGAA-AAAGAGAAAGAAGG
74291896 AGA
1 AGA
74291899 GGAGGAGAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
23 5 0.11
24 27 0.61
25 10 0.23
26 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (24 bp):
AGAAGAAGAAAAAGAGAAAGAAGG
Found at i:74291863 original size:27 final size:27
Alignment explanation
Indices: 74291819--74291888 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
74291809 ATTTTCGGCA
*
74291819 AAGAAGAAGAAGAA-AAAGAGAGAAGA-
1 AAGAAGAAG-AGAAGAAAGAAAGAAGAG
*
74291845 AGGAAAGAAGAGAAGAAAGAAAGAAGAG
1 AAG-AAGAAGAGAAGAAAGAAAGAAGAG
74291873 AAGAAGAAGA-AAGAAA
1 AAGAAGAAGAGAAGAAA
74291889 AAGAAGGAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 12 0.32
27 24 0.63
28 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (27 bp):
AAGAAGAAGAGAAGAAAGAAAGAAGAG
Found at i:74291892 original size:16 final size:17
Alignment explanation
Indices: 74291822--74291894 Score: 82
Period size: 16 Copynumber: 4.4 Consensus size: 17
74291812 TTCGGCAAAG
74291822 AAGAAGAAGAAA-AAGA
1 AAGAAGAAGAAAGAAGA
*
74291838 GAGAAGAAGGAAAGAAG-
1 AAGAAGAA-GAAAGAAGA
74291855 -AGAAGAAAGAAAGAAGA
1 AAGAAG-AAGAAAGAAGA
74291872 GAAGAAGAAGAAAGAA-A
1 -AAGAAGAAGAAAGAAGA
74291889 AAGAAG
1 AAGAAG
74291895 GAGAGGAGGA
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
16 26 0.52
17 7 0.14
18 12 0.24
19 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAAGAAGA
Found at i:74291899 original size:27 final size:27
Alignment explanation
Indices: 74291819--74291908 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
74291809 ATTTTCGGCA
74291819 AAGAAGAAG-AAGAAAAAG-A-GAGAAG
1 AAGAAGAAGAAAGAAAAAGAAGGAG-AG
* *
74291844 AAGGA-AAGAAGAGAAGAAAGAAAGAAGAG
1 AAGAAGAAGAA-AGAA-AAAG-AAGGAGAG
74291873 AAGAAGAAGAAAGAAAAAGAAGGAGAG
1 AAGAAGAAGAAAGAAAAAGAAGGAGAG
* *
74291900 GAGGAGAAG
1 AAGAAGAAG
74291909 GAGGCCGGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
24 3 0.06
25 5 0.10
26 4 0.08
27 18 0.35
28 4 0.08
29 11 0.21
30 7 0.13
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (27 bp):
AAGAAGAAGAAAGAAAAAGAAGGAGAG
Found at i:74292475 original size:30 final size:31
Alignment explanation
Indices: 74292435--74292493 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
74292425 TTTTGTTAAA
*
74292435 ATAATATAAAAAAATAAAATATGAAAATAGT
1 ATAATATAAAAAAATAAAATACGAAAATAGT
*
74292466 ATAAT-TAAAAAAATAAAATCCGAAAATA
1 ATAATATAAAAAAATAAAATACGAAAATA
74292494 AAAAAATACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (31 bp):
ATAATATAAAAAAATAAAATACGAAAATAGT
Found at i:74292585 original size:132 final size:130
Alignment explanation
Indices: 74292458--74292702 Score: 285
Period size: 133 Copynumber: 1.8 Consensus size: 130
74292448 ATAAAATATG
* * * *
74292458 AAAATAGTATAATTAAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAGGTGCCAAAGTCA-
1 AAAATAATATAATTAAAAAAATAAAATACG-----AAAAAAATACGAACAAAGTGCCAAAATCAG
**
74292522 GGTTACTTATTAAATTAATATAAAAAAAACTTAAATAATACATTTGAAAGATTTTATGCTAAAAT
61 GGTTACTTATTAAAAAAATATAAAAAAAACTTAAATAATACATTTGAAAGATTTTATGCTAAAAT
74292587 AAAATACC
126 --AATA-C
* * * * * *
74292595 AAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGCTAAAATCAGGGTTA
1 AAAATAATATAATTAAAAAAATAAAATACGAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTA
* *
74292660 TTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAA
66 CTTATTAAAAAAATATAAAAAAAACTTAAATAATACATTTGAA
74292703 GCATTATGTA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
132 24 0.26
133 44 0.47
137 25 0.27
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (130 bp):
AAAATAATATAATTAAAAAAATAAAATACGAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTA
CTTATTAAAAAAATATAAAAAAAACTTAAATAATACATTTGAAAGATTTTATGCTAAAATAATAC
Found at i:74292890 original size:12 final size:13
Alignment explanation
Indices: 74292875--74292910 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
74292865 TTTTTTTGCT
74292875 AAAATAATATAA-
1 AAAATAATATAAG
*
74292887 AAAATAAAATAAG
1 AAAATAATATAAG
74292900 AAAATAATATA
1 AAAATAATATA
74292911 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAG
Found at i:74293101 original size:145 final size:145
Alignment explanation
Indices: 74292582--74293634 Score: 1144
Period size: 145 Copynumber: 7.0 Consensus size: 145
74292572 ATTTTATGCT
* *
74292582 AAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
*
74292647 AAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAGCATTATGT
66 AAAATCAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGT
74292712 ACTAAAATAATATAAA
130 ACTAAAATAATATAAA
* * *
74292728 GAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTATGAAGAA
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACG-----AAAAAAA-TACGAATAA
* * * *
74292793 AGT-ATCAAAATCAGGGTTATTTAGTAAAAAACCCCTTAATATATAGAAACAGTTAATTAATACA
60 AGTGCT-AAAATCAGGGTTATTTATTAAAAAA-----T-ATA-A-A-AAACACTTAAATAATACA
*** * * *
74292857 TTTGAATTTTTTTTTGCTAAAATAATAT-AA
115 TTTGAAACATTATGTACTAAAATAATATAAA
*
74292887 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* *
74292952 AAAATCAGGGATATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
66 AAAATCAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGT
*
74293017 ACTAAAATAATATGAA
130 ACTAAAATAATATAAA
* * * * *
74293033 GAAATAAAATAGGAAAATAATATATTTTAAAAAATAAGATACG-AAGAAATACGAAGAAAGTG-T
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* * *
74293096 CAAAATCAGGATTATTTATTAAATTAGTATAAAAAAACACTTACATAATATACCTAATACATTTG
66 -AAAATCAGGGTTATTTATTAAA-AAATAT-AAAAAACAC-T---T-A-A-A--TAATACATTTG
* * *
74293161 AAACATTTTTTGCTAAAATAATATAAA
119 AAACATTATGTACTAAAATAATATAAA
*
74293188 AAAATAAAATAGGAAAATAATATATTTTAAAAAATAATATACG-AAAAAATACGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
*
74293252 AAAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAAACATAATGT
66 AAAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTG-AAACATTATGT
74293317 ACTAAAATAATATAAA
130 ACTAAAATAATATAAA
* * *
74293333 GAAATAAAATACGAAAATAATATA-TTT-AAAAA-AAGATACG-AAAAAATACAAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* * *
74293394 AAAATCA-GGTTATTTATTAAAAAAATATTAAAAACACTTAAATAATACATTTAAAATATTATGT
66 AAAATCAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGT
*
74293458 ACTAAAATAAGGGTTTTAAA
130 ACTAAAATAA----TATAAA
* *
74293478 ATAAA-AAAATACGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAA-AA
1 A-AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACG-----AAAAAAATACGAATAA
* * * * *
74293541 AGTG-TCAAAATCAGTGTTATTTATTAAATTAATATAAAAAAATACTTACATAATACATTTAAAA
60 AGTGCT-AAAATCAGGGTTATTTATTAAA-AAATAT-AAAAAACACTTAAATAATACATTTGAAA
* * *
74293605 TATT-TTTGCTAAAATAATATAAA
122 CATTATGTACTAAAATAATATAAA
74293628 AACAATA
1 AA-AATA
74293635 TATGAAAATA
Statistics
Matches: 779, Mismatches: 74, Indels: 103
0.81 0.08 0.11
Matches are distributed among these distances:
141 30 0.04
142 66 0.08
143 5 0.01
144 18 0.02
145 143 0.18
146 99 0.13
147 8 0.01
148 12 0.02
149 3 0.00
150 9 0.01
151 16 0.02
152 32 0.04
153 53 0.07
154 55 0.07
155 142 0.18
156 2 0.00
157 3 0.00
158 1 0.00
159 44 0.06
160 38 0.05
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (145 bp):
AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
AAAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
CTAAAATAATATAAA
Found at i:74293206 original size:155 final size:144
Alignment explanation
Indices: 74292873--74293634 Score: 871
Period size: 155 Copynumber: 5.1 Consensus size: 144
74292863 TTTTTTTTTG
* *
74292873 CTAAAATAATAT-AAAAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAA
1 CTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG-AAAAAA
* *
74292937 TACGAATAAAGTGCTAAAATCAGGGATATTTATTGAAA-AAATATAAAAAATACTTAAATAATAC
65 TACGAATAAAGTGCTAAAATCA-GGTTATTTATT-AAATAAATATAAAAAACACTTAAATAATAC
74293001 ATTTGAAACATTATGTA
128 ATTTGAAACATTATGTA
* * * *
74293018 CTAAAATAATATGAAGAAATAAAATAGGAAAATAATATATTTTAAAAAATAAGATACGAAGAAAT
1 CTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAT
* * *
74293083 ACGAAGAAAGTG-TCAAAATCAGGATTATTTATTAAATTAGTATAAAAAAACACTTACATAATAT
66 ACGAATAAAGTGCT-AAAATCAGG-TTATTTATTAAATAAATAT-AAAAAACAC-T---T-A-A-
* * *
74293147 ACCTAATACATTTGAAACATTTTTTG
121 A--TAATACATTTGAAACATTATGTA
* *
74293173 CTAAAATAATATAAAAAAATAAAATAGGAAAATAATATATTTTAAAAAATAATATACGAAAAAAT
1 CTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAT
74293238 ACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAA-AAATATAAAAAACACTTAAATAATACAT
66 ACGAATAAAGTGCTAAAATCA-GGTTATTTATTAAATAAATATAAAAAACACTTAAATAATACAT
*
74293302 TTGAAAACATAATGTA
130 TTG-AAACATTATGTA
*
74293318 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATA-TTT-AAAAA-AAGATACGAAAAAAT
1 CTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAT
* * *
74293380 ACAAATAAAGTGCTAAAATCAGGTTATTTATTAAAAAAATATTAAAAACACTTAAATAATACATT
66 ACGAATAAAGTGCTAAAATCAGGTTATTTATTAAATAAATATAAAAAACACTTAAATAATACATT
* *
74293445 TAAAATATTATGTA
131 TGAAACATTATGTA
* *
74293459 CTAAAATAAGGGTTTTAAAATAAA-AAAATACGAAAGTAATATATTTTAAAAAATAAGATACGAA
1 CTAAAATAA----TATAAAA-AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG--
* *
74293523 AATAAAAAAATACGAA-AAAGTG-TCAAAATCAGTGTTATTTATTAAATTAATATAAAAAAATAC
59 ----AAAAAATACGAATAAAGTGCT-AAAATCAG-GTTATTTATTAAATAAATAT-AAAAAACAC
* * * * *
74293586 TTACATAATACATTTAAAATATT-TTTG
117 TTAAATAATACATTTGAAACATTATGTA
74293613 CTAAAATAATATAAAAACAATA
1 CTAAAATAATATAAAAA-AATA
74293635 TATGAAAATA
Statistics
Matches: 537, Mismatches: 43, Indels: 68
0.83 0.07 0.10
Matches are distributed among these distances:
141 33 0.06
142 63 0.12
143 5 0.01
144 20 0.04
145 116 0.22
146 57 0.11
147 7 0.01
148 9 0.02
149 2 0.00
150 9 0.02
151 2 0.00
152 3 0.01
153 24 0.04
154 44 0.08
155 140 0.26
156 3 0.01
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (144 bp):
CTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAT
ACGAATAAAGTGCTAAAATCAGGTTATTTATTAAATAAATATAAAAAACACTTAAATAATACATT
TGAAACATTATGTA
Found at i:74293234 original size:15 final size:14
Alignment explanation
Indices: 74293175--74293238 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
74293165 ATTTTTTGCT
74293175 AAAATAATATA-AA
1 AAAATAATATAGAA
*
74293188 AAAATAAAATAGGAA
1 AAAATAATATA-GAA
**
74293203 AATAAT-ATATTTTAA
1 AA-AATAATA-TAGAA
74293218 AAAATAATATACGAA
1 AAAATAATATA-GAA
74293233 AAAATA
1 AAAATA
74293239 CGAATAAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 10 0.26
14 4 0.10
15 21 0.54
16 4 0.10
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (14 bp):
AAAATAATATAGAA
Found at i:74293319 original size:300 final size:292
Alignment explanation
Indices: 74292582--74293627 Score: 1265
Period size: 305 Copynumber: 3.5 Consensus size: 292
74292572 ATTTTATGCT
* *
74292582 AAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
*
74292647 AAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAGCATTATGT
66 AAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGT
*
74292712 ACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATA
131 ACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG------
* * * *
74292777 AAAAAATTATGAAGAAAGTATCAAAATCAGGGTTATTTAGTAAAAAACCCCTTAATATATAGAAA
190 AAAAAA-TACGAAGAAAGTGTCAAAATCA-GGTTATTTA-T--TAAA----TTAATATATAAAAA
* * *
74292842 CAGTTAAT-TAATACATTTGAATTTTTTTTTGCTAAAATAATAT-AA
246 CACTTAATATAATACATTTGAAATATTTTTTGCTAAAATAATATAAA
*
74292887 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* * *
74292952 AAAATCAGGGATATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
66 AAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGT
* * *
74293017 ACTAAAATAATATGAAGAAATAAAATAGGAAAATAATATATTTTAAAAAATAAGATACGAAGAAA
131 ACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAA
* *
74293082 TACGAAGAAAGTGTCAAAATCAGGATTATTTATTAAATTAGTATAAAAAAACACTTACATAATAT
196 TACGAAGAAAGTGTCAAAATCAGG-TTATTTATTAAATTAATATATAAAAACAC-T---T-A-AT
*
74293147 ACCTAATACATTTGAAACATTTTTTGCTAAAATAATATAAA
254 A--TAATACATTTGAAATATTTTTTGCTAAAATAATATAAA
*
74293188 AAAATAAAATAGGAAAATAATATATTTTAAAAAATAATATACG-AAAAAATACGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
*
74293252 AAAATCAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTGAAAACATAATG
66 AAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTG-AAACATTATG
74293316 TACTAAAATAATATAAAGAAATAAAATACGAAAATAATATA-TTT-AAAAA-AAGATACGAAAAA
130 TACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAA
* * **
74293378 ATACAAATAAAGTG-CTAAAATCAGGTTATTTATTAAAAAAATAT-TAAAAACACTTAA-ATAAT
195 ATACGAAGAAAGTGTC-AAAATCAGGTTATTTATTAAATTAATATATAAAAACACTTAATATAAT
* * * * *
74293440 ACATTTAAAATATTATGTACTAAAATAAGGGTTTTAAA
259 ACATTTGAAATATTTTTTGCTAAAATAA----TATAAA
* *
74293478 ATAAA-AAAATACGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAA-AA
1 A-AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACG-----AAAAAAATACGAATAA
* ** * * *
74293541 AGTG-TCAAAATCAGTGTTATTTATTAAATTAATATAAAAAAATACTTACATAATACATTTAAAA
60 AGTGCT-AAAATCAGGGTTATTTATTAAAAAAATAT-AAAAAACACTTAAATAATACATTTGAAA
* * *
74293605 TATT-TTTGCTAAAATAATATAAA
123 CATTATGTACTAAAATAATATAAA
74293628 AACAATATAT
Statistics
Matches: 661, Mismatches: 53, Indels: 64
0.85 0.07 0.08
Matches are distributed among these distances:
286 27 0.04
288 1 0.00
289 1 0.00
290 42 0.06
291 17 0.03
292 1 0.00
294 2 0.00
295 53 0.08
296 42 0.06
297 60 0.09
298 32 0.05
299 41 0.06
300 119 0.18
301 44 0.07
305 179 0.27
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (292 bp):
AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
AAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGT
ACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAA
TACGAAGAAAGTGTCAAAATCAGGTTATTTATTAAATTAATATATAAAAACACTTAATATAATAC
ATTTGAAATATTTTTTGCTAAAATAATATAAA
Found at i:74295494 original size:18 final size:18
Alignment explanation
Indices: 74295473--74295512 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
74295463 CATGACCTAG
74295473 AGCCGGAGCCCGAGGTAC
1 AGCCGGAGCCCGAGGTAC
74295491 AGCCGGAGCCCGAGGTAC
1 AGCCGGAGCCCGAGGTAC
74295509 AGCC
1 AGCC
74295513 AGAGGCTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.35, G:0.38, T:0.05
Consensus pattern (18 bp):
AGCCGGAGCCCGAGGTAC
Found at i:74295653 original size:72 final size:72
Alignment explanation
Indices: 74295535--74295671 Score: 220
Period size: 72 Copynumber: 1.9 Consensus size: 72
74295525 TGAGCGATCG
*
74295535 CATTCACATTCGACTGATACTTCTTATCATCCAGATTTGGCAGGCAATGACTATTTCCCGGGCTC
1 CATTCACATTCGACTGATACTTCTTATCATCCAGATTTGGCAGGCAATGACAATTTCCCGGGCTC
74295600 GTCATCA
66 GTCATCA
* * * * *
74295607 CATTCACATTCGGCTGATACTTCTTATTATCCGGATTTTGCGGGCAATGACAATTTCCCGGGCTC
1 CATTCACATTCGACTGATACTTCTTATCATCCAGATTTGGCAGGCAATGACAATTTCCCGGGCTC
74295672 ATCGGGGGCG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (72 bp):
CATTCACATTCGACTGATACTTCTTATCATCCAGATTTGGCAGGCAATGACAATTTCCCGGGCTC
GTCATCA
Found at i:74299693 original size:9 final size:9
Alignment explanation
Indices: 74299679--74299704 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
74299669 AGTTTTTTAC
74299679 TAACAATAA
1 TAACAATAA
74299688 TAACAATAA
1 TAACAATAA
74299697 TAACAATA
1 TAACAATA
74299705 TTTTTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (9 bp):
TAACAATAA
Found at i:74299699 original size:35 final size:36
Alignment explanation
Indices: 74299636--74299730 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 36
74299626 TTTTTAGGTT
* **
74299636 TTTTTTAC-AATAATAATAACTAACAATAATTATAG
1 TTTTTTACTAACAATAATAACTAACAATAACAATAG
* *
74299671 TTTTTTACTAACAATAATAAC-AATAATAACAATAT
1 TTTTTTACTAACAATAATAACTAACAATAACAATAG
*
74299706 TTTTTTACTAACAATATTAA-TAACA
1 TTTTTTACTAACAATAATAACTAACA
74299731 GACAACAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
35 40 0.78
36 11 0.22
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.40
Consensus pattern (36 bp):
TTTTTTACTAACAATAATAACTAACAATAACAATAG
Found at i:74299748 original size:20 final size:20
Alignment explanation
Indices: 74299723--74299770 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
74299713 CTAACAATAT
74299723 TAATAACAGA-CAACAAAAAA
1 TAATAACAGATCAAC-AAAAA
* *
74299743 TAATAA-AAATCAACAATAA
1 TAATAACAGATCAACAAAAA
74299762 TAATAACAG
1 TAATAACAG
74299771 CAAAAACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.17
Consensus pattern (20 bp):
TAATAACAGATCAACAAAAA
Found at i:74299851 original size:19 final size:17
Alignment explanation
Indices: 74299823--74299858 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
74299813 TTATACCTTA
74299823 TTTTTTCCTTCTCCTTCT
1 TTTTTTCCTTCT-CTTCT
74299841 TTTTCTTCCTTCTCTTCT
1 TTTT-TTCCTTCTCTTCT
74299859 CCTTTCTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTCCTTCTCTTCT
Found at i:74299864 original size:19 final size:20
Alignment explanation
Indices: 74299826--74299871 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
74299816 TACCTTATTT
*
74299826 TTTCCTTCTCCTTCTTTTTC
1 TTTCCTTCTCCTTCTCTTTC
74299846 -TTCCTTCT-CTTCTCCTTTC
1 TTTCCTTCTCCTTCT-CTTTC
74299865 TTTCCTT
1 TTTCCTT
74299872 TTATTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 5 0.22
19 12 0.52
20 6 0.26
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTCCTTCTCCTTCTCTTTC
Found at i:74300071 original size:20 final size:20
Alignment explanation
Indices: 74300028--74300071 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
74300018 TGTCCAATAT
* * **
74300028 TTTTTTTTTCGTTTTCAGCT
1 TTTTGTTTTCATTTTCAGAG
74300048 TTTTGTTTTCATTTTCAGAG
1 TTTTGTTTTCATTTTCAGAG
74300068 TTTT
1 TTTT
74300072 TTTACTATGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.68
Consensus pattern (20 bp):
TTTTGTTTTCATTTTCAGAG
Found at i:74300072 original size:21 final size:20
Alignment explanation
Indices: 74300027--74300065 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
74300017 ATGTCCAATA
* *
74300027 TTTTTTTTTTCGTTTTCAGC
1 TTTTTGTTTTCATTTTCAGC
74300047 TTTTTGTTTTCATTTTCAG
1 TTTTTGTTTTCATTTTCAG
74300066 AGTTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.13, G:0.10, T:0.69
Consensus pattern (20 bp):
TTTTTGTTTTCATTTTCAGC
Found at i:74302585 original size:12 final size:14
Alignment explanation
Indices: 74302551--74302588 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
74302541 TGGTTTTTTT
74302551 TTATAAAAATAACC
1 TTATAAAAATAACC
*
74302565 TTATAAAAATATCC
1 TTATAAAAATAACC
*
74302579 TTAAAAAAAT
1 TTATAAAAAT
74302589 TAAATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (14 bp):
TTATAAAAATAACC
Found at i:74303016 original size:25 final size:24
Alignment explanation
Indices: 74302965--74303010 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
74302955 TTTTTTCTTT
74302965 CTTTTTAAGTTT-TTATTTATTTAC
1 CTTTTTAAGTTTATT-TTTATTTAC
74302989 CTTTTTAAGTTTATTTTTATTT
1 CTTTTTAAGTTTATTTTTATTT
74303011 GTCCTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (24 bp):
CTTTTTAAGTTTATTTTTATTTAC
Found at i:74303222 original size:18 final size:18
Alignment explanation
Indices: 74303199--74303270 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 18
74303189 AAATGTATAT
74303199 TTTAAATATTTTTTAAAA
1 TTTAAATATTTTTTAAAA
74303217 TTTAAATATAATTTTTATAAA
1 TTTAAATAT--TTTTTA-AAA
* *
74303238 -TT-ATTAATTTTT-AAA
1 TTTAAATATTTTTTAAAA
*
74303253 TTTCAAACATTTTTTAAA
1 TTT-AAATATTTTTTAAA
74303271 TTAAATTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
15 3 0.07
16 2 0.05
17 5 0.12
18 16 0.38
19 5 0.12
20 8 0.19
21 3 0.07
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTAAATATTTTTTAAAA
Found at i:74303252 original size:15 final size:15
Alignment explanation
Indices: 74303217--74303279 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 15
74303207 TTTTTTAAAA
74303217 TTTAAA-TATAATTT
1 TTTAAATTATAATTT
74303231 TTATAAATTATTAA-TT
1 TT-TAAATTA-TAATTT
*
74303247 TTTAAATTTCAAACATTT
1 TTTAAA-TT-ATA-ATTT
74303265 TTTAAATTA-AATTT
1 TTTAAATTATAATTT
74303279 T
1 T
74303280 AAATTTTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
14 7 0.17
15 9 0.22
16 10 0.24
17 7 0.17
18 8 0.20
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAATTATAATTT
Found at i:74306661 original size:30 final size:30
Alignment explanation
Indices: 74306627--74306709 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 30
74306617 TAGATGTTTT
* *
74306627 GGGTGAAATAAACTCGAACCACCTATGTCC
1 GGGTGAAATAAACTCAAACCACCCATGTCC
* * * *
74306657 GGGTGATATAAATTCAAACCGCCCATGTTC
1 GGGTGAAATAAACTCAAACCACCCATGTCC
* * *
74306687 GGGTGATATGAACTGAAA-CACCC
1 GGGTGAAATAAACTCAAACCACCC
74306710 TAAAAATTTC
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
29 4 0.09
30 39 0.91
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (30 bp):
GGGTGAAATAAACTCAAACCACCCATGTCC
Found at i:74307212 original size:30 final size:30
Alignment explanation
Indices: 74307137--74307212 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
74307127 ATATTGATGA
* *
74307137 TATTTTATAATTATTTAATTAGAAAAATAT
1 TATTTTATTATTATTTAATAAGAAAAATAT
* * **
74307167 TATTTTATTAATATTTAATAAGATATTTAT
1 TATTTTATTATTATTTAATAAGAAAAATAT
74307197 TATTATT-TTATTATTT
1 TATT-TTATTATTATTT
74307213 TATTTAGTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TATTTTATTATTATTTAATAAGAAAAATAT
Found at i:74319754 original size:21 final size:20
Alignment explanation
Indices: 74319704--74319757 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
74319694 TGTTCTAATT
74319704 AAAAA-AGAAGCTGAATGGA
1 AAAAAGAGAAGCTGAATGGA
*
74319723 AAAAGGAAGAAGCTGAATGGAA
1 AAAAAG-AGAAGCTGAATGG-A
74319745 AAAAAGAGAAGCT
1 AAAAAGAGAAGCT
74319758 TTGTTGCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.13
21 20 0.67
22 6 0.20
ACGTcount: A:0.57, C:0.06, G:0.28, T:0.09
Consensus pattern (20 bp):
AAAAAGAGAAGCTGAATGGA
Found at i:74319755 original size:24 final size:21
Alignment explanation
Indices: 74319708--74319747 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
74319698 CTAATTAAAA
74319708 AAGAAGCTGAATGGAAAAAGG
1 AAGAAGCTGAATGGAAAAAGG
74319729 AAGAAGCTGAATGGAAAAA
1 AAGAAGCTGAATGGAAAAA
74319748 AAGAGAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.30, T:0.10
Consensus pattern (21 bp):
AAGAAGCTGAATGGAAAAAGG
Found at i:74325235 original size:17 final size:17
Alignment explanation
Indices: 74325213--74325248 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
74325203 GTTTTGAAAG
74325213 AAATTATT-TTATTAATA
1 AAATTATTATT-TTAATA
74325230 AAATTATTATTTTAATA
1 AAATTATTATTTTAATA
74325247 AA
1 AA
74325249 TAAATTCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTATTATTTTAATA
Found at i:74325403 original size:12 final size:13
Alignment explanation
Indices: 74325375--74325401 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74325365 AAAATGACCA
74325375 TTAAAATTATTTT
1 TTAAAATTATTTT
74325388 TTAAAATTATTTT
1 TTAAAATTATTTT
74325401 T
1 T
74325402 AATTTTAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTAAAATTATTTT
Found at i:74326783 original size:17 final size:18
Alignment explanation
Indices: 74326758--74326796 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
74326748 TTTTTTAATT
74326758 TTTTAGTAAATTTATATA
1 TTTTAGTAAATTTATATA
* *
74326776 TTTT-GTAATTTTCTATA
1 TTTTAGTAAATTTATATA
74326793 TTTT
1 TTTT
74326797 CTGTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTTAGTAAATTTATATA
Found at i:74332282 original size:51 final size:51
Alignment explanation
Indices: 74332210--74332309 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 51
74332200 GGTTGAGGGG
74332210 TTTTAAAATTAGGATCTAATTGA-A-AATATTTATAAAAATTGAGGGTTAATT
1 TTTTAAAATTAGGATCTAATTGATATAATA--TATAAAAATTGAGGGTTAATT
* * * *
74332261 TTTTAAATTTATGAT-TAAATTGATATAATATGTAAAAGTTGAGGGTTAA
1 TTTTAAAATTAGGATCT-AATTGATATAATATATAAAAATTGAGGGTTAA
74332310 ATTTATTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
50 1 0.02
51 36 0.86
52 1 0.02
53 4 0.10
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.42
Consensus pattern (51 bp):
TTTTAAAATTAGGATCTAATTGATATAATATATAAAAATTGAGGGTTAATT
Found at i:74334662 original size:17 final size:17
Alignment explanation
Indices: 74334653--74334719 Score: 80
Period size: 17 Copynumber: 3.8 Consensus size: 17
74334643 CTTCAATGAT
* *
74334653 ATGCAATCTTAAATATG
1 ATGCAATCTTAGATATA
*
74334670 ATACAATCTTAGATATA
1 ATGCAATCTTAGATATA
74334687 ATTGCAATCTTAGATATGA
1 A-TGCAATCTTAGATAT-A
74334706 TATGCAATCTTAGA
1 -ATGCAATCTTAGA
74334720 AGATATGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.35
18 14 0.33
19 13 0.30
20 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGCAATCTTAGATATA
Found at i:74334672 original size:19 final size:19
Alignment explanation
Indices: 74334648--74334719 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
74334638 ATAATCTTCA
*
74334648 ATGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
74334667 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
74334684 ATAAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
74334702 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
74334720 AGATATGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 14 0.30
18 15 0.32
19 18 0.38
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:74334696 original size:18 final size:18
Alignment explanation
Indices: 74334648--74334719 Score: 92
Period size: 18 Copynumber: 3.9 Consensus size: 18
74334638 ATAATCTTCA
*
74334648 ATGATATGCAATCTTAAAT
1 ATGAT-TGCAATCTTAGAT
*
74334667 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
74334684 ATAATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
74334702 ATGATATGCAATCTTAGA
1 ATGAT-TGCAATCTTAGA
74334720 AGATATGATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
17 14 0.30
18 16 0.35
19 16 0.35
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:74334745 original size:22 final size:22
Alignment explanation
Indices: 74334698--74334742 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
74334688 TTGCAATCTT
*
74334698 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
74334720 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
74334743 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:74335033 original size:17 final size:17
Alignment explanation
Indices: 74335009--74335043 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74334999 TGTTTCCCTG
*
74335009 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
74335027 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
74335044 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:74343304 original size:286 final size:285
Alignment explanation
Indices: 74342787--74343329 Score: 831
Period size: 286 Copynumber: 1.9 Consensus size: 285
74342777 CAGGCTAAAG
* *
74342787 CATAGCAGATTTGACTTTCAGGTGTTTATGCTGAAGCGAATCCAAGATGATTTAACATCTCTGTA
1 CATACCAGATTTGACTTTCACGTGTTTATGCTGAAGCGAATCCAAGATGATTTAACATCTCTGTA
* *
74342852 TTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 CTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
* *
74342917 ACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGTATCTCTGTATTAGAAGGG
131 ACACAGCAGATATGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAAGGG
* * * * *
74342982 GAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCCT
196 GAGCAGATCAAAGACACAACAGATTGAACCTTCATTGAAACAGATCCAAGA-AATTTGGCATCCT
74343047 TGCGTTGACAATGAGCAGATCGAAGA
260 TGCGTTGACAATGAGCAGATCGAAGA
* * **
74343073 CATACCAGATTTGGCTTTCACGTGTTTATGCTGAAGC-AGATCTAAGATGATTTGGCATCTCTGT
1 CATACCAGATTTGACTTTCACGTGTTTATGCTGAAGCGA-ATCCAAGATGATTTAACATCTCTGT
* * *
74343137 ACTGTTAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAA
65 ACTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAA
*
74343202 GACATAGCAGATATGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACA-
130 GACACAGCAGATATGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGA-AG
* **
74343266 GGGAGCAGATTAAAGACACAGTAGATCT-AACCTTCATTGAAACAGATCCAAGAAATTTGGCATC
194 GGGAGCAGATCAAAGACACAACAGAT-TGAACCTTCATTGAAACAGATCCAAGAAATTTGGCATC
74343330 TCTGTATTAG
Statistics
Matches: 232, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
285 11 0.05
286 219 0.94
287 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (285 bp):
CATACCAGATTTGACTTTCACGTGTTTATGCTGAAGCGAATCCAAGATGATTTAACATCTCTGTA
CTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
ACACAGCAGATATGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAAGGG
GAGCAGATCAAAGACACAACAGATTGAACCTTCATTGAAACAGATCCAAGAAATTTGGCATCCTT
GCGTTGACAATGAGCAGATCGAAGA
Found at i:74343447 original size:155 final size:155
Alignment explanation
Indices: 74343165--74343457 Score: 437
Period size: 155 Copynumber: 1.9 Consensus size: 155
74343155 GAAGAAACAG
* *
74343165 ATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATATGACCTTCATTGAAG
1 ATTTGGCATCTCCATATTAGACAGAGAGCAGATCGAAGACATAACAGATATGACCTTCATTGAAG
* *
74343230 CAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATTAAAGACACAGTAGATCTA
66 CAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGACACAGCAGATCTA
74343295 ACCTTCATTGAAACAGATCCAAGAA
131 ACCTTCATTGAAACAGATCCAAGAA
** * *
74343320 ATTTGGCATCTCTGTATTAGAC-GGGAAGCAGATCGAATACATAACAGAT-TAGACCTTCATTGA
1 ATTTGGCATCTCCATATTAGACAGAG-AGCAGATCGAAGACATAACAGATAT-GACCTTCATTGA
* * * *
74343383 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGCAGATC
64 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGACACAGCAGATC
*
74343448 TAACTTTCAT
129 TAACCTTCAT
74343458 GTGTTTACAT
Statistics
Matches: 123, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
154 3 0.02
155 120 0.98
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (155 bp):
ATTTGGCATCTCCATATTAGACAGAGAGCAGATCGAAGACATAACAGATATGACCTTCATTGAAG
CAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGACACAGCAGATCTA
ACCTTCATTGAAACAGATCCAAGAA
Found at i:74343457 original size:78 final size:78
Alignment explanation
Indices: 74343164--74343457 Score: 396
Period size: 78 Copynumber: 3.8 Consensus size: 78
74343154 TGAAGAAACA
** * * * *
74343164 GATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATATGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAA
74343229 GCAGATCCAAGAT
66 GCAGATCCAAGAT
** * *
74343242 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATTAAAGACACAGTAGATCTAACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAA
*
74343307 ACAGATCCAAGA-
66 GCAGATCCAAGAT
* * *
74343319 AATTTGGCATCTCTGTATTAGAC-GGGAAGCAGATCGAATACATAACAGAT-TAGACCTTCATTG
1 GATTTGGCATCTCTGTATTAGACAGGG-AGCAGATCGAAGACATAGCAGATCTA-ACCTTCATTG
74343382 AAGCAGATCCAAGAT
64 AAGCAGATCCAAGAT
* * *
74343397 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGCAGATCTAACTTTCAT
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCAT
74343458 GTGTTTACAT
Statistics
Matches: 187, Mismatches: 24, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
76 5 0.03
77 62 0.33
78 115 0.61
79 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAA
GCAGATCCAAGAT
Found at i:74343550 original size:45 final size:45
Alignment explanation
Indices: 74343471--74343670 Score: 258
Period size: 45 Copynumber: 4.5 Consensus size: 45
74343461 TTTACATCGA
* * * *
74343471 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGATGGGG
1 AGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
74343516 AGCAAATCGGAGATAACAGATTTGGCATATCTGTATTAGACAGGG
1 AGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * *
74343561 AGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
*
74343605 AGCAAATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
74343650 AGCAGATCAAAGATAGCAGAT
1 AGCAAATCGAAGATAACAGAT
74343671 ATCGCATTCC
Statistics
Matches: 134, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
44 38 0.28
45 96 0.72
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (45 bp):
AGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:74343605 original size:89 final size:90
Alignment explanation
Indices: 74343471--74343670 Score: 296
Period size: 89 Copynumber: 2.2 Consensus size: 90
74343461 TTTACATCGA
* * *
74343471 AGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGATGGGGAGCAAATCGGAGATAACAG
1 AGCAGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAG
74343535 ATTTGGCATATCTGTATTAGACAGGG
65 ATTTGGCATATCTGTATTAGACAGGG
** *
74343561 AGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGA
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGA
* * *
74343625 TTTGGCGTCTCTGTATTAGACGGGG
66 TTTGGCATATCTGTATTAGACAGGG
74343650 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
74343671 ATCGCATTCC
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
89 79 0.81
90 19 0.19
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGA
TTTGGCATATCTGTATTAGACAGGG
Found at i:74344030 original size:19 final size:18
Alignment explanation
Indices: 74344003--74344093 Score: 121
Period size: 19 Copynumber: 4.9 Consensus size: 18
74343993 ATAATCTTTA
74344003 ATGATATGCAATCTTAGAT
1 ATGA-ATGCAATCTTAGAT
74344022 ATGACATGCAATCTTAGAT
1 ATGA-ATGCAATCTTAGAT
*
74344041 ATG-ATACAATCTTAGAT
1 ATGAATGCAATCTTAGAT
*
74344058 ATGATTGCAATCTTAGAT
1 ATGAATGCAATCTTAGAT
*
74344076 ATAATATGCAATCTTAGA
1 ATGA-ATGCAATCTTAGA
74344094 AGATATGATT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
17 16 0.25
18 15 0.23
19 33 0.52
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (18 bp):
ATGAATGCAATCTTAGAT
Found at i:74344074 original size:35 final size:37
Alignment explanation
Indices: 74344010--74344093 Score: 127
Period size: 35 Copynumber: 2.3 Consensus size: 37
74344000 TTAATGATAT
*
74344010 GCAATCTTAGATATGACATGCAATCTTAGATATGATA
1 GCAATCTTAGATATGACATGCAATCTTAGATATAATA
*
74344047 -CAATCTTAGATATGA-TTGCAATCTTAGATATAATA
1 GCAATCTTAGATATGACATGCAATCTTAGATATAATA
74344082 TGCAATCTTAGA
1 -GCAATCTTAGA
74344094 AGATATGATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 18 0.42
36 15 0.35
37 10 0.23
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (37 bp):
GCAATCTTAGATATGACATGCAATCTTAGATATAATA
Found at i:74344407 original size:17 final size:17
Alignment explanation
Indices: 74344383--74344419 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
74344373 TGTTTCCCTG
*
74344383 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
74344401 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
74344418 AT
1 AT
74344420 ATCATATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:74346201 original size:3 final size:3
Alignment explanation
Indices: 74346188--74346230 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
74346178 ATATGCATGA
74346188 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
74346231 GTAGATAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:74346329 original size:11 final size:11
Alignment explanation
Indices: 74346315--74346353 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
74346305 AAAATGATGT
*
74346315 ATAATAATTAA
1 ATAATAATGAA
*
74346326 ATAAATAAAGAA
1 AT-AATAATGAA
74346338 ATAATAATGAA
1 ATAATAATGAA
74346349 ATAAT
1 ATAAT
74346354 GGGGTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (11 bp):
ATAATAATGAA
Found at i:74346472 original size:23 final size:22
Alignment explanation
Indices: 74346424--74346472 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
74346414 ATGAGAATGC
***
74346424 CTAAAATAAAAAAAGAACATGC
1 CTAAAATAAAAAAAGAACAAAA
*
74346446 CTAAAATAAAAAAAATAACAAAA
1 CTAAAAT-AAAAAAAGAACAAAA
74346469 CTAA
1 CTAA
74346473 TAAATGAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.69, C:0.12, G:0.04, T:0.14
Consensus pattern (22 bp):
CTAAAATAAAAAAAGAACAAAA
Found at i:74348261 original size:134 final size:134
Alignment explanation
Indices: 74348092--74348432 Score: 452
Period size: 134 Copynumber: 2.5 Consensus size: 134
74348082 TCAACTTGCC
* * *
74348092 CCACTGCAACTTCAGAGG-GATAAGAACTCGTAACTTCAACCTGCCCCACTGTAACTTCAGGGAG
1 CCACTGCAACTTCAG-GGAGATAAG-ACTCATAACTTCAACCTGACCCACTGCAACTTCAGGGAG
** * * *
74348156 ATAAGGTTTATAGCTTTAACTTTGCTCTACTGCAATTTTAAAGAGATAAGATTTGCTATCTT-GG
64 ATAAGGTTTATAGCTTTAACCCTGCTCTACTGCAATTTCAAAGAGATAAGATTTGCTAACTTCAG
*
74348220 ATCCGTT
129 -TCCGCT
* * * * * *
74348227 TCACTGCAACTTCAGGGAGATATGACTCATAACTTCTACCTGTCCCACTGCAACTTGAGGGTGAT
1 CCACTGCAACTTCAGGGAGATAAGACTCATAACTTCAACCTGACCCACTGCAACTTCAGGGAGAT
* *
74348292 AAGGTTTATAGCTTTAACCCTGCTCTACTGCAATTTCAGAGAGATAATATTTGCTAACTTCAGTC
66 AAGGTTTATAGCTTTAACCCTGCTCTACTGCAATTTCAAAGAGATAAGATTTGCTAACTTCAGTC
*
74348357 TGCT
131 CGCT
* * *
74348361 CCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGATCCACTGCAACTTCAGAGAGAT
1 CCACTGCAACTTCAGGGAGATAAGACTCATAACTTCAACCTGACCCACTGCAACTTCAGGGAGAT
74348426 AAGGTTT
66 AAGGTTT
74348433 GTGGCTTCAA
Statistics
Matches: 178, Mismatches: 26, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
134 158 0.89
135 20 0.11
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (134 bp):
CCACTGCAACTTCAGGGAGATAAGACTCATAACTTCAACCTGACCCACTGCAACTTCAGGGAGAT
AAGGTTTATAGCTTTAACCCTGCTCTACTGCAATTTCAAAGAGATAAGATTTGCTAACTTCAGTC
CGCT
Found at i:74348442 original size:44 final size:44
Alignment explanation
Indices: 74347998--74348428 Score: 281
Period size: 45 Copynumber: 9.7 Consensus size: 44
74347988 ATAGTTTGAT
* * * * ** **
74347998 CTGCTTCATTGCAACTTCAGGGAGATAAGATCTACTTTCTTCAGT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTA-TAACTTCAAC
* * * *
74348043 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAAC
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCAAC
* * * * **
74348087 TTGCCCCACTGCAACTTCAGAGGGATAAGAACTCGTAACTTCAAC
1 CTGCTCCACTGCAACTTCAGAGAGATAAG-ATTTATAACTTCAAC
* * * * * *
74348132 CTGCCCCACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAAC
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCAAC
* * * * * * * * *
74348176 TTTGCTCTACTGCAATTTTAAAGAGATAAGATTTGCTATCTTGGATC
1 -CTGCTCCACTGCAACTTCAGAGAGATAAGATTT-ATAACTT-CAAC
* * * * * * *
74348223 C-GTTTCACTGCAACTTCAGGGAGATATGACTCATAACTTCTAC
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCAAC
* * * * * *
74348266 CTG-TCCCACTGCAACTTGAGGGTGATAAGGTTTATAGCTTTAACC
1 CTGCT-CCACTGCAACTTCAGAGAGATAAGATTTATAACTTCAA-C
* * * * **
74348311 CTGCTCTACTGCAATTTCAGAGAGATAATATTTGCTAACTTCAGT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTT-ATAACTTCAAC
* *
74348356 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAAC
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCAAC
*
74348400 CTGATCCACTGCAACTTCAGAGAGATAAG
1 CTGCTCCACTGCAACTTCAGAGAGATAAG
74348429 GTTTGTGGCT
Statistics
Matches: 290, Mismatches: 87, Indels: 19
0.73 0.22 0.05
Matches are distributed among these distances:
43 3 0.01
44 108 0.37
45 165 0.57
46 12 0.04
47 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCAAC
Found at i:74356783 original size:52 final size:48
Alignment explanation
Indices: 74356721--74356913 Score: 189
Period size: 47 Copynumber: 4.0 Consensus size: 48
74356711 GAAATGTGAT
* *
74356721 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
74356773 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* *
74356820 TAT-TGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 T-TCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * * *
74356866 ATCCGTGTAAGACCAT-GACTGGGCTATGGCCTCGATATGTGATATGTG
1 TTCCGTATAAGACCATAG-CTGGGATATGGCATCGA-GTGTGATATGTG
74356914 ACTGTGCAAG
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
45 1 0.01
46 24 0.20
47 54 0.44
48 12 0.10
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:74356830 original size:47 final size:47
Alignment explanation
Indices: 74356699--74356881 Score: 174
Period size: 47 Copynumber: 3.8 Consensus size: 47
74356689 TGGTTGGACC
* * * * * *
74356699 ATGGCAGCA-TGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCAGTGTGATATGTG-CTTCCGTATAAGACCATATCCGGGAT
*
74356746 ATGGCTTCGGAGAAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGAT
1 ATGGCATC--AG---TGTGATATGTGCTTCCGTATAAGACCATATCCGGGAT
* * *
74356798 ATGGCATCGGTGTGATATGTGCTAT-TGTATAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCT-TCCGTATAAGACCATATCCGGGAT
* *
74356845 ATGGCATCAGTGTGATATGTG-ATCCGTGTAAGACCAT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCAT
74356882 GACTGGGCTA
Statistics
Matches: 113, Mismatches: 15, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.01
46 11 0.10
47 59 0.52
48 1 0.01
49 1 0.01
50 1 0.01
52 29 0.26
53 10 0.09
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATATCCGGGAT
Found at i:74357519 original size:13 final size:13
Alignment explanation
Indices: 74357501--74357527 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74357491 AAGGGATAGA
74357501 CGGGAACATCATC
1 CGGGAACATCATC
74357514 CGGGAACATCATC
1 CGGGAACATCATC
74357527 C
1 C
74357528 AAGTCCCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (13 bp):
CGGGAACATCATC
Found at i:74364951 original size:44 final size:44
Alignment explanation
Indices: 74364642--74365046 Score: 190
Period size: 44 Copynumber: 9.2 Consensus size: 44
74364632 CGGTTTATCA
* * * *
74364642 TAGCTTCGATCTATTCCGCTGGAACTTCAAGAAGATAAGAATTG
1 TAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATACGAATTG
* * ** * ** * *
74364686 TGGCTTCGAGCCGCTCCAATGCCATTTCATGGAGA-A-GAGATTTG
1 TAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATACGA-A-TTG
* * * *
74364730 TAACTTCGATTTACTCCGCTGGAACTTCAAGGAGATACGCATTG
1 TAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATACGAATTG
* * ** * ** * * * * *
74364774 TGGCTTCGAGCCGCTCCAATGTCATTTTAGGGAGAAAAG-ATATG
1 TAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATACGAAT-TG
* ** *
74364818 TAGCTTTGATCTACTCCGTTGGAACTTCAAGGAAATACGAATTG
1 TAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATACGAATTG
* * ** * * ** * * * * *
74364862 TGGCTTCGAGCCGCTCTAGTGCCATTTCAGGGAGAAAAGATTTG
1 TAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATACGAATTG
*
74364906 TAGCTTCGATCTACTCCACTGGAACTTCAATGAGATACGAATTG
1 TAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATACGAATTG
* ** * ** * *
74364950 TAGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGA-A-GAAATTTG
1 TAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATACG-AA-TTG
* * * *
74364994 TATCTTCGATCTACTCCGCTGAAACTTAAAGGAGATACGAATTG
1 TAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATACGAATTG
*
74365038 TGGCTTCGA
1 TAGCTTCGA
74365047 GCCGTTCTAG
Statistics
Matches: 244, Mismatches: 107, Indels: 20
0.66 0.29 0.05
Matches are distributed among these distances:
42 3 0.01
43 7 0.03
44 225 0.92
45 7 0.03
46 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (44 bp):
TAGCTTCGATCTACTCCACTGGAACTTCAAGGAGATACGAATTG
Found at i:74365231 original size:88 final size:88
Alignment explanation
Indices: 74364642--74365216 Score: 738
Period size: 88 Copynumber: 6.5 Consensus size: 88
74364632 CGGTTTATCA
* * * *
74364642 TAGCTTCGATCTATTCCGCTGGAACTTCAAGAAGATAAGAATTGTGGCTTCGAGCCGCTCCAATG
1 TAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCTAATG
* *
74364707 CCATTTCATGGAGAAGAGATTTG
66 CCATTTCAGGGAGAAAAGATTTG
* * * *
74364730 TAACTTCGATTTACTCCGCTGGAACTTCAAGGAGATACGCATTGTGGCTTCGAGCCGCTCCAATG
1 TAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCTAATG
* * *
74364795 TCATTTTAGGGAGAAAAGATATG
66 CCATTTCAGGGAGAAAAGATTTG
* * * *
74364818 TAGCTTTGATCTACTCCGTTGGAACTTCAAGGAAATACGAATTGTGGCTTCGAGCCGCTCTAGTG
1 TAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCTAATG
74364883 CCATTTCAGGGAGAAAAGATTTG
66 CCATTTCAGGGAGAAAAGATTTG
* * * *
74364906 TAGCTTCGATCTACTCCACTGGAACTTCAATGAGATACGAATTGTAGCTTCGAGCCGCTCCAATG
1 TAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCTAATG
74364971 CCATTTCAGGGAGAAGAA-ATTTG
66 CCATTTCAGGGAGAA-AAGATTTG
* * * * *
74364994 TATCTTCGATCTACTCCGCTGAAACTTAAAGGAGATACGAATTGTGGCTTCGAGCCGTTCTAGTG
1 TAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCTAATG
*
74365059 CCATTTCAGAGAGAAAAGATTTG
66 CCATTTCAGGGAGAAAAGATTTG
* *** * * *
74365082 TAACTTCGATCTACTCTATTAGAACTTCAAAGAGATACGAATTGTGGCTTTGAGCCGCTCTAATG
1 TAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCTAATG
* * * *
74365147 GCATTTTAGAGAGAAGAGATTTG
66 CCATTTCAGGGAGAAAAGATTTG
* * * * * *
74365170 TAGCTTTGATCTACTCCGCTAGAGCTTTATGGAGATAAGAATTGTGG
1 TAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGG
74365217 TTTCAACCTG
Statistics
Matches: 421, Mismatches: 64, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
87 2 0.00
88 417 0.99
89 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (88 bp):
TAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCTAATG
CCATTTCAGGGAGAAAAGATTTG
Found at i:74365346 original size:85 final size:85
Alignment explanation
Indices: 74365224--74365424 Score: 294
Period size: 85 Copynumber: 2.3 Consensus size: 85
74365214 TGGTTTCAAC
* * * * *
74365224 CTGCTCTACTACTGCTCAGGGAGACAAGATCTATAATCTTCAGCCTACTCCACTATTGTTTAGTG
1 CTGCTCCACTACTGCTTA-GGAGACAAGATCTATAATCTTCAGCCTACTCCACTACTGCTTAGGG
74365289 AGATAGGATAGTGGCTTAAAT
65 AGATAGGATAGTGGCTTAAAT
* *
74365310 CTGCTCCACTACTGCTTAGGAGACCAGATCTGTAATCTTCAGCCTACTCCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTTAGGAGACAAGATCTATAATCTTCAGCCTACTCCACTACTGCTTAGGGA
*
74365375 GATAGGATGGTGGCTTAAAT
66 GATAGGATAGTGGCTTAAAT
* *
74365395 CTACTCCACTACTGCTTAGGGAGATAAGAT
1 CTGCTCCACTACTGCTTA-GGAGACAAGAT
74365425 ATGTGAATTT
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 78 0.76
86 25 0.24
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (85 bp):
CTGCTCCACTACTGCTTAGGAGACAAGATCTATAATCTTCAGCCTACTCCACTACTGCTTAGGGA
GATAGGATAGTGGCTTAAAT
Found at i:74365411 original size:42 final size:42
Alignment explanation
Indices: 74365268--74365425 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 42
74365258 AATCTTCAGC
* * *
74365268 CTACTCCACTATTGTTTAGTGAGATAGGATAGTGGCTTAAAT
1 CTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAAT
* * * ** * **
74365310 CTGCTCCACTACTGCTTA-GGAGACCA-GATCTGTAATCTTCAGC
1 CTACTCCACTACTGCTTAGGGAGA-TAGGAT-AGT-GGCTTAAAT
*
74365353 CTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAAT
1 CTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAAT
*
74365395 CTACTCCACTACTGCTTAGGGAGATAAGATA
1 CTACTCCACTACTGCTTAGGGAGATAGGATA
74365426 TGTGAATTTA
Statistics
Matches: 90, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
41 7 0.08
42 51 0.57
43 24 0.27
44 8 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (42 bp):
CTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAAT
Found at i:74366132 original size:30 final size:30
Alignment explanation
Indices: 74366098--74366157 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
74366088 ACTTAACAAG
74366098 CAAATACCTCTAAAATAAT-AATAAAATTAA
1 CAAATACCTCTAAAATAATGAA-AAAATTAA
*
74366128 CAAATACCTTTAAAATAATGAAAAAATTAA
1 CAAATACCTCTAAAATAATGAAAAAATTAA
74366158 TAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATGAAAAAATTAA
Found at i:74368126 original size:9 final size:9
Alignment explanation
Indices: 74368112--74368138 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
74368102 TTCCCTCTTT
74368112 TTTTTTTTA
1 TTTTTTTTA
74368121 TTTTTTTTA
1 TTTTTTTTA
74368130 TTTTTTTTA
1 TTTTTTTTA
74368139 ATTTGATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:74372527 original size:3 final size:3
Alignment explanation
Indices: 74372514--74372553 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
74372504 ATATGCATGA
74372514 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
74372554 AGTAGATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:74373322 original size:2 final size:2
Alignment explanation
Indices: 74373317--74373359 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
74373307 GTTCTCTCGG
74373317 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
74373359 T
1 T
74373360 AGACGAAGCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:74374746 original size:16 final size:17
Alignment explanation
Indices: 74374715--74374747 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
74374705 TTTATTTTTA
74374715 TATTAGATAAATATAAT
1 TATTAGATAAATATAAT
*
74374732 TATTAG-TATATATAAT
1 TATTAGATAAATATAAT
74374748 ATGTAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TATTAGATAAATATAAT
Found at i:74375629 original size:26 final size:26
Alignment explanation
Indices: 74375571--74375629 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
74375561 TAAAAATTTA
*
74375571 AAATTTTAAATTAATAAAAATAAAAT
1 AAATTTTAAATTAATAAAAATAAAAG
* ** *
74375597 AATATTTTAATTTCTTAAAAATAATAG
1 AA-ATTTTAAATTAATAAAAATAAAAG
74375624 AAATTT
1 AAATTT
74375630 GATTTAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
AAATTTTAAATTAATAAAAATAAAAG
Found at i:74376280 original size:14 final size:14
Alignment explanation
Indices: 74376258--74376287 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
74376248 AAATTATTAT
*
74376258 TTAATTAATTGAAA
1 TTAAATAATTGAAA
74376272 TTAAATAATTGAAA
1 TTAAATAATTGAAA
74376286 TT
1 TT
74376288 TGAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TTAAATAATTGAAA
Found at i:74377393 original size:15 final size:15
Alignment explanation
Indices: 74377368--74377416 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
74377358 TTATTTTATT
74377368 TTATTTT-ATATATA
1 TTATTTTAATATATA
74377382 TTATTTTAATATATA
1 TTATTTTAATATATA
* *
74377397 CTATTTTGAAT-TATT
1 TTATTTT-AATATATA
74377412 TTATT
1 TTATT
74377417 GATTTTGCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 7 0.23
15 20 0.67
16 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (15 bp):
TTATTTTAATATATA
Found at i:74384483 original size:45 final size:46
Alignment explanation
Indices: 74384433--74384530 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 46
74384423 GTAGCAAAGA
* * * *
74384433 AGCAGATTGA-AAATTACAAATCTTATCTCCATGTATCGGCTATGG
1 AGCAGATTCAGAAATGACAAATCTTATCTCCATGTATCAGCTATAG
* ***
74384478 AGCAGA-TCAGAAATGGCGGGTCTTATCTCCATGTATCAGCTATAG
1 AGCAGATTCAGAAATGACAAATCTTATCTCCATGTATCAGCTATAG
74384523 AGCAGATT
1 AGCAGATT
74384531 TTAGTCACCA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
44 2 0.05
45 40 0.93
46 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (46 bp):
AGCAGATTCAGAAATGACAAATCTTATCTCCATGTATCAGCTATAG
Found at i:74384801 original size:132 final size:132
Alignment explanation
Indices: 74384499--74384882 Score: 520
Period size: 132 Copynumber: 2.9 Consensus size: 132
74384489 AATGGCGGGT
* * * *
74384499 CTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGTCACCAGCCTTATCTCTGTGAGGTAGCAA
1 CTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAA
* * * * ** * *
74384564 GAGAGCAGGTTAAAGAT-CTAGGTCTTATCTTCCTAAGGTAGCAAGG-AAGCAGGCTGAAAATTA
66 GAGAGCAGGTTGAAGATACGA-GCCTTAACCCCCTAA-GCAGTAAGGTAA-CAGGCTGAAAATTA
*
74384627 CAGAT
128 CAGAC
*
74384632 CTTATTTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAA
1 CTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAA
* * *
74384697 GAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTAGGGTAACGGGCTGAAATTTACAG
66 GAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTGAAAATTACAG
74384762 AC
131 AC
* * * *
74384764 CTTATCTCTATGTATCGGCTATGGAGTAGATTTTAGCCACCGACCTTATCTCTCTGAGGTAGCAA
1 CTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAA
* *
74384829 GAGAGTAGGTTGAAGATATGAGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCT
66 GAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCT
74384883 ATAAAATACA
Statistics
Matches: 223, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
132 132 0.59
133 89 0.40
134 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (132 bp):
CTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAA
GAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTGAAAATTACAG
AC
Found at i:74385690 original size:20 final size:18
Alignment explanation
Indices: 74385665--74385701 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
74385655 ATTGCTAAGT
74385665 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
74385685 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
74385702 TATGAGTTGC
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:74386423 original size:93 final size:92
Alignment explanation
Indices: 74386255--74386424 Score: 250
Period size: 92 Copynumber: 1.8 Consensus size: 92
74386245 GGATGGTTGA
* * **
74386255 GCATCTGAACTCGCTGAGTTGAGTACGAGTTCACTTATGATGCGAATGTTCGAACTCGTTGAGTT
1 GCATCCGAACTCGCTGAGTTGAGTACGAGTTCACTTATGATGCGAACGCCCGAACTCGTTGAGTT
74386320 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
74386347 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGCTGAGTTGAGTACGAGTTCACTTAT-GATGCGAACGCCCGAACTCGTTGAGT
*
74386412 TGAGTCTGAGTTC
65 TGAGTCCGAGTTC
74386425 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
92 34 0.50
93 34 0.50
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGCTGAGTTGAGTACGAGTTCACTTATGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:74392579 original size:15 final size:15
Alignment explanation
Indices: 74392554--74392602 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
74392544 TTATTTTATT
74392554 TTATTTT-ATATATA
1 TTATTTTAATATATA
74392568 TTATTTTAATATATA
1 TTATTTTAATATATA
*
74392583 TTATTTTGAAT-TATT
1 TTATTTT-AATATATA
74392598 TTATT
1 TTATT
74392603 GATTTTGCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 7 0.22
15 22 0.69
16 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTTTAATATATA
Found at i:74392582 original size:19 final size:18
Alignment explanation
Indices: 74392545--74392587 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
74392535 GTTCATATCT
* *
74392545 TATT-TTATTTTATTTTA
1 TATTATTATTTTAATATA
74392562 TATATATTATTTTAATATA
1 TAT-TATTATTTTAATATA
74392581 TATTATT
1 TATTATT
74392588 TTGAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 5 0.23
19 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTATTATTTTAATATA
Found at i:74392586 original size:24 final size:24
Alignment explanation
Indices: 74392539--74392586 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
74392529 GTTTTAGTTC
* * * *
74392539 ATATCTTATTTTATTTTATTTTAT
1 ATATATTATTTTAATATATATTAT
74392563 ATATATTATTTTAATATATATTAT
1 ATATATTATTTTAATATATATTAT
74392587 TTTGAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
ATATATTATTTTAATATATATTAT
Found at i:74395332 original size:18 final size:17
Alignment explanation
Indices: 74395309--74395356 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
74395299 AAAAAATTAT
74395309 AAAAATAATAAATTTTAG
1 AAAAATAATAAATTTT-G
*
74395327 AAAAATTATTAAATTTTG
1 AAAAA-TAATAAATTTTG
74395345 ATAAAAT-ATAAA
1 A-AAAATAATAAA
74395357 AAAAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 4 0.15
18 8 0.31
19 14 0.54
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (17 bp):
AAAAATAATAAATTTTG
Found at i:74395350 original size:19 final size:20
Alignment explanation
Indices: 74395307--74395351 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
74395297 AAAAAAAATT
*
74395307 ATAAAAATAATAAATTTTAG
1 ATAAAATTAATAAATTTTAG
*
74395327 A-AAAATTATTAAATTTT-G
1 ATAAAATTAATAAATTTTAG
74395345 ATAAAAT
1 ATAAAAT
74395352 ATAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 19 0.86
20 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
ATAAAATTAATAAATTTTAG
Found at i:74395428 original size:30 final size:30
Alignment explanation
Indices: 74395396--74395452 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
74395386 TTTTTTTATA
74395396 AAAATTGTA-AAAAAAAATAAAAAAATTGT
1 AAAATTGTATAAAAAAAATAAAAAAATTGT
* **
74395425 AAAATTTTATAAAAATTATAAAAAAATT
1 AAAATTGTATAAAAAAAATAAAAAAATT
74395453 AATGGCCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (30 bp):
AAAATTGTATAAAAAAAATAAAAAAATTGT
Found at i:74395449 original size:21 final size:21
Alignment explanation
Indices: 74395389--74395449 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
74395379 ATTAGAATTT
74395389 TTTTATAAAAATTGTAAAAAA
1 TTTTATAAAAATTGTAAAAAA
*** *
74395410 AAATAAAAAAATTGT--AAAA
1 TTTTATAAAAATTGTAAAAAA
*
74395429 TTTTATAAAAATTATAAAAAA
1 TTTTATAAAAATTGTAAAAAA
74395450 ATTAATGGCC
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 14 0.48
21 15 0.52
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
TTTTATAAAAATTGTAAAAAA
Found at i:74395681 original size:28 final size:29
Alignment explanation
Indices: 74395631--74395746 Score: 89
Period size: 28 Copynumber: 4.1 Consensus size: 29
74395621 TTACATTTTG
* *
74395631 TATAATTTTCTTACGAATT-TATAAAATTT
1 TATAATTTT-TTACTATTTCTATAAAATTT
* *
74395660 TA-AATTTTTTTA-TATTTCTAT-ATATTA
1 TATAA-TTTTTTACTATTTCTATAAAATTT
*
74395687 TATAATTTTTTACTATTTTTATAAAATTT
1 TATAATTTTTTACTATTTCTATAAAATTT
* * * *
74395716 AAT-ACTTTTTACTATTTTTAATAAATTTT
1 TATAATTTTTTACTATTTCT-ATAAAATTT
74395745 TA
1 TA
74395747 ACATTTTAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
27 16 0.23
28 33 0.47
29 21 0.30
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (29 bp):
TATAATTTTTTACTATTTCTATAAAATTT
Found at i:74395753 original size:28 final size:29
Alignment explanation
Indices: 74395694--74395775 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 29
74395684 TTATATAATT
*
74395694 TTTTACTATTTTT-ATAAAATTTAATACT
1 TTTTACTATTTTTAATAAAATTTAATACA
* *
74395722 TTTTACTATTTTTAATAAATTTTTA-ACA
1 TTTTACTATTTTTAATAAAATTTAATACA
* * *
74395750 TTTTAAT-TTTTTATTAAAATTCAATA
1 TTTTACTATTTTTAATAAAATTTAATA
74395776 ATATTTATAG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 13 0.30
28 22 0.50
29 9 0.20
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTTACTATTTTTAATAAAATTTAATACA
Found at i:74396720 original size:45 final size:45
Alignment explanation
Indices: 74396654--74396744 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
74396644 TTTTGGGAAA
74396654 AATGTTTTCCTAATTTACCAGTGTTTGTTTGACTAAAAAGGTTTT
1 AATGTTTTCCTAATTTACCAGTGTTTGTTTGACTAAAAAGGTTTT
* * *
74396699 AATGTTTTCCTGATTTTCCAGTGTTTGTTTGACTGAAAAGGTTTT
1 AATGTTTTCCTAATTTACCAGTGTTTGTTTGACTAAAAAGGTTTT
74396744 A
1 A
74396745 CAAATGGAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (45 bp):
AATGTTTTCCTAATTTACCAGTGTTTGTTTGACTAAAAAGGTTTT
Found at i:74400686 original size:23 final size:24
Alignment explanation
Indices: 74400634--74400686 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
74400624 TGATCATAAT
*
74400634 TTAAATATATATAACATAAATTTA
1 TTAAATATATATAACATAAATTAA
74400658 TT-AATATATAT-A-ATAAATTCAA
1 TTAAATATATATAACATAAATT-AA
74400680 TTAAATA
1 TTAAATA
74400687 ATAAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 7 0.27
22 4 0.15
23 13 0.50
24 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
TTAAATATATATAACATAAATTAA
Found at i:74400833 original size:20 final size:21
Alignment explanation
Indices: 74400808--74400852 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
74400798 TAAACCTCCC
74400808 AAAAAATAAATTA-TTTTCAA
1 AAAAAATAAATTATTTTTCAA
74400828 AAAAAATAAATTATTTTTCAA
1 AAAAAATAAATTATTTTTCAA
74400849 AAAA
1 AAAA
74400853 TATTTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAATAAATTATTTTTCAA
Found at i:74402035 original size:19 final size:19
Alignment explanation
Indices: 74402011--74402048 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
74402001 AACCTGGGGT
74402011 AGGAAAAGAAAATATGATG
1 AGGAAAAGAAAATATGATG
74402030 AGGAAAAGAAAATATGATG
1 AGGAAAAGAAAATATGATG
74402049 TAATTGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (19 bp):
AGGAAAAGAAAATATGATG
Found at i:74405274 original size:28 final size:27
Alignment explanation
Indices: 74405209--74405283 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
74405199 ATTAATTTTT
* * *
74405209 TATATATTTTTATATATTCTTTAGAAAT
1 TATAAATTTTTATA-ATTTTTTAGAAAA
* *
74405237 TTTAATTTTTTATAATTTTTTAAGAAAA
1 TATAAATTTTTATAATTTTTT-AGAAAA
*
74405265 TATAAA-TTTTAGAATTTTT
1 TATAAATTTTTATAATTTTT
74405284 AAAATATTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
27 18 0.47
28 20 0.53
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (27 bp):
TATAAATTTTTATAATTTTTTAGAAAA
Found at i:74405321 original size:17 final size:17
Alignment explanation
Indices: 74405277--74405321 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
74405267 TAAATTTTAG
74405277 AATTTTTAAAATATTTT
1 AATTTTTAAAATATTTT
* **
74405294 AAATTAAAAAATATTTT
1 AATTTTTAAAATATTTT
74405311 AATTTTTAAAA
1 AATTTTTAAAA
74405322 ATTATTATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTTTAAAATATTTT
Found at i:74405422 original size:17 final size:18
Alignment explanation
Indices: 74405402--74405435 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74405392 GAAAATATAA
74405402 AATTT-AAAAATATTTTG
1 AATTTAAAAAATATTTTG
74405419 AATTTAAAAAATATTTT
1 AATTTAAAAAATATTTT
74405436 AATATTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AATTTAAAAAATATTTTG
Found at i:74411618 original size:1 final size:1
Alignment explanation
Indices: 74411614--74411640 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
74411604 TTCTTGTTCC
74411614 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
74411641 CCTCATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:74413013 original size:17 final size:18
Alignment explanation
Indices: 74412993--74413029 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
74412983 TAAAGTGTTC
74412993 TAATTACG-TCTTTAAAT
1 TAATTACGTTCTTTAAAT
*
74413010 TAATTACGTTTTTTAAAT
1 TAATTACGTTCTTTAAAT
74413028 TA
1 TA
74413030 TCAATGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (18 bp):
TAATTACGTTCTTTAAAT
Found at i:74414579 original size:13 final size:14
Alignment explanation
Indices: 74414561--74414591 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
74414551 ATGTATGAAT
74414561 ATATACATATA-TA
1 ATATACATATATTA
74414574 ATATACATATATTA
1 ATATACATATATTA
74414588 ATAT
1 ATAT
74414592 TGATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:74415728 original size:23 final size:23
Alignment explanation
Indices: 74415681--74415752 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
74415671 TACGAGGACT
* *
74415681 GTGGCGGTATGGGG-TTGTTGCA
1 GTGGGGGTATGGGGCTTGTTGTA
74415703 GTGGGGGTATGGGGCTTGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
*
74415726 GTGGGGGTATGGGGCTGGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
74415749 GTGG
1 GTGG
74415753 TTGCGGCACA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
22 13 0.28
23 33 0.72
ACGTcount: A:0.08, C:0.06, G:0.54, T:0.32
Consensus pattern (23 bp):
GTGGGGGTATGGGGCTTGTTGTA
Found at i:74416748 original size:2 final size:2
Alignment explanation
Indices: 74416741--74416767 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
74416731 AATTAACTTT
74416741 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
74416768 TCTATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:74417618 original size:2 final size:2
Alignment explanation
Indices: 74417611--74417637 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
74417601 TTTAGAATAA
74417611 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
74417638 AAATAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74423499 original size:2 final size:2
Alignment explanation
Indices: 74423492--74423535 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
74423482 CTCAAACATC
*
74423492 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74423534 AT
1 AT
74423536 GCACACCGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:74424123 original size:3 final size:3
Alignment explanation
Indices: 74424111--74424145 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
74424101 TATCCTCCAT
*
74424111 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
74424146 GTATCCACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:74426978 original size:23 final size:25
Alignment explanation
Indices: 74426948--74426998 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
74426938 AAGTGATTAA
74426948 ATAATAATCT-A-AACAAATTAAAT
1 ATAATAATCTCACAACAAATTAAAT
* *
74426971 ATAATAATTTCACAACAATTTAAAT
1 ATAATAATCTCACAACAAATTAAAT
74426996 ATA
1 ATA
74426999 CCTAATAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.38
24 1 0.04
25 14 0.58
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (25 bp):
ATAATAATCTCACAACAAATTAAAT
Found at i:74428465 original size:20 final size:20
Alignment explanation
Indices: 74428442--74428479 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
74428432 AATTCAATTA
* *
74428442 TTTCTTTAAAATTTCAAAGT
1 TTTCTTAAAAAATTCAAAGT
74428462 TTTCTTAAAAAATTCAAA
1 TTTCTTAAAAAATTCAAA
74428480 ATTTCAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (20 bp):
TTTCTTAAAAAATTCAAAGT
Found at i:74428484 original size:19 final size:20
Alignment explanation
Indices: 74428441--74428484 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
74428431 GAATTCAATT
* *
74428441 ATTTCTTTAAAATTTCAAAG
1 ATTTCTTAAAAAATTCAAAG
*
74428461 TTTTCTTAAAAAATTCAAA-
1 ATTTCTTAAAAAATTCAAAG
74428480 ATTTC
1 ATTTC
74428485 AATAATAGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTCTTAAAAAATTCAAAG
Found at i:74432249 original size:17 final size:19
Alignment explanation
Indices: 74432227--74432261 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
74432217 GAAAAATAGT
74432227 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
74432244 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
74432262 TTCAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:74433604 original size:55 final size:49
Alignment explanation
Indices: 74433522--74433641 Score: 132
Period size: 50 Copynumber: 2.3 Consensus size: 49
74433512 TGTATCATAA
* *
74433522 AAAAATAAATTTAAAACAAATTAAAAAAACTTCAACTTCCTAAAAATAATTGAAAT
1 AAAAAT-AATTT-AAACAAACT-AAAAAA-TCCAACTTCC--AAAA-AATTGAAAT
*
74433578 AAAAATATATTTAAACAAACTAAAAAATCCAACTTCCAAAAAATTTAAAT
1 AAAAATA-ATTTAAACAAACTAAAAAATCCAACTTCCAAAAAATTGAAAT
*
74433628 AAAACTAATTTAAA
1 AAAAATAATTTAAA
74433642 AATAAATACT
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
49 7 0.12
50 14 0.24
51 4 0.07
53 9 0.15
54 6 0.10
55 9 0.15
56 10 0.17
ACGTcount: A:0.61, C:0.12, G:0.01, T:0.27
Consensus pattern (49 bp):
AAAAATAATTTAAACAAACTAAAAAATCCAACTTCCAAAAAATTGAAAT
Found at i:74437058 original size:32 final size:31
Alignment explanation
Indices: 74437011--74437074 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 31
74437001 TTTTTTTTTT
* *
74437011 AAATTTTCAATTAAGCCCCCCATTTTTTTAAAA
1 AAATTGTCAATTAAG--CCCCAATTTTTTAAAA
74437044 AAATTGTCAA-TAAGCCCCAATTTTTTAAAA
1 AAATTGTCAATTAAGCCCCAATTTTTTAAAA
74437074 A
1 A
74437075 TTTTAATTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 16 0.55
32 4 0.14
33 9 0.31
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.36
Consensus pattern (31 bp):
AAATTGTCAATTAAGCCCCAATTTTTTAAAA
Found at i:74447854 original size:24 final size:25
Alignment explanation
Indices: 74447809--74447862 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 25
74447799 GAGCATTAAA
74447809 CAACTCACTAACAAAAAAAGATGTT
1 CAACTCACTAACAAAAAAAGATGTT
74447834 CAACTCACTAAC-AAAAAAGATGTT
1 CAACTCACTAACAAAAAAAGATGTT
74447858 CAACT
1 CAACT
74447863 TTTCGTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.50, C:0.22, G:0.07, T:0.20
Consensus pattern (25 bp):
CAACTCACTAACAAAAAAAGATGTT
Found at i:74448854 original size:22 final size:23
Alignment explanation
Indices: 74448828--74448889 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
74448818 TTATTATTAA
74448828 AAATAATTTAATAATAAAT-AAT
1 AAATAATTTAATAATAAATAAAT
74448850 AAATAATTTAATAA-AAATAAAAAT
1 AAATAATTTAATAATAAAT--AAAT
*
74448874 ATATAATTTAATAATA
1 AAATAATTTAATAATA
74448890 TTTTTAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
21 4 0.11
22 14 0.40
24 16 0.46
25 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATAATTTAATAATAAATAAAT
Found at i:74448880 original size:19 final size:21
Alignment explanation
Indices: 74448825--74448874 Score: 84
Period size: 22 Copynumber: 2.4 Consensus size: 21
74448815 GAGTTATTAT
74448825 TAAAAATAATTTAATAATAAA
1 TAAAAATAATTTAATAATAAA
74448846 TAATAAATAATTTAATAA-AAA
1 TAA-AAATAATTTAATAATAAA
74448867 TAAAAATA
1 TAAAAATA
74448875 TATAATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.18
21 9 0.32
22 14 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAAATAATTTAATAATAAA
Found at i:74448931 original size:32 final size:32
Alignment explanation
Indices: 74448895--74448999 Score: 99
Period size: 37 Copynumber: 3.2 Consensus size: 32
74448885 TAATATTTTT
74448895 AATATAATTATTTTTATATTAATTTATATTAAA
1 AATATAATTATTTTTATATTAATTTATATT-AA
*
74448928 ATATGATTAAGTTATTTTT-TATTAAATTATATTTTAA
1 A-AT-A-TAA-TTATTTTTATATT-AATT-TATATTAA
* *
74448965 AAT-TAAATA-TTTTATATTAAATTATATTAA
1 AATATAATTATTTTTATATTAATTTATATTAA
74448995 AATAT
1 AATAT
74449000 TTTAAATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
30 10 0.17
31 8 0.13
32 6 0.10
33 4 0.07
34 2 0.03
35 1 0.02
36 9 0.15
37 15 0.25
38 5 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (32 bp):
AATATAATTATTTTTATATTAATTTATATTAA
Found at i:74448985 original size:14 final size:15
Alignment explanation
Indices: 74448956--74448997 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
74448946 TTATTAAATT
74448956 ATATTTTAAAATTAA
1 ATATTTTAAAATTAA
*
74448971 ATATTTT-ATATTAA
1 ATATTTTAAAATTAA
*
74448985 ATTATATTAAAAT
1 A-TATTTTAAAAT
74448998 ATTTTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTTAAAATTAA
Found at i:74450680 original size:30 final size:30
Alignment explanation
Indices: 74450646--74450708 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
74450636 ATTTATTTTA
74450646 TTGTTAATTTTCATATTATTTTA-AAGGCAT
1 TTGTTAATTTTCATATTATTTTAGAA-GCAT
**
74450676 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCATATTATTTTAGAAGCAT
74450706 TTG
1 TTG
74450709 CTTTTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTCATATTATTTTAGAAGCAT
Found at i:74450845 original size:10 final size:10
Alignment explanation
Indices: 74450830--74450854 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
74450820 TATATATATT
74450830 TAAAATAATA
1 TAAAATAATA
74450840 TAAAATAATA
1 TAAAATAATA
74450850 TAAAA
1 TAAAA
74450855 AATTAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAATAATA
Found at i:74453519 original size:16 final size:16
Alignment explanation
Indices: 74453498--74453532 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
74453488 AAACCCTAAA
74453498 TTTTCC-TTTTCTTCTC
1 TTTTCCTTTTTCTT-TC
74453514 TTTTCCTTTTTCTTTC
1 TTTTCCTTTTTCTTTC
74453530 TTT
1 TTT
74453533 CTTTCCCTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTCCTTTTTCTTTC
Found at i:74455933 original size:14 final size:14
Alignment explanation
Indices: 74455886--74455936 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
74455876 TGTTTTGAGA
74455886 TGATTAT-TTGAAT
1 TGATTATATTGAAT
74455899 TGAATTGAATATTGATTAT
1 TG-ATT--ATATTGA--AT
74455918 TGATTATATTGAAT
1 TGATTATATTGAAT
74455932 TGATT
1 TGATT
74455937 TATGAATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 2 0.06
14 10 0.31
16 9 0.28
17 4 0.12
18 3 0.09
19 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (14 bp):
TGATTATATTGAAT
Found at i:74456126 original size:16 final size:16
Alignment explanation
Indices: 74456105--74456138 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
74456095 ATATATAGTT
74456105 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
74456121 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
74456137 AA
1 AA
74456139 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:74456352 original size:44 final size:45
Alignment explanation
Indices: 74456261--74456370 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 45
74456251 CGACTACTGT
* * *
74456261 TACTGTTACCGTTACTATTACCGATTCTGCACTTTGTGTGTCAAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCAAA
* * **
74456306 TACTGTTACTGTTACCGTTATC-ATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCAAA
*
74456350 TACTATTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
74456371 TGTTACTGTT
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 37 0.67
45 18 0.33
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCAAA
Found at i:74456364 original size:6 final size:6
Alignment explanation
Indices: 74456350--74456383 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
74456340 GTGTGTTGAA
*
74456350 TACTAT TACTGT TACTGT TACTGT TACTGT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACT
74456384 ATTCCGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:74456999 original size:16 final size:15
Alignment explanation
Indices: 74456973--74457007 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
74456963 TGATGTGAAT
74456973 AATATAAAATATTAA
1 AATATAAAATATTAA
*
74456988 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
74457004 AATA
1 AATA
74457008 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:74457198 original size:24 final size:24
Alignment explanation
Indices: 74457137--74457222 Score: 61
Period size: 24 Copynumber: 3.5 Consensus size: 24
74457127 TGTACATATA
* * *
74457137 TAAAAAATAAATACGTGATA-ATAT
1 TAAAAAATACATACATAATATA-AT
** *
74457161 T-AAAAATATGTACA-AATATAGT
1 TAAAAAATACATACATAATATAAT
74457183 GTAAAAAATACATACATAATATAAT
1 -TAAAAAATACATACATAATATAAT
74457208 TAAAATATATACATA
1 TAAAA-A-ATACATA
74457223 AGATAACATG
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 4 0.08
23 12 0.25
24 17 0.35
25 8 0.17
26 7 0.15
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (24 bp):
TAAAAAATACATACATAATATAAT
Found at i:74457219 original size:22 final size:24
Alignment explanation
Indices: 74457187--74457253 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 24
74457177 TATAGTGTAA
*
74457187 AAAATACATACATAATATA-AT-T
1 AAAATATATACATAATATACATGT
*
74457209 AAAATATATACATAAGATAACATGT
1 AAAATATATACATAATAT-ACATGT
*
74457234 AAAATATATATATATATATA
1 AAAATATATACATA-ATATA
74457254 TAAATAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.43
23 1 0.03
24 2 0.05
25 15 0.41
26 3 0.08
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (24 bp):
AAAATATATACATAATATACATGT
Found at i:74457285 original size:25 final size:24
Alignment explanation
Indices: 74457249--74457349 Score: 91
Period size: 23 Copynumber: 4.3 Consensus size: 24
74457239 ATATATATAT
*
74457249 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
74457274 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * *
74457297 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * *
74457321 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATTAAG
74457343 ATATATA
1 ATATATA
74457350 TATATAATAT
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
22 3 0.05
23 37 0.61
24 4 0.07
25 17 0.28
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Done.