Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 106 of 199
Found at i:30005780 original size:15 final size:15
Alignment explanation
Indices: 30005760--30005806 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
30005750 TATTTTAATG
*
30005760 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
30005775 TTTAGGGATTAT-GA
1 TTTAGGGATTATGGA
*
30005789 ATTAGGGATTATGG-
1 TTTAGGGATTATGGA
30005803 TTTA
1 TTTA
30005807 AGGGTTCGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:30005835 original size:7 final size:7
Alignment explanation
Indices: 30005825--30005873 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
30005815 AATTTAAGGT
30005825 TTAGGGG
1 TTAGGGG
30005832 TTAGGGG
1 TTAGGGG
30005839 TTTAGGGG
1 -TTAGGGG
**
30005847 TTAGATG
1 TTAGGGG
30005854 TTAGGGG
1 TTAGGGG
* *
30005861 TTAAGAG
1 TTAGGGG
30005868 TTAGGG
1 TTAGGG
30005874 ATTTAAGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:30005842 original size:15 final size:15
Alignment explanation
Indices: 30005821--30005888 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
30005811 TTCGAATTTA
30005821 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
30005836 GGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
30005851 ATG-TTAGGGGTTA-
1 AGGTTTAGGGGTTAG
*
30005864 AGAG-TTAGGGATTTA-
1 AG-GTTTAGGG-GTTAG
30005879 AGGTTTAGGG
1 AGGTTTAGGG
30005889 ATTCAGGGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
13 1 0.02
14 18 0.40
15 26 0.58
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (15 bp):
AGGTTTAGGGGTTAG
Found at i:30006673 original size:197 final size:198
Alignment explanation
Indices: 30006449--30007144 Score: 644
Period size: 204 Copynumber: 3.4 Consensus size: 198
30006439 ATTTTATAAA
* *
30006449 AAATCAATTTATAAAAAATAAAATAAAAAATTTTTAGAATAGCAAAACGGCTTCGTTTTATTCAA
1 AAATCAATTTATAAAAAA-AAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAA
*
30006514 AATGAAATAATTTAAGCAATAGCGACGTTTTTA-TAAAAAACGCCGCAAAAAATAAATCAATTTA
65 AATGAAATAATTTAAGCAATAGCGACG--TTAAGTAAAAAACGCCGCAAAAAATAAATCAATTTA
30006578 TAAAAAATAAAAAAAA-TTAGCATACCAAAACGGTGTCATTTTGATAAAAATGAAATAGCG-C-A
128 TAAAAAATAAAAAAAATTTAGCATACCAAAACGGTGTCATTTTGATAAAAATGAAATAGCGACGA
30006640 AAAAAT
193 AAAAAT
30006646 AAATCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAA
1 AAATCAATTTATAAAAAA-AAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAA
* * * * * *** *
30006711 AATGAAATAA--AAACGC--T-GCTAAAGGTAAGCAATAGTGGCGTCGCAAAAAATAAATCAATT
65 AATGAAATAATTTAA-GCAATAGC-GACGTTAAGTAA-A-AAACGCCGCAAAAAATAAATCAATT
*
30006771 TATAAAAAATAAAAAAAATTTAGCATACCAAGACGGTGTCATTTTGATAAAAATGAAATAGCGAC
126 TATAAAAAATAAAAAAAATTTAGCATACCAAAACGGTGTCATTTTGATAAAAATGAAATAGCGAC
*****
30006836 GTTTTTAT
191 GAAAAAAT
* * *** * *
30006844 AAA--AA--AACACCGCAAAAAATAAAAAATTTTTAGAATAGAAAAACGACGTCGTTTTGTTCAA
1 AAATCAATTTATA-AAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAA
** * * * * **
30006905 AATGAAATAATTTTGCGGCGTTTTAAAAACGCCGCTAAAGGTAAGCAACGCCGCAAAAAATAAAT
65 AATGAAATAA-TTT-AAGC-----AATAGCGACG-TTAA-GTAAAAAACGCCGCAAAAAATAAAT
*
30006970 CAATTTATAAAAAATAAAAAAAATTTAGCATACCAAAACGATGTCATTTTGATAAAAATGAAATA
121 CAATTTATAAAAAATAAAAAAAATTTAGCATACCAAAACGGTGTCATTTTGATAAAAATGAAATA
30007035 GCGGCGTTTTTATAAAAAATGCCGCAAAAAAT
186 ---GCG------------A---CG-AAAAAAT
*
30007067 AAATCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGAAAAACGGCGTCGTTTTGTTCAA
1 AAATCAATTTATAAAAAA-AAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAA
30007132 AATGAAATAATTT
65 AATGAAATAATTT
30007145 TGCGGCGTTT
Statistics
Matches: 397, Mismatches: 55, Indels: 65
0.77 0.11 0.13
Matches are distributed among these distances:
192 2 0.01
193 4 0.01
194 60 0.15
195 43 0.11
196 47 0.12
197 75 0.19
198 5 0.01
204 80 0.20
205 3 0.01
206 3 0.01
207 3 0.01
219 1 0.00
222 2 0.01
223 5 0.01
225 2 0.01
226 5 0.01
227 57 0.14
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.26
Consensus pattern (198 bp):
AAATCAATTTATAAAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
ATGAAATAATTTAAGCAATAGCGACGTTAAGTAAAAAACGCCGCAAAAAATAAATCAATTTATAA
AAAATAAAAAAAATTTAGCATACCAAAACGGTGTCATTTTGATAAAAATGAAATAGCGACGAAAA
AAT
Found at i:30006718 original size:85 final size:79
Alignment explanation
Indices: 30006557--30006719 Score: 209
Period size: 85 Copynumber: 2.0 Consensus size: 79
30006547 TAAAAAACGC
* * *
30006557 CGCAAAAAATAAATCAATTTATAAAAAATAAAAAAAATTAGCATACCAAAACGGTGTCATTTTGA
1 CGCAAAAAATAAATCAATTTATAAAAAAAAAAAAAAATTAGAATACCAAAACGGCGTCATTTTGA
30006622 TAAAAATGAAATAG
66 TAAAAATGAAATAG
* *
30006636 CGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCG
1 CGCAAAAAATAAATCAATTTAT-AAAAA-AAAA-AAAAAA---TTAGAATACCAAAACGGCGTCA
* *
30006701 TTTTGTTCAAAATGAAATA
60 TTTTGATAAAAATGAAATA
30006720 AAAACGCTGC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
79 22 0.31
80 5 0.07
81 3 0.04
82 6 0.08
85 35 0.49
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.25
Consensus pattern (79 bp):
CGCAAAAAATAAATCAATTTATAAAAAAAAAAAAAAATTAGAATACCAAAACGGCGTCATTTTGA
TAAAAATGAAATAG
Found at i:30007134 original size:106 final size:101
Alignment explanation
Indices: 30006954--30007140 Score: 248
Period size: 106 Copynumber: 1.8 Consensus size: 101
30006944 GGTAAGCAAC
* * * *
30006954 GCCGCAAAAAATAAATCAATTTATAAAAAATAAAAAAAATTTAGCATACCAAAACGATGTCATTT
1 GCCGCAAAAAATAAATCAATTTATAAAAAAAAAAAAAAATTTAGAATACAAAAACGACGTCATTT
30007019 TGATAAAAATGAAATAGCGGCGTTTTTATAAAAAAT
66 TGATAAAAATGAAATAGCGGCGTTTTTATAAAAAAT
* *
30007055 GCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGAAAAACGGCGT
1 GCCGCAAAAAATAAATCAATTTAT-AAAAA-AAAA-AAAAAA--TTTAGAATACAAAAACGACGT
* * *
30007120 CGTTTTGTTCAAAATGAAATA
61 CATTTTGATAAAAATGAAATA
30007141 ATTTTGCGGC
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
101 24 0.33
102 5 0.07
103 3 0.04
104 6 0.08
106 34 0.47
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (101 bp):
GCCGCAAAAAATAAATCAATTTATAAAAAAAAAAAAAAATTTAGAATACAAAAACGACGTCATTT
TGATAAAAATGAAATAGCGGCGTTTTTATAAAAAAT
Found at i:30007191 original size:151 final size:150
Alignment explanation
Indices: 30007031--30007394 Score: 565
Period size: 151 Copynumber: 2.5 Consensus size: 150
30007021 ATAAAAATGA
* *
30007031 AATAGCGGCGTTTTTATAAAAAATGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAA
1 AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAA
* **
30007096 ATTTTTAGAATAGAAAAACGGCGTCGTTTTGTTCAAAATGAAATAATTTTGCGGCGTTTTTGTGA
66 ATTTTTAGAATAGAAAAACGGCGTCGTTTTGTTCAAAATGAAATAATTTTGCGACGTTTTT-ACA
*
30007161 AAAACGCCGCTAAAGGTAAGC
130 AAAACGCAGCTAAAGGTAAGC
30007182 AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAA
1 AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAA
30007247 ATTTTTAGAATAGAAAAACGGCGTCGTTTTGTTCAAAATGAAATAATTTTGCGACGTTTTTACAA
66 ATTTTTAGAATAGAAAAACGGCGTCGTTTTGTTCAAAATGAAATAATTTTGCGACGTTTTTACAA
*
30007312 AATCGCAGCTAAAGGTAAGC
131 AAACGCAGCTAAAGGTAAGC
30007332 -A-A----------TATAAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAATAAAATAAAAA
1 AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAA
30007384 ATTTTTAGAAT
66 ATTTTTAGAAT
30007395 GGCAAAATGA
Statistics
Matches: 206, Mismatches: 7, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
137 46 0.22
138 15 0.07
148 1 0.00
149 1 0.00
150 20 0.10
151 123 0.60
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (150 bp):
AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAA
ATTTTTAGAATAGAAAAACGGCGTCGTTTTGTTCAAAATGAAATAATTTTGCGACGTTTTTACAA
AAACGCAGCTAAAGGTAAGC
Found at i:30007679 original size:3 final size:3
Alignment explanation
Indices: 30007671--30007699 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30007661 CATCTCCTCT
30007671 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
30007700 TTTATATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:30009300 original size:17 final size:17
Alignment explanation
Indices: 30009261--30009299 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
30009251 TAATTTATTT
30009261 ATTTTTATTATTTTAGA
1 ATTTTTATTATTTTAGA
30009278 ATTTTTA-TATTTATA-A
1 ATTTTTATTATTT-TAGA
30009294 ATTTTT
1 ATTTTT
30009300 TCCTTATCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTTTTATTATTTTAGA
Found at i:30012245 original size:43 final size:43
Alignment explanation
Indices: 30012182--30012408 Score: 310
Period size: 43 Copynumber: 5.3 Consensus size: 43
30012172 ATTTGTTCCA
* *
30012182 TAGCGGCGTTTGTGATAAAAAGCGCCGCTAAAGGTCATGGTTTT
1 TAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGGTCATGGTCTT
* * * *
30012226 TAGCGGCGTTTATGGAAAAAGCGCCGCCAATGGTCATTGTCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTT
* *
30012269 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTT
* *
30012312 TAGTGGCGTTTGTGGAAAATGCGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTT
* * **
30012355 TAGTGGCGTTTGTGGAAGAAGCGCCGCTAAAGGTCATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTT
*
30012398 TAGTGGCGTTT
1 TAGCGGCGTTT
30012409 ATTTTCTAAA
Statistics
Matches: 163, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
43 150 0.92
44 13 0.08
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTT
Found at i:30016971 original size:20 final size:18
Alignment explanation
Indices: 30016938--30016975 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
30016928 ATTAAATTTT
30016938 AATTAATATAAATAGACA
1 AATTAATATAAATAGACA
30016956 AATTAAATAGTAAATAGACA
1 AATT-AATA-TAAATAGACA
30016976 GATAAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (18 bp):
AATTAATATAAATAGACA
Found at i:30016983 original size:20 final size:19
Alignment explanation
Indices: 30016942--30016983 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
30016932 AATTTTAATT
*
30016942 AATATAAATAGACAAATTA
1 AATATAAATAGACAAATAA
*
30016961 AATAGTAAATAGACAGATAA
1 AATA-TAAATAGACAAATAA
30016981 AAT
1 AAT
30016984 GTTTTTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (19 bp):
AATATAAATAGACAAATAA
Found at i:30017056 original size:41 final size:40
Alignment explanation
Indices: 30016998--30017222 Score: 333
Period size: 41 Copynumber: 5.5 Consensus size: 40
30016988 TTGCAATGCT
* ** *
30016998 TTTTCAAAAAAGCCGCTAAAGCCCCGAGCATTAGCGGCGC
1 TTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC
*
30017038 TTTTCTAAAAACGGCGCTAAAGATCTGAGCATTAGCGGCGC
1 TTTTC-AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC
*
30017079 TTTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGACGC
1 TTTT-CAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC
30017120 TTCTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC
1 TT-TTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC
*
30017161 TTCTTCAAAAACGCCGCTAAAGATCTAAGCATTAGCGGCGC
1 TT-TTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC
*
30017202 TTTTTCAAAAACGCCGTTAAA
1 -TTTTCAAAAACGCCGCTAAA
30017223 AGACTGTTTT
Statistics
Matches: 171, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
40 5 0.03
41 161 0.94
42 5 0.03
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (40 bp):
TTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC
Found at i:30027880 original size:17 final size:16
Alignment explanation
Indices: 30027848--30027881 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30027838 AACTGAAACT
*
30027848 AAAAAAACAAATAAGA
1 AAAAAAACAAAGAAGA
30027864 AAAAAAACAAAAGAAGA
1 AAAAAAAC-AAAGAAGA
30027881 A
1 A
30027882 TGGAACGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.82, C:0.06, G:0.09, T:0.03
Consensus pattern (16 bp):
AAAAAAACAAAGAAGA
Found at i:30030274 original size:94 final size:94
Alignment explanation
Indices: 30030164--30030391 Score: 325
Period size: 94 Copynumber: 2.4 Consensus size: 94
30030154 AATTACCCGA
* * * *
30030164 AGTATGTATGTATTGATAACTTGTTGAGACCAAATGTTGAGCAATTATAACTTATATTCTACGAG
1 AGTAAGTATGTATTGATAAATTGTTGAGACCAAATGTTGAGCAATTATAACTTATATCCTAAGAG
30030229 TTGAAG-GAAGAATA-CTATAAATACTGAGG
66 TTG-AGCGAAGAATATC-ATAAATACTGAGG
* * ***
30030258 AGTCAGTATGTATTGATAAAATGTTGAGACCAAATGTTGAGCAATTATGGGTTATATCCTAAGAG
1 AGTAAGTATGTATTGATAAATTGTTGAGACCAAATGTTGAGCAATTATAACTTATATCCTAAGAG
*
30030323 TTGAGCGAAGAATATCATAATTACTGAGG
66 TTGAGCGAAGAATATCATAAATACTGAGG
*
30030352 AGTAAGTATGTATTAATAAATTGTTGAGACCAAATGTTGA
1 AGTAAGTATGTATTGATAAATTGTTGAGACCAAATGTTGA
30030392 TATTTTAATT
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
93 2 0.02
94 116 0.97
95 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.32
Consensus pattern (94 bp):
AGTAAGTATGTATTGATAAATTGTTGAGACCAAATGTTGAGCAATTATAACTTATATCCTAAGAG
TTGAGCGAAGAATATCATAAATACTGAGG
Found at i:30030556 original size:26 final size:28
Alignment explanation
Indices: 30030527--30030581 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
30030517 TTGTTTATAC
*
30030527 TTAAATTTTAA-TAAAA-ATTTAAAATA
1 TTAAATTTAAATTAAAACATTTAAAATA
*
30030553 TTAAATTTAAATTAAAACATTTTAAATA
1 TTAAATTTAAATTAAAACATTTAAAATA
30030581 T
1 T
30030582 ATATATAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.40
27 5 0.20
28 10 0.40
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
TTAAATTTAAATTAAAACATTTAAAATA
Found at i:30031501 original size:16 final size:14
Alignment explanation
Indices: 30031463--30031496 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30031453 TTATAAAACA
*
30031463 TTATAAATATATAT
1 TTATAACTATATAT
*
30031477 TTATTACTATATAT
1 TTATAACTATATAT
30031491 TTATAA
1 TTATAA
30031497 AACTAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATAACTATATAT
Found at i:30036551 original size:165 final size:165
Alignment explanation
Indices: 30036290--30036678 Score: 518
Period size: 165 Copynumber: 2.4 Consensus size: 165
30036280 TTTAATACTC
* * * * * * *
30036290 GTTGATCATTATAATTATTCTTCTTATGTTTTTTTACCAGCTATTCTT-CTC-AAAGTT-AAGGG
1 GTTGATCTTTATAAATATTCTTCTTAT-ATTTTTTACCAGTTGTTCTTACTCTAGAGTTGAAGAG
* * *
30036352 AATAACACCTTAATTATCGGGAGATAAGTATGTATTGATAACTTGTTGAAACCAAATGTTAAGTA
65 AATAACACCTTAATTATCGGCAAATAAGTATGTATTGATAACTTGTTGAAACCAAATGTTAAGCA
30036417 ATTGTGGTTTATATTCAGAGACATATGTTCCTTCAT
130 ATTGTGGTTTATATTCAGAGACATATGTTCCTTCAT
* *
30036453 GTTGATCTTTATAAATATTATTCTTATACTTTTTTACCAGTTGTTCTTAATCTAGAGTTGAA-AG
1 GTTGATCTTTATAAATATTCTTCTTATA-TTTTTTACCAGTTGTTCTTACTCTAGAGTTGAAGAG
* * *
30036517 AATAATACCTTAATTATC-GCACAATAAGTATGTATTGATAACTTGTTGAGACCAAATGTTGAGC
65 AATAACACCTTAATTATCGGCA-AATAAGTATGTATTGATAACTTGTTGAAACCAAATGTTAAGC
**
30036581 AATTGTGGTTTATATTTTGAGACATATGTTCCTTCAT
129 AATTGTGGTTTATATTCAGAGACATATGTTCCTTCAT
* * * *
30036618 GTTTATTTTTATAAATATTCGTCTTATATTCTTTTACTAGTTGTTCTTACTCTAGAGTTGA
1 GTTGATCTTTATAAATATTCTTCTTATATT-TTTTACCAGTTGTTCTTACTCTAGAGTTGA
30036679 GGGAAGAAGA
Statistics
Matches: 197, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
163 41 0.21
164 6 0.03
165 148 0.75
166 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (165 bp):
GTTGATCTTTATAAATATTCTTCTTATATTTTTTACCAGTTGTTCTTACTCTAGAGTTGAAGAGA
ATAACACCTTAATTATCGGCAAATAAGTATGTATTGATAACTTGTTGAAACCAAATGTTAAGCAA
TTGTGGTTTATATTCAGAGACATATGTTCCTTCAT
Found at i:30037624 original size:328 final size:324
Alignment explanation
Indices: 30036852--30037726 Score: 1185
Period size: 324 Copynumber: 2.7 Consensus size: 324
30036842 TTCCTTTACA
* * *
30036852 TTGATCATTATAAATATTCTTGTTATATTTTTTTACCAGTTGTTCTTGCCCTAGGGTTGAGGGAA
1 TTGATCATTATAAATATTCTTCTTAT-GTTTTTTACCAGTTGTTCTTGCCCTAGAGTTGAGGGAA
* * * * * * *
30036917 TAATACCATACTTACCGTGCGGTATGTATATATTTAAAACTTGTTGAGACCAAATGTTGAGCAAT
65 TAATACCTTAATTACAGCGCGGTAAGTATATATTGATAACTTGTTGAGACCAAATGTTGAGCAAT
* * * * *
30036982 TGAGGTTTATATTCGAAGACATGCATTCCTTCATGTTGGTCATTATAAATATTCTTCTTATTTTT
130 TGTGGTTTATATTCCAAGACATACGTTCCTTCATGTTGATCATTATAAATATTCTTCTTATTTTT
* * * * *
30037047 TTTACCAGTTATTATTGCTCTAGAGTTGAGGGAATAATGCCTTAATTACAGCGCGGTATGTATTG
195 TTTACCAGTTGTTCTTGCTCTAGAGTTGAGGGAATAATACCTTAATTACAGCACGGTATCTATTG
* * * * * * *
30037112 ATAACTTGTTAAGACCAGATTTTGAGCAATTGTAGTTTATATTCTAATACATACATTCTTTCACG
260 ATAACTTCTTAAGACAAAATGTTGAACAATAGTAGTTTATATTCTAAGACATACATTCTTTCACG
*
30037177 TTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTTGCCCAAGAGTTGAGGGAAT
1 TTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTTGCCCTAGAGTTGAGGGAAT
* * * * * *
30037242 AATACCTTAAGTACAGCACGGTAAGTATCTATTGATAACTTCTTGAGACCAAATGTTGAACAATA
66 AATACCTTAATTACAGCGCGGTAAGTATATATTGATAACTTGTTGAGACCAAATGTTGAGCAATT
* * *
30037307 GTGGTTTATATTCTAAGACATACGTTCTTTCATGTTGATCATTATAAATATTCTTCTTATATTTT
131 GTGGTTTATATTCCAAGACATACGTTCCTTCATGTTGATCATTATAAATATTCTTCTTATTTTTT
* * *
30037372 TTACCTGTTGTTCTTGCCCAAGAGTTGAGGGAATAATACCTTAATTACAGCACGGTAAGTATCTA
196 TTACCAGTTGTTCTTGCTCTAGAGTTGAGGGAATAATACCTTAATTACAGCAC-G---GTATCTA
* * * **
30037437 TTTATAACTTCTTGAGACAAAATGTTGAACAATAGTGGTTTATATTCTAAGACATATGTTCTTTC
257 TTGATAACTTCTTAAGACAAAATGTTGAACAATAGTAGTTTATATTCTAAGACATACATTCTTTC
*
30037502 ATG
322 ACG
* *
30037505 TTGATCATTATAAATATTCTTCTTATGCTTTTTACCAGTTGTTCTTACCCCTAGAGTTGAGGGAA
1 TTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTT-GCCCTAGAGTTGAGGGAA
* * *
30037570 TAATACCTTAATTACTGCGCGGTAAGTAT-GATTGATAACTTGTTGAGACCAAATGTTGAGCATT
65 TAATACCTTAATTACAGCGCGGTAAGTATATATTGATAACTTGTTGAGACCAAATGTTGAGCAAT
* * * *
30037634 TGTGGTTTATATTCCAAGACATATGTTCCTTCACGTTAATCTTTATAAATATTCTTCTTATGTTT
130 TGTGGTTTATATTCCAAGACATACGTTCCTTCATGTTGATCATTATAAATATTCTTCTTAT-TTT
30037699 TTTTACCAGTTGTTCTTGCTCTAGAGTT
194 TTTTACCAGTTGTTCTTGCTCTAGAGTT
30037727 TATGGAAGAA
Statistics
Matches: 478, Mismatches: 66, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
324 192 0.40
325 26 0.05
328 191 0.40
329 69 0.14
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (324 bp):
TTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTTGCCCTAGAGTTGAGGGAAT
AATACCTTAATTACAGCGCGGTAAGTATATATTGATAACTTGTTGAGACCAAATGTTGAGCAATT
GTGGTTTATATTCCAAGACATACGTTCCTTCATGTTGATCATTATAAATATTCTTCTTATTTTTT
TTACCAGTTGTTCTTGCTCTAGAGTTGAGGGAATAATACCTTAATTACAGCACGGTATCTATTGA
TAACTTCTTAAGACAAAATGTTGAACAATAGTAGTTTATATTCTAAGACATACATTCTTTCACG
Found at i:30037748 original size:164 final size:165
Alignment explanation
Indices: 30036830--30037726 Score: 1155
Period size: 164 Copynumber: 5.5 Consensus size: 165
30036820 TAAATGTGAA
* * * * *
30036830 TAAGCACATTCGTTCCTTTACATTGATCATTATAAATATTCTTGTTATATTTTTTTACCAGTTGT
1 TAAG-ACATACGTTCCTTCACGTTGATCATTATAAATATTCTTCTTATGTTTTTTTACCAGTTGT
* * * * * * * * *
30036895 TCTTGCCCTAGGGTTGAGGGAATAATACCATACTTACCGTGCGGTATGTATATATTTAAAACTTG
65 TCTTGCCCTAGAGTTGAGGGAATAATACCTTAATTACAGCGCGGTAAGTATCTATTGATAACTTG
*
30036960 TTGAGACCAAATGTTGAGCAATTGAGGTTTATATTC
130 TTGAGACCAAATGTTGAGCAATTGTGGTTTATATTC
* * * * * *
30036996 GAAGACATGCATTCCTTCATGTTGGTCATTATAAATATTCTTCTTAT-TTTTTTTACCAGTTATT
1 TAAGACATACGTTCCTTCACGTTGATCATTATAAATATTCTTCTTATGTTTTTTTACCAGTTGTT
* * * *
30037060 ATTGCTCTAGAGTTGAGGGAATAATGCCTTAATTACAGCGC-G---GTATGTATTGATAACTTGT
66 CTTGCCCTAGAGTTGAGGGAATAATACCTTAATTACAGCGCGGTAAGTATCTATTGATAACTTGT
* * * *
30037121 TAAGACCAGATTTTGAGCAATTGTAGTTTATATTC
131 TGAGACCAAATGTTGAGCAATTGTGGTTTATATTC
* * *
30037156 TAATACATACATTCTTTCACGTTGATCATTATAAATATTCTTCTTATG-TTTTTTACCAGTTGTT
1 TAAGACATACGTTCCTTCACGTTGATCATTATAAATATTCTTCTTATGTTTTTTTACCAGTTGTT
* * * *
30037220 CTTGCCCAAGAGTTGAGGGAATAATACCTTAAGTACAGCACGGTAAGTATCTATTGATAACTTCT
66 CTTGCCCTAGAGTTGAGGGAATAATACCTTAATTACAGCGCGGTAAGTATCTATTGATAACTTGT
* *
30037285 TGAGACCAAATGTTGAACAATAGTGGTTTATATTC
131 TGAGACCAAATGTTGAGCAATTGTGGTTTATATTC
* * * *
30037320 TAAGACATACGTTCTTTCATGTTGATCATTATAAATATTCTTCTTAT-ATTTTTTACCTGTTGTT
1 TAAGACATACGTTCCTTCACGTTGATCATTATAAATATTCTTCTTATGTTTTTTTACCAGTTGTT
* * * *
30037384 CTTGCCCAAGAGTTGAGGGAATAATACCTTAATTACAGCACGGTAAGTATCTATTTATAACTTCT
66 CTTGCCCTAGAGTTGAGGGAATAATACCTTAATTACAGCGCGGTAAGTATCTATTGATAACTTGT
* * *
30037449 TGAGACAAAATGTTGAACAATAGTGGTTTATATTC
131 TGAGACCAAATGTTGAGCAATTGTGGTTTATATTC
* * * *
30037484 TAAGACATATGTTCTTTCATGTTGATCATTATAAATATTCTTCTTATG-CTTTTTACCAGTTGTT
1 TAAGACATACGTTCCTTCACGTTGATCATTATAAATATTCTTCTTATGTTTTTTTACCAGTTGTT
* * *
30037548 CTTACCCCTAGAGTTGAGGGAATAATACCTTAATTACTGCGCGGTAAGTAT-GATTGATAACTTG
66 CTT-GCCCTAGAGTTGAGGGAATAATACCTTAATTACAGCGCGGTAAGTATCTATTGATAACTTG
*
30037612 TTGAGACCAAATGTTGAGCATTTGTGGTTTATATTC
130 TTGAGACCAAATGTTGAGCAATTGTGGTTTATATTC
* * * *
30037648 CAAGACATATGTTCCTTCACGTTAATCTTTATAAATATTCTTCTTATGTTTTTTTACCAGTTGTT
1 TAAGACATACGTTCCTTCACGTTGATCATTATAAATATTCTTCTTATGTTTTTTTACCAGTTGTT
*
30037713 CTTGCTCTAGAGTT
66 CTTGCCCTAGAGTT
30037727 TATGGAAGAA
Statistics
Matches: 647, Mismatches: 75, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
160 137 0.21
161 1 0.00
163 1 0.00
164 408 0.63
165 97 0.15
166 3 0.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (165 bp):
TAAGACATACGTTCCTTCACGTTGATCATTATAAATATTCTTCTTATGTTTTTTTACCAGTTGTT
CTTGCCCTAGAGTTGAGGGAATAATACCTTAATTACAGCGCGGTAAGTATCTATTGATAACTTGT
TGAGACCAAATGTTGAGCAATTGTGGTTTATATTC
Found at i:30038823 original size:165 final size:165
Alignment explanation
Indices: 30038154--30039029 Score: 641
Period size: 165 Copynumber: 5.3 Consensus size: 165
30038144 ATTACCCGAG
* * * ** * * *
30038154 GTTGAGACCAAATGTGGGGAAATTGTGGTTTATATTACGAGGCATACGTTCCTTCACGTTGATCA
1 GTTGAGACCAAATGTTGAGCAATTGTGGTTTATATTTTGAGACATACGTTCTTTCATGTTGATCA
* * * * ** * * * * * * *
30038219 TTATAAATCTTCTTCTAATGTTTTTTTTTCCAATTATTCTCACTCAAGTGTTGTGAGAAGGATAG
66 TTATAAATCTTCTTCTTATG-TTTTTTTACCAGTTGTTCTTTCTCCAGAGTTGAGGGAAGAAGAA
* * * * * * *
30038284 CGTAAGTATTGCGCGATAAGTATGTATTGATGACTT
130 AGTAATTAATCCGAGGTAAGTATGTATTGATAACTT
* * * * * * * *
30038320 ATTGAGACCAAATGTTGAGCAATTCTGGTTTATATTTCGAGGCATATGTTCCTTCATATTGATTA
1 GTTGAGACCAAATGTTGAGCAATTGTGGTTTATATTTTGAGACATACGTTCTTTCATGTTGATCA
* * * * * * *
30038385 TTATAAATCTTCTGCTAATG-TTTTTTGCTAGATCTTCTTTCTCCAGAGTTGAGGCAAGAAGAAA
66 TTATAAATCTTCTTCTTATGTTTTTTTACCAGTTGTTCTTTCTCCAGAGTTGAGGGAAGAAGAAA
* * * *
30038449 GTAATTAATCTGGGGTAAATATGCATTGATAACTT
131 GTAATTAATCCGAGGTAAGTATGTATTGATAACTT
* * * ** ***
30038484 GTTGAGACCAAATATTAAGCAAATT-TGGTTTATATTCTGCTA-ATGTTTTTTGCTAGATCTTCA
1 GTTGAGACCAAATGTTGAGC-AATTGTGGTTTATATTTTG--AGACATACGTT-C----T-TTCA
* * * *
30038547 TATTGATCATTGTAAAGCTTCTTCTTTTTATG-TTTTTTACCAGTTGTTCTTTCTCCAGAGTGGA
57 TGTTGATCATTATAAA---TCTTCTTCTTATGTTTTTTTACCAGTTGTTCTTTCTCCAGAGTTGA
* * ** * * *
30038611 GGGAATAA-TACCTAAATT-ATAGCGCA-GTCAGTATGTATAGATAACTT
119 GGGAAGAAGAAAGT-AATTAAT-CCG-AGGTAAGTATGTATTGATAACTT
*
30038658 GTTGAGACCAAATGTTGAGCAATTGTGGTTTATATTTTGAGACATACGTTCTTTCATGTTGATCT
1 GTTGAGACCAAATGTTGAGCAATTGTGGTTTATATTTTGAGACATACGTTCTTTCATGTTGATCA
* * *
30038723 TTATAAATATTTTTCTTATGTTTTTTTACCAGTTGTT-TTTGCTCAAGAGTTGAGGGAAGAAGAA
66 TTATAAATCTTCTTCTTATGTTTTTTTACCAGTTGTTCTTT-CTCCAGAGTTGAGGGAAGAAGAA
* **
30038787 AGTAATTAATCCGAGGTAAGTCTACATTGATAACTT
130 AGTAATTAATCCGAGGTAAGTATGTATTGATAACTT
* * * * *
30038823 GTTGAGACCAAATATTGAG-AGAATGTGATTTATATTTTGAGACATACATT-TCTTCATGTTGGT
1 GTTGAGACCAAATGTTGAGCA-ATTGTGGTTTATATTTTGAGACATACGTTCT-TTCATGTTGAT
* * * *
30038886 CGTTATAAATCTTCTTCTTA--TTTTTTTACCAGTTGTTCTTTCTCCAGAGTTGGGGGAATAATA
64 CATTATAAATCTTCTTCTTATGTTTTTTTACCAGTTGTTCTTTCTCCAGAGTTGAGGGAAGAAGA
* * * * **
30038949 CATTAATT-A--CGATGT-ACTATGTATTGACCACTT
129 AAGTAATTAATCCGAGGTAAGTATGTATTGATAACTT
* * *
30038982 GTTGAGACCAAATGTTGAGTAATTGTGGTTTATAATTCTAAGACATAC
1 GTTGAGACCAAATGTTGAGCAATTGTGGTTTAT-ATTTTGAGACATAC
30039030 ATTTTGTCTT
Statistics
Matches: 562, Mismatches: 121, Indels: 60
0.76 0.16 0.08
Matches are distributed among these distances:
159 40 0.07
160 18 0.03
162 1 0.00
163 41 0.07
164 102 0.18
165 134 0.24
166 80 0.14
167 17 0.03
168 1 0.00
171 18 0.03
172 2 0.00
173 12 0.02
174 96 0.17
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (165 bp):
GTTGAGACCAAATGTTGAGCAATTGTGGTTTATATTTTGAGACATACGTTCTTTCATGTTGATCA
TTATAAATCTTCTTCTTATGTTTTTTTACCAGTTGTTCTTTCTCCAGAGTTGAGGGAAGAAGAAA
GTAATTAATCCGAGGTAAGTATGTATTGATAACTT
Found at i:30042663 original size:23 final size:23
Alignment explanation
Indices: 30042637--30042689 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
30042627 CTATTAATAT
30042637 TGTAAGACCCCGAAAATTACTAC
1 TGTAAGACCCCGAAAATTACTAC
* *
30042660 TGTAATACCCTGAAAATTACTAC
1 TGTAAGACCCCGAAAATTACTAC
*
30042683 AGTAAGA
1 TGTAAGA
30042690 AAGTAGGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.25
Consensus pattern (23 bp):
TGTAAGACCCCGAAAATTACTAC
Found at i:30045159 original size:21 final size:21
Alignment explanation
Indices: 30045126--30045185 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
30045116 CCTAAACTCC
30045126 AAATCTATAAACCCTAAACCTT
1 AAATCT-TAAACCCTAAACCTT
*
30045148 AAATCTTAAACCTTAATA-CTT
1 AAATCTTAAACCCTAA-ACCTT
* *
30045169 AAGTCTCAAACCC-AAAC
1 AAATCTTAAACCCTAAAC
30045186 ACTGAACTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 22 0.69
22 7 0.22
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATCTTAAACCCTAAACCTT
Found at i:30045430 original size:28 final size:28
Alignment explanation
Indices: 30045399--30045454 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
30045389 AAATATTTGT
30045399 TTATAATTTAAAAAATTAATTATTTTAA
1 TTATAATTTAAAAAATTAATTATTTTAA
*
30045427 TTATAATTTAAAAAATTATTTATTTTAA
1 TTATAATTTAAAAAATTAATTATTTTAA
30045455 GTAATTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTATAATTTAAAAAATTAATTATTTTAA
Found at i:30045736 original size:6 final size:6
Alignment explanation
Indices: 30045725--30045750 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30045715 TTTTTAACTA
30045725 ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT AT
30045751 CACACCTTTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:30050758 original size:19 final size:19
Alignment explanation
Indices: 30050720--30050759 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
30050710 TAAACTTAAA
*
30050720 TATATATATTTAATTTTTT
1 TATATATATTTAATTATTT
30050739 TATATATATTT-ATTAATTT
1 TATATATATTTAATT-ATTT
30050758 TA
1 TA
30050760 AATTTTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATATATATTTAATTATTT
Found at i:30058063 original size:28 final size:28
Alignment explanation
Indices: 30058032--30058129 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 28
30058022 TTGCTTTCGA
30058032 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
30058060 CACTAAGTGTGCGAGTTTAATGGAAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
30058088 CACTAAGTGTGCGAGTTTGATTATTTAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
30058116 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
30058130 ACTTATTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:30058891 original size:25 final size:24
Alignment explanation
Indices: 30058863--30059145 Score: 186
Period size: 23 Copynumber: 12.0 Consensus size: 24
30058853 TTATGCTTAA
*
30058863 ATGCTGCACAATTTCTTGTATATAT
1 ATGCTGC-CAATTTGTTGTATATAT
30058888 ATGCTGCTCAATTTGTTGTATAT-T
1 ATGCTGC-CAATTTGTTGTATATAT
*
30058912 -TGCCGCCAATTTGTTGTATATA-
1 ATGCTGCCAATTTGTTGTATATAT
* * * *
30058934 A-GCTGTCCAATTTTTTGTGTAAAA
1 ATGCTG-CCAATTTGTTGTATATAT
30058958 ATGCTGCTCAATTTGTTGTATAT-T
1 ATGCTGC-CAATTTGTTGTATATAT
30058982 -TGCTGCCAATTTGTT-T-TATAT
1 ATGCTGCCAATTTGTTGTATATAT
* * * *
30059003 AAGCTGTCCAATTT-TTGGTGTAAAA
1 ATGCTG-CCAATTTGTT-GTATATAT
*
30059028 ATGCTGCTCAATTTGTTGTGTA-AT
1 ATGCTGC-CAATTTGTTGTATATAT
*
30059052 -TGCTGTCCAATTTGTTGTGTATA-
1 ATGCTG-CCAATTTGTTGTATATAT
* * *
30059075 A-GCTGTCCAATTTTGGTGCA-A-AA
1 ATGCTG-CCAA-TTTGTTGTATATAT
*
30059098 ATGCTGCTCAATATGTTG--TATAT
1 ATGCTGC-CAATTTGTTGTATATAT
*
30059121 ATGCTGCCTAAATTGTTGTATATAT
1 ATGCTGCC-AATTTGTTGTATATAT
30059146 GCTGTCCAAA
Statistics
Matches: 208, Mismatches: 24, Indels: 52
0.73 0.08 0.18
Matches are distributed among these distances:
20 3 0.01
21 2 0.01
22 36 0.17
23 83 0.40
24 21 0.10
25 61 0.29
26 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (24 bp):
ATGCTGCCAATTTGTTGTATATAT
Found at i:30058969 original size:70 final size:70
Alignment explanation
Indices: 30058888--30059174 Score: 423
Period size: 70 Copynumber: 4.1 Consensus size: 70
30058878 TTGTATATAT
* *
30058888 ATGCTGCTCAATTTGTTGTATATTTGCCGCCAATTTGTTGTATATAAGCTGTCCAATTTTTTGTG
1 ATGCTGCTCAATTTGTTGTATATTTGCTGCCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTG
30058953 TAAAA
66 TAAAA
*
30058958 ATGCTGCTCAATTTGTTGTATATTTGCTGCCAATTTGTTTTATATAAGCTGTCCAATTTTTGGTG
1 ATGCTGCTCAATTTGTTGTATATTTGCTGCCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTG
30059023 TAAAA
66 TAAAA
* * *
30059028 ATGCTGCTCAATTTGTTGTGTAATTGCTGTCCAATTTGTTGTGTATAAGCTGTCCAA-TTTTGGT
1 ATGCTGCTCAATTTGTTGTATATTTGCTG-CCAATTTGTTGTATATAAGCTGTCCAATTTTTGGT
*
30059092 GCAAAA
65 GTAAAA
* * * * *
30059098 ATGCTGCTCAATATGTTGTATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAAATTTTGGT
1 ATGCTGCTCAATTTGTTGTATATTTGCTGCC-AATTTGTTGTATATAAGCTGTCCAATTTTTGGT
*
30059163 GTGAAA
65 GTAAAA
*
30059169 TTGCTG
1 ATGCTG
30059175 TTTAGTTTGG
Statistics
Matches: 196, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
69 2 0.01
70 153 0.78
71 41 0.21
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (70 bp):
ATGCTGCTCAATTTGTTGTATATTTGCTGCCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTG
TAAAA
Found at i:30058972 original size:48 final size:47
Alignment explanation
Indices: 30058861--30059139 Score: 179
Period size: 47 Copynumber: 5.9 Consensus size: 47
30058851 TTTTATGCTT
* *
30058861 AAATGCTG-CACAATTTCTTGTATATATATGCTGCTCAATTTG-T-TGTAT
1 AAATGCTGTC-CAATTTGTTGTATATA-A-GCTGC-CAATTTGTTGTGTAA
** * *
30058909 ATTTGCCG-CCAATTTGTTGTATATAAGCTGTCCAATTTTTTGTGTAA
1 AAATGCTGTCCAATTTGTTGTATATAAGCTG-CCAATTTGTTGTGTAA
**
30058956 AAATGCTG-CTCAATTTGTTGTATATTTGCTGCCAATTTGTT-T-TATA
1 AAATGCTGTC-CAATTTGTTGTATATAAGCTGCCAATTTGTTGTGTA-A
* * *
30059002 TAA-GCTGTCCAATTT-TTGGTGTAAAAATGCTGCTCAATTTGTTGTGT--
1 AAATGCTGTCCAATTTGTT-GTAT-ATAA-GCTGC-CAATTTGTTGTGTAA
* * * *
30059049 AATTGCTGTCCAATTTGTTGTGTATAAGCTGTCCAATTT-TGGTGCAA
1 AAATGCTGTCCAATTTGTTGTATATAAGCTG-CCAATTTGTTGTGTAA
* * *
30059096 AAATGCTG-CTCAATATGTTGTATATATGCTGCCTAAATTGTTGT
1 AAATGCTGTC-CAATTTGTTGTATATAAGCTGCC-AATTTGTTGT
30059140 ATATATGCTG
Statistics
Matches: 183, Mismatches: 28, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
44 2 0.01
45 29 0.16
46 22 0.12
47 73 0.40
48 53 0.29
49 3 0.02
50 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (47 bp):
AAATGCTGTCCAATTTGTTGTATATAAGCTGCCAATTTGTTGTGTAA
Found at i:30059040 original size:95 final size:95
Alignment explanation
Indices: 30058861--30059050 Score: 219
Period size: 95 Copynumber: 2.0 Consensus size: 95
30058851 TTTTATGCTT
** *
30058861 AAATGCTGCACAATTTCTTGTATATATATGCTGCTCAATTTGTTGTATATTTGCCGCCAATTTGT
1 AAATGCTGCACAATTTCTTGTATATATATGCTGCTCAATTTGTTGTATATAAGCCGCCAATTTGG
* *
30058926 TGTATATAAGCTGTCCAATTTTTTGTGTAA
66 TGTATAAAAGCTGTCCAATTTGTTGTGTAA
* * * *
30058956 AAATGCTGCTCAATTTGTTGTATAT-T-TGCTGC-CAATTTGTTTTATATAAGCTGTCCAATTTT
1 AAATGCTGCACAATTTCTTGTATATATATGCTGCTCAATTTGTTGTATATAAGCCG-CCAA--TT
30059018 TGGTGTA-AAAATGCTG-CTCAATTTGTTGTGTAA
63 TGGTGTATAAAA-GCTGTC-CAATTTGTTGTGTAA
30059051 TTGCTGTCCA
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
92 17 0.21
93 10 0.12
94 5 0.06
95 49 0.60
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (95 bp):
AAATGCTGCACAATTTCTTGTATATATATGCTGCTCAATTTGTTGTATATAAGCCGCCAATTTGG
TGTATAAAAGCTGTCCAATTTGTTGTGTAA
Found at i:30059197 original size:141 final size:141
Alignment explanation
Indices: 30058917--30059201 Score: 383
Period size: 141 Copynumber: 2.0 Consensus size: 141
30058907 ATATTTGCCG
* * * *
30058917 CCAATTTGTTGTATATAAGCTGTCCAATTTTTTGTGTAAAAATGCTGCTCAATTTGTTGTATATT
1 CCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTGCAAAAATGCTGCTCAATATGTTGTATATA
* * * * *
30058982 TGCTGCCAATTTGTTTTATATAAGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAATTTGTTGT
66 TGCTGCCAAATTGTTGTATATAAGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTAT
** *
30059047 GTAATTGCTGT
131 AAAAATGCTGT
*
30059058 CCAATTTGTTGTGTATAAGCTGTCCAA-TTTTGGTGCAAAAATGCTGCTCAATATGTTGTATATA
1 CCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTGCAAAAATGCTGCTCAATATGTTGTATATA
* * * * * *
30059122 TGCTGCCTAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTGAAATTGCTGTTTAGTTTGGTA
66 TGCTGCC-AAATTGTTGTATATAAGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTA
30059187 TAAAAATGCTGT
130 TAAAAATGCTGT
30059199 CCA
1 CCA
30059202 TATTGACATA
Statistics
Matches: 124, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
140 40 0.32
141 84 0.68
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (141 bp):
CCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTGCAAAAATGCTGCTCAATATGTTGTATATA
TGCTGCCAAATTGTTGTATATAAGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTAT
AAAAATGCTGT
Found at i:30065590 original size:28 final size:28
Alignment explanation
Indices: 30065558--30065624 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
30065548 TGACTTTCGA
*
30065558 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
* **
30065586 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
30065614 CACTAAGTGTG
1 CACTAAGTGTG
30065625 TGAACTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTATAAAG
Found at i:30066386 original size:25 final size:25
Alignment explanation
Indices: 30066358--30066640 Score: 166
Period size: 23 Copynumber: 12.0 Consensus size: 25
30066348 TTATGCTTAA
* *
30066358 ATGCTGCACAATTTCTTGTATATAT
1 ATGCTGCTCAATTTGTTGTATATAT
*
30066383 ATGCTACTCAATTTGTTGTATAT-T
1 ATGCTGCTCAATTTGTTGTATATAT
30066407 -TGCTG-TCAATTTGTTGTATATA-
1 ATGCTGCTCAATTTGTTGTATATAT
* * *
30066429 A-GCTG-TCCAATTT-TTGGTGTAAAA
1 ATGCTGCT-CAATTTGTT-GTATATAT
30066453 ATGCTGCTCAATTTGTTGTATAT-T
1 ATGCTGCTCAATTTGTTGTATATAT
30066477 -TGCTGC-CAATTTGTT-T-TATAT
1 ATGCTGCTCAATTTGTTGTATATAT
* * * *
30066498 AAGCTG-TCCAATTT-TTGGTGTAAAA
1 ATGCTGCT-CAATTTGTT-GTATATAT
*
30066523 ATGCTGCTCAATTTGTTGTGTA-AT
1 ATGCTGCTCAATTTGTTGTATATAT
*
30066547 -TGCTG-TCCAATTTGTTGTGTATA-
1 ATGCTGCT-CAATTTGTTGTATATAT
* * *
30066570 A-GCTG-TCCAATTTTGGTGCA-A-AA
1 ATGCTGCT-CAA-TTTGTTGTATATAT
*
30066593 ATGCTGCTCAATATGTTG--TATAT
1 ATGCTGCTCAATTTGTTGTATATAT
*
30066616 ATGCTGC-CTAAATTGTTGTATATAT
1 ATGCTGCTC-AATTTGTTGTATATAT
30066641 GCTGTCCAAA
Statistics
Matches: 207, Mismatches: 22, Indels: 58
0.72 0.08 0.20
Matches are distributed among these distances:
20 3 0.01
21 2 0.01
22 42 0.20
23 77 0.37
24 18 0.09
25 59 0.29
26 6 0.03
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (25 bp):
ATGCTGCTCAATTTGTTGTATATAT
Found at i:30066465 original size:70 final size:70
Alignment explanation
Indices: 30066383--30066669 Score: 423
Period size: 70 Copynumber: 4.1 Consensus size: 70
30066373 TTGTATATAT
* *
30066383 ATGCTACTCAATTTGTTGTATATTTGCTGTCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTG
1 ATGCTGCTCAATTTGTTGTATATTTGCTGCCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTG
30066448 TAAAA
66 TAAAA
*
30066453 ATGCTGCTCAATTTGTTGTATATTTGCTGCCAATTTGTTTTATATAAGCTGTCCAATTTTTGGTG
1 ATGCTGCTCAATTTGTTGTATATTTGCTGCCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTG
30066518 TAAAA
66 TAAAA
* * *
30066523 ATGCTGCTCAATTTGTTGTGTAATTGCTGTCCAATTTGTTGTGTATAAGCTGTCCAA-TTTTGGT
1 ATGCTGCTCAATTTGTTGTATATTTGCTG-CCAATTTGTTGTATATAAGCTGTCCAATTTTTGGT
*
30066587 GCAAAA
65 GTAAAA
* * * * *
30066593 ATGCTGCTCAATATGTTGTATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAAATTTTGGT
1 ATGCTGCTCAATTTGTTGTATATTTGCTGCC-AATTTGTTGTATATAAGCTGTCCAATTTTTGGT
*
30066658 GTGAAA
65 GTAAAA
*
30066664 TTGCTG
1 ATGCTG
30066670 TTTAGTTTGG
Statistics
Matches: 196, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
69 2 0.01
70 153 0.78
71 41 0.21
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (70 bp):
ATGCTGCTCAATTTGTTGTATATTTGCTGCCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTG
TAAAA
Found at i:30066473 original size:48 final size:46
Alignment explanation
Indices: 30066407--30066634 Score: 175
Period size: 47 Copynumber: 4.8 Consensus size: 46
30066397 GTTGTATATT
30066407 TGCTGTCAATTTGTTGTATATAAGCTGTCCAATTT-TTGGTGTAAAAA
1 TGCTGTCAATTTGTTGTATATAAGCTG-CCAATTTGTT-GTGTAAAAA
** *
30066454 TGCTGCTCAATTTGTTGTATATTTGCTGCCAATTTGTT-T-TATATAA
1 TGCTG-TCAATTTGTTGTATATAAGCTGCCAATTTGTTGTGTA-AAAA
* * *
30066500 -GCTGTCCAATTT-TTGGTGTAAAAATGCTGCTCAATTTGTTGTGT--AAT
1 TGCTGT-CAATTTGTT-GTAT-ATAA-GCTGC-CAATTTGTTGTGTAAAAA
* * *
30066547 TGCTGTCCAATTTGTTGTGTATAAGCTGTCCAATTT-TGGTGCAAAAA
1 TGCTGT-CAATTTGTTGTATATAAGCTG-CCAATTTGTTGTGTAAAAA
* * *
30066594 TGCTGCTCAATATGTTGTATATATGCTGCCTAAATTGTTGT
1 TGCTG-TCAATTTGTTGTATATAAGCTGCC-AATTTGTTGT
30066635 ATATATGCTG
Statistics
Matches: 145, Mismatches: 18, Indels: 35
0.73 0.09 0.18
Matches are distributed among these distances:
44 3 0.02
45 19 0.13
46 17 0.12
47 51 0.35
48 51 0.35
49 3 0.02
50 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.43
Consensus pattern (46 bp):
TGCTGTCAATTTGTTGTATATAAGCTGCCAATTTGTTGTGTAAAAA
Found at i:30066638 original size:23 final size:23
Alignment explanation
Indices: 30066593--30066652 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
30066583 TGGTGCAAAA
*
30066593 ATGCTG-CTCAATATGTTGTATAT
1 ATGCTGCCTAAAT-TGTTGTATAT
30066616 ATGCTGCCTAAATTGTTGTATAT
1 ATGCTGCCTAAATTGTTGTATAT
30066639 ATGCTGTCC-AAATT
1 ATGCTG-CCTAAATT
30066653 TTGGTGTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
23 27 0.79
24 7 0.21
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (23 bp):
ATGCTGCCTAAATTGTTGTATAT
Found at i:30066692 original size:141 final size:141
Alignment explanation
Indices: 30066407--30066696 Score: 395
Period size: 141 Copynumber: 2.1 Consensus size: 141
30066397 GTTGTATATT
* *
30066407 TGCTGT-CAATTTGTTGTATATAAGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAATTTGTTG
1 TGCTGTCCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTGCAAAAATGCTGCTCAATATGTTG
* * * *
30066471 TATATTTGCTGCCAATTTGTTTTATATAAGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAATT
66 TATATATGCTGCCAAATTGTTGTATATAAGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATT
* * ** *
30066536 TGTTGTGTAAT
131 TGGTATAAAAA
*
30066547 TGCTGTCCAATTTGTTGTGTATAAGCTGTCCAA-TTTTGGTGCAAAAATGCTGCTCAATATGTTG
1 TGCTGTCCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTGCAAAAATGCTGCTCAATATGTTG
* * * * * *
30066611 TATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTGAAATTGCTGTTTAGT
66 TATATATGCTGCC-AAATTGTTGTATATAAGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAAT
30066676 TTGGTATAAAAA
130 TTGGTATAAAAA
30066688 TGCTGTCCA
1 TGCTGTCCA
30066697 TATTGACATA
Statistics
Matches: 130, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
140 47 0.36
141 83 0.64
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.43
Consensus pattern (141 bp):
TGCTGTCCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTGCAAAAATGCTGCTCAATATGTTG
TATATATGCTGCCAAATTGTTGTATATAAGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATT
TGGTATAAAAA
Found at i:30067337 original size:42 final size:43
Alignment explanation
Indices: 30067285--30067448 Score: 192
Period size: 43 Copynumber: 3.9 Consensus size: 43
30067275 TAGGGTTATC
*
30067285 GAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATAT
1 GAGAATTCGTGTAAGACCATATCTGGGATATTGGCATCGATAT
* *
30067327 GAGAATTCGTGTAAGACCATCTCTGGGACATTGGCATCGATAT
1 GAGAATTCGTGTAAGACCATATCTGGGATATTGGCATCGATAT
* * * * * *
30067370 GTGATTTCGTGTAAGACCATGGT-TGGGCTATTGGCATCAATAC
1 GAGAATTCGTGTAAGACCAT-ATCTGGGATATTGGCATCGATAT
*
30067413 GAG-ATTACATGTAAGACCATATCTGGGATA-TGGCAT
1 GAGAATT-CGTGTAAGACCATATCTGGGATATTGGCAT
30067449 TGTTATGGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 36 0.35
43 66 0.64
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
GAGAATTCGTGTAAGACCATATCTGGGATATTGGCATCGATAT
Found at i:30068149 original size:34 final size:34
Alignment explanation
Indices: 30068106--30068173 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
30068096 GAAACGGTGT
30068106 AAGCAAAAGAATCTTGTATTATGAGATATTTGAA
1 AAGCAAAAGAATCTTGTATTATGAGATATTTGAA
30068140 AAGCAAAAGAATCTTGTATTATGAGATATTTGAA
1 AAGCAAAAGAATCTTGTATTATGAGATATTTGAA
30068174 TTTTTGTGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (34 bp):
AAGCAAAAGAATCTTGTATTATGAGATATTTGAA
Found at i:30073913 original size:15 final size:15
Alignment explanation
Indices: 30073864--30073906 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
30073854 TTTATATTTG
30073864 AAATTTTTTATTTCT
1 AAATTTTTTATTTCT
** *
30073879 AAATTCATAATTTCT
1 AAATTTTTTATTTCT
30073894 AAATTTTTTATTT
1 AAATTTTTTATTT
30073907 GAAAATTAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
AAATTTTTTATTTCT
Found at i:30075495 original size:21 final size:21
Alignment explanation
Indices: 30075471--30075541 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
30075461 AAAGGTCAAG
30075471 TTTAGGGTTCAAGATTTAGGA
1 TTTAGGGTTCAAGATTTAGGA
* *
30075492 TTTAAGGTTC-AGAGTTTGGGA
1 TTTAGGGTTCAAGA-TTTAGGA
* *
30075513 TTTAGGATTCAAGATTCAGG-
1 TTTAGGGTTCAAGATTTAGGA
30075533 TTT-GGGTTC
1 TTTAGGGTTC
30075542 GAAGTTCGAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 5 0.12
20 6 0.15
21 27 0.66
22 3 0.07
ACGTcount: A:0.24, C:0.07, G:0.30, T:0.39
Consensus pattern (21 bp):
TTTAGGGTTCAAGATTTAGGA
Found at i:30075530 original size:28 final size:27
Alignment explanation
Indices: 30075483--30075538 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
30075473 TAGGGTTCAA
* *
30075483 GATTTAGGATTTAAGGTTCAGAGTTTGG
1 GATTTAGGATTCAAGATTCAG-GTTTGG
30075511 GATTTAGGATTCAAGATTCAGGTTTGG
1 GATTTAGGATTCAAGATTCAGGTTTGG
30075538 G
1 G
30075539 TTCGAAGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.25, C:0.05, G:0.32, T:0.38
Consensus pattern (27 bp):
GATTTAGGATTCAAGATTCAGGTTTGG
Found at i:30075651 original size:21 final size:21
Alignment explanation
Indices: 30075627--30075666 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30075617 ATTATATATC
30075627 AATGACATAAAAAAATTATTA
1 AATGACATAAAAAAATTATTA
* * *
30075648 AATGTCATTAAATAATTAT
1 AATGACATAAAAAAATTAT
30075667 AAAGAGATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
AATGACATAAAAAAATTATTA
Found at i:30082262 original size:29 final size:30
Alignment explanation
Indices: 30082220--30082285 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
30082210 AATTATTCTC
*
30082220 TATATTTCTTTTTCTTGCGTGGAGAACT-T
1 TATATATCTTTTTCTTGCGTGGAGAACTCT
*
30082249 TATATATCTTTTTCTTGCTTGGAGAACTCT
1 TATATATCTTTTTCTTGCGTGGAGAACTCT
30082279 TAATATA
1 T-ATATA
30082286 AATATCATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 26 0.79
30 2 0.06
31 5 0.15
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.50
Consensus pattern (30 bp):
TATATATCTTTTTCTTGCGTGGAGAACTCT
Found at i:30082631 original size:25 final size:26
Alignment explanation
Indices: 30082586--30082644 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
30082576 TGTTTGTATT
* *
30082586 TTTTTTTAATTTAAAGGGATTAG-TA
1 TTTTTTTAATATAAAGAGATTAGTTA
30082611 TTTTTTTAA-ATAGAAGAGATTAGTTA
1 TTTTTTTAATATA-AAGAGATTAGTTA
*
30082637 TTCTTTTA
1 TTTTTTTA
30082645 TGTAGTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 2 0.07
25 18 0.62
26 9 0.31
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.53
Consensus pattern (26 bp):
TTTTTTTAATATAAAGAGATTAGTTA
Found at i:30082761 original size:96 final size:93
Alignment explanation
Indices: 30082697--30082913 Score: 285
Period size: 84 Copynumber: 2.4 Consensus size: 93
30082687 ATTAGTAATT
* *
30082697 ATTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTAATTTTTTTTAAAAACTTTTTA
1 ATTATATATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATCTTAATTTTTTTTAAAAACTTTTTA
30082762 ATGTTATTTTGTCAGTAATTTATGATTAG
66 ATGTTATTTTGTCAGT-ATTTATGATTAG
*
30082791 ATTATATATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATCTTAA---TTTTT------TTTTAA
1 ATTATATATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATCTTAATTTTTTTTAAAAACTTTTTA
*
30082847 AT-TTATTTTGTTAGTAATTTATGATTAG
66 ATGTTATTTTGTCAGT-ATTTATGATTAG
* *
30082875 GTTATAAATTGTTTGTGTTTAGTTTAGTGTTTA-TGTGAT
1 ATTATATATTGTTTGTGTTTAGTTTAGTGTTTATTGTGAT
30082914 TTTTTATGAA
Statistics
Matches: 117, Mismatches: 6, Indels: 11
0.87 0.04 0.08
Matches are distributed among these distances:
83 6 0.05
84 56 0.48
85 7 0.06
91 5 0.04
94 43 0.37
ACGTcount: A:0.24, C:0.01, G:0.16, T:0.59
Consensus pattern (93 bp):
ATTATATATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATCTTAATTTTTTTTAAAAACTTTTTA
ATGTTATTTTGTCAGTATTTATGATTAG
Found at i:30083036 original size:187 final size:178
Alignment explanation
Indices: 30082698--30083042 Score: 378
Period size: 187 Copynumber: 1.9 Consensus size: 178
30082688 TTAGTAATTA
30082698 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTAATTTTTTTTAAAAACTTTTTAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTAATTTTTTTTAAAAACTTTTTAA
** * * * *
30082763 TGTTATTTTGTCAGTAATTTATGATTAGATTATATATTGTTTGTGTTTAGTTTAGTGTTTATTGT
66 AATGATTTTGTCAGTAATTTATGATTAGATTATAAATTGATTGTCTTTAGTTTAGTGTTTATTGT
* * * **
30082828 GATCTTAATTTTTTTTTAAATTTATTTTGTTAGTAATTTATGATTAGG
131 GATATTAAATGTTAATTAAATTTATTTTGTTAGTAATTTATGATTAGG
30082876 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTA-TGTGATTTTTTATGAATGCAATTTTTTTAAAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGA---TTT-T-AAT----TTTTTTTAAAA
*
30082940 A-TTATTTAAAAATGATTTTGTTAGTAATTTATGATTAGATTATAAATT-ATT-TCTTTAGTTT-
57 ACTT-TTT-AAAATGATTTTGTCAGTAATTTATGATTAGATTATAAATTGATTGTCTTTAGTTTA
* * *
30083001 TTGATTT-TTTTGATATATTGAAATGTTAATTAAATTTGTTTT
120 GTG-TTTATTGTG--ATATT-AAATGTTAATTAAATTTATTTT
30083043 TATATATTTT
Statistics
Matches: 137, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
177 5 0.04
178 32 0.23
180 3 0.02
181 1 0.01
182 3 0.02
184 6 0.04
185 14 0.10
186 21 0.15
187 52 0.38
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.58
Consensus pattern (178 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTAATTTTTTTTAAAAACTTTTTAA
AATGATTTTGTCAGTAATTTATGATTAGATTATAAATTGATTGTCTTTAGTTTAGTGTTTATTGT
GATATTAAATGTTAATTAAATTTATTTTGTTAGTAATTTATGATTAGG
Found at i:30085475 original size:49 final size:49
Alignment explanation
Indices: 30085383--30085654 Score: 345
Period size: 49 Copynumber: 5.6 Consensus size: 49
30085373 CAAAAATACC
* * * *
30085383 AACTTCGTAATTTAAATT-AAATTAATTGGAGCATTAAAAATTGGAACA
1 AACTTCGTAATTTAAATTGAGATTCATTGCAACATTAAAAATTGGAACA
* *
30085431 AACTTTGTAATTTAGATTGAGATTCATTGCAACATTAAAAATTGGAACA
1 AACTTCGTAATTTAAATTGAGATTCATTGCAACATTAAAAATTGGAACA
** *
30085480 AACTTCGTAATTTAAATTGAGATTCACCGCAACACTAAAAATTGGAACA
1 AACTTCGTAATTTAAATTGAGATTCATTGCAACATTAAAAATTGGAACA
* * * *
30085529 AACTTCGTAATTTCAATTGAGATTCATTACAACATTAAAATTTGGAATA
1 AACTTCGTAATTTAAATTGAGATTCATTGCAACATTAAAAATTGGAACA
** *
30085578 AACTTTATAATTTAAATT-AGATTAATTGCAACATTAAAACGA-T-GAACA
1 AACTTCGTAATTTAAATTGAGATTCATTGCAACATTAAAA--ATTGGAACA
*
30085626 AACTTTGTAATTTAAATTGAGATTCATTG
1 AACTTCGTAATTTAAATTGAGATTCATTG
30085655 GAGTACATTA
Statistics
Matches: 193, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
48 56 0.29
49 137 0.71
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (49 bp):
AACTTCGTAATTTAAATTGAGATTCATTGCAACATTAAAAATTGGAACA
Found at i:30085606 original size:146 final size:145
Alignment explanation
Indices: 30085383--30085651 Score: 380
Period size: 146 Copynumber: 1.8 Consensus size: 145
30085373 CAAAAATACC
** * * *
30085383 AACTTCGTAATTTAAATTAAATTAATTGGAGCATTAAAAATTGGAACAAACTTTGTAATTTAGAT
1 AACTTCGTAATTTAAATTAAATTAATTACAACATTAAAAATTGGAACAAACTTTATAATTTAAAT
*
30085448 TGAGATTCATTGCAACATTAAAA-ATTGGAACAAACTTCGTAATTTAAATTGAGATTCACCGCAA
66 TGAGATTAATTGCAACATTAAAACA-T-GAACAAACTTCGTAATTTAAATTGAGATTCACCGCAA
30085512 CACTAAAAATTGGAACA
129 CACTAAAAATTGGAACA
* * * * *
30085529 AACTTCGTAATTTCAATTGAGATTCATTACAACATTAAAATTTGGAATAAACTTTATAATTTAAA
1 AACTTCGTAATTTAAATT-AAATTAATTACAACATTAAAAATTGGAACAAACTTTATAATTTAAA
*
30085594 TT-AGATTAATTGCAACATTAAAACGATGAACAAACTTTGTAATTTAAATTGAGATTCA
65 TTGAGATTAATTGCAACATTAAAAC-ATGAACAAACTTCGTAATTTAAATTGAGATTCA
30085652 TTGGAGTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
146 67 0.62
147 40 0.37
148 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (145 bp):
AACTTCGTAATTTAAATTAAATTAATTACAACATTAAAAATTGGAACAAACTTTATAATTTAAAT
TGAGATTAATTGCAACATTAAAACATGAACAAACTTCGTAATTTAAATTGAGATTCACCGCAACA
CTAAAAATTGGAACA
Found at i:30088540 original size:17 final size:17
Alignment explanation
Indices: 30088518--30088553 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30088508 TCCTTTAATC
30088518 TTCTCTACTAATTTTTT
1 TTCTCTACTAATTTTTT
* *
30088535 TTCTCTTCTACTTTTTT
1 TTCTCTACTAATTTTTT
30088552 TT
1 TT
30088554 ACTACTCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.69
Consensus pattern (17 bp):
TTCTCTACTAATTTTTT
Found at i:30088691 original size:27 final size:27
Alignment explanation
Indices: 30088618--30088691 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
30088608 CCTCTCAAAT
* **
30088618 AGGGGCCACTAGTGCCGTGTACCTAAG
1 AGGGGTCACTAGTGCCGCCTACCTAAG
** *
30088645 AGGGGTCACTAGTGTTGCCTACTTAAG
1 AGGGGTCACTAGTGCCGCCTACCTAAG
*
30088672 AGGGGTCACTAGTACCGCCT
1 AGGGGTCACTAGTGCCGCCT
30088692 CTTTGAGAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (27 bp):
AGGGGTCACTAGTGCCGCCTACCTAAG
Found at i:30091959 original size:30 final size:30
Alignment explanation
Indices: 30091923--30091982 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
30091913 TATTTTTAAA
30091923 TCCACACAATGCCAATGAGAGGATATCATT
1 TCCACACAATGCCAATGAGAGGATATCATT
30091953 TCCACACAATGCCAATGAGAGGATATCATT
1 TCCACACAATGCCAATGAGAGGATATCATT
30091983 AACTCTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (30 bp):
TCCACACAATGCCAATGAGAGGATATCATT
Found at i:30096017 original size:14 final size:14
Alignment explanation
Indices: 30095998--30096029 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
30095988 TTTTATAATC
30095998 TTCACATTCATTCA
1 TTCACATTCATTCA
30096012 TTCACATTCATTCA
1 TTCACATTCATTCA
30096026 TTCA
1 TTCA
30096030 AAAGAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (14 bp):
TTCACATTCATTCA
Found at i:30097270 original size:5 final size:5
Alignment explanation
Indices: 30097260--30097290 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
30097250 TGAGCATTCG
*
30097260 ATCGA ATCGA ATCGA ATCGA ATCAA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
30097291 AATTTTCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:30098335 original size:9 final size:9
Alignment explanation
Indices: 30098317--30098353 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
30098307 TATAGTTTAA
*
30098317 TATTCAAAT
1 TATTCGAAT
30098326 TATTCGAAT
1 TATTCGAAT
*
30098335 TATTCGAGT
1 TATTCGAAT
30098344 TATTCGAAT
1 TATTCGAAT
30098353 T
1 T
30098354 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:30098423 original size:9 final size:9
Alignment explanation
Indices: 30098406--30098436 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30098396 TCGAGTTGAT
30098406 TCGAATAAC
1 TCGAATAAC
*
30098415 TCGATTAAC
1 TCGAATAAC
30098424 TCGAATAAC
1 TCGAATAAC
30098433 TCGA
1 TCGA
30098437 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:30100959 original size:13 final size:13
Alignment explanation
Indices: 30100941--30100966 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30100931 CGTTTTTCCA
30100941 AAAACCATTTGTT
1 AAAACCATTTGTT
30100954 AAAACCATTTGTT
1 AAAACCATTTGTT
30100967 TGCGTAATGT
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:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:30106918 original size:29 final size:29
Alignment explanation
Indices: 30106876--30106933 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
30106866 GTTTGATCCT
* *
30106876 TTTATCTTAATTCTAAAATTAAATTAAAA
1 TTTAGCTTAATTCTAAAATTAAACTAAAA
*
30106905 TTTAGCTTGATTCTAAAATTAAACTAAAA
1 TTTAGCTTAATTCTAAAATTAAACTAAAA
30106934 AGTAGATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (29 bp):
TTTAGCTTAATTCTAAAATTAAACTAAAA
Found at i:30117257 original size:30 final size:31
Alignment explanation
Indices: 30117221--30117282 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
30117211 TTCTTCCTTC
30117221 ACATTATTTATCTTATACTTT-TATATATAT
1 ACATTATTTATCTTATACTTTATATATATAT
* *
30117251 ACATTATTTATTTTATCCTTTATATATATAT
1 ACATTATTTATCTTATACTTTATATATATAT
30117282 A
1 A
30117283 TACTTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (31 bp):
ACATTATTTATCTTATACTTTATATATATAT
Found at i:30125539 original size:33 final size:33
Alignment explanation
Indices: 30125495--30125641 Score: 104
Period size: 33 Copynumber: 4.5 Consensus size: 33
30125485 TGTTGACTAC
* *
30125495 TAGGGAAGGTGATGTTGAAGGGGTAGAATTTGA
1 TAGGGAGGGTGATGTTGAAGGGGTAGAATCTGA
* *
30125528 TAGGGAGGGTGATGATGAAGGGGTAAAATCTGA
1 TAGGGAGGGTGATGTTGAAGGGGTAGAATCTGA
* * * * *
30125561 T-GGTAAAGGTGATCTGGAAAGGGTAGAATCT-A
1 TAGG-GAGGGTGATGTTGAAGGGGTAGAATCTGA
* * * * *
30125593 TTGGGGAGGGTGATGGTGGAGAGGTACAAGT-TGA
1 -TAGGGAGGGTGATGTTGAAGGGGTAGAA-TCTGA
*
30125627 TGGGGAGGGTG-TGTT
1 TAGGGAGGGTGATGTT
30125642 TGTTATTGGT
Statistics
Matches: 88, Mismatches: 21, Indels: 11
0.73 0.17 0.09
Matches are distributed among these distances:
32 6 0.07
33 78 0.89
34 4 0.05
ACGTcount: A:0.28, C:0.03, G:0.44, T:0.25
Consensus pattern (33 bp):
TAGGGAGGGTGATGTTGAAGGGGTAGAATCTGA
Found at i:30125820 original size:51 final size:51
Alignment explanation
Indices: 30125744--30125847 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 51
30125734 AAGTTGTTGT
* * * * *
30125744 TGATGAATATGTTGTTTATTTTGCAACATTAGATGGAGTAGATAATGATGC
1 TGATGAATATGGTGGTGATTTTGCAACATCAGATGGAGTAGACAATGATGC
* *
30125795 TGATGAATATGGTGGTGATTTTGCAACATCAGATGGAGTGGACAATGTTGC
1 TGATGAATATGGTGGTGATTTTGCAACATCAGATGGAGTAGACAATGATGC
30125846 TG
1 TG
30125848 CTACAAGTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.29, C:0.08, G:0.28, T:0.36
Consensus pattern (51 bp):
TGATGAATATGGTGGTGATTTTGCAACATCAGATGGAGTAGACAATGATGC
Found at i:30131006 original size:37 final size:40
Alignment explanation
Indices: 30130965--30131062 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 40
30130955 TAATATTATA
30130965 TTAATAGTTTAATATTAAATTTAAT-TT-AA-T-ACGTATC
1 TTAATAGTTTAATATTAAATTTAATCTTAAAGTGA-GTATC
* *
30131002 TTAATAGTATT-TTATT-AATTTAATCTTAAAGTGATTATC
1 TTAATAGT-TTAATATTAAATTTAATCTTAAAGTGAGTATC
30131041 TTAATA--TTAA-ATTAAATTTAAT
1 TTAATAGTTTAATATTAAATTTAAT
30131063 ATTTATCTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
36 13 0.25
37 22 0.43
38 4 0.08
39 11 0.22
40 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (40 bp):
TTAATAGTTTAATATTAAATTTAATCTTAAAGTGAGTATC
Found at i:30131044 original size:25 final size:26
Alignment explanation
Indices: 30130999--30131050 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
30130989 TTTAATACGT
*
30130999 ATCTTAATAGTATTTTATTAAT-TTA
1 ATCTTAATAGTATTATATTAATATTA
*
30131024 ATCTTAA-AGTGATTATCTTAATATTA
1 ATCTTAATAGT-ATTATATTAATATTA
30131050 A
1 A
30131051 ATTAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.13
25 16 0.70
26 4 0.17
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (26 bp):
ATCTTAATAGTATTATATTAATATTA
Found at i:30132411 original size:28 final size:28
Alignment explanation
Indices: 30132379--30132435 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
30132369 ATTTGGAAAG
30132379 TATGTGAAATTATGCTTAATTACATTAT
1 TATGTGAAATTATGCTTAATTACATTAT
30132407 TATGTGAAATTATGCTTAATTACATTAT
1 TATGTGAAATTATGCTTAATTACATTAT
30132435 T
1 T
30132436 TTCATGCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (28 bp):
TATGTGAAATTATGCTTAATTACATTAT
Found at i:30138878 original size:13 final size:13
Alignment explanation
Indices: 30138860--30138891 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
30138850 AAGCTTATTC
30138860 TGTTTCATTTCCT
1 TGTTTCATTTCCT
30138873 TGTTTCATTTCCT
1 TGTTTCATTTCCT
30138886 TGTTTC
1 TGTTTC
30138892 TTGTTGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.09, T:0.62
Consensus pattern (13 bp):
TGTTTCATTTCCT
Found at i:30147303 original size:14 final size:15
Alignment explanation
Indices: 30147284--30147314 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30147274 CTGATTTTAA
30147284 AGATAC-ACTTTATT
1 AGATACTACTTTATT
30147298 AGATACTACTTTATT
1 AGATACTACTTTATT
30147313 AG
1 AG
30147315 TATCAAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (15 bp):
AGATACTACTTTATT
Found at i:30150322 original size:26 final size:26
Alignment explanation
Indices: 30150280--30150354 Score: 91
Period size: 25 Copynumber: 2.9 Consensus size: 26
30150270 ACATATTTCC
30150280 TCAAAATTTTAAC-AGGGGTAAAATCA
1 TCAAAATTTT-ACTAGGGGTAAAATCA
* *
30150306 TCAAAATATTACTA-GGGTAAAATCG
1 TCAAAATTTTACTAGGGGTAAAATCA
* *
30150331 TTAAAATTTTACTGGGGGTAAAAT
1 TCAAAATTTTACTAGGGGTAAAAT
30150355 AGGGATGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 23 0.55
26 19 0.45
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCA
Found at i:30163316 original size:17 final size:19
Alignment explanation
Indices: 30163278--30163317 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
30163268 TCTTTGTTCC
*
30163278 CAATACATTTCATCTTTAT
1 CAATACATTTCATCTGTAT
30163297 CAATACATTTC-TC-GTAT
1 CAATACATTTCATCTGTAT
30163314 CAAT
1 CAAT
30163318 TATCTATGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 2 0.10
19 11 0.55
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.42
Consensus pattern (19 bp):
CAATACATTTCATCTGTAT
Found at i:30172643 original size:23 final size:22
Alignment explanation
Indices: 30172583--30172643 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
30172573 ATAATTTTGA
30172583 TATTTTATAATATATAAACAATTT
1 TATTTTAT-ATA-ATAAACAATTT
* * *
30172607 TATTTCAATGTAATAATCAATTT
1 TATTT-TATATAATAAACAATTT
30172630 TACTTTTATATAAT
1 TA-TTTTATATAAT
30172644 GATAATAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
23 18 0.60
24 10 0.33
25 2 0.07
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTTTATATAATAAACAATTT
Found at i:30174368 original size:20 final size:20
Alignment explanation
Indices: 30174314--30174368 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
30174304 GATACTAACT
* *
30174314 TAAAAATATCGATAATTTTA
1 TAAAAATATCGATACTTGTA
* *
30174334 TAAAAATATCAATACTTGTG
1 TAAAAATATCGATACTTGTA
30174354 TAAAAATATCGATAC
1 TAAAAATATCGATAC
30174369 CTCTAAGGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (20 bp):
TAAAAATATCGATACTTGTA
Found at i:30179334 original size:23 final size:23
Alignment explanation
Indices: 30179308--30179367 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
30179298 TTTTTTTATA
* *
30179308 TAAATCTAATCATAATAATTAAC
1 TAAATATAATAATAATAATTAAC
* *
30179331 TAAATATAATAATTATAATTACC
1 TAAATATAATAATAATAATTAAC
*
30179354 ATAATTATAATAAT
1 -TAAATATAATAAT
30179368 TTTTGACCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATATAATAATAATAATTAAC
Found at i:30182148 original size:17 final size:16
Alignment explanation
Indices: 30182121--30182153 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
30182111 CTATGTTAGC
30182121 AAAAATTTTAAAAATT
1 AAAAATTTTAAAAATT
30182137 AAAAATTATTAAAAATT
1 AAAAATT-TTAAAAATT
30182154 TAATTCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAATTTTAAAAATT
Found at i:30186458 original size:21 final size:21
Alignment explanation
Indices: 30186432--30186473 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30186422 AAAATAAAAA
30186432 AAAATAAAGAAAATAGTTTAT
1 AAAATAAAGAAAATAGTTTAT
30186453 AAAATAAAGAAAATAGTTTAT
1 AAAATAAAGAAAATAGTTTAT
30186474 CTAATTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (21 bp):
AAAATAAAGAAAATAGTTTAT
Found at i:30194220 original size:26 final size:26
Alignment explanation
Indices: 30194190--30194242 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
30194180 TTCCAAAATT
*
30194190 TAGTCCAA-ATTAGTACTTTACAAAAA
1 TAGTCCAAGATTA-AACTTTACAAAAA
*
30194216 TAGTCCAAGATTAAAGTTTACAAAAA
1 TAGTCCAAGATTAAACTTTACAAAAA
30194242 T
1 T
30194243 CTGGAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.30
Consensus pattern (26 bp):
TAGTCCAAGATTAAACTTTACAAAAA
Found at i:30202995 original size:9 final size:9
Alignment explanation
Indices: 30202983--30203007 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
30202973 TAAAACTATT
30202983 AAAAATTAA
1 AAAAATTAA
30202992 AAAAATTAA
1 AAAAATTAA
30203001 AAAAATT
1 AAAAATT
30203008 GGATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTAA
Found at i:30202999 original size:16 final size:18
Alignment explanation
Indices: 30202966--30203003 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
30202956 TAATTATTTC
*
30202966 AAAATTATAAAACTATTA
1 AAAATTATAAAACAATTA
30202984 AAAATTA-AAAA-AATTA
1 AAAATTATAAAACAATTA
30203000 AAAA
1 AAAA
30203004 AATTGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATTATAAAACAATTA
Found at i:30203179 original size:13 final size:13
Alignment explanation
Indices: 30203137--30203182 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
30203127 GATTGAATGA
30203137 ATAAATTTTGTAT
1 ATAAATTTTGTAT
*
30203150 ACAAAATTTGTGTAT
1 A-TAAATTT-TGTAT
*
30203165 ATAAATTTTGGAT
1 ATAAATTTTGTAT
30203178 ATAAA
1 ATAAA
30203183 AAGTATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 10 0.36
14 12 0.43
15 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (13 bp):
ATAAATTTTGTAT
Found at i:30210460 original size:26 final size:26
Alignment explanation
Indices: 30210420--30210494 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
30210410 CTTTTTCTTT
30210420 TTCTTTTTATTTATTTATTTATTATTA
1 TTCTTTTTA-TTATTTATTTATTATTA
*
30210447 TTCTTTTTATTATTTATTCT-TTTTTA
1 TTCTTTTTATTATTTATT-TATTATTA
* *
30210473 TTATTCTTATTATTTATTTATT
1 TTCTTTTTATTATTTATTTATT
30210495 TTTCATTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 1 0.02
26 32 0.74
27 10 0.23
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (26 bp):
TTCTTTTTATTATTTATTTATTATTA
Found at i:30210496 original size:26 final size:26
Alignment explanation
Indices: 30210411--30210497 Score: 95
Period size: 26 Copynumber: 3.2 Consensus size: 26
30210401 TGGTCTTTCC
* * *
30210411 TTTTTCTTTTTCTTTTTATTTATTTA
1 TTTTTATTATTCTTATTATTTATTTA
30210437 TTTATTATTATTCTTTTTATTATTTATTCT-
1 TTT-TTATTATTC---TTATTATTTATT-TA
30210467 TTTTTATTATTCTTATTATTTATTTA
1 TTTTTATTATTCTTATTATTTATTTA
30210493 TTTTT
1 TTTTT
30210498 CATTTCTCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
25 1 0.02
26 20 0.38
27 7 0.13
29 9 0.17
30 14 0.27
31 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTTATTATTCTTATTATTTATTTA
Found at i:30210502 original size:11 final size:11
Alignment explanation
Indices: 30210425--30210494 Score: 55
Period size: 9 Copynumber: 6.9 Consensus size: 11
30210415 TCTTTTTCTT
30210425 TTTATTTATTTA
1 TTTATTTA-TTA
30210437 TTTA-TTATTA
1 TTTATTTATTA
*
30210447 -TTCTTT-TTA
1 TTTATTTATTA
*
30210456 -TTATTTATTC
1 TTTATTTATTA
30210466 TTT-TTTATTA
1 TTTATTTATTA
*
30210476 -TT-CTTATTA
1 TTTATTTATTA
30210485 TTTATTTATT
1 TTTATTTATT
30210495 TTTCATTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
9 18 0.38
10 15 0.32
11 10 0.21
12 4 0.09
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:30212278 original size:21 final size:21
Alignment explanation
Indices: 30212254--30212294 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30212244 TTCTTTTCTT
30212254 TTTAGTTTTAGTTTTATTTTC
1 TTTAGTTTTAGTTTTATTTTC
* *
30212275 TTTATTTTTATTTTTATTTT
1 TTTAGTTTTAGTTTTATTTT
30212295 TAGTTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTAGTTTTAGTTTTATTTTC
Found at i:30212282 original size:27 final size:27
Alignment explanation
Indices: 30212239--30212311 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
30212229 GATCATTGAA
*
30212239 TTTA-TTTCTTTTCTTTTTAGTTTTAGT
1 TTTATTTTC-TTTATTTTTAGTTTTAGT
* *
30212266 TTTATTTTCTTTATTTTTATTTTTATT
1 TTTATTTTCTTTATTTTTAGTTTTAGT
*
30212293 TTTAGTTGT-TTTATTTTTA
1 TTTA-TTTTCTTTATTTTTA
30212312 TGTCTTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 33 0.82
28 7 0.17
ACGTcount: A:0.14, C:0.04, G:0.05, T:0.77
Consensus pattern (27 bp):
TTTATTTTCTTTATTTTTAGTTTTAGT
Found at i:30212283 original size:15 final size:14
Alignment explanation
Indices: 30212259--30212312 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
30212249 TTCTTTTTAG
*
30212259 TTTTAGTTTTATTT
1 TTTTATTTTTATTT
30212273 TCTTTATTTTTA--T
1 T-TTTATTTTTATTT
*
30212286 TTTTATTTTTAGTTG
1 TTTTATTTTTA-TTT
30212301 TTTTATTTTTAT
1 TTTTATTTTTAT
30212313 GTCTTTAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 10 0.29
13 2 0.06
14 2 0.06
15 20 0.59
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.78
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:30212310 original size:6 final size:6
Alignment explanation
Indices: 30212247--30212312 Score: 51
Period size: 6 Copynumber: 10.0 Consensus size: 6
30212237 AATTTATTTC
* * *
30212247 TTTTCT TTTTAG TTTTAGT TTTATTT TCTTTAT TTTTAT TTTTAT TTTTAGTT
1 TTTTAT TTTTAT TTTTA-T TTT-TAT T-TTTAT TTTTAT TTTTAT TTTTA--T
30212300 GTTTTAT TTTTAT
1 -TTTTAT TTTTAT
30212313 GTCTTTAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
6 31 0.63
7 9 0.18
8 4 0.08
9 5 0.10
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:30224430 original size:26 final size:26
Alignment explanation
Indices: 30224374--30224449 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
30224364 CACCAATATT
* * * * *
30224374 GCAGCAGAGCTGCCAGTGATAATGAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
*
30224400 ACAGCAAAGCTGCCAGTAACAGTAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
* *
30224426 GCAGCAAGGCTGCCTGTAACAGTA
1 GCAGCAAAGCTGCCAGTAACAGTA
30224450 TATGTGGCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.34, C:0.25, G:0.26, T:0.14
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAC
Found at i:30224643 original size:27 final size:27
Alignment explanation
Indices: 30224613--30224775 Score: 130
Period size: 27 Copynumber: 6.0 Consensus size: 27
30224603 TCAACTACTA
**
30224613 GGGGTATAACAGTAATTTTACCCTTCG
1 GGGGTATTTCAGTAATTTTACCCTTCG
30224640 GGGGTATTTC-GATAATTTTACCCTTCG
1 GGGGTATTTCAG-TAATTTTACCCTTCG
* * * **
30224667 AGAGTATTTTAGTAATTTTACCCTTTT
1 GGGGTATTTCAGTAATTTTACCCTTCG
* * ** *
30224694 AGGGTGTTTTGGTAATTTTTCCCTTCG
1 GGGGTATTTCAGTAATTTTACCCTTCG
* * * * * *
30224721 AGGGTATTTTAGTACTTTTATCTTTCT
1 GGGGTATTTCAGTAATTTTACCCTTCG
* *
30224748 AGGGTATTTTAGTAATTTTACCCTTCG
1 GGGGTATTTCAGTAATTTTACCCTTCG
30224775 G
1 G
30224776 CAATCTTACT
Statistics
Matches: 109, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.01
27 107 0.98
28 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (27 bp):
GGGGTATTTCAGTAATTTTACCCTTCG
Found at i:30224710 original size:54 final size:54
Alignment explanation
Indices: 30224623--30224774 Score: 189
Period size: 54 Copynumber: 2.8 Consensus size: 54
30224613 GGGGTATAAC
*** * *
30224623 AGTAATTTTACCCTTCGGGGGTATTTCGATAATTTTACCCTTCGAGAGTATTTT
1 AGTAATTTTACCCTTTTAGGGTATTTTGGTAATTTTACCCTTCGAGAGTATTTT
* * *
30224677 AGTAATTTTACCCTTTTAGGGTGTTTTGGTAATTTTTCCCTTCGAGGGTATTTT
1 AGTAATTTTACCCTTTTAGGGTATTTTGGTAATTTTACCCTTCGAGAGTATTTT
* * *
30224731 AGTACTTTTA-TCTTTCTAGGGTATTTTAGTAATTTTACCCTTCG
1 AGTAATTTTACCCTTT-TAGGGTATTTTGGTAATTTTACCCTTCG
30224775 GCAATCTTAC
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 4 0.05
54 80 0.95
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.47
Consensus pattern (54 bp):
AGTAATTTTACCCTTTTAGGGTATTTTGGTAATTTTACCCTTCGAGAGTATTTT
Found at i:30224759 original size:81 final size:81
Alignment explanation
Indices: 30224624--30224772 Score: 210
Period size: 81 Copynumber: 1.8 Consensus size: 81
30224614 GGGTATAACA
* *
30224624 GTAATTTTACCCTTCGGGGGTATTTCGATAATTTTACCCTTCGAGAGTATTTTAGTAATTTTACC
1 GTAATTTTACCCTTCGAGGGTATTTAGATAATTTTACCCTTCGAGAGTATTTTAGTAATTTTACC
30224689 CTTTTAGGGTGTTTTG
66 CTTTTAGGGTGTTTTG
* * * * * *
30224705 GTAATTTTTCCCTTCGAGGGTATTTTAG-TACTTTTATCTTTCTAGGGTATTTTAGTAATTTTAC
1 GTAATTTTACCCTTCGAGGGTA-TTTAGATAATTTTACCCTTCGAGAGTATTTTAGTAATTTTAC
30224769 CCTT
65 CCTT
30224773 CGGCAATCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
81 55 0.93
82 4 0.07
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.48
Consensus pattern (81 bp):
GTAATTTTACCCTTCGAGGGTATTTAGATAATTTTACCCTTCGAGAGTATTTTAGTAATTTTACC
CTTTTAGGGTGTTTTG
Found at i:30224833 original size:27 final size:27
Alignment explanation
Indices: 30224803--30224867 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
30224793 GATATTTTAG
*
30224803 TAATTTTACCCTTCGGGGGTAATTCAA
1 TAATTTTACCCTTCGGGGGTAAGTCAA
*
30224830 TAATTTTACCCTTCGGGGGTAAGTCGA
1 TAATTTTACCCTTCGGGGGTAAGTCAA
*
30224857 TCATTTTACCC
1 TAATTTTACCC
30224868 ACGATTCGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACCCTTCGGGGGTAAGTCAA
Found at i:30225798 original size:18 final size:19
Alignment explanation
Indices: 30225765--30225801 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
30225755 GGAAAAATCG
*
30225765 CCAACAAGAGAAGAAGAAA
1 CCAAAAAGAGAAGAAGAAA
30225784 CCAAAAAGA-AAGAAGAAA
1 CCAAAAAGAGAAGAAGAAA
30225802 AGAAAAGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.68, C:0.14, G:0.19, T:0.00
Consensus pattern (19 bp):
CCAAAAAGAGAAGAAGAAA
Found at i:30225807 original size:18 final size:19
Alignment explanation
Indices: 30225770--30225807 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
30225760 AATCGCCAAC
*
30225770 AAGAGAAGAAGAAACCAAA
1 AAGAGAAGAAGAAAACAAA
*
30225789 AAGA-AAGAAGAAAAGAAA
1 AAGAGAAGAAGAAAACAAA
30225807 A
1 A
30225808 GATGAGGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAGAAAACAAA
Found at i:30229733 original size:614 final size:614
Alignment explanation
Indices: 30228566--30229796 Score: 2426
Period size: 614 Copynumber: 2.0 Consensus size: 614
30228556 GCAGACTTAG
30228566 AAAACTTTAAATCTCAGATACGGTCTTAGGTGGTTTCTAATCCAGTATAGTTTCAATTTTCTGAG
1 AAAACTTTAAATCTCAGATACGGTCTTAGGTGGTTTCTAATCCAGTATAGTTTCAATTTTCTGAG
30228631 GATCAACCCTAATATTTTCGGCATATACCACGTGACCCAGAATTGTCACTTCTCGCAGCCAGAAC
66 GATCAACCCTAATATTTTCGGCATATACCACGTGACCCAGAATTGTCACTTCTCGCAGCCAGAAC
30228696 TCACACTTGTTGAACTTAGCATATAGTTGTTTCTCCCTTAAAATCTACAGAACAATTTGGAGATG
131 TCACACTTGTTGAACTTAGCATATAGTTGTTTCTCCCTTAAAATCTACAGAACAATTTGGAGATG
30228761 TGCATCACGCTCATCCTCAGTTCTCAAATACACCAAGATATCGTCTATGAATACCACCACTAATC
196 TGCATCACGCTCATCCTCAGTTCTCAAATACACCAAGATATCGTCTATGAATACCACCACTAATC
* *
30228826 AATCTAAGTAGGGTTGGAATACTCGGTTCATTAGGTCCATGAAGGAGCTGGTGCATTCATTACCC
261 AATCCAAGGAGGGTTGGAATACTCGGTTCATTAGGTCCATGAAGGAGCTGGTGCATTCATTACCC
30228891 CAAACGACATTACTAGGAACTCGTAATGACCATAACGAGTCCTAAATGAAGTCTTATACACATCA
326 CAAACGACATTACTAGGAACTCGTAATGACCATAACGAGTCCTAAATGAAGTCTTATACACATCA
30228956 ACCTCTTCAACTCTCAATTGATGGTACCCAGAATGAAGATCTATTTTGGAGAAAACTGATGCTCC
391 ACCTCTTCAACTCTCAATTGATGGTACCCAGAATGAAGATCTATTTTGGAGAAAACTGATGCTCC
30229021 TTGCAACTGATCAAATAAATCATCTATCCTCGGTAAGAGATACTTATTCTTGATAGTCAGCTTAT
456 TTGCAACTGATCAAATAAATCATCTATCCTCGGTAAGAGATACTTATTCTTGATAGTCAGCTTAT
30229086 ACAGTTGCTGATAATCGATGCACATGTGCATAGTCCCATCATTCTTCTTAACGAATAGCACTGGT
521 ACAGTTGCTGATAATCGATGCACATGTGCATAGTCCCATCATTCTTCTTAACGAATAGCACTGGT
30229151 GTTCTCCATGGAGACACGCTAGGTTGAAT
586 GTTCTCCATGGAGACACGCTAGGTTGAAT
30229180 AAAACTTTAAATCTCAGATACGGTCTTAGGTGGTTTCTAATCCAGTATAGTTTCAATTTTCTGAG
1 AAAACTTTAAATCTCAGATACGGTCTTAGGTGGTTTCTAATCCAGTATAGTTTCAATTTTCTGAG
*
30229245 GATCAACCCTAATCTTTTCGGCATATACCACGTGACCCAGAATTGTCACTTCTCGCAGCCAGAAC
66 GATCAACCCTAATATTTTCGGCATATACCACGTGACCCAGAATTGTCACTTCTCGCAGCCAGAAC
30229310 TCACACTTGTTGAACTTAGCATATAGTTGTTTCTCCCTTAAAATCTACAGAACAATTTGGAGATG
131 TCACACTTGTTGAACTTAGCATATAGTTGTTTCTCCCTTAAAATCTACAGAACAATTTGGAGATG
30229375 TGCATCACGCTCATCCTCAGTTCTCAAATACACCAAGATATCGTCTATGAATACCACCACTAATC
196 TGCATCACGCTCATCCTCAGTTCTCAAATACACCAAGATATCGTCTATGAATACCACCACTAATC
*
30229440 AATCCAAGGAGGGTTGGAATACTCGGTTCATTAGGTCCATGAAGGAGCTGGTGCATTCATTAGCC
261 AATCCAAGGAGGGTTGGAATACTCGGTTCATTAGGTCCATGAAGGAGCTGGTGCATTCATTACCC
30229505 CAAACGACATTACTAGGAACTCGTAATGACCATAACGAGTCCTAAATGAAGTCTTATACACATCA
326 CAAACGACATTACTAGGAACTCGTAATGACCATAACGAGTCCTAAATGAAGTCTTATACACATCA
30229570 ACCTCTTCAACTCTCAATTGATGGTACCCAGAATGAAGATCTATTTTGGAGAAAACTGATGCTCC
391 ACCTCTTCAACTCTCAATTGATGGTACCCAGAATGAAGATCTATTTTGGAGAAAACTGATGCTCC
30229635 TTGCAACTGATCAAATAAATCATCTATCCTCGGTAAGAGATACTTATTCTTGATAGTCAGCTTAT
456 TTGCAACTGATCAAATAAATCATCTATCCTCGGTAAGAGATACTTATTCTTGATAGTCAGCTTAT
30229700 ACAGTTGCTGATAATCGATGCACATGTGCATAGTCCCATCATTCTTCTTAACGAATAGCACTGGT
521 ACAGTTGCTGATAATCGATGCACATGTGCATAGTCCCATCATTCTTCTTAACGAATAGCACTGGT
30229765 GTTCTCCATGGAGACACGCTAGGTTGAAT
586 GTTCTCCATGGAGACACGCTAGGTTGAAT
30229794 AAA
1 AAA
30229797 TCTTCGATCC
Statistics
Matches: 613, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
614 613 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (614 bp):
AAAACTTTAAATCTCAGATACGGTCTTAGGTGGTTTCTAATCCAGTATAGTTTCAATTTTCTGAG
GATCAACCCTAATATTTTCGGCATATACCACGTGACCCAGAATTGTCACTTCTCGCAGCCAGAAC
TCACACTTGTTGAACTTAGCATATAGTTGTTTCTCCCTTAAAATCTACAGAACAATTTGGAGATG
TGCATCACGCTCATCCTCAGTTCTCAAATACACCAAGATATCGTCTATGAATACCACCACTAATC
AATCCAAGGAGGGTTGGAATACTCGGTTCATTAGGTCCATGAAGGAGCTGGTGCATTCATTACCC
CAAACGACATTACTAGGAACTCGTAATGACCATAACGAGTCCTAAATGAAGTCTTATACACATCA
ACCTCTTCAACTCTCAATTGATGGTACCCAGAATGAAGATCTATTTTGGAGAAAACTGATGCTCC
TTGCAACTGATCAAATAAATCATCTATCCTCGGTAAGAGATACTTATTCTTGATAGTCAGCTTAT
ACAGTTGCTGATAATCGATGCACATGTGCATAGTCCCATCATTCTTCTTAACGAATAGCACTGGT
GTTCTCCATGGAGACACGCTAGGTTGAAT
Found at i:30232182 original size:20 final size:20
Alignment explanation
Indices: 30232144--30232182 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30232134 AACTTAGACT
*
30232144 TGTTGATAAAATTCATTTCA
1 TGTTGATAAAACTCATTTCA
*
30232164 TGTTGATAAAACTCGTTTC
1 TGTTGATAAAACTCATTTC
30232183 GTTAATTTAA
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:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TGTTGATAAAACTCATTTCA
Found at i:30232704 original size:30 final size:31
Alignment explanation
Indices: 30232668--30232726 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
30232658 ATAGTACGGT
*
30232668 GTGGGCCTAAGCCCAGTACAATAA-CAGTGA
1 GTGGGCCTAAGCCCAATACAATAATCAGTGA
* *
30232698 GTGGGCCTTAGCCCAATACAGTAATCAGT
1 GTGGGCCTAAGCCCAATACAATAATCAGT
30232727 ACGATGCAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (31 bp):
GTGGGCCTAAGCCCAATACAATAATCAGTGA
Found at i:30233116 original size:27 final size:27
Alignment explanation
Indices: 30233086--30233265 Score: 202
Period size: 27 Copynumber: 6.7 Consensus size: 27
30233076 TATAACAGTC
* * *
30233086 ATTTTACCTTTTGGGGGTATTTTAGTA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
* * *
30233113 ATTTTACCCTTTAAGGGCATTTTAGTA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
* * *
30233140 ATTTTACCCTTTGAAGG-ATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
*
30233166 ATTTTACCCTTTGAGGGTATTTCGGTA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
* *
30233193 ATTTTACCCTTTGAAGGTATTTCGGTA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
* * *
30233220 ATTTTACTCTTTAAGGGTAATTTGGTA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
30233247 ATTTTA-CCTTTCGAGGGTA
1 ATTTTACCCTTT-GAGGGTA
30233266 ATTCGATCAT
Statistics
Matches: 132, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 26 0.20
27 106 0.80
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (27 bp):
ATTTTACCCTTTGAGGGTATTTTGGTA
Found at i:30233171 original size:53 final size:54
Alignment explanation
Indices: 30233111--30233282 Score: 231
Period size: 54 Copynumber: 3.2 Consensus size: 54
30233101 GGTATTTTAG
* *
30233111 TAATTTTACCCTTTAAGGGCATTTTAGTAATTTTACCCTTTGAAGG-ATTTCGA
1 TAATTTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTTTGAAGGTATTTCGA
* * *
30233164 TAATTTTACCCTTTGAGGGTATTTCGGTAATTTTACCCTTTGAAGGTATTTCGG
1 TAATTTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTTTGAAGGTATTTCGA
* * * *
30233218 TAATTTTACTCTTTAAGGGTAATTTGGTAATTTTA-CCTTTCGAGGGTAATTCGA
1 TAATTTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTTT-GAAGGTATTTCGA
*
30233272 TCATTTTACCC
1 TAATTTTACCC
30233283 ATGATTCACA
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
53 47 0.46
54 56 0.54
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (54 bp):
TAATTTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTTTGAAGGTATTTCGA
Found at i:30233221 original size:80 final size:80
Alignment explanation
Indices: 30233086--30233282 Score: 213
Period size: 80 Copynumber: 2.5 Consensus size: 80
30233076 TATAACAGTC
* * ** *
30233086 ATTTTACCTTTTGGGGGTATTTTAGTAATTTTACCCTTTAAGGGCATTTTAGTAATTTTACCCTT
1 ATTTTACCCTTTGAGGGTATTTCGGTAATTTTACCCTTTAAGGGCATTTCAGTAATTTTACCCTT
30233151 TGAA-GG-ATTTCGATA
66 T-AAGGGAATTT-GATA
* * *
30233166 ATTTTACCCTTTGAGGGTATTTCGGTAATTTTACCCTTTGAA-GGTATTTCGGTAATTTTACTCT
1 ATTTTACCCTTTGAGGGTATTTCGGTAATTTTACCCTTT-AAGGGCATTTCAGTAATTTTACCCT
*
30233230 TTAAGGGTAATTTGGTA
65 TTAAGGG-AATTTGATA
* * *
30233247 ATTTTA-CCTTTCGAGGGTAATTCGATCATTTTACCC
1 ATTTTACCCTTT-GAGGGTATTTCGGTAATTTTACCC
30233283 ATGATTCACA
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
79 2 0.02
80 62 0.62
81 32 0.32
82 4 0.04
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (80 bp):
ATTTTACCCTTTGAGGGTATTTCGGTAATTTTACCCTTTAAGGGCATTTCAGTAATTTTACCCTT
TAAGGGAATTTGATA
Found at i:30234230 original size:18 final size:19
Alignment explanation
Indices: 30234193--30234230 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
30234183 AATTGGCAAC
*
30234193 AAGAGAAGAAGAAACCAAA
1 AAGAGAAGAAGAAAACAAA
*
30234212 AAGA-AAGAAGAAAAGAAA
1 AAGAGAAGAAGAAAACAAA
30234230 A
1 A
30234231 GATGAGAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAGAAAACAAA
Found at i:30238986 original size:40 final size:40
Alignment explanation
Indices: 30238949--30239174 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
30238939 GCTACTCGTT
* *
30238949 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
30238989 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
30239029 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** **
30239069 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCATA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
30239109 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
30239150 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
30239175 CATCATTCAA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30241453 original size:21 final size:19
Alignment explanation
Indices: 30241404--30241455 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 19
30241394 CAAGATTGTC
*
30241404 GAAAGATTAGGTAAGAATT
1 GAAAGATTAAGTAAGAATT
30241423 GAAAAGGATTAAGTAATTGAATT
1 G-AAA-GATTAAGTAA--GAATT
30241446 GAAAGATTAA
1 GAAAGATTAA
30241456 TGTCGGATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 15 0.54
22 3 0.11
23 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (19 bp):
GAAAGATTAAGTAAGAATT
Found at i:30249450 original size:50 final size:50
Alignment explanation
Indices: 30249391--30249514 Score: 126
Period size: 50 Copynumber: 2.5 Consensus size: 50
30249381 CGCCATTGCG
* *
30249391 GCTTCAATCTGTTCCACTGCACCGTCTGGGAAGCAAAATTC-GCTGCAGTA
1 GCTTTAATCTGTTCCACTGCACCGTCAGGGAAGCAAAATTCAGC-GCAGTA
** ** * ** *
30249441 GCTTTAATCT-TCTTAACTGCAATGTCAGGGAAGCAAGATTCAGCGTTGTG
1 GCTTTAATCTGT-TCCACTGCACCGTCAGGGAAGCAAAATTCAGCGCAGTA
30249491 GCTTTAATCTGTTCCACTGCACCG
1 GCTTTAATCTGTTCCACTGCACCG
30249515 CTAGGGGAGT
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
49 1 0.02
50 53 0.93
51 3 0.05
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (50 bp):
GCTTTAATCTGTTCCACTGCACCGTCAGGGAAGCAAAATTCAGCGCAGTA
Found at i:30249757 original size:46 final size:46
Alignment explanation
Indices: 30249684--30249801 Score: 191
Period size: 46 Copynumber: 2.6 Consensus size: 46
30249674 TCTGCTCCGT
** *
30249684 TGTAATCTCAGGGAGATAAGATTTGAAATTCCTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGACCTGAAATGCCTCGGTCTATTCCAC
* *
30249730 TGTAATCTCAGGGAGATAAGACCTGAAATGCTTTGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGACCTGAAATGCCTCGGTCTATTCCAC
30249776 TGTAATCTCAGGGAGATAAGACCTGA
1 TGTAATCTCAGGGAGATAAGACCTGA
30249802 TGCGATCTAC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (46 bp):
TGTAATCTCAGGGAGATAAGACCTGAAATGCCTCGGTCTATTCCAC
Found at i:30249877 original size:44 final size:43
Alignment explanation
Indices: 30249628--30249927 Score: 137
Period size: 44 Copynumber: 6.8 Consensus size: 43
30249618 CCTTTATGTT
* * * *
30249628 AATCCACTCCACTGTAATCTCAGGGAGGTAGGATTACT-AGCTTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTGA-CTTC
* ** * *
30249672 AATCTGCTCCGTTGTAATCTCAGGGAGATAAGAT-TTGAAATTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATCCTG-ACTTC
* * *
30249715 -CTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGA-CCTGAAATGCTTT
1 AATCCG-C---TCCACTGTAATCTCAGGGAGATAAGATCCTG--A--CTTC
** *** *
30249764 GGTCTATTCCACTGTAATCTCAGGGAGATAAGA-CCTGA-TGC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATCCTGACTTC
* ** * * * * *
30249805 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTT
1 AATCCGCTCCACTGTAATC-TCAGGGAGATAAGATCC-TGACTTC
* * * *
30249849 AATCCGGTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTGACTTC
* *
30249893 AATCTGCTCCACTGTAATCTCAAGGAGATAAGATC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATC
30249928 TGAAATTCTT
Statistics
Matches: 194, Mismatches: 45, Indels: 35
0.71 0.16 0.13
Matches are distributed among these distances:
40 1 0.01
41 28 0.14
42 6 0.03
43 8 0.04
44 86 0.44
45 3 0.02
46 56 0.29
47 2 0.01
49 2 0.01
50 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (43 bp):
AATCCGCTCCACTGTAATCTCAGGGAGATAAGATCCTGACTTC
Found at i:30249894 original size:221 final size:222
Alignment explanation
Indices: 30249530--30249946 Score: 674
Period size: 221 Copynumber: 1.9 Consensus size: 222
30249520 GGAGTAAGGT
*
30249530 CTGAAATTCTTCGGTCTATTCCACTATAATCTCAGGGAGATAAGACCTAATACGATCTACTCTAC
1 CTGAAATGCTTCGGTCTATTCCACTATAATCTCAGGGAGATAAGACCTAATACGATCTACTCTAC
*
30249595 TGTTAACTTCAAAGAGATAAGATCCTTTATGTTAATCCACTCCACTGTAATCTCAGGGAGGTAGG
66 TGTTAACTTCAAAGAGATAAGATCCTTTATGTTAATCCACTCCACTGTAATCTCAGGGAGATAGG
** * *
30249660 ATTACTAGCTTCAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATTTGAAATTCCTCGGTCTAT
131 ATTACTAGCTTCAATCTGCTCCACTGTAATCTCAAGGAGATAAGATCTGAAATTCCTCGGTCTAT
30249725 TCCACTGTAATCTCAGGGAGATAAGAC
196 TCCACTGTAATCTCAGGGAGATAAGAC
* * * *
30249752 CTGAAATGCTTTGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTAC
1 CTGAAATGCTTCGGTCTATTCCACTATAATCTCAGGGAGATAAGACCTAATACGATCTACTCTAC
* * **
30249817 TG-TAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGGTCCACTGTAATCTCAGGGAGATAGG
66 TGTTAACTTCAAAGAGATAAGATCCTTTATGTTAATCCACTCCACTGTAATCTCAGGGAGATAGG
* * *
30249881 ATTACTGGCTTCAATCTGCTCCACTGTAATCTCAAGGAGATAAGATCTGAAATTCTTTGGTCTAT
131 ATTACTAGCTTCAATCTGCTCCACTGTAATCTCAAGGAGATAAGATCTGAAATTCCTCGGTCTAT
30249946 T
196 T
30249947 TTCTGGGGAA
Statistics
Matches: 178, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
221 116 0.65
222 62 0.35
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (222 bp):
CTGAAATGCTTCGGTCTATTCCACTATAATCTCAGGGAGATAAGACCTAATACGATCTACTCTAC
TGTTAACTTCAAAGAGATAAGATCCTTTATGTTAATCCACTCCACTGTAATCTCAGGGAGATAGG
ATTACTAGCTTCAATCTGCTCCACTGTAATCTCAAGGAGATAAGATCTGAAATTCCTCGGTCTAT
TCCACTGTAATCTCAGGGAGATAAGAC
Found at i:30257802 original size:69 final size:69
Alignment explanation
Indices: 30257671--30257802 Score: 203
Period size: 69 Copynumber: 1.9 Consensus size: 69
30257661 TAGTTTATTA
* * * * *
30257671 CTAATTAATTTGCTGCTGTAATGCTGTAAATATTGGCTGTCCAAATTAGGACAAATTTATGGTAC
1 CTAATTAATATGCTGCTGTAATACTGTAAATATTGGCTCTCCAAATTAGGACAAAATCATGGTAC
30257736 TTAG
66 TTAG
30257740 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAA-TATTGGCTCTCCAAATTAGGACAAAATCATGGT
30257803 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
68 4 0.07
69 53 0.93
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (69 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATATTGGCTCTCCAAATTAGGACAAAATCATGGTAC
TTAG
Found at i:30259355 original size:49 final size:47
Alignment explanation
Indices: 30259271--30259442 Score: 299
Period size: 47 Copynumber: 3.6 Consensus size: 47
30259261 TATTTGAATA
* *
30259271 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30259318 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30259367 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30259414 AATGTGAAAGTGTATATATGTGATAAGGC
1 AATGTGAAAGTGTATATATGTGATAAGGC
30259443 ATGAATGTGA
Statistics
Matches: 120, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
47 75 0.62
49 45 0.38
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:30259379 original size:96 final size:94
Alignment explanation
Indices: 30259271--30259442 Score: 299
Period size: 96 Copynumber: 1.8 Consensus size: 94
30259261 TATTTGAATA
*
30259271 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTG--TATA
30259336 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
30259367 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTGTATATA
30259432 TGTGATAAGGC
66 TGTGATAAGGC
30259443 ATGAATGTGA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
94 17 0.23
96 56 0.77
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:30259436 original size:16 final size:16
Alignment explanation
Indices: 30259415--30259468 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
30259405 GATGTGATGA
30259415 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
*
30259431 ATGTGATAAG-GCATGA-
1 ATGTGA-AAGTGTAT-AT
30259447 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
30259463 ATGTGA
1 ATGTGA
30259469 TAAGGCCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 4 0.12
16 24 0.75
17 4 0.12
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (16 bp):
ATGTGAAAGTGTATAT
Found at i:30259448 original size:32 final size:32
Alignment explanation
Indices: 30259411--30259474 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
30259401 AGCCGATGTG
30259411 ATGAATGTGAAAGTGTATATATGTGATAAGGC
1 ATGAATGTGAAAGTGTATATATGTGATAAGGC
30259443 ATGAATGTGAAAGTGTATATATGTGATAAGGC
1 ATGAATGTGAAAGTGTATATATGTGATAAGGC
30259475 CTAATGGCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (32 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGC
Found at i:30259451 original size:79 final size:79
Alignment explanation
Indices: 30259364--30259521 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
30259354 GGCCGATGTG
30259364 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
30259429 ATATGTGATAAGGC
66 ATATGTGATAAGGC
*
30259443 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
30259508 ATATGTGATAAGGC
66 ATATGTGATAAGGC
30259522 CGAATGGCCA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.30
Consensus pattern (79 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGC
Found at i:30259479 original size:126 final size:127
Alignment explanation
Indices: 30259315--30259564 Score: 457
Period size: 126 Copynumber: 2.0 Consensus size: 127
30259305 GGCCAATGTG
30259315 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
30259380 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
65 ATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
30259443 ATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 ATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
30259507 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATA
66 TATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATA
30259565 GGGCCGAGTG
Statistics
Matches: 119, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
126 104 0.87
128 15 0.13
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.30
Consensus pattern (127 bp):
ATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
TATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
Found at i:30259496 original size:47 final size:47
Alignment explanation
Indices: 30259443--30259613 Score: 279
Period size: 47 Copynumber: 3.6 Consensus size: 47
30259433 GTGATAAGGC
* *
30259443 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
30259490 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* * *
30259537 ATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* *
30259584 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
30259614 TCCCGAAGGG
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:30259594 original size:173 final size:174
Alignment explanation
Indices: 30259271--30259613 Score: 562
Period size: 173 Copynumber: 2.0 Consensus size: 174
30259261 TATTTGAATA
30259271 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATA
* * *
30259336 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
65 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
* * *
30259401 AGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCATG
130 AGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCATG
* *
30259446 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATAT
* * *
30259510 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTG
66 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATA
*
30259575 GCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 GCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
30259614 TCCCGAAGGG
Statistics
Matches: 156, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
173 99 0.63
175 57 0.37
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (174 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATA
GCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCATG
Found at i:30270907 original size:14 final size:14
Alignment explanation
Indices: 30270888--30270917 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30270878 TATAAAAATG
*
30270888 TAAGTATGTATGTA
1 TAAGTATGTATATA
30270902 TAAGTATGTATATA
1 TAAGTATGTATATA
30270916 TA
1 TA
30270918 TAACATAGTC
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:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (14 bp):
TAAGTATGTATATA
Found at i:30272412 original size:44 final size:44
Alignment explanation
Indices: 30272364--30272958 Score: 240
Period size: 44 Copynumber: 13.7 Consensus size: 44
30272354 ATTGTTTTAA
* *
30272364 TCTGCTCCACTGTAACTTTAGGGAGATAGGATTAGTAGCTTTTG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTTTG
* *
30272408 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTAG-A---TGTG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTTTG
* * * * *
30272448 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTTGT-GGTTTTAA
1 -TCTGCTCCACTGCAACTTTAGGGAGATAAGAT-TAGTAGCTTTT-G
* * * * **
30272494 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTTTG
* * * *
30272538 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT-G--G-ATGTG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTTTG
* * * * * * **
30272578 ATCTGTTCTACTGCAACTTCAGAGAGATAAGATCTTGT-GGTTTCAA
1 -TCTGCTCCACTGCAACTTTAGGGAGATAAGAT-TAGTAGCTTT-TG
* * * * * ** *
30272624 TCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTTTG
* * * * * *
30272668 TCTGCTCCACTACAACTTCAGTGAGATAAGACT-G--G-ATGTG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTTTG
* * * * * * *
30272708 ATCTGCTCTACTCCAACTTCAGAGAGATAAGATCTTGT-GGTTTTAA
1 -TCTGCTCCACTGCAACTTTAGGGAGATAAGAT-TAGTAGCTTTT-G
** * * * * ** *
30272754 TCCACTCCACTGCAAATTCAGGGAGATAGGATTGGTTTCTTCTG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTTTG
* * * * * *
30272798 TCTGCTCCACTGCAACTTCAGAGAGATATGACT-G--G-ATGTG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTTTG
* * * * * *
30272838 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTGT-GGTTTTAA
1 -TCTGCTCCACTGCAACTTTAGGGAGATAAGAT-TAGTAGCTTTT-G
* * * ** *
30272884 TCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTTTG
* * *
30272928 TCTACTCCACTACAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGA
30272959 CTTGATGTGA
Statistics
Matches: 419, Mismatches: 103, Indels: 58
0.72 0.18 0.10
Matches are distributed among these distances:
40 12 0.03
41 114 0.27
42 5 0.01
43 7 0.02
44 157 0.37
45 124 0.30
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTTTG
Found at i:30272541 original size:130 final size:130
Alignment explanation
Indices: 30272273--30273059 Score: 1202
Period size: 130 Copynumber: 6.1 Consensus size: 130
30272263 AGATTTTTGG
* * *
30272273 TTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACCGCAACTT
1 TTTT-GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTT
* * * * * * * * *
30272338 CATAGATATATGATTCAT-T-GTTTTAATCTGCTCCACTGTAACTTTAGGGAGATAGGATTAGTA
65 CAGAGAGATAAGA-TCTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTT
*
30272401 GC
129 TC
* * *
30272403 TTTTGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGTGATCTGCTCTACTGCAACTTT
1 TTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTC
30272468 AGAGAGATAAGATCTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
66 AGAGAGATAAGATCTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
*
30272533 TTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGTTCTACTGCAACTTC
1 TTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTC
* *
30272598 AGAGAGATAAGATCTTGTGGTTTCAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTC
66 AGAGAGATAAGATCTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
* * * *
30272663 TTCTGTCTGCTCCACTACAACTTCAGTGAGATAAGACTGGATGTGATCTGCTCTACTCCAACTTC
1 TTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTC
* *
30272728 AGAGAGATAAGATCTTGTGGTTTTAATCCACTCCACTGCAAATTCAGGGAGATAGGATTGGTTTC
66 AGAGAGATAAGATCTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
* * *
30272793 TTCTGTCTGCTCCACTGCAACTTCAGAGAGATATGACTGGATGTGATCTGCTCTACTGCAACTTC
1 TTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTC
*
30272858 AGAGAGATAAGATCTTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTC
66 AGAGAGATAAGATCTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
* * * * *
30272923 TTCTGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGATGTGATCTGCTCTACTGCAACTTA
1 TTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTC
* *
30272988 AGAGAGATAAGATC-TGTGATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTC
66 AGAGAGATAAGATCTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
*
30273052 TTTCGTCT
1 TTTTGTCT
30273060 ATTTAACTGC
Statistics
Matches: 606, Mismatches: 49, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
128 3 0.00
129 118 0.19
130 485 0.80
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (130 bp):
TTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTC
AGAGAGATAAGATCTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
Found at i:30273247 original size:50 final size:50
Alignment explanation
Indices: 30273065--30273630 Score: 364
Period size: 50 Copynumber: 11.4 Consensus size: 50
30273055 CGTCTATTTA
* ** * * *
30273065 ACTGCAATGTCAGGGAAACAAGATTCGCCTTCGTAGCTTCAATTTGTTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* * ** * * **
30273115 ATTACACCGCCAGAGAAGTAAGATTCACCGTCGTGGCTTCAATCT-TTTA
1 ACTGCAATGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* * * *
30273164 ACTGCAATGTCAGGGAAATAAGATTCACTGTTGTAGCTTCAATCTGTTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* ** * * * * * **
30273214 ACTACACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTA
1 ACTGCAATGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* * * * *
30273264 ATTGCAATGTCGGGGAAGCAAGATTCATCGTCGTAGCTTCAATCTGTTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* *** * * * * * * **
30273314 ACTACACCACCTGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTA
1 ACTGCAATGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* * * * **
30273364 ATTACAATGTCAGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTACTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* * ** * **
30273414 ACTGC-ATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAA
1 ACTGCAAT-GCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* ** * ** * *
30273464 ATTGCAATATCAGGGAAGCAAGATTCGTCGTCGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* * * * * **
30273514 ACTGTACTGCCAGGGAAGTAAGATTCGCCGTCGTGGCTTCAAT-TTTTAA
1 ACTGCAATGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* ** * * * *
30273563 ATTGCAATATCAGGTAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* *
30273613 ACTGCACTGCTAGGGAAG
1 ACTGCAATGCCAGGGAAG
30273631 GTAACTTCAT
Statistics
Matches: 368, Mismatches: 144, Indels: 8
0.71 0.28 0.02
Matches are distributed among these distances:
49 74 0.20
50 292 0.79
51 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (50 bp):
ACTGCAATGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCC
Found at i:30273313 original size:100 final size:99
Alignment explanation
Indices: 30273061--30273615 Score: 700
Period size: 100 Copynumber: 5.6 Consensus size: 99
30273051 CTTTCGTCTA
* * * * * * *
30273061 TTTAACTGCAATGTCAGGGAAACAAGATTCGCCTTCGTAGCTTCAATTTGTTCCATTACACCGCC
1 TTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTACACCGCC
* *
30273126 AGAGAAGTAAGATTCACCGTCGTGGCTTCAATC-T
66 AG-GAAGTAAGATTCGCCGTTGTGGCTTCAATCTT
* ** * * *
30273160 TTTAACTGCAATGTCAGGGAAATAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCC
1 TTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTACACCGCC
30273225 AGAGAAGTAAGATTCGCCGTTGTGGCTTCAATCTT
66 AG-GAAGTAAGATTCGCCGTTGTGGCTTCAATCTT
* * * *
30273260 TTTAATTGCAATGTCGGGGAAGCAAGATTCATCGTCGTAGCTTCAATCTGTTCCACTACACCACC
1 TTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTACACCGCC
*
30273325 TGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTT
66 AGG-AAGTAAGATTCGCCGTTGTGGCTTCAATCTT
* * * *
30273360 TTTAATTACAATGTCAGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTACTCCACTGCATCGCC
1 TTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTACACCGCC
* *
30273425 AGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTT
66 AGG-AAGTAAGATTCGCCGTTGTGGCTTCAATCTT
* * ** * ** *
30273460 TTAAATTGCAATATCAGGGAAGCAAGATTCGTCGTCGTAGCTTTAATCTGCTCCACTGTACTGCC
1 TTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTACACCGCC
*
30273525 AGGGAAGTAAGATTCGCCGTCGTGGCTTCAAT-TT
66 A-GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTT
* * * *
30273559 TTAAATTGCAATATCAGGTAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACT
1 TTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACT
30273616 GCACTGCTAG
Statistics
Matches: 408, Mismatches: 45, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
99 146 0.36
100 260 0.64
101 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (99 bp):
TTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTACACCGCC
AGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTT
Found at i:30273959 original size:24 final size:23
Alignment explanation
Indices: 30273927--30273987 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
30273917 CGAATTGCCC
*
30273927 CCACTGTAATTTTCAAAGTTCAAT
1 CCACTGTAATTTT-AAAGTCCAAT
* * *
30273951 CCACTGTAAACTTTAAGGTCCAGT
1 CCACTGT-AATTTTAAAGTCCAAT
30273975 CCACTGTAATTTT
1 CCACTGTAATTTT
30273988 GGGACATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 5 0.16
24 21 0.68
25 5 0.16
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (23 bp):
CCACTGTAATTTTAAAGTCCAAT
Done.