Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007985.1 Hibiscus syriacus cultivar Beakdansim tig00110430_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2235968
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:190078 original size:16 final size:16
Alignment explanation
Indices: 190057--190090 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
190047 ATTATTTCAC
*
190057 TTTAATATTCTAAATT
1 TTTAATATTATAAATT
*
190073 TTTAATTTTATAAATT
1 TTTAATATTATAAATT
190089 TT
1 TT
190091 ACGATCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAATATTATAAATT
Found at i:190141 original size:39 final size:38
Alignment explanation
Indices: 190032--190150 Score: 118
Period size: 39 Copynumber: 3.1 Consensus size: 38
190022 TAAATTTTTT
* * * * *
190032 ATTCATAATTCTCAAATTATTTCACTTTAATATTCTAA
1 ATTCTTAATTCTTAAATTATTTTACATTAACATTCTAA
*
190070 ATTTTTAATT-TTATAA--ATTTTACGATCATAACATTCTAA
1 ATTCTTAATTCTTA-AATTATTTTAC-AT--TAACATTCTAA
190109 ATTCTTAATTTCTTAAATTATTTTACATTAACATTCTAA
1 ATTCTTAA-TTCTTAAATTATTTTACATTAACATTCTAA
190148 ATT
1 ATT
190151 ATTTTTAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
36 6 0.09
37 3 0.05
38 10 0.15
39 31 0.47
40 4 0.06
41 5 0.08
42 7 0.11
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.50
Consensus pattern (38 bp):
ATTCTTAATTCTTAAATTATTTTACATTAACATTCTAA
Found at i:192306 original size:30 final size:30
Alignment explanation
Indices: 192240--192307 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
192230 TTTTAGTATC
*
192240 GTGTTCATGTTCATTTATTTATTTTTGAAG
1 GTGTTCGTGTTCATTTATTTATTTTTGAAG
* * **
192270 GTGTTCGTGTTTATTTGTTTATTTTTGCTG
1 GTGTTCGTGTTCATTTATTTATTTTTGAAG
192300 GTGTTCGT
1 GTGTTCGT
192308 AAACATGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.12, C:0.07, G:0.22, T:0.59
Consensus pattern (30 bp):
GTGTTCGTGTTCATTTATTTATTTTTGAAG
Found at i:192348 original size:23 final size:23
Alignment explanation
Indices: 192318--192392 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
192308 AAACATGTTT
192318 GTTTAATATTTGCGAACGTATTC
1 GTTTAATATTTGCGAACGTATTC
* *
192341 GTTTAATATTTGTGAACGTGTTC
1 GTTTAATATTTGCGAACGTATTC
** *
192364 GTTTATATATTCACGAATGTATTC
1 GTTTA-ATATTTGCGAACGTATTC
*
192388 ATTTA
1 GTTTA
192393 TCGTTCACGA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 26 0.60
24 17 0.40
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.47
Consensus pattern (23 bp):
GTTTAATATTTGCGAACGTATTC
Found at i:192421 original size:23 final size:23
Alignment explanation
Indices: 192373--192422 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
192363 CGTTTATATA
* *
192373 TTCACGAATGTATTCATTTATCG
1 TTCACGAATATATTCATTTAACG
* *
192396 TTCACGAATATATTCGTTTAAGG
1 TTCACGAATATATTCATTTAACG
192419 TTCA
1 TTCA
192423 TTTAGTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (23 bp):
TTCACGAATATATTCATTTAACG
Found at i:192438 original size:22 final size:22
Alignment explanation
Indices: 192412--192459 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
192402 AATATATTCG
*
192412 TTTAAGGTTCATTTAGTGTTTA
1 TTTAAGGTTCATTTAGTGTTCA
* **
192434 TTTAATGTTTGTTTAGTGTTCA
1 TTTAAGGTTCATTTAGTGTTCA
192456 TTTA
1 TTTA
192460 TATGTTCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.04, G:0.17, T:0.58
Consensus pattern (22 bp):
TTTAAGGTTCATTTAGTGTTCA
Found at i:193694 original size:22 final size:22
Alignment explanation
Indices: 193669--193721 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
193659 CTCTGGCTGA
193669 GTATCGATACTCTAGTGTTGGG
1 GTATCGATACTCTAGTGTTGGG
193691 GTATCGATACTCTAGTGTTGGG
1 GTATCGATACTCTAGTGTTGGG
193713 GTATCGATA
1 GTATCGATA
193722 TTGACCTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.30, T:0.36
Consensus pattern (22 bp):
GTATCGATACTCTAGTGTTGGG
Found at i:221728 original size:2 final size:2
Alignment explanation
Indices: 221721--221773 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
221711 AGTATTGTTG
221721 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
221763 TA TA TT TA TA T
1 TA TA TA TA TA T
221774 TTCCTATTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:221847 original size:5 final size:5
Alignment explanation
Indices: 221837--221861 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
221827 ATTATATATA
221837 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
221862 ATTTTACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:221910 original size:6 final size:6
Alignment explanation
Indices: 221899--221940 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
221889 TATTGATCTA
*
221899 TTTTAT TTTTAT TTTTAT TTTTAT TCTCTAT TTTTAT CTTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT -TTTT
221941 TATCTTCCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
6 23 0.72
7 9 0.28
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:221930 original size:19 final size:19
Alignment explanation
Indices: 221899--221940 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
221889 TATTGATCTA
*
221899 TTTTATTTTTATTTTTAT-
1 TTTTATTTCTATTTTTATC
221917 TTTTATTCTCTATTTTTATC
1 TTTTATT-TCTATTTTTATC
221937 TTTT
1 TTTT
221941 TATCTTCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 10 0.48
20 4 0.19
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTCTATTTTTATC
Found at i:222051 original size:9 final size:9
Alignment explanation
Indices: 222039--222086 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
222029 TTTTTCTTCG
222039 TTTTATTTA
1 TTTTATTTA
*
222048 TTTTATGTA
1 TTTTATTTA
*
222057 TTTTATTCA
1 TTTTATTTA
*
222066 TTTT-TATA
1 TTTTATTTA
*
222074 TTTAATTTA
1 TTTTATTTA
222083 TTTT
1 TTTT
222087 TTATCACTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
8 5 0.17
9 25 0.83
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTATTTA
Found at i:222085 original size:17 final size:17
Alignment explanation
Indices: 222043--222087 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
222033 TCTTCGTTTT
* *
222043 ATTTATTTTATGTATTTT
1 ATTTATTTT-TATATTTA
*
222061 ATTCATTTTTATATTTA
1 ATTTATTTTTATATTTA
222078 ATTTATTTTT
1 ATTTATTTTT
222088 TATCACTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
ATTTATTTTTATATTTA
Found at i:222829 original size:10 final size:10
Alignment explanation
Indices: 222811--222841 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
222801 TTATCACACC
222811 CAAATTCTCT
1 CAAATTCTCT
*
222821 CAAACTCTCT
1 CAAATTCTCT
222831 CAAATTCTCT
1 CAAATTCTCT
222841 C
1 C
222842 TATGTTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:222920 original size:17 final size:18
Alignment explanation
Indices: 222883--222923 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
222873 ATATTATGTA
*
222883 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
222901 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
222918 TTTACT
1 TTTACT
222924 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:225154 original size:26 final size:24
Alignment explanation
Indices: 225083--225154 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
225073 TTATATTTGT
225083 ATTTACTTTATTTTGTTAAATTATA
1 ATTTACTTTATTTTGTTAAATT-TA
*
225108 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
225130 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
225155 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:229211 original size:2 final size:2
Alignment explanation
Indices: 229199--229247 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
229189 TCAACTATTA
229199 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
229240 AT AT AT AT
1 AT AT AT AT
229248 TAAATTAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:230078 original size:228 final size:223
Alignment explanation
Indices: 229663--230100 Score: 743
Period size: 228 Copynumber: 1.9 Consensus size: 223
229653 TATCTATCCT
*
229663 TTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATCTTTAGTTAATATTGT
1 TTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATATTTAGTTAATATTGT
*
229728 TAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGTAAATG
66 TAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATTTTGTGTAAATG
*
229793 AAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAAT
131 AAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAACATAAAT
229858 TACATAACTTTCAAAAAAAGTATATATCA
196 TACATAACTTT-AAAAAAAGTATATATCA
* *
229887 TTTT-TAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGGTTAATA
1 TTTTATAAAAGTGTCCATACTTATTTCACTG-TG-AAA-ATATAT-TTATTATATTTAGTTAATA
*
229951 TTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGT
62 TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAAT-AAATTTTGTGT
* *
230016 AAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATTGAAACA
126 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAACA
230081 TAAATTACATAACTTTAAAA
191 TAAATTACATAACTTTAAAA
230101 GCAGTTTTAA
Statistics
Matches: 201, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
223 26 0.13
224 6 0.03
225 3 0.01
226 5 0.02
227 73 0.36
228 88 0.44
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (223 bp):
TTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATATTTAGTTAATATTGT
TAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATTTTGTGTAAATG
AAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAACATAAAT
TACATAACTTTAAAAAAAGTATATATCA
Found at i:230189 original size:20 final size:20
Alignment explanation
Indices: 230166--230215 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
230156 CGATATACCA
230166 GGTAAAATTATGATAAAACC
1 GGTAAAATTATGATAAAACC
*
230186 GGTAACAA-AATGATAAAACC
1 GGTAA-AATTATGATAAAACC
230206 GGTAAAATTA
1 GGTAAAATTA
230216 AAAGTGTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (20 bp):
GGTAAAATTATGATAAAACC
Found at i:230355 original size:20 final size:19
Alignment explanation
Indices: 230332--230378 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
230322 CGATATAACA
*
230332 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
230352 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
230372 GGTAAAA
1 GGTAAAA
230379 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:232755 original size:33 final size:32
Alignment explanation
Indices: 232694--232758 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
232684 AAATAGATGG
*
232694 AGTGGTGAAAGAAGTAGAGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGTGTTAAGGGGTGA
*
232726 AGTGGTGAAAGAAGTTTCG-GTGTTAAGGGGTGA
1 AGTGGTGAAAGAAG--TAGAGTGTTAAGGGGTGA
232759 TATTAAGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 13 0.45
34 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.25
Consensus pattern (32 bp):
AGTGGTGAAAGAAGTAGAGTGTTAAGGGGTGA
Found at i:234592 original size:19 final size:19
Alignment explanation
Indices: 234548--234591 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
234538 AATGTCGAGT
234548 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
234567 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
234586 T-ATTTT
1 TAATTTT
234592 TTATGTGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:235361 original size:198 final size:198
Alignment explanation
Indices: 234672--235886 Score: 2118
Period size: 198 Copynumber: 6.1 Consensus size: 198
234662 TTAAGGGTCA
* * *** *
234672 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
234737 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
234802 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
234867 ATG
196 ATG
234870 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
234935 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
235000 GTAATATGTAATTTTTCAATCTAACCGGTAC-ATTATACCGGTTTTATGAGAGAATAAGTCTAAA
129 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
235064 TAATG
194 TAATG
235069 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
235134 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
235199 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
235264 AATG
195 AATG
235268 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
235333 CATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
235397 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
235462 AATG
195 AATG
* *** * * *
235466 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACGAGGTGAATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
235531 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
235595 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
235660 ATG
196 ATG
*** * *
235663 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTTTTACAAGGTGAATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
235727 ATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
* *
235790 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
235855 ATG
196 ATG
*
235858 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
235887 CTAATTTAAA
Statistics
Matches: 992, Mismatches: 20, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
194 35 0.04
195 107 0.11
196 42 0.04
197 145 0.15
198 309 0.31
199 282 0.28
200 72 0.07
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (198 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATG
Found at i:235502 original size:398 final size:396
Alignment explanation
Indices: 234672--235886 Score: 2197
Period size: 398 Copynumber: 3.1 Consensus size: 396
234662 TTAAGGGTCA
*
234672 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
234737 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
234802 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
234867 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
234932 ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
261 ACCCATAAAGTGTCGATCCATATAT--AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
234997 AATGTAATATGTAATTTTTCAATCTAACCGGTAC-ATTATACCGGTTTTATGAGAGAATAAGTCT
324 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
235061 AAATAATG
389 AAATAATG
* *** *
235069 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTGCATC
*
235134 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
235199 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
235264 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTG
195 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTG
235329 CACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
260 CACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
235394 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
325 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
235459 AATAATG
390 AATAATG
* *
235466 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACGAGGTGAATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
235531 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
235595 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
*** *
235660 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATT-TTTACAAGGTGA
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
* *
235723 ATCAATAAAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
261 ACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
* *
235787 TGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
326 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
235852 ATAATG
391 ATAATG
*
235858 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
235887 CTAATTTAAA
Statistics
Matches: 790, Mismatches: 26, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
392 137 0.17
393 30 0.04
394 12 0.02
395 115 0.15
396 133 0.17
397 133 0.17
398 230 0.29
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (396 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
ACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
ATAATG
Found at i:237368 original size:18 final size:18
Alignment explanation
Indices: 237345--237406 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
237335 ATCGGTCGCA
* * *
237345 GAAGATGAAGCTGACGAT
1 GAAGATGACGATGATGAT
237363 GAAGATGACGATGATGAT
1 GAAGATGACGATGATGAT
*
237381 GATGATGACGATGATGAT
1 GAAGATGACGATGATGAT
237399 GAAGATGA
1 GAAGATGA
237407 TGATCCAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (18 bp):
GAAGATGACGATGATGAT
Found at i:237369 original size:6 final size:6
Alignment explanation
Indices: 237345--237406 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
237335 ATCGGTCGCA
* * * * * *
237345 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
*
237393 GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA
237407 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:237380 original size:3 final size:3
Alignment explanation
Indices: 237360--237410 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
237350 TGAAGCTGAC
* * * *
237360 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAT GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
237408 GAT
1 GAT
237411 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:237407 original size:12 final size:12
Alignment explanation
Indices: 237348--237410 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
237338 GGTCGCAGAA
* *
237348 GATGAAGCTGAC
1 GATGAAGATGAT
*
237360 GATGAAGATGAC
1 GATGAAGATGAT
*
237372 GATGATGATGAT
1 GATGAAGATGAT
*
237384 GATGACGATGAT
1 GATGAAGATGAT
237396 GATGAAGATGAT
1 GATGAAGATGAT
237408 GAT
1 GAT
237411 CCAAACAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:239431 original size:184 final size:184
Alignment explanation
Indices: 238777--239445 Score: 1272
Period size: 184 Copynumber: 3.7 Consensus size: 184
238767 CTTTCAACAT
**
238777 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
238842 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
238907 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
238961 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
239026 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTAC-TTATGTCCATATTGGAAG-AA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
239089 AATGTGTCGATACAATTTAAAAAAGTGTCGACA-TTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
239142 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
239207 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
239272 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
239326 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
239391 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
239446 CCATTTAAAA
Statistics
Matches: 477, Mismatches: 5, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
181 128 0.27
182 52 0.11
183 53 0.11
184 244 0.51
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:242026 original size:23 final size:23
Alignment explanation
Indices: 241995--242057 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
241985 ATAGGTAAAC
*
241995 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
242018 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
242041 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
242058 ATGGTTATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:242065 original size:23 final size:23
Alignment explanation
Indices: 241995--242065 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
241985 ATAGGTAAAC
* * **
241995 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
242018 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
242041 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
242064 AT
1 AT
242066 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 40 0.95
24 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:242455 original size:23 final size:23
Alignment explanation
Indices: 242424--242486 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
242414 ATAGGTAAAC
*
242424 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
242447 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
242470 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
242487 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:242494 original size:23 final size:23
Alignment explanation
Indices: 242424--242496 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
242414 ATAGGTAAAC
* * **
242424 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
242447 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
242470 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
242493 ATAT
1 ATAT
242497 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:242697 original size:431 final size:428
Alignment explanation
Indices: 241897--242766 Score: 1713
Period size: 431 Copynumber: 2.0 Consensus size: 428
241887 AATTCGCAGT
241897 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAGTATCGATCCTTTTTATAA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAGTATCGATCCTTTTTATAA
241962 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
66 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
242027 AATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATTGTAAAGTGTCTATCCTTTTTATAAA
131 AATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATTGTAAAGTGTCTATCCTTTTTATAAA
242092 AGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
196 AGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
242157 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATT
261 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATT
242222 AAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAAT
326 AAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAAT
242287 GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
242325 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTATA
242390 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
65 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
242455 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
130 TAATAGGTATCGTTTATATAATGTAATAGGTAATGG-T-TATTGTAAAGTGTCTATCCTTTTTAT
242520 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
193 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
242585 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
258 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
242650 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
323 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
242715 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
388 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
242756 ACACTGTTAAA
1 ACACTGTTAAA
242767 GTATCGATCC
Statistics
Matches: 439, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
428 40 0.09
429 125 0.28
430 1 0.00
431 273 0.62
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (428 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAGTATCGATCCTTTTTATAA
AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
AATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATTGTAAAGTGTCTATCCTTTTTATAAA
AGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATT
AAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAAT
GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:244394 original size:3 final size:3
Alignment explanation
Indices: 244386--244443 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
244376 TATTTCTTAC
*
244386 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
244434 TAT TAT TAT T
1 TAT TAT TAT T
244444 TACTTTTGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:244927 original size:20 final size:20
Alignment explanation
Indices: 244904--245084 Score: 125
Period size: 20 Copynumber: 8.9 Consensus size: 20
244894 ATTCGCAACA
*
244904 CGATTATGACTATCGCATTG
1 CGATTATGACTATCGCAATG
** * *
244924 CGATT-TTCCAAATTCGCATTG
1 CGATTATGAC-TA-TCGCAATG
*
244945 CGATTTTCTGACTATCGCAATG
1 CGA--TTATGACTATCGCAATG
* *
244967 CGAATATGTA-AATCGCAATG
1 CGATTATG-ACTATCGCAATG
* *
244987 CGAATATGTA-AATCGCAATG
1 CGATTATG-ACTATCGCAATG
*
245007 CGATTATGACTACCGCAATG
1 CGATTATGACTATCGCAATG
* *
245027 CGATTTTGACTATCGCAACG
1 CGATTATGACTATCGCAATG
* * *
245047 AGATTCTGACTATCGCAACG
1 CGATTATGACTATCGCAATG
* *
245067 AGATTCTGACTATCGCAA
1 CGATTATGACTATCGCAA
245085 CGAGATTCTG
Statistics
Matches: 136, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.02
20 106 0.78
21 12 0.09
22 10 0.07
23 3 0.02
24 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (20 bp):
CGATTATGACTATCGCAATG
Found at i:245085 original size:20 final size:20
Alignment explanation
Indices: 244998--245096 Score: 135
Period size: 20 Copynumber: 5.0 Consensus size: 20
244988 GAATATGTAA
* * *
244998 ATCGCAATGCGATTATGACT
1 ATCGCAACGAGATTCTGACT
* * * *
245018 ACCGCAATGCGATTTTGACT
1 ATCGCAACGAGATTCTGACT
245038 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
245058 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
245078 ATCGCAACGAGATTCTGAC
1 ATCGCAACGAGATTCTGAC
245097 ATCCGTTCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:245834 original size:24 final size:24
Alignment explanation
Indices: 245784--245836 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
245774 AAATTTGATC
*
245784 TTGATCTTGGTCAATACCCGGACT
1 TTGATCTTGGTCAATACCCAGACT
* *
245808 TTGATCTTGGTCAATACTCAGATT
1 TTGATCTTGGTCAATACCCAGACT
245832 TTGAT
1 TTGAT
245837 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (24 bp):
TTGATCTTGGTCAATACCCAGACT
Found at i:248122 original size:18 final size:18
Alignment explanation
Indices: 248099--248133 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
248089 AGAAAAAGGC
*
248099 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
248117 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
248134 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:248445 original size:140 final size:140
Alignment explanation
Indices: 248193--248462 Score: 513
Period size: 140 Copynumber: 1.9 Consensus size: 140
248183 AAACGTTGTA
* *
248193 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAATATTGCTA
1 TTATGTATAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
*
248258 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
248323 TATGTGTATT
131 TATGTGTATT
248333 TTATGTATAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTATAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
248398 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
248463 CGCAACACGA
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 127 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (140 bp):
TTATGTATAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:248458 original size:20 final size:20
Alignment explanation
Indices: 248433--248717 Score: 247
Period size: 20 Copynumber: 14.8 Consensus size: 20
248423 TTACACATTC
*
248433 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
248453 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
* *
248473 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* *
248492 A----A-AATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
**
248507 ATTTGACTATCGCAATACGA
1 ATTTGACTATCGCAACGCGA
*
248527 ATATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
248547 ATTTGTCTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
248567 ATTTGACTATTGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
248587 ATTTGATTATCGCAACG-GCT
1 ATTTGACTATCGCAACGCG-A
* *
248607 ATTTGACTATTGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
248627 A----A--ATCGTAATGCGA
1 ATTTGACTATCGCAACGCGA
248641 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
248661 ATTTGAGTATCACAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
248681 ATTTGATTATCGCAACAG-GT
1 ATTTGACTATCGCAAC-GCGA
248701 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
248718 AGAAAATCGC
Statistics
Matches: 214, Mismatches: 36, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
14 17 0.08
15 3 0.01
16 1 0.00
18 1 0.00
19 5 0.02
20 185 0.86
21 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:248641 original size:94 final size:94
Alignment explanation
Indices: 248535--248761 Score: 332
Period size: 94 Copynumber: 2.4 Consensus size: 94
248525 GAATATGACT
* * **
248535 ATCGCAACGCGAATTTGTCTATCGCAACGCGAATTTGACTATTGCAACGTGAATTTGATTATCGC
1 ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGACTATCACAACGTGAATTTGATTATCGC
*
248600 AAC-GGCTATTTGACTATTGCAACGAGAAA
66 AACAGG-TATTTGACTATCGCAACGAGAAA
* * *
248629 ATCGTAATGCGAATTTGACTATCGCAACGCGAATTTGAGTATCACAACGTGAATTTGATTATCGC
1 ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGACTATCACAACGTGAATTTGATTATCGC
248694 AACAGGTATTTGACTATCGCAACGAGAAA
66 AACAGGTATTTGACTATCGCAACGAGAAA
* * *
248723 ATCGCAAAGCGTATTAGACTATCGCAACGC-AAATTGACT
1 ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGACT
248762 TTCGCGTTGC
Statistics
Matches: 119, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
93 7 0.06
94 110 0.92
95 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (94 bp):
ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGACTATCACAACGTGAATTTGATTATCGC
AACAGGTATTTGACTATCGCAACGAGAAA
Found at i:248785 original size:20 final size:20
Alignment explanation
Indices: 248756--248813 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
248746 GCAACGCAAA
248756 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
248776 TTGTCTTTCGCATTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
248796 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCGTTGCGA
248814 AATTGTACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCGTTGCGATT
Found at i:248972 original size:14 final size:14
Alignment explanation
Indices: 248912--248973 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
248902 CACAAATAAG
*
248912 AATTATTTACACATC
1 AATT-TTTACAAATC
**
248927 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
248942 AACTTTTACAAATC
1 AATTTTTACAAATC
*
248956 AATTTTTATAAATC
1 AATTTTTACAAATC
248970 AATT
1 AATT
248974 AAACAAGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:250482 original size:42 final size:42
Alignment explanation
Indices: 250375--250485 Score: 102
Period size: 42 Copynumber: 2.6 Consensus size: 42
250365 TCTAGAATGT
*
250375 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAGTGGCCTCTTGAACGG
* * ** * *
250417 TGGGAGGGGACTCTTGAGGGATGATAG-GCGCCTCTTGAACGT
1 TGGGAGAGGCCTCTTGAACGATGACAGTG-GCCTCTTGAACGG
*
250459 TAGGG-GATGCCTCTTGAACGATGACAG
1 T-GGGAGAGGCCTCTTGAACGATGACAG
250486 GTGAGTCGGG
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.02
42 48 0.89
43 5 0.09
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.23
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGTGGCCTCTTGAACGG
Found at i:250995 original size:18 final size:18
Alignment explanation
Indices: 250972--251038 Score: 80
Period size: 20 Copynumber: 3.5 Consensus size: 18
250962 GAAACTTAAA
*
250972 ATCGCAACACGAATGACT
1 ATCGCAACGCGAATGACT
*
250990 ATCGCAACGCGAAAATAACT
1 ATCGCAACGCG--AATGACT
251010 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA--TGACT
251030 ATCGCAACG
1 ATCGCAACG
251039 AGAGAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 12 0.29
20 30 0.71
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (18 bp):
ATCGCAACGCGAATGACT
Found at i:251111 original size:20 final size:20
Alignment explanation
Indices: 251081--251128 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
251071 GCGATTCTTT
*
251081 CGTTACGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
251101 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
251121 CGTTGCGA
1 CGTTGCGA
251129 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:251299 original size:18 final size:18
Alignment explanation
Indices: 251276--251325 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
251266 TTTACTAAGC
251276 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
251294 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
251312 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
251326 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:253104 original size:20 final size:20
Alignment explanation
Indices: 253055--253141 Score: 79
Period size: 20 Copynumber: 4.5 Consensus size: 20
253045 TCTGAAACTT
* *
253055 AAAATTGCAACTCGAAAATG
1 AAAATCGCAACACGAAAATG
*
253075 AAAATTGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * *
253095 ACTATCGCAACGCG-AAATA
1 AAAATCGCAACACGAAAATG
* *
253114 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
253133 AAAATCGCA
1 AAAATCGCA
253142 TTGCGATTCT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
19 25 0.44
20 32 0.56
ACGTcount: A:0.49, C:0.21, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:253553 original size:22 final size:21
Alignment explanation
Indices: 253527--253579 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
253517 GAGATAGACG
*
253527 GATTTCACCAGAGATGGGGAC
1 GATTTCACCAGAGATAGGGAC
* *
253548 TGATTTCATCGGAGATAGGGAC
1 -GATTTCACCAGAGATAGGGAC
253570 GAATTTCACC
1 G-ATTTCACC
253580 TTAGAGAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
GATTTCACCAGAGATAGGGAC
Found at i:253775 original size:20 final size:20
Alignment explanation
Indices: 253745--253862 Score: 164
Period size: 20 Copynumber: 5.9 Consensus size: 20
253735 GCGCTTTGAA
*
253745 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
253765 CATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
253785 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
253805 AATCTCGTTGCGATAGTTAG
1 AATCGCGTTGCGATAGTCAG
* *
253825 AATCCCGTTGCGATAGTCAT
1 AATCGCGTTGCGATAGTCAG
*
253845 AATCGCTTTGCGATAGTC
1 AATCGCGTTGCGATAGTC
253863 GAAAAATCAC
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:253879 original size:22 final size:22
Alignment explanation
Indices: 253854--253948 Score: 86
Period size: 21 Copynumber: 4.4 Consensus size: 22
253844 TAATCGCTTT
253854 GCGATAGTCGAAAAATCACAAC
1 GCGATAGTCGAAAAATCACAAC
* * * * *
253876 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTCGAAAAATCACAAC
253897 GCGATAGTCGAAAAATCACAAC
1 GCGATAGTCGAAAAATCACAAC
* * * * *
253919 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTCGAAAAATCACAAC
253940 GCGATAGTC
1 GCGATAGTC
253949 AGAATCGCGT
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
21 32 0.59
22 22 0.41
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (22 bp):
GCGATAGTCGAAAAATCACAAC
Found at i:253900 original size:43 final size:43
Alignment explanation
Indices: 253853--253948 Score: 192
Period size: 43 Copynumber: 2.2 Consensus size: 43
253843 ATAATCGCTT
253853 TGCGATAGTCGAAAAATCACAACGCGAATTTGGAAAATCGCAA
1 TGCGATAGTCGAAAAATCACAACGCGAATTTGGAAAATCGCAA
253896 TGCGATAGTCGAAAAATCACAACGCGAATTTGGAAAATCGCAA
1 TGCGATAGTCGAAAAATCACAACGCGAATTTGGAAAATCGCAA
253939 TGCGATAGTC
1 TGCGATAGTC
253949 AGAATCGCGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.20
Consensus pattern (43 bp):
TGCGATAGTCGAAAAATCACAACGCGAATTTGGAAAATCGCAA
Found at i:267020 original size:22 final size:25
Alignment explanation
Indices: 266988--267032 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
266978 TATTAATTAT
266988 TAAAATATTTAAT-ATAC-ATATAA
1 TAAAATATTTAATAATACTATATAA
267011 TAAAAT-TTTAATAATACTATAT
1 TAAAATATTTAATAATACTATAT
267033 TTTTAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 10 0.50
24 4 0.20
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
TAAAATATTTAATAATACTATATAA
Found at i:267203 original size:19 final size:19
Alignment explanation
Indices: 267181--267226 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
267171 TAATAACGAG
*
267181 TAATATTAAT-TTATATATT
1 TAATATTAATATCATA-ATT
267200 TAATATTAATATCATAATT
1 TAATATTAATATCATAATT
267219 TAATATTA
1 TAATATTA
267227 TGTTAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATTAATATCATAATT
Found at i:267809 original size:42 final size:42
Alignment explanation
Indices: 267764--267877 Score: 128
Period size: 40 Copynumber: 2.8 Consensus size: 42
267754 ACTTCAATGT
*
267764 TTTTTTACACAAACGCTGCAAT-AGGTTTATATTTAGTGGCG
1 TTTTTTACACAAACGCTGCAATAAGGTTTATATTTAGTGACG
** ** *
267805 TTTTTTA-A-AAACGCTGTTATAAACTATT-TATTTAGTGATG
1 TTTTTTACACAAACGCTGCAATAAGGT-TTATATTTAGTGACG
*
267845 TTTTTTACACAAACGCCGCAATAAGGTTTATAT
1 TTTTTTACACAAACGCTGCAATAAGGTTTATAT
267878 AGCATTGTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
39 10 0.18
40 20 0.35
41 12 0.21
42 15 0.26
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (42 bp):
TTTTTTACACAAACGCTGCAATAAGGTTTATATTTAGTGACG
Found at i:270484 original size:44 final size:44
Alignment explanation
Indices: 270391--270499 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 44
270381 TTAGCGGCGT
* * * *
270391 TTTATGATGAAAAACGCCACTAGTAGAGTACATAATTAGTAGCG
1 TTTATGAGGAAAAACGTCACTACTAGAGTACATAATTAGTAGCA
* *
270435 CTTATGAGGAAAAACGTCACTACTAGAGTACATAATTAGTGGCA
1 TTTATGAGGAAAAACGTCACTACTAGAGTACATAATTAGTAGCA
*
270479 TTTATGAGG-AAATCGTCACTA
1 TTTATGAGGAAAAACGTCACTA
270500 TTACATGATT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 11 0.19
44 46 0.81
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (44 bp):
TTTATGAGGAAAAACGTCACTACTAGAGTACATAATTAGTAGCA
Found at i:270907 original size:19 final size:19
Alignment explanation
Indices: 270868--270907 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
270858 CATATGTAAA
*
270868 AATAAAAAAATAAAGGCTT
1 AATAAAAAAATAAAGGATT
* *
270887 AATATAAAAATAAATGATT
1 AATAAAAAAATAAAGGATT
270906 AA
1 AA
270908 ATTATACTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (19 bp):
AATAAAAAAATAAAGGATT
Found at i:273015 original size:31 final size:31
Alignment explanation
Indices: 272980--273040 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
272970 TAACGTTAGA
272980 CACCTGCATCATTAAAAAAATAGTTAAGGTG
1 CACCTGCATCATTAAAAAAATAGTTAAGGTG
* * *
273011 CACCTGCATCATTCAAAAAGTAGTTTAGGT
1 CACCTGCATCATTAAAAAAATAGTTAAGGT
273041 ACCTATTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (31 bp):
CACCTGCATCATTAAAAAAATAGTTAAGGTG
Found at i:275379 original size:28 final size:28
Alignment explanation
Indices: 275335--275391 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
275325 AACATTCCCT
*
275335 CTGGTAATCTTATATTCCGTGAACCAAA
1 CTGGTAATCTTACATTCCGTGAACCAAA
275363 CTGGTAATCTTACATTCCGTGAACCAAA
1 CTGGTAATCTTACATTCCGTGAACCAAA
275391 C
1 C
275392 ACATATAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (28 bp):
CTGGTAATCTTACATTCCGTGAACCAAA
Found at i:276206 original size:27 final size:27
Alignment explanation
Indices: 276176--276229 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
276166 CTCTCTCTAT
276176 ATATATATTATTAAGGTTTTCGAAAAA
1 ATATATATTATTAAGGTTTTCGAAAAA
*
276203 ATATATTTTATTAAGGTTTTCGAAAAA
1 ATATATATTATTAAGGTTTTCGAAAAA
276230 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (27 bp):
ATATATATTATTAAGGTTTTCGAAAAA
Found at i:280981 original size:28 final size:29
Alignment explanation
Indices: 280927--280981 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
280917 CTAATTAATA
*
280927 AAATGATACAAATAATGTCAAAGAAATGT
1 AAATGATACAAATAATGTCAAAAAAATGT
* *
280956 AAAT-ATATAAATAATGTTAAAAAAAT
1 AAATGATACAAATAATGTCAAAAAAAT
280982 AAAATAATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (29 bp):
AAATGATACAAATAATGTCAAAAAAATGT
Found at i:282810 original size:3 final size:3
Alignment explanation
Indices: 282786--282836 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
282776 CTACAAAAGC
* * *
282786 AAT ATT AAT ATT AAT AAAT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
282832 AAT AA
1 AAT AA
282837 CGAGATGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:283288 original size:109 final size:110
Alignment explanation
Indices: 283037--283497 Score: 564
Period size: 109 Copynumber: 4.2 Consensus size: 110
283027 TTCAGGGAAG
* ** * * * *
283037 ATTGAATCAGGGTAGACTTGTTCCATTATCACTTATGAAATATCAAATCTTGAAAGA-GATTTGA
1 ATTGAATCA-AGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGGA--TGA
* * * *
283101 TCTGTTCCACTTCTTCTGAGGGAATATATCAGATATAGGAAAGTTGATCC
63 TCTGTTCCACTTCCTCTGAGGG-A-ATATCAGATCTGGGAAAGTTGATTC
* * * * *
283151 ATTGAATCAGGTAGACTTGTTCCACTGTCGCTCAGGGAATATCAAATCTTAAAAGAGGGAT-ATG
1 ATTGAATCAAGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGA-GGATGATC
* * *
283215 TGTTCCGCTTCCTCTGAGGGAATATCATATCT-GGAAAGTTGATTT
65 TGTTCCACTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
*
283260 ATTGAATCAAGTAGACTTGTTCCGCTGTCATTCAGGGAATATCAAATCTTGAAAGAGGAT-A--T
1 ATTGAATCAAGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGGATGATCT
283322 GTTCCACTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
66 GTTCCACTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
* *
283367 ATTGAATCAAGGTAGACTTGTTCCGCTGTCACTCAAGGAATACCAAATCTTGAAAGA-GATGGAT
1 ATTGAATCAA-GTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGGAT-GAT
*
283431 CTGTTCCACTTCTTCTGA-GGAATATCAGATCTGGGAAAGTTGA-TC
64 CTGTTCCACTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
*
283476 ATTGAATCAAGCAG-CTTGTTCC
1 ATTGAATCAAGTAGACTTGTTCC
283498 ACTTACTCTG
Statistics
Matches: 312, Mismatches: 27, Indels: 23
0.86 0.07 0.06
Matches are distributed among these distances:
106 30 0.10
107 33 0.11
108 51 0.16
109 75 0.24
110 34 0.11
111 17 0.05
112 20 0.06
113 41 0.13
114 9 0.03
115 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (110 bp):
ATTGAATCAAGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGGATGATCT
GTTCCACTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
Found at i:283472 original size:217 final size:216
Alignment explanation
Indices: 283075--283497 Score: 577
Period size: 217 Copynumber: 1.9 Consensus size: 216
283065 TCACTTATGA
* *
283075 AATATCAAATCTTGAAAGAGATTTGATCTGTTCCACTTCTTCTGAGGGAATATATCAGATATAGG
1 AATATCAAATCTTGAAAGAG---TGATATGTTCCACTTCCTCTGAGGGAATATATCAGATATAGG
* * *
283140 AAAGTTGATCCATTGAATCAGGTAGACTTGTTCCACTGTCGCTCAGGGAATATCAAATCTTAAAA
63 AAAGTTGATCCATTGAATCAGGTAGACTTGTTCCACTGTCACTCAAGGAATACCAAATCTTAAAA
* * * *
283205 GAGGGATATGTGTTCCGCTTCCTCTGAGGGAATATCATATCTGGAAAGTTGATTTATTGAATCAA
128 GAGGGA-ATCTGTTCCACTTCCTCTGAGGGAATATCAGATCTGGAAAGTTGA-TCATTGAATCAA
*
283270 GTAGACTTGTTCCGCTGTCATTCAGGG
191 GCAG-CTTGTTCCGCTGTCATTCAGGG
* *
283297 AATATCAAATCTTGAAAGAG-GATATGTTCCACTTCCTCTGAGGG-A-ATATCAGATCTGGGAAA
1 AATATCAAATCTTGAAAGAGTGATATGTTCCACTTCCTCTGAGGGAATATATCAGATATAGGAAA
* *
283359 GTTGATTCATTGAATCAAGGTAGACTTGTTCCGCTGTCACTCAAGGAATACCAAATCTTGAAAGA
66 GTTGATCCATTGAATC-AGGTAGACTTGTTCCACTGTCACTCAAGGAATACCAAATCTT-AAA-A
* *
283424 GATGG-ATCTGTTCCACTTCTTCTGA-GGAATATCAGATCTGGGAAAGTTGATCATTGAATCAAG
128 GAGGGAATCTGTTCCACTTCCTCTGAGGGAATATCAGATCT-GGAAAGTTGATCATTGAATCAAG
283487 CAGCTTGTTCC
192 CAGCTTGTTCC
283498 ACTTACTCTG
Statistics
Matches: 181, Mismatches: 16, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
215 8 0.04
216 57 0.31
217 66 0.36
218 25 0.14
219 5 0.03
222 20 0.11
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (216 bp):
AATATCAAATCTTGAAAGAGTGATATGTTCCACTTCCTCTGAGGGAATATATCAGATATAGGAAA
GTTGATCCATTGAATCAGGTAGACTTGTTCCACTGTCACTCAAGGAATACCAAATCTTAAAAGAG
GGAATCTGTTCCACTTCCTCTGAGGGAATATCAGATCTGGAAAGTTGATCATTGAATCAAGCAGC
TTGTTCCGCTGTCATTCAGGG
Found at i:283517 original size:216 final size:218
Alignment explanation
Indices: 283075--283526 Score: 571
Period size: 216 Copynumber: 2.1 Consensus size: 218
283065 TCACTTATGA
* *
283075 AATATCAAATCTTGAAAGAGATTTGATCTGTTCCACTTCTTCTGAGGGAATATATCAGATATAGG
1 AATATCAAATCTTGAAAGAG---TGATATGTTCCACTTCCTCTGAGGGAATATATCAGATATAGG
* * *
283140 AAAGTTGATCCATTGAATCAGGTAGACTTGTTCCACTGTCGCTCAGGGAATATCAAATCTTAAAA
63 AAAGTTGATCCATTGAATCAGGTAGACTTGTTCCACTGTCACTCAAGGAATACCAAATCTTAAAA
* * * *
283205 GAGGGATATGTGTTCCGCTTCCTCTGAGGGAATATCATATCTGGAAAGTTGATTTATTGAATCAA
128 GAGGGA-ATCTGTTCCACTTCCTCTGAGGGAATATCAGATCTGGAAAGTTGATTCATTGAATCAA
* * *
283270 GTAGACTTGTTCCGCTGTCATTCAGGG
192 GCAGACTTGTTCCACTGTCATTAAGGG
* *
283297 AATATCAAATCTTGAAAGAG-GATATGTTCCACTTCCTCTGAGGG-A-ATATCAGATCTGGGAAA
1 AATATCAAATCTTGAAAGAGTGATATGTTCCACTTCCTCTGAGGGAATATATCAGATATAGGAAA
* *
283359 GTTGATTCATTGAATCAAGGTAGACTTGTTCCGCTGTCACTCAAGGAATACCAAATCTTGAAAGA
66 GTTGATCCATTGAATC-AGGTAGACTTGTTCCACTGTCACTCAAGGAATACCAAATCTT-AAA-A
* *
283424 GATGG-ATCTGTTCCACTTCTTCTGA-GGAATATCAGATCTGGGAAAGTTGA-TCATTGAATCAA
128 GAGGGAATCTGTTCCACTTCCTCTGAGGGAATATCAGATCT-GGAAAGTTGATTCATTGAATCAA
*
283486 GCAG-CTTGTTCCACT-T-ACTCTGAATGG
192 GCAGACTTGTTCCACTGTCA-T-T-AAGGG
283513 AATATCAAATCTTG
1 AATATCAAATCTTG
283527 GAGAAATTGA
Statistics
Matches: 204, Mismatches: 19, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
213 1 0.00
214 2 0.01
215 11 0.05
216 74 0.36
217 66 0.32
218 25 0.12
219 5 0.02
222 20 0.10
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (218 bp):
AATATCAAATCTTGAAAGAGTGATATGTTCCACTTCCTCTGAGGGAATATATCAGATATAGGAAA
GTTGATCCATTGAATCAGGTAGACTTGTTCCACTGTCACTCAAGGAATACCAAATCTTAAAAGAG
GGAATCTGTTCCACTTCCTCTGAGGGAATATCAGATCTGGAAAGTTGATTCATTGAATCAAGCAG
ACTTGTTCCACTGTCATTAAGGG
Found at i:283564 original size:66 final size:66
Alignment explanation
Indices: 283432--284134 Score: 1171
Period size: 66 Copynumber: 10.8 Consensus size: 66
283422 GAGATGGATC
* *
283432 TGTTCCACTT-CTTCTG-A-GGAATATCAGATCTGGGA-AAGTTGAT-CATTGAATC-AAGCAG-
1 TGTTCCACTTAC-TCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
283490 CT
65 CT
* *
283492 TGTTCCACTTACTCTGAATGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
283557 T
66 T
283558 TGTTCCACTTACTCTGAA-GGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
283622 T
66 T
* *
283623 TGTTCCACTTACT-TGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCAAAGCAGAT
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
283687 T
66 T
*
283688 TATTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
283753 T
66 T
* * *
283754 TGTTCCACTTAATATGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGTAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
283819 T
66 T
*
283820 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCATAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
283885 T
66 T
* * *
283886 TGTTCCATTTACTCTGAAGAGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGTAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
283951 T
66 T
*
283952 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCAAAGC--AC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
284015 T
66 T
284016 TGTTCCACTTACTCTGAA-GGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
284080 -
66 T
284080 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAAT
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAAT
284135 TGGGATCGAA
Statistics
Matches: 605, Mismatches: 26, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
60 14 0.02
61 2 0.00
62 16 0.03
63 48 0.08
64 52 0.09
65 160 0.26
66 313 0.52
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (66 bp):
TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
T
Found at i:290957 original size:17 final size:17
Alignment explanation
Indices: 290921--290953 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
290911 AAAGCAATAT
290921 TAATATAATAAATATAA
1 TAATATAATAAATATAA
*
290938 TAATATTAT-AATATAA
1 TAATATAATAAATATAA
290954 ATAACGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATATAATAAATATAA
Found at i:291352 original size:74 final size:73
Alignment explanation
Indices: 291226--291461 Score: 309
Period size: 72 Copynumber: 3.2 Consensus size: 73
291216 TGGTAGGTAG
* *
291226 TTTAATGTAATAGGTAGCGCTTATTTTTTTTACCGTTTACATTATTAGCAACCTTAAAAAAAAAC
1 TTTAATGTAATAGGTAGCAC-TATTTTTTTTACCGTTTACATTATTAACAACCTT-AAAAAAAAC
*
291291 TAGTAGATAT
64 CAGTAGATAT
* * * *
291301 TTTAATGTAATAGGTATCACTATTTTTTTTATCGTTTACATTATTATCAACCTT--AAAAAACCG
1 TTTAATGTAATAGGTAGCACTATTTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACCA
*
291364 GTAAATAT
66 GTAGATAT
* *
291372 TTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACAGTATTAACAACCTT-AAAAAAACC
1 TTTAATGTAATAGGTAGC-ACTATTTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACC
*
291436 -GATAGGTAT
65 AG-TAGATAT
291445 TTTAATGTAATAGGTAG
1 TTTAATGTAATAGGTAG
291462 TTTAAATTTT
Statistics
Matches: 144, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
71 31 0.22
72 33 0.23
73 30 0.21
74 32 0.22
75 18 0.12
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (73 bp):
TTTAATGTAATAGGTAGCACTATTTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACCA
GTAGATAT
Found at i:291725 original size:23 final size:23
Alignment explanation
Indices: 291674--291725 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
291664 CAACCAATTT
* * *
291674 TATTATATAAGCGCTACCTATTA
1 TATTATATAAACGATACCTAATA
**
291697 CGTTATATAAACGATACCTAATA
1 TATTATATAAACGATACCTAATA
291720 TATTAT
1 TATTAT
291726 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (23 bp):
TATTATATAAACGATACCTAATA
Found at i:291818 original size:158 final size:158
Alignment explanation
Indices: 291530--291821 Score: 431
Period size: 158 Copynumber: 1.8 Consensus size: 158
291520 AGTAAGTAAT
** * * * * * *
291530 TACCTATTTTGTTACATAAGCGCTACTTAATATGTTATTATGCTTAATAATGTTTCCATTAATTA
1 TACCTATTACGTTACATAAACGATACCTAATATATTATTATACTTAATAATGTTTCCAGTAATTA
* * *
291595 ACTGGTTATGTTATCTTTGGTAACATTTTAAGTGTTTACATAATATGTTGTAATAACAAATTAAA
66 ACCGGTTATGTTATCCTTGGTAACATTTTAAGCGTTTACATAATATGTTGTAATAACAAATTAAA
291660 TAATCAACCAATTTTATTATATAAGCGC
131 TAATCAACCAATTTTATTATATAAGCGC
* * * *
291688 TACCTATTACGTTATATAAACGATACCTAATATATTATTGTACTTGATAATGTTTCTAGTAATTA
1 TACCTATTACGTTACATAAACGATACCTAATATATTATTATACTTAATAATGTTTCCAGTAATTA
* *
291753 ACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAA
66 ACCGGTTATGTTATCCTTGGTAACATTTTAAGCGTTTACATAATATGTTGTAATAACAAATTAAA
291818 TAAT
131 TAAT
291822 TAATTACATT
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
158 117 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (158 bp):
TACCTATTACGTTACATAAACGATACCTAATATATTATTATACTTAATAATGTTTCCAGTAATTA
ACCGGTTATGTTATCCTTGGTAACATTTTAAGCGTTTACATAATATGTTGTAATAACAAATTAAA
TAATCAACCAATTTTATTATATAAGCGC
Found at i:291927 original size:131 final size:131
Alignment explanation
Indices: 291693--291955 Score: 409
Period size: 131 Copynumber: 2.0 Consensus size: 131
291683 AGCGCTACCT
* * *
291693 ATTACGTTATATAAACGATACCTAATATATTATTGTACTTGATAATGTTTCTAGTAATTAACCGG
1 ATTACATTATATAAACGATACCTAATATATTATTGTACTTGATAATGTTTCCAATAATTAACCGG
* * *
291758 TTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATT
66 TTATGTTATCCTTAGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAAAAAATTAAATAATT
291823 A
131 A
* * * *
291824 ATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAATAATTAACCGG
1 ATTACATTATATAAACGATACCTAATATATTATTGTACTTGATAATGTTTCCAATAATTAACCGG
* * *
291889 TTATGTTATTCTTATTAACATTTTAAGCGTTTACCTAATATGTTGTAATAAAAAATTAAGTAATT
66 TTATGTTATCCTTAGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAAAAAATTAAATAATT
291954 A
131 A
291955 A
1 A
291956 CCTATTTTAT
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 119 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.41
Consensus pattern (131 bp):
ATTACATTATATAAACGATACCTAATATATTATTGTACTTGATAATGTTTCCAATAATTAACCGG
TTATGTTATCCTTAGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAAAAAATTAAATAATT
A
Found at i:292014 original size:23 final size:23
Alignment explanation
Indices: 291964--292007 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
291954 AACCTATTTT
*
291964 ATTATATAAGCGCTACATATTAC
1 ATTATATAAGCGCTACATAATAC
*
291987 ATTATATAAGCGCTACCTAAT
1 ATTATATAAGCGCTACATAAT
292008 CAGTTATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (23 bp):
ATTATATAAGCGCTACATAATAC
Found at i:294476 original size:13 final size:13
Alignment explanation
Indices: 294458--294485 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
294448 AAACAATTTC
294458 AAAATCAATTATA
1 AAAATCAATTATA
294471 AAAATCAATTATA
1 AAAATCAATTATA
294484 AA
1 AA
294486 CGAATGCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATCAATTATA
Found at i:295119 original size:2 final size:2
Alignment explanation
Indices: 295112--295142 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
295102 TAAATATACA
295112 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
295143 ACTGTTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:295225 original size:18 final size:17
Alignment explanation
Indices: 295198--295232 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
295188 GCACGCTCCT
295198 TCTCTCTTTCAACTTTA
1 TCTCTCTTTCAACTTTA
295215 TCTCTTCTTTCAACTTTA
1 TCTC-TCTTTCAACTTTA
295233 ACGAACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (17 bp):
TCTCTCTTTCAACTTTA
Found at i:300714 original size:29 final size:29
Alignment explanation
Indices: 300643--300730 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
300633 TTAAAAAAAA
* *
300643 TTCGGGATCGGGTCGGGTTTTTTTTAAGT
1 TTCGGGATCGGGTCGGTTTTTTTTTAAAT
** *
300672 TT-GATATTCAGGTCGGTTTTTTTTTAAAT
1 TTCGGGA-TCGGGTCGGTTTTTTTTTAAAT
300701 TTCGGGATCGGGTCGGATTTTCTTTTTAAA
1 TTCGGGATCGGGTCGG-TTTT-TTTTTAAA
300731 AAAATTCGGG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 2 0.04
29 31 0.66
30 6 0.13
31 8 0.17
ACGTcount: A:0.16, C:0.10, G:0.26, T:0.48
Consensus pattern (29 bp):
TTCGGGATCGGGTCGGTTTTTTTTTAAAT
Found at i:307592 original size:20 final size:22
Alignment explanation
Indices: 307566--307617 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
307556 ATAATATAAA
*
307566 ATTTTAATTTAATATTA-TATT
1 ATTTTAATTTAATAATATTATT
307587 -TTTTAATATTTAATAATATTATT
1 ATTTT-A-ATTTAATAATATTATT
307610 ATTTTAAT
1 ATTTTAAT
307618 AATTAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 4 0.15
21 1 0.04
22 12 0.46
23 5 0.19
24 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTAATTTAATAATATTATT
Found at i:307623 original size:24 final size:25
Alignment explanation
Indices: 307575--307625 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
307565 AATTTTAATT
* *
307575 TAATATTATATTTTTTAATATTTAA
1 TAATATTATATATTTTAATAATTAA
307600 TAATATTAT-TATTTTAATAATTAA
1 TAATATTATATATTTTAATAATTAA
307624 TA
1 TA
307626 TAATCAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TAATATTATATATTTTAATAATTAA
Found at i:307651 original size:37 final size:35
Alignment explanation
Indices: 307597--307665 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
307587 TTTTAATATT
* *
307597 TAATAATATTATTATTTTAATAATTAATATAATCAA
1 TAATAATATTATCATTTTAATAAATAAT-TAATCAA
*
307633 TAATATATATTCTCATTTTAATAAATAATTAAT
1 TAATA-ATATTATCATTTTAATAAATAATTAAT
307666 ATAATTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 9 0.31
37 20 0.69
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (35 bp):
TAATAATATTATCATTTTAATAAATAATTAATCAA
Found at i:307670 original size:41 final size:37
Alignment explanation
Indices: 307615--307694 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 37
307605 TTATTATTTT
307615 AATAATTAATATAATCAATAATATATATTCTCATTTTAATA
1 AATAATTAATATAATCAATAATA-AT-TT-T-ATTTTAATA
**
307656 AATAATTAATATAATTTATAATAATTTTATTTTAATA
1 AATAATTAATATAATCAATAATAATTTTATTTTAATA
307693 AA
1 AA
307695 ATATAATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 11 0.30
38 1 0.03
39 2 0.05
40 2 0.05
41 21 0.57
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (37 bp):
AATAATTAATATAATCAATAATAATTTTATTTTAATA
Found at i:307715 original size:32 final size:29
Alignment explanation
Indices: 307672--307744 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
307662 TAATATAATT
*
307672 TATAATAATTTTATTTTAATAAAATATAATA-A
1 TATAATATTTTTA-TTT-ATAAAAT-T-ATAGA
307704 TAGTAATATTTTTATTTATAAAATTATAGA
1 TA-TAATATTTTTATTTATAAAATTATAGA
307734 TATAATATTTT
1 TATAATATTTT
307745 GATAATGATA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 12 0.32
30 4 0.11
31 7 0.18
32 5 0.13
33 10 0.26
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
TATAATATTTTTATTTATAAAATTATAGA
Found at i:312123 original size:20 final size:21
Alignment explanation
Indices: 312087--312128 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
312077 TTGCTTCAGG
*
312087 GGTATCGATACCCCTGCTACA
1 GGTACCGATACCCCTGCTACA
312108 GGTACCGATA-CCCTGCTACA
1 GGTACCGATACCCCTGCTACA
312128 G
1 G
312129 TAACTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (21 bp):
GGTACCGATACCCCTGCTACA
Found at i:312884 original size:15 final size:15
Alignment explanation
Indices: 312864--312892 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
312854 GGCATATGAA
312864 ATTTGTCCCGAAGGT
1 ATTTGTCCCGAAGGT
312879 ATTTGTCCCGAAGG
1 ATTTGTCCCGAAGG
312893 ACCGCGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (15 bp):
ATTTGTCCCGAAGGT
Found at i:313498 original size:58 final size:58
Alignment explanation
Indices: 313424--313539 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
313414 AACTTAAACT
*
313424 AATTTAATGAACCAATCTTCAACTTTTCCTTTAGGGGTTATCGATACCTCCCCTAGGG
1 AATTTAATGAACCAATCTTCAACTTTTCCTTTAGGGGGTATCGATACCTCCCCTAGGG
*
313482 AATTTAATGAACCAATCTTCAACTTTTCCTTTAGGGGGTATCGATACTTCCCCTAGGG
1 AATTTAATGAACCAATCTTCAACTTTTCCTTTAGGGGGTATCGATACCTCCCCTAGGG
313540 TATCAGTACC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (58 bp):
AATTTAATGAACCAATCTTCAACTTTTCCTTTAGGGGGTATCGATACCTCCCCTAGGG
Found at i:313909 original size:13 final size:12
Alignment explanation
Indices: 313897--313939 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
313887 AACTCTATTC
313897 CAAGATTTCATT
1 CAAGATTTCATT
**
313909 CAAGAACTCAATT
1 CAAGATTTC-ATT
313922 CCAAGATTTCATT
1 -CAAGATTTCATT
313935 CAAGA
1 CAAGA
313940 ACTCAAAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 12 0.48
13 6 0.24
14 7 0.28
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (12 bp):
CAAGATTTCATT
Found at i:313916 original size:26 final size:26
Alignment explanation
Indices: 313886--313945 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
313876 TTCTAATTAT
*
313886 GAACTCTATTCCAAGATTTCATTCAA
1 GAACTCAATTCCAAGATTTCATTCAA
313912 GAACTCAATTCCAAGATTTCATTCAA
1 GAACTCAATTCCAAGATTTCATTCAA
313938 GAACTCAA
1 GAACTCAA
313946 AATCTTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.30
Consensus pattern (26 bp):
GAACTCAATTCCAAGATTTCATTCAA
Found at i:314796 original size:19 final size:19
Alignment explanation
Indices: 314772--314823 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
314762 GTTAAAAGGT
314772 AAATAAAAAAATATAAAGA
1 AAATAAAAAAATATAAAGA
*
314791 AAATAAAATAAAGATAAAGA
1 AAATAAAA-AAATATAAAGA
* *
314811 TAATAAATAAATA
1 AAATAAAAAAATA
314824 AATATGAGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
AAATAAAAAAATATAAAGA
Found at i:314807 original size:20 final size:20
Alignment explanation
Indices: 314772--314821 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
314762 GTTAAAAGGT
*
314772 AAATAAAA-AAATATAAAGA
1 AAATAAAATAAAGATAAAGA
314791 AAATAAAATAAAGATAAAGA
1 AAATAAAATAAAGATAAAGA
*
314811 TAAT-AAATAAA
1 AAATAAAATAAA
314822 TAAATATGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (20 bp):
AAATAAAATAAAGATAAAGA
Found at i:315022 original size:18 final size:18
Alignment explanation
Indices: 314956--315034 Score: 65
Period size: 20 Copynumber: 4.3 Consensus size: 18
314946 AAAAGAAAAA
*
314956 AATAAAAAAAATATATAT
1 AATAAATAAAATATATAT
* *
314974 ATATACATAAAAATATTAATAA
1 A-ATAAAT-AAAATA-T-ATAT
*
314996 AACAAATAAAATATATAT
1 AATAAATAAAATATATAT
315014 AATAAAT-AAATA-ATA-
1 AATAAATAAAATATATAT
315029 AATAAA
1 AATAAA
315035 AAATACCCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
15 6 0.12
16 3 0.06
17 5 0.10
18 10 0.20
19 5 0.10
20 12 0.24
21 5 0.10
22 4 0.08
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AATAAATAAAATATATAT
Found at i:315028 original size:34 final size:35
Alignment explanation
Indices: 314956--315036 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 35
314946 AAAAGAAAAA
*
314956 AATAAAAAAAATATATATATATACATAAAAATATT
1 AATAAAAAAAATAAATATATATACATAAAAATATT
*
314991 AATAAAACAAATAAAATATATATA-ATAAATAA-A-T
1 AATAAAAAAAAT-AAATATATATACATAAA-AATATT
315025 AATAAATAAAAA
1 AATAAA-AAAAA
315037 ATACCCCTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 7 0.17
35 21 0.52
36 12 0.30
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (35 bp):
AATAAAAAAAATAAATATATATACATAAAAATATT
Found at i:315033 original size:38 final size:39
Alignment explanation
Indices: 314954--315035 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 39
314944 GAAAAAGAAA
* *
314954 AAAATAAAAAAAATATATATATATACATAAAAATATTAAT
1 AAAACAAAAAAAATATATATATATAAATAAAAATA-TAAT
*
314994 AAAACAAATAAAATATATATA-ATAAATAAATAATA-AAT
1 AAAACAAAAAAAATATATATATATAAATAAA-AATATAAT
315032 AAAA
1 AAAA
315036 AATACCCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 7 0.18
39 8 0.21
40 23 0.61
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (39 bp):
AAAACAAAAAAAATATATATATATAAATAAAAATATAAT
Found at i:315210 original size:23 final size:23
Alignment explanation
Indices: 315183--315246 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
315173 GTATGTGTAT
315183 ATATATACATAAACATAAAA-AAA
1 ATATATA-ATAAACATAAAATAAA
*
315206 ATATATAATAAGATATAAAATAAA
1 ATATATAATAA-ACATAAAATAAA
*
315230 A-ATAAAATAAACA-AAAA
1 ATATATAATAAACATAAAA
315247 CTAATAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 4 0.11
22 6 0.17
23 22 0.61
24 4 0.11
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.22
Consensus pattern (23 bp):
ATATATAATAAACATAAAATAAA
Found at i:315235 original size:40 final size:39
Alignment explanation
Indices: 315191--315293 Score: 113
Period size: 41 Copynumber: 2.6 Consensus size: 39
315181 ATATATATAC
*
315191 ATAAACATAAA-AAAAATATATAATAA-GATATAAAATAAAA
1 ATAAA-ATAAACAAAAATATATAAAAAGGATA-AAAA-AAAA
*
315231 ATAAAATAAACAAAAACTA-ATAAAAAAGGATAAAAACAAA
1 ATAAAATAAACAAAAA-TATAT-AAAAAGGATAAAAAAAAA
315271 ATAGAAATAAACAAAAATATATA
1 ATA-AAATAAACAAAAATATATA
315294 TAATAACGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
39 5 0.09
40 21 0.38
41 25 0.45
42 4 0.07
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (39 bp):
ATAAAATAAACAAAAATATATAAAAAGGATAAAAAAAAA
Found at i:315236 original size:11 final size:11
Alignment explanation
Indices: 315191--315281 Score: 53
Period size: 11 Copynumber: 8.0 Consensus size: 11
315181 ATATATATAC
*
315191 ATAAACATAAA
1 ATAAAAATAAA
*
315202 A-AAAATATATA
1 ATAAAA-ATAAA
*
315213 ATAAGATATAAA
1 ATAA-AAATAAA
315225 ATAAAAATAAA
1 ATAAAAATAAA
315236 ATAAACAA-AAA
1 ATAAA-AATAAA
*
315247 CTAATAAA-AAA
1 ATAA-AAATAAA
*
315258 GGATAAAAACAAA
1 --ATAAAAATAAA
*
315271 ATAGAAATAAA
1 ATAAAAATAAA
315282 CAAAAATATA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
10 3 0.05
11 37 0.59
12 16 0.25
13 7 0.11
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:315311 original size:41 final size:40
Alignment explanation
Indices: 315220--315317 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 40
315210 ATAATAAGAT
*
315220 ATAAAATA-AAAATAAAATAAACAAAAACTAATAAAAAAGG
1 ATAAAA-ACAAAATAAAATAAACAAAAACTAATAAAAAACG
*
315260 ATAAAAACAAAATAGAAATAAACAAAAA-TATATATAATAACG
1 ATAAAAACAAAATA-AAATAAACAAAAACTA-ATA-AAAAACG
* *
315302 -TATAGACAAAATAAAA
1 ATAAAAACAAAATAAAA
315318 AAAATATTAG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
39 1 0.02
40 17 0.34
41 27 0.54
42 5 0.10
ACGTcount: A:0.71, C:0.06, G:0.05, T:0.17
Consensus pattern (40 bp):
ATAAAAACAAAATAAAATAAACAAAAACTAATAAAAAACG
Found at i:316165 original size:2 final size:2
Alignment explanation
Indices: 316154--316201 Score: 55
Period size: 2 Copynumber: 24.5 Consensus size: 2
316144 TAATAATACT
* *
316154 TA TA TA -A TA TA TA TA TG TGA TA TA TA TA TA TA -A TA TA TA AA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
316195 TA TA TA T
1 TA TA TA T
316202 GTTTATTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 2 0.05
2 36 0.92
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:316178 original size:13 final size:13
Alignment explanation
Indices: 316154--316198 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
316144 TAATAATACT
316154 TATATAATATATA
1 TATATAATATATA
* *
316167 TATGTGATATATA
1 TATATAATATATA
316180 TATATAATATATA
1 TATATAATATATA
*
316193 AATATA
1 TATATA
316199 TATGTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (13 bp):
TATATAATATATA
Found at i:316191 original size:15 final size:15
Alignment explanation
Indices: 316154--316201 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 15
316144 TAATAATACT
316154 TATATAATATATATA
1 TATATAATATATATA
*
316169 TGTGATATATATATATAA
1 TAT-ATA-ATATATAT-A
316187 TATATAA-ATATATA
1 TATATAATATATATA
316201 T
1 T
316202 GTTTATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 2 0.07
15 8 0.29
16 4 0.14
17 11 0.39
18 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (15 bp):
TATATAATATATATA
Found at i:317181 original size:240 final size:240
Alignment explanation
Indices: 316899--317423 Score: 809
Period size: 240 Copynumber: 2.2 Consensus size: 240
316889 CCCATTCGTT
* * *
316899 GTGAAGTTGAGCCGTGGAATTAGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCA
1 GTGAAGTTGAG-CTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCA
** * *
316964 CGATATCCTTCGTCGTGAAATTGAAATTGTGGATGTCCTCTTCGTTGTGAAGTCGAGCCTTGACT
65 CGATATCCTTCGTCGTGAAATTGAAATCATGGATGTCCTATTCGTTGTAAAGTCGAGCCTTGACT
* *
317029 TGAATATCTTTCGTCATGAAGTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAATATCCTTCGCC
130 TGAATATCCTTCGTCATGAAGTTGAAATCCAAGCTTGTATTGTTTCAAGTCCAATATCCTTCGCC
* *
317094 GTGAAGTTAAAATTGGCTTTGAATGAAACAGGGAAGCC-CTTTCGCC
195 GTGAAGTTAAAATTAGCTCTGAATGAAACAGGGAAGCCTC-TTCGCC
* * *
317140 GTGAAGTTGAGTTTTGAATTGGATATCATTTGTCGTGAAGTTGAAATCCGATCTAGAGTTGGCAC
1 GTGAAGTTGAGCTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCAC
* * *
317205 GATATCCTTCGTCGTGAAGTTGAAATCATGGATGTCCTATTTGTTGTAAAGTTGAGCCTTGACTT
66 GATATCCTTCGTCGTGAAATTGAAATCATGGATGTCCTATTCGTTGTAAAGTCGAGCCTTGACTT
* * *
317270 GAATATCCTTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCAAGTCCAATATCCTTCGTCG
131 GAATATCCTTCGTCATGAAGTTGAAATCCAAGCTTGTATTGTTTCAAGTCCAATATCCTTCGCCG
* *
317335 TGAAGTTGAAATTAGCTCTGAATGAAACTGGGAAGCCTCTTCGCC
196 TGAAGTTAAAATTAGCTCTGAATGAAACAGGGAAGCCTCTTCGCC
* *
317380 GTGAAGTTGAGCTTTGAATTGGATATCCTTCGCCGTGAAGTTGA
1 GTGAAGTTGAGCTTTGAATTGGATATCATTCGTCGTGAAGTTGA
317424 GTTTTAAATT
Statistics
Matches: 257, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
240 245 0.95
241 12 0.05
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (240 bp):
GTGAAGTTGAGCTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCAC
GATATCCTTCGTCGTGAAATTGAAATCATGGATGTCCTATTCGTTGTAAAGTCGAGCCTTGACTT
GAATATCCTTCGTCATGAAGTTGAAATCCAAGCTTGTATTGTTTCAAGTCCAATATCCTTCGCCG
TGAAGTTAAAATTAGCTCTGAATGAAACAGGGAAGCCTCTTCGCC
Found at i:317416 original size:34 final size:34
Alignment explanation
Indices: 317373--317457 Score: 134
Period size: 34 Copynumber: 2.5 Consensus size: 34
317363 TGGGAAGCCT
*
317373 CTTCGCCGTGAAGTTGAGCTTTGAATTGGATATC
1 CTTCGCCGTGAAGTTGAGCTTTAAATTGGATATC
* *
317407 CTTCGCCGTGAAGTTGAGTTTTAAATTGGGTATC
1 CTTCGCCGTGAAGTTGAGCTTTAAATTGGATATC
*
317441 CTTCGTCGTGAAGTTGA
1 CTTCGCCGTGAAGTTGA
317458 AATCCAATCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (34 bp):
CTTCGCCGTGAAGTTGAGCTTTAAATTGGATATC
Found at i:317455 original size:274 final size:274
Alignment explanation
Indices: 317134--317697 Score: 930
Period size: 274 Copynumber: 2.1 Consensus size: 274
317124 GGGAAGCCCT
* * *
317134 TTCGCCGTGAAGTTGAGTTTTGAATTGGATATCATTTGTCGTGAAGTTGAAATCCGATCTAGAGT
1 TTCGCCGTGAAGTTGAGTTTTAAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGT
* * * *
317199 TGGCACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGTCCTATTTGTTGTAAAGTTGAGCCT
66 TGGCACGATATCCTTCGTCGTGAAGTTAAAATCATGGATGGCCCATTCGTTGTAAAGTTGAGCCT
* *
317264 TGACTTGAATATCCTTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCAAGTCCAATATCCT
131 TGACTTAAATATCATTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCAAGTCCAATATCCT
* * * *
317329 TCGTCGTGAAGTTGAAATTAGCTCTGAATGAAACTGGGAAGCCTCTTCGCCGTGAAGTTGAGCTT
196 TCGCCATGAAGTTGAAATTAGCTCTGAATGAAACTGAGAAGCCTCTTCGCCGTGAAATTGAGCTT
317394 TGAATTGGATATCC
261 TGAATTGGATATCC
* *
317408 TTCGCCGTGAAGTTGAGTTTTAAATTGGGTATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGT
1 TTCGCCGTGAAGTTGAGTTTTAAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGT
* * *
317473 TGGCACGATATCCTTCTTCGTGAAGTTAAAATCGTGGATGGCCCCTTCGTTGTAAAGTTGAGCCT
66 TGGCACGATATCCTTCGTCGTGAAGTTAAAATCATGGATGGCCCATTCGTTGTAAAGTTGAGCCT
*
317538 TGACTTAAATATCATTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAATATCCT
131 TGACTTAAATATCATTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCAAGTCCAATATCCT
*
317603 TCGCCATGAAGTTGAAATTAGCTCTGAATGAAATTGAGAAGCCTCTTCGCCGTGAAATTGAGCTT
196 TCGCCATGAAGTTGAAATTAGCTCTGAATGAAACTGAGAAGCCTCTTCGCCGTGAAATTGAGCTT
317668 TGAATTGGATATCC
261 TGAATTGGATATCC
* *
317682 TTCGTCGGGAAGTTGA
1 TTCGCCGTGAAGTTGA
317698 AATCCAATCT
Statistics
Matches: 268, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
274 268 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (274 bp):
TTCGCCGTGAAGTTGAGTTTTAAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGT
TGGCACGATATCCTTCGTCGTGAAGTTAAAATCATGGATGGCCCATTCGTTGTAAAGTTGAGCCT
TGACTTAAATATCATTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCAAGTCCAATATCCT
TCGCCATGAAGTTGAAATTAGCTCTGAATGAAACTGAGAAGCCTCTTCGCCGTGAAATTGAGCTT
TGAATTGGATATCC
Found at i:317561 original size:110 final size:110
Alignment explanation
Indices: 317437--317814 Score: 312
Period size: 110 Copynumber: 3.3 Consensus size: 110
317427 TTAAATTGGG
317437 TATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCACGATATCCTTCTTCGTGAAGTTAA
1 TATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCACGATATCCTTCTTCGTGAAGTTAA
*
317502 AATCGTGGATGGCCCCTTCGTTGTAAAGTTGAGCCTTGACTTAAA
66 AATCGTGGATGGCCCCTTCGTTGTAAAGTTGAGCCTTGACTTGAA
* * * * * ** *
317547 TATCATTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCGAGTC-CAATATCCTTCGCCATG
1 TATCCTTCGTCGTGAAGTTGAAATCCAATCTAG-A--G-TT-G-G-CACGATATCCTTCTTCGTG
* * ** * *
317611 AAGTTGAAATTAGCTCTGAATGAAATTGAGAAGCCTCTTCGCCGTGAAA-TTGAGCTTTGAATTG
59 AAGTT-AAA--A--TC-G--TG-GA-T--G--GCCCCTTCGTTGT-AAAGTTGAGCCTTGACTTG
*
317675 GA
109 AA
* *
317677 TATCCTTCGTCGGGAAGTTGAAATCCAATCTAGAGTTGGCACGATATCCTTCGTT-GTGAAGTTG
1 TATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCACGATATCCTTC-TTCGTGAAGTTA
* * * *
317741 AAATCGTGGATGGCTCGTTCGTTGTGAAGTTGAGCCCTGACTTGAA
65 AAATCGTGGATGGCCCCTTCGTTGTAAAGTTGAGCCTTGACTTGAA
* *
317787 TATCCTTCATCGTGAAGTTAAAATCCAA
1 TATCCTTCGTCGTGAAGTTGAAATCCAA
317815 GCTTGTATGT
Statistics
Matches: 203, Mismatches: 40, Indels: 50
0.69 0.14 0.17
Matches are distributed among these distances:
109 2 0.01
110 75 0.37
111 1 0.00
112 1 0.00
113 1 0.00
114 3 0.01
115 2 0.01
116 21 0.10
117 4 0.02
118 1 0.00
119 3 0.01
121 3 0.01
122 1 0.00
123 3 0.01
124 20 0.10
125 2 0.01
126 3 0.01
127 1 0.00
128 1 0.00
129 1 0.00
130 51 0.25
131 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (110 bp):
TATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCACGATATCCTTCTTCGTGAAGTTAA
AATCGTGGATGGCCCCTTCGTTGTAAAGTTGAGCCTTGACTTGAA
Found at i:319143 original size:88 final size:88
Alignment explanation
Indices: 318983--319162 Score: 272
Period size: 88 Copynumber: 2.0 Consensus size: 88
318973 ATTGTATAGA
* * *
318983 TATTATAATCACCTTTATCAGACTAACTAAATATTATCCATAAAGTCGGGGCGTTTAATCAATTG
1 TATTATAATCACCTTTATAAGACTAACTAAATATTATCCATAAAGTCGGGGCGTTTAACCAACTG
319048 CTCTAGAGGGACAACTCAAGCTT
66 CTCTAGAGGGACAACTCAAGCTT
* * * *
319071 TATTATAATCACCTTTATAAGGCTAGCTGAATCTTATCCATAAAG-CTGGGGCGTTTAACCAACT
1 TATTATAATCACCTTTATAAGACTAACTAAATATTATCCATAAAGTC-GGGGCGTTTAACCAACT
*
319135 GCTTTAGAGGGACAACTCAAGCTT
65 GCTCTAGAGGGACAACTCAAGCTT
319159 TATT
1 TATT
319163 GTATATATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 1 0.01
88 82 0.99
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (88 bp):
TATTATAATCACCTTTATAAGACTAACTAAATATTATCCATAAAGTCGGGGCGTTTAACCAACTG
CTCTAGAGGGACAACTCAAGCTT
Found at i:323139 original size:15 final size:15
Alignment explanation
Indices: 323101--323147 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
323091 AGTAAAGTTA
*
323101 AAAGATAAATAAAA-
1 AAAGATAAAGAAAAT
*
323115 AAATATAAAGAAAAT
1 AAAGATAAAGAAAAT
*
323130 AAAGATAAAGACAAT
1 AAAGATAAAGAAAAT
323145 AAA
1 AAA
323148 TAAATAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (15 bp):
AAAGATAAAGAAAAT
Found at i:323240 original size:18 final size:16
Alignment explanation
Indices: 323183--323257 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 16
323173 ATCGAAGATA
323183 AAAATAAATAAATAAAGAG
1 AAAA-AAATAAAT-AA-AG
*
323202 AAAAAAAATAAATAAAC
1 -AAAAAAATAAATAAAG
323219 AAAACAAATAAGATAAAG
1 AAAA-AAATAA-ATAAAG
323237 AAAAAAATAATAGTAAAG
1 AAAAAAATAA-A-TAAAG
323255 AAA
1 AAA
323258 TAATATATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
16 4 0.08
17 14 0.29
18 19 0.39
19 8 0.16
20 4 0.08
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (16 bp):
AAAAAAATAAATAAAG
Found at i:323476 original size:2 final size:2
Alignment explanation
Indices: 323469--323503 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
323459 TAGGCTAGTA
323469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
323504 TTAATTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:323567 original size:14 final size:14
Alignment explanation
Indices: 323548--323680 Score: 55
Period size: 14 Copynumber: 9.5 Consensus size: 14
323538 ATACATAAAC
323548 ATAAAAATAAATAA
1 ATAAAAATAAATAA
*
323562 ATAAAAATATAT-A
1 ATAAAAATAAATAA
*
323575 ATAAGATATAAAATAA
1 ATAA-AAAT-AAATAA
*
323591 ACAAAAACT-AATAA
1 ATAAAAA-TAAATAA
323605 A-AAAAGGATAAA-AA
1 ATAAAA--ATAAATAA
* *
323619 CA-AAATAGAAATAA
1 -ATAAAAATAAATAA
* *
323633 ATAAAAAAAAATAT
1 ATAAAAATAAATAA
* **
323647 ATAATAATGTATAA
1 ATAAAAATAAATAA
*
323661 A-CAAAAT-AATAAA
1 ATAAAAATAAAT-AA
323674 ATAAAAA
1 ATAAAAA
323681 ATAATAATAT
Statistics
Matches: 88, Mismatches: 19, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
12 2 0.02
13 21 0.24
14 48 0.55
15 12 0.14
16 5 0.06
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:323569 original size:10 final size:10
Alignment explanation
Indices: 323548--323645 Score: 58
Period size: 10 Copynumber: 9.3 Consensus size: 10
323538 ATACATAAAC
323548 ATAAAAATAA
1 ATAAAAATAA
323558 ATAAATAA-AA
1 ATAAA-AATAA
*
323568 ATATATAATAA
1 ATA-AAAATAA
323579 GATATAAAATAA
1 -ATA-AAAATAA
*
323591 ACAAAAACT-A
1 ATAAAAA-TAA
323601 ATAAAAA-AA
1 ATAAAAATAA
*
323610 GGATAAAAACAAA
1 --ATAAAAA-TAA
*
323623 ATAGAAATAA
1 ATAAAAATAA
*
323633 ATAAAAAAAA
1 ATAAAAATAA
323643 ATA
1 ATA
323646 TATAATAATG
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
9 1 0.01
10 36 0.51
11 21 0.30
12 10 0.14
13 2 0.03
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.18
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:323636 original size:21 final size:20
Alignment explanation
Indices: 323582--323680 Score: 69
Period size: 21 Copynumber: 4.8 Consensus size: 20
323572 ATAATAAGAT
* *
323582 ATAAAATAAACAAAAAC-TA
1 ATAAAATAAATAAAAACAAA
*
323601 ATAAAAAAAGGATAAAAACAAA
1 ATAAAATAA--ATAAAAACAAA
323623 ATAGAAATAAATAAAAA-AAA
1 ATA-AAATAAATAAAAACAAA
* *
323643 ATATATAATAATGTATAAACAAA
1 ATA-A-AATAA-ATAAAAACAAA
*
323666 ATAATA-AAATAAAAA
1 ATAAAATAAATAAAAA
323681 ATAATAATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
19 13 0.21
20 9 0.14
21 20 0.32
22 10 0.16
23 11 0.17
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (20 bp):
ATAAAATAAATAAAAACAAA
Found at i:323704 original size:75 final size:75
Alignment explanation
Indices: 323548--323712 Score: 171
Period size: 75 Copynumber: 2.2 Consensus size: 75
323538 ATACATAAAC
* * *
323548 ATAA-AAATAAATAAATAAAAATATATAATAAGATATAAAATAAACAAAAACTAATAAAAAAAGG
1 ATAAGAAATAAATAAAAAAAAATATATAATAAGATATAAAATAAACAAAAAATAATAAAAAAAGA
323612 ATAAAAACAA
66 ATAAAAACAA
* *
323622 A-ATAGAAATAAATAAAAAAAAATATATAATAATG-TATAAACA-AAATAATAAAATAA-AAAAT
1 ATA-AGAAATAAATAAAAAAAAATATATAATAA-GATATAAA-ATAAACAA-AAAATAATAAAAA
* ** *
323683 AATAATATTAGCAA
62 AAGAATAAAAACAA
323697 ATAAGAAA-AAATAAAA
1 ATAAGAAATAAATAAAA
323713 TGAACAAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
73 1 0.01
74 10 0.13
75 56 0.74
76 9 0.12
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (75 bp):
ATAAGAAATAAATAAAAAAAAATATATAATAAGATATAAAATAAACAAAAAATAATAAAAAAAGA
ATAAAAACAA
Found at i:323709 original size:23 final size:23
Alignment explanation
Indices: 323672--323748 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
323662 CAAAATAATA
* * *
323672 AAATAAAAAATAATAATATTAGC
1 AAATAAAAAATAATAAAATGAAC
323695 AAATAAGAAAA-AATAAAATGAAC
1 AAATAA-AAAATAATAAAATGAAC
*
323718 AAATAAAAAATAATACAAAT-AAA
1 AAATAAAAAATAATA-AAATGAAC
323741 AAATAAAA
1 AAATAAAA
323749 GGATTAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.09
23 35 0.74
24 8 0.17
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (23 bp):
AAATAAAAAATAATAAAATGAAC
Found at i:323737 original size:16 final size:15
Alignment explanation
Indices: 323663--323746 Score: 73
Period size: 16 Copynumber: 5.5 Consensus size: 15
323653 ATGTATAAAC
323663 AAAATAATAAAATAA
1 AAAATAATAAAATAA
* *
323678 AAAATAATAATATTAG
1 AAAATAATAA-AATAA
* *
323694 CAAATAAGAAAA-AA
1 AAAATAATAAAATAA
*
323708 TAAAATGAA-CAAATAA
1 -AAAAT-AATAAAATAA
323724 AAAATAATACAAATAA
1 AAAATAATA-AAATAA
323740 AAAATAA
1 AAAATAA
323747 AAGGATTAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
14 3 0.06
15 23 0.43
16 28 0.52
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (15 bp):
AAAATAATAAAATAA
Found at i:324943 original size:6 final size:6
Alignment explanation
Indices: 324919--324976 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
324909 GCGATTTTAT
* ** * *
324919 TGGTAG TGGTCG TTATCG TGGTCG TGGTCG GGGTCG GGGTCG TGGTCG
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG
324967 TGGTCG TGGT
1 TGGTCG TGGT
324977 AATACGTGTC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.03, C:0.14, G:0.50, T:0.33
Consensus pattern (6 bp):
TGGTCG
Found at i:325103 original size:22 final size:22
Alignment explanation
Indices: 325075--325146 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
325065 AATTTGGAAA
325075 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
325097 ATCGCAAC-A-AATTTTA-AAA
1 ATCGCAACGACAACTGTAGACT
325116 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
325138 ATCGCAACG
1 ATCGCAACG
325147 CGATTTTCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 9 0.23
20 6 0.15
21 6 0.15
22 18 0.46
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:325110 original size:41 final size:41
Alignment explanation
Indices: 325053--325145 Score: 159
Period size: 41 Copynumber: 2.3 Consensus size: 41
325043 CTTTTTTTTA
* *
325053 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACAAATTTGAAAAATCGCAACGACAACTGTAG
*
325094 ACTATCGCAACAAATTTTAAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACAAATTTGAAAAATCGCAACGACAACTGTAG
325135 ACTATCGCAAC
1 ACTATCGCAAC
325146 GCGATTTTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACAAATTTGAAAAATCGCAACGACAACTGTAG
Found at i:325165 original size:21 final size:21
Alignment explanation
Indices: 325135--325207 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
325125 ACAACTGTAG
325135 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
* ** **
325156 ACTATTGCAACGCGAAATGGA
1 ACTATCGCAACGCGATTTTCA
*
325177 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
*
325197 ACTATCTCAAC
1 ACTATCGCAAC
325208 ACGAAATGGA
Statistics
Matches: 38, Mismatches: 13, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
20 14 0.37
21 24 0.63
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (21 bp):
ACTATCGCAACGCGATTTTCA
Found at i:325183 original size:41 final size:41
Alignment explanation
Indices: 325138--325231 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
325128 ACTGTAGACT
*
325138 ATCGCAACGCGATTTTCAACTAT-TGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCT-CAACACGAAATGGAAA
325179 ATCGCAACGCGATTTTCAACTATCTCAACACGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCTCAACACGAAATGGAAA
325220 ATCGCAACGCGA
1 ATCGCAACGCGA
325232 AATGCAACGC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 50 0.98
42 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGATTTTCAACTATCTCAACACGAAATGGAAA
Found at i:325187 original size:20 final size:20
Alignment explanation
Indices: 325162--325235 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
325152 TTCAACTATT
325162 GCAACGCGAAATGGAAAATC
1 GCAACGCGAAATGGAAAATC
** ** *
325182 GCAACGCGATTTTCAACTATC
1 GCAACGCGAAATGGAA-AATC
* *
325203 TCAACACGAAATGGAAAATC
1 GCAACGCGAAATGGAAAATC
325223 GCAACGCGAAATG
1 GCAACGCGAAATG
325236 CAACGCGAAT
Statistics
Matches: 39, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 26 0.67
21 13 0.33
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (20 bp):
GCAACGCGAAATGGAAAATC
Found at i:325309 original size:19 final size:19
Alignment explanation
Indices: 325257--325301 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
325247 TGCGATACTG
325257 GAGATCGCAATGCGAATTA
1 GAGATCGCAATGCGAATTA
325276 GAGATCGCAATGCGAATTA
1 GAGATCGCAATGCGAATTA
325295 GAGATCG
1 GAGATCG
325302 GATTGCGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.20
Consensus pattern (19 bp):
GAGATCGCAATGCGAATTA
Done.