Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_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: 3548142
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 17
Found at i:184525 original size:45 final size:45
Alignment explanation
Indices: 184453--184620 Score: 252
Period size: 45 Copynumber: 3.8 Consensus size: 45
184443 TATAAAATTT
* *
184453 CTTATCATTTA-TCCTATAAGCTCGTAAGTTTATTTTACCAATATA
1 CTTACCATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATATA
*
184498 CTTACCATTTATTCCATAAGCTTGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
184543 TTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
184588 CTTACCA-TTATTCTATAAGCTCGT-AGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
184621 GCATGGTTAC
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
43 9 0.08
44 15 0.13
45 86 0.76
46 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:186749 original size:30 final size:29
Alignment explanation
Indices: 186687--186751 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
186677 ACCCATTTGT
* *
186687 AACTTTTTAAAATTATATTTTAGTCCTTA
1 AACTTTTTAAAATTATACTTTAGTCCTCA
*
186716 AACTTTTTAAAGTTTATACTTTAGTCAC-CA
1 AACTTTTTAAA-ATTATACTTTAGTC-CTCA
186746 AACTTT
1 AACTTT
186752 ACCAAATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 11 0.35
30 19 0.61
31 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.48
Consensus pattern (29 bp):
AACTTTTTAAAATTATACTTTAGTCCTCA
Found at i:190147 original size:3 final size:3
Alignment explanation
Indices: 190141--190207 Score: 75
Period size: 3 Copynumber: 23.0 Consensus size: 3
190131 ATTTATTATT
* * * *
190141 TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAT TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
190188 TAA TAA TAA TAT TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA
190208 AATCAGAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 4 0.07
3 50 0.93
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:192728 original size:14 final size:14
Alignment explanation
Indices: 192711--192772 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
192701 CCTGCAAAAA
*
192711 ATAATATTAATAAT
1 ATAATAATAATAAT
192725 ATAATAATAATAAT
1 ATAATAATAATAAT
*
192739 -TAATAACAAATAATT
1 ATAATAA-TAATAA-T
*
192754 ATTATAATATATATAT
1 ATAATAATA-ATA-AT
192770 ATA
1 ATA
192773 TATATATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
13 6 0.16
14 18 0.47
15 2 0.05
16 11 0.29
17 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:193216 original size:37 final size:37
Alignment explanation
Indices: 193146--193226 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
193136 AGAGAAACCG
** * *
193146 TCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTA
1 TCTCAAGAGAGACAAAACTTAATTCCAAAAGAAACTA
*
193183 TCTCAAGAGAGAC-AAACTTAATTCCAAAAAGAAACTG
1 TCTCAAGAGAGACAAAACTTAATTCC-AAAAGAAACTA
193220 TCTCAAG
1 TCTCAAG
193227 GGAAATATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
36 9 0.24
37 29 0.76
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (37 bp):
TCTCAAGAGAGACAAAACTTAATTCCAAAAGAAACTA
Found at i:197414 original size:45 final size:45
Alignment explanation
Indices: 197278--197416 Score: 114
Period size: 44 Copynumber: 3.2 Consensus size: 45
197268 AATGAAAATT
197278 TTGAAAAACTGAAATCATTG-AAAAACGTCAGTACAACTATTTAC
1 TTGAAAAACTGAAATCATTGAAAAAACGTCAGTACAACTATTTAC
* ** * ** * *
197322 TTGAAAAA---ATATCAAAGATAAAAA-ATTGGAATCGAA-TAAATT--
1 TTGAAAAACTGAAATCATTGA-AAAAACGTCAGTA-C-AACT-ATTTAC
197364 TTGAAAAACTGAAATCATTGAAAAAACGTCAGTACAACTATTTAC
1 TTGAAAAACTGAAATCATTGAAAAAACGTCAGTACAACTATTTAC
197409 TTGAAAAA
1 TTGAAAAA
197417 ATATCAAAGA
Statistics
Matches: 67, Mismatches: 16, Indels: 23
0.63 0.15 0.22
Matches are distributed among these distances:
41 6 0.09
42 11 0.16
43 12 0.18
44 20 0.30
45 18 0.27
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (45 bp):
TTGAAAAACTGAAATCATTGAAAAAACGTCAGTACAACTATTTAC
Found at i:197432 original size:86 final size:86
Alignment explanation
Indices: 197273--197449 Score: 345
Period size: 87 Copynumber: 2.0 Consensus size: 86
197263 CTGAGAATGA
197273 AAATTTTGAAAAACTGAAATCATTGAAAAACGTCAGTACAACTATTTACTTGAAAAAATATCAAA
1 AAATTTTGAAAAACTGAAATCATTGAAAAACGTCAGTACAACTATTTACTTGAAAAAATATCAAA
197338 GATAAAAAATTGGAATCGAAT
66 GATAAAAAATTGGAATCGAAT
197359 AAATTTTGAAAAACTGAAATCATTGAAAAAACGTCAGTACAACTATTTACTTGAAAAAATATCAA
1 AAATTTTGAAAAACTGAAATCATTG-AAAAACGTCAGTACAACTATTTACTTGAAAAAATATCAA
197424 AGATAAAAAATTGGAATCGAAT
65 AGATAAAAAATTGGAATCGAAT
197446 AAAT
1 AAAT
197450 AAATTAAAAT
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 25 0.28
87 65 0.72
ACGTcount: A:0.52, C:0.10, G:0.11, T:0.27
Consensus pattern (86 bp):
AAATTTTGAAAAACTGAAATCATTGAAAAACGTCAGTACAACTATTTACTTGAAAAAATATCAAA
GATAAAAAATTGGAATCGAAT
Found at i:199820 original size:115 final size:115
Alignment explanation
Indices: 199609--199820 Score: 309
Period size: 115 Copynumber: 1.8 Consensus size: 115
199599 TATACATAAA
* * * * * *
199609 TAAGATATTTACTTATTTAGAAATATCAGAAAAGGGTTTCCAGGTGCTTTAAGACAGCTCTTTTC
1 TAAGATATTTACTTATTCAAAAATATCAGAAAAGAGCTTCCAGGTACCTTAAGACAGCTCTTTTC
*
199674 TTTGATATTAAAAAAAAAAATAAATATCAAAAACTTTTATTTTAATATAG
66 TTTGATATTAAAAAAAAAAATAAATACCAAAAACTTTTATTTTAATATAG
* *
199724 TAAGATATTTATTTATTCAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTC
1 TAAGATATTTACTTATTCAAAAATATCAGAAAAGAGCTTCCAGGTACCTTAAGACAGCTCTTTTC
* *
199789 TTTGATATT-TAAAAATAAATAAATAACCAAAA
66 TTTGATATTAAAAAAAAAAATAAAT-ACCAAAA
199821 TATTTTCTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
114 13 0.15
115 72 0.85
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (115 bp):
TAAGATATTTACTTATTCAAAAATATCAGAAAAGAGCTTCCAGGTACCTTAAGACAGCTCTTTTC
TTTGATATTAAAAAAAAAAATAAATACCAAAAACTTTTATTTTAATATAG
Found at i:200966 original size:13 final size:13
Alignment explanation
Indices: 200948--200973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
200938 TTGTTGGTCG
200948 TCGTTGCTTGCTC
1 TCGTTGCTTGCTC
200961 TCGTTGCTTGCTC
1 TCGTTGCTTGCTC
200974 GTGGTTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.23, T:0.46
Consensus pattern (13 bp):
TCGTTGCTTGCTC
Found at i:201885 original size:235 final size:237
Alignment explanation
Indices: 201468--202148 Score: 602
Period size: 235 Copynumber: 2.9 Consensus size: 237
201458 AGGTTGAACA
* * * *
201468 TTGATGTTGCTCTATATCATTCTACGATAAAGTCAAACAAAATGTTGAATAAGTTCTTCTCATTA
1 TTGATGTTGATCTATATCATTCTACGATAAAGTCAAACAAAAGGTTGAACAAGCTCTTCTCATTA
* * *
201533 CGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTATTCTGGCAAAGTTGATGTTGA
66 CAAACTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTATTCTGGCAAAGTTGATGCTGA
201598 TCTACCTTATGTGATAGAATCAAGCAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT-TTC-
131 TCTACCTTATGTGATAGAATCAAGCAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCT
201661 CTCTTCAGATGAGTTCTTCTCATTATGAGCTGTCTGGAAATG
196 CTCTTCAGATGAGTTCTTCTCATTATGAGCTGTCTGGAAATG
* * * * * *
201703 TTGATGTTGATCTATCTCCTTCTGCGATAGAGTCGAGCAAAAGGTTGAACAAGCTCTTCTCATTA
1 TTGATGTTGATCTATATCATTCTACGATAAAGTCAAACAAAAGGTTGAACAAGCTCTTCTCATTA
*
201768 TAAACTTCTTTCCTCTTCAGATGAGTTC-T-TCATTATGAACTT-TCTCTGG-AAATGTTGATGC
66 CAAACTTC-TTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTAT-TCTGGCAAA-GTTGATGC
* * * * *
201829 TGATCTATCTCCTTCTG-GATAGAGTCGAGCAAAAGGTTTAACAAGTTC-T-T-ATTATGAACTT
128 TGATCTA---CCTTATGTGATAGAATCAAGC--AAGATTGAACAAGTTCTTCTCATTATGAACTT
* * * *
201890 CTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGCAATG
188 CTTCTTCTCTCTTCAGATGAGTTCTTCTCATTATGAGCTGT--CTGGAAATG
** * * * * *
201942 TTGA--TCCATC--GA--A---T--GATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTA
1 TTGATGTTGATCTATATCATTCTACGATAAAGTCAAACAAAAGGTTGAACAAGCTCTTCTCATTA
** * * *
201996 TGAACTTTTTCTTCCTTCTTCAG--GAGTTCTTCTCATTA-GAACTTA-CCT-TC---G-TAATG
66 CAAAC---TTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAACTTATTCTGGCAAAGTTGATG
* * * * *
202052 CTGATCCATC-GA-ATGAT-GAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
127 CTGATCTACCTTATGTGATAGAA-TCAAGC-AAGA-TTGAACAAGTTCTTCTCATTATGAACTTC
202114 TTCTTC-CTTCTTCAGATGAGTTCTTCTCATTATGA
189 TTCTTCTC-TCTTCAGATGAGTTCTTCTCATTATGA
202149 ACTCGACCTA
Statistics
Matches: 370, Mismatches: 49, Indels: 66
0.76 0.10 0.14
Matches are distributed among these distances:
219 4 0.01
220 19 0.05
221 2 0.01
222 1 0.00
223 45 0.12
224 11 0.03
225 1 0.00
228 39 0.11
229 8 0.02
230 12 0.03
231 16 0.04
233 4 0.01
234 32 0.09
235 76 0.21
236 33 0.09
237 41 0.11
238 14 0.04
239 12 0.03
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (237 bp):
TTGATGTTGATCTATATCATTCTACGATAAAGTCAAACAAAAGGTTGAACAAGCTCTTCTCATTA
CAAACTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTATTCTGGCAAAGTTGATGCTGA
TCTACCTTATGTGATAGAATCAAGCAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCT
CTCTTCAGATGAGTTCTTCTCATTATGAGCTGTCTGGAAATG
Found at i:202197 original size:113 final size:113
Alignment explanation
Indices: 201874--202262 Score: 605
Period size: 110 Copynumber: 3.5 Consensus size: 113
201864 GTTTAACAAG
* * * *
201874 TTCTTATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGCA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTAGTA
*
201939 ATGTTGATCCATCGAATGATGAATTCAAGC-AAAAGGTTGAACAAGTTC
66 ATGCTGATCCATCGAATGATGAATTCAAGCGAAAA-GTTGAACAAGTTC
* *
201987 TTCTCATTATGAACTTTTTCTTCCTTCTTCAG--GAGTTCTTCTCATTA-GAACT-TACCTTCGT
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC-TAGT
202048 AATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
65 AATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
*
202097 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTAGTA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTAGTA
202162 ATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAG--C
66 ATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
* * *
202208 TTCTCATTATGAACTTCTTCTT-TTTCTTCAGATGAGTTTTTATCATTATGAACTC
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
202263 CTTCTTCCTT
Statistics
Matches: 258, Mismatches: 12, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
109 4 0.02
110 111 0.43
111 42 0.16
112 15 0.06
113 83 0.32
114 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (113 bp):
TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTAGTA
ATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
Found at i:202276 original size:150 final size:150
Alignment explanation
Indices: 202100--202413 Score: 526
Period size: 150 Copynumber: 2.1 Consensus size: 150
202090 CAAGTTCTTC
*
202100 TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTA-GTAAT
1 TCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCG-CC-AGGTAAT
*
202164 GCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAG-CTTCTCATTATGAACTTCTTC
64 GCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTCTTCTCATTATGAACATCTTC
*
202228 TT-TTTCTTCAGATGAGTTTTTA
129 TTCCTTCTTCAGATGAG-TTTTA
*
202250 TCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCAGGTAATGG
1 TCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCAGGTAATGC
202315 TGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACATCTTCT
66 TGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAG-TCTTCTCATTATGAACATCTTCT
*
202380 TCCTTCTTCAGATGAGTTTTC
130 TCCTTCTTCAGATGAGTTTTA
202401 TCATTATGAACTC
1 TCATTATGAACTC
202414 TACCTGGAAA
Statistics
Matches: 155, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
148 1 0.01
149 49 0.32
150 53 0.34
151 39 0.25
152 13 0.08
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (150 bp):
TCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCAGGTAATGC
TGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTCTTCTCATTATGAACATCTTCTT
CCTTCTTCAGATGAGTTTTA
Found at i:202294 original size:40 final size:39
Alignment explanation
Indices: 202207--202302 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 39
202197 GTTGAACAAG
* *
202207 CTTCTCATTATGAACTTCTTCTTTTTCTTCAGATGAGTT
1 CTTCTCATTATGAACTCCTTCTTCTTCTTCAGATGAGTT
* *
202246 TTTATCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTT
1 CTTCTCATTATGAACTCCTTCTT-CTTCTTCAGATGAGTT
202286 CTTCTCATTATGAACTC
1 CTTCTCATTATGAACTC
202303 GCCAGGTAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 20 0.40
40 30 0.60
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (39 bp):
CTTCTCATTATGAACTCCTTCTTCTTCTTCAGATGAGTT
Found at i:202606 original size:73 final size:75
Alignment explanation
Indices: 202450--202616 Score: 241
Period size: 73 Copynumber: 2.3 Consensus size: 75
202440 AAACATTCTG
** * * *
202450 CACTGTAGGGTTTACAG-TGACTCGAAGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGG
1 CACTGTAGGACTTACAGATGACCCTAAGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGG
*
202514 AAACATCATG
66 AAACATCATA
* *
202524 CACTGTAGGACTTATAGATGACCCTAAGCTTTGAAAACATC-AAAAGCTCCCGAAGGC-TTTTGG
1 CACTGTAGGACTTACAGATGACCCTAAGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGG
202587 AAACATCATA
66 AAACATCATA
202597 CACTGTAGGACTTACAGATG
1 CACTGTAGGACTTACAGATG
202617 TGGGAAATAG
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
73 34 0.41
74 29 0.35
75 20 0.24
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (75 bp):
CACTGTAGGACTTACAGATGACCCTAAGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGG
AAACATCATA
Found at i:203312 original size:22 final size:22
Alignment explanation
Indices: 203287--203337 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
203277 AAGCTTTCAA
*
203287 CTTTGAAAATAGAATCTATCAT
1 CTTTGAAAAGAGAATCTATCAT
*
203309 CTTTAAAAAGAGAATCTATCAT
1 CTTTGAAAAGAGAATCTATCAT
203331 CTTTGAA
1 CTTTGAA
203338 GAGTGTAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (22 bp):
CTTTGAAAAGAGAATCTATCAT
Found at i:205959 original size:112 final size:113
Alignment explanation
Indices: 205786--206000 Score: 360
Period size: 112 Copynumber: 1.9 Consensus size: 113
205776 CATGCAGTTC
* * *
205786 ATCTTTCAATTCCAATGATTGGTTTGGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGAACA
1 ATCTTTCAAATCCAATGATTGGTTTGGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
*
205851 CTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAATT
66 CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAATT
* * *
205899 ATCTTTCAAATCCAATGA-TGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTTAAAGAACA
1 ATCTTTCAAATCCAATGATTGGTTTGGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
205963 CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
66 CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
206001 CGAGAACGTG
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
112 78 0.82
113 17 0.18
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (113 bp):
ATCTTTCAAATCCAATGATTGGTTTGGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAATT
Found at i:210126 original size:20 final size:20
Alignment explanation
Indices: 210102--210146 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
210092 ACGAACGTAA
*
210102 AAATGCAAATATAAAAATGT
1 AAATGCAAACATAAAAATGT
* * *
210122 GAATGTAACCATAAAAATGT
1 AAATGCAAACATAAAAATGT
210142 AAATG
1 AAATG
210147 TGCAATACAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (20 bp):
AAATGCAAACATAAAAATGT
Found at i:211129 original size:22 final size:24
Alignment explanation
Indices: 211073--211130 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 24
211063 TAATACTAAT
211073 TAAATATTAAACATATAAAATTAAAA
1 TAAA-ATTAAACATAT-AAATTAAAA
* *
211099 TATATTTAAACA-AT-AATTAAAA
1 TAAAATTAAACATATAAATTAAAA
211121 TAAAATTAAA
1 TAAAATTAAA
211131 ACTAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 16 0.57
24 2 0.07
25 7 0.25
26 3 0.11
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAATTAAACATATAAATTAAAA
Found at i:211150 original size:26 final size:25
Alignment explanation
Indices: 211119--211180 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
211109 CAATAATTAA
211119 AATAAAATTAAAACTAAATAAAAAGT
1 AATAAAATTAAAACTAAAT-AAAAGT
** *
211145 AATAAAACTTGTAATTAAATAAAAGT
1 AATAAAA-TTAAAACTAAATAAAAGT
*
211171 ATTAAAATTA
1 AATAAAATTA
211181 GTGACTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 2 0.07
26 19 0.63
27 9 0.30
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (25 bp):
AATAAAATTAAAACTAAATAAAAGT
Found at i:211189 original size:26 final size:27
Alignment explanation
Indices: 211130--211190 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
211120 ATAAAATTAA
211130 AACTAAATAAAAAGTAATAAAACTTGT
1 AACTAAATAAAAAGTAATAAAACTTGT
* *
211157 AATTAAAT-AAAAGTATTAAAA-TTAGT
1 AACTAAATAAAAAGTAATAAAACTT-GT
*
211183 GACTAAAT
1 AACTAAAT
211191 TATAACATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (27 bp):
AACTAAATAAAAAGTAATAAAACTTGT
Found at i:212583 original size:15 final size:15
Alignment explanation
Indices: 212563--212616 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
212553 TTCTTTCAAA
*
212563 ATTTTTATACTTATT
1 ATTTTTATATTTATT
*
212578 ATTTTTATATTTTTT
1 ATTTTTATATTTATT
*
212593 ATTTTATTTATTTATTT
1 ATTTT-TATATTTA-TT
212610 ATTTTTA
1 ATTTTTA
212617 CTCAGGTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 18 0.56
16 7 0.22
17 7 0.22
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTTATATTTATT
Found at i:212591 original size:24 final size:24
Alignment explanation
Indices: 212564--212615 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
212554 TCTTTCAAAA
212564 TTTTTATACTTA-TTATTT-TTATAT
1 TTTTTAT-CTTATTTATTTATT-TAT
*
212588 TTTTTATTTTATTTATTTATTTAT
1 TTTTTATCTTATTTATTTATTTAT
212612 TTTT
1 TTTT
212616 ACTCAGGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 20 0.80
25 2 0.08
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTTTATCTTATTTATTTATTTAT
Found at i:213425 original size:17 final size:17
Alignment explanation
Indices: 213403--213436 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
213393 ACACAACCGT
213403 AGAATGACATCCTGAGG
1 AGAATGACATCCTGAGG
213420 AGAATGACATCCTGAGG
1 AGAATGACATCCTGAGG
213437 GAACTCCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (17 bp):
AGAATGACATCCTGAGG
Found at i:219551 original size:26 final size:25
Alignment explanation
Indices: 219516--219582 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
219506 TAAACATTAT
*
219516 TAATTTATAAAATTAATCAATAATA-
1 TAATTAATAAAATTAAT-AATAATAC
*
219541 TATATTAATAAAAATAAATAATAATAC
1 TA-ATTAAT-AAAATTAATAATAATAC
*
219568 TAATTAA-AATATTAA
1 TAATTAATAAAATTAA
219583 ACATATAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
24 6 0.17
25 2 0.06
26 17 0.49
27 10 0.29
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (25 bp):
TAATTAATAAAATTAATAATAATAC
Found at i:219618 original size:22 final size:21
Alignment explanation
Indices: 219568--219620 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
219558 ATAATAATAC
219568 TAATTAAAA-TATTAAACATA
1 TAATTAAAATTATTAAACATA
219588 TAAATTAAAATGTATTTAAACA-A
1 T-AATTAAAAT-TA-TTAAACATA
219611 TAATTAAAAT
1 TAATTAAAAT
219621 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.03
21 8 0.28
22 9 0.31
23 4 0.14
24 7 0.24
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
TAATTAAAATTATTAAACATA
Found at i:219628 original size:22 final size:24
Alignment explanation
Indices: 219578--219629 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
219568 TAATTAAAAT
**
219578 ATTAAACATATAAATTAAAATGTA
1 ATTAAACATATAAATTAAAATAAA
*
219602 TTTAAACA-AT-AATTAAAATAAA
1 ATTAAACATATAAATTAAAATAAA
219624 ATTAAA
1 ATTAAA
219630 ACTAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 15 0.62
23 2 0.08
24 7 0.29
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTAAACATATAAATTAAAATAAA
Found at i:220994 original size:3 final size:3
Alignment explanation
Indices: 220986--221100 Score: 122
Period size: 3 Copynumber: 37.7 Consensus size: 3
220976 TTATTTATTA
* *
220986 AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT AAC AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * * * *
221033 AAT AAT TAT TAT TAT TAT AAT AAT AAT AAT ACT AAT AAT TAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
221081 AAT TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
221101 ATTTAAATGA
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
3 90 0.94
4 6 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:223264 original size:14 final size:14
Alignment explanation
Indices: 223242--223296 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
223232 TAAATAACTA
223242 AAAATGTAAAAATTT
1 AAAA-GTAAAAATTT
223257 AAAAGTAAAATAATTT
1 AAAAGT-AAA-AATTT
223273 --AAGT-AAAATTT
1 AAAAGTAAAAATTT
223284 AAAAGTAAAAATT
1 AAAAGTAAAAATT
223297 CAAATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.14
12 2 0.06
13 4 0.11
14 12 0.34
15 7 0.20
16 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (14 bp):
AAAAGTAAAAATTT
Found at i:223291 original size:13 final size:13
Alignment explanation
Indices: 223250--223293 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
223240 TAAAAATGTA
223250 AAAATTTAAAAGT
1 AAAATTTAAAAGT
*
223263 AAAATAATT-TAAGT
1 AAAAT--TTAAAAGT
223277 AAAATTTAAAAGT
1 AAAATTTAAAAGT
223290 AAAA
1 AAAA
223294 ATTCAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 2 0.08
13 13 0.50
14 9 0.35
15 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (13 bp):
AAAATTTAAAAGT
Found at i:223938 original size:17 final size:17
Alignment explanation
Indices: 223906--223939 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
223896 TATTAATGTA
223906 TGAATCATTTTATTTTT
1 TGAATCATTTTATTTTT
223923 TGAAT-ATTTTATTTTT
1 TGAATCATTTTATTTTT
223939 T
1 T
223940 AATACAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (17 bp):
TGAATCATTTTATTTTT
Found at i:223943 original size:15 final size:16
Alignment explanation
Indices: 223906--223943 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
223896 TATTAATGTA
223906 TGAATCATTTTATTTTT
1 TGAAT-ATTTTATTTTT
223923 TGAATATTTTATTTTT
1 TGAATATTTTATTTTT
223939 T-AATA
1 TGAATA
223944 CAACAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 12 0.57
17 5 0.24
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (16 bp):
TGAATATTTTATTTTT
Found at i:226353 original size:33 final size:34
Alignment explanation
Indices: 226286--226358 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
226276 TAATTGATTT
* *
226286 AATTGAATTATTTGGAAATTAGGGTTTAGAATGA
1 AATTGAATTACTTGGAAATTAGGGGTTAGAATGA
226320 AATTGAATTACTTGGAAATT-GGGGTTAGAATGA
1 AATTGAATTACTTGGAAATTAGGGGTTAGAATGA
226353 AATTGA
1 AATTGA
226359 GGACTGTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
33 18 0.49
34 19 0.51
ACGTcount: A:0.38, C:0.01, G:0.25, T:0.36
Consensus pattern (34 bp):
AATTGAATTACTTGGAAATTAGGGGTTAGAATGA
Found at i:228119 original size:25 final size:24
Alignment explanation
Indices: 228082--228128 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
228072 AAACCTGTAA
**
228082 AATAATATTAATAGTAAATAATAT
1 AATAATATTAATAAAAAATAATAT
228106 AATAATAATTAATAAAAAATAAT
1 AATAAT-ATTAATAAAAAATAAT
228129 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (24 bp):
AATAATATTAATAAAAAATAATAT
Found at i:228861 original size:18 final size:18
Alignment explanation
Indices: 228840--228913 Score: 50
Period size: 15 Copynumber: 4.2 Consensus size: 18
228830 ATTTTAATAG
228840 TATAATAATTATTATTAA
1 TATAATAATTATTATTAA
* *
228858 TATAAT--TT-TAATTTA
1 TATAATAATTATTATTAA
* *
228873 TAGAATAATTATAAATATTAC
1 TATAATAATTAT---TATTAA
228894 TATAATAA-TATTATT-A
1 TATAATAATTATTATTAA
228910 TATA
1 TATA
228914 TTTTAATCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
15 10 0.24
16 6 0.14
17 6 0.14
18 7 0.17
20 3 0.07
21 10 0.24
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
TATAATAATTATTATTAA
Found at i:228892 original size:36 final size:37
Alignment explanation
Indices: 228825--228899 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 37
228815 ATAAGATTAT
* * * *
228825 ATTTTATTTTAATAGTATAATAATTATTATTAATATA
1 ATTTTAATTTAATAGAATAATAATAAATATTAATATA
* *
228862 ATTTTAATTT-ATAGAATAATTATAAATATTACTATA
1 ATTTTAATTTAATAGAATAATAATAAATATTAATATA
228898 AT
1 AT
228900 AATATTATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 23 0.72
37 9 0.28
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (37 bp):
ATTTTAATTTAATAGAATAATAATAAATATTAATATA
Found at i:228925 original size:26 final size:25
Alignment explanation
Indices: 228842--228929 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 25
228832 TTTAATAGTA
228842 TAATAATTATTATTAATATAATTTTAAT
1 TAATAA-TATTATT-ATAT-ATTTTAAT
* * * * *
228870 TTATAGA-ATAATTATAAATATTACT
1 TAATA-ATATTATTATATATTTTAAT
228895 ATAATAATATTATTATATATTTTAAT
1 -TAATAATATTATTATATATTTTAAT
228921 CTAATAATA
1 -TAATAATA
228930 ATAATATTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
25 7 0.15
26 29 0.63
27 5 0.11
28 4 0.09
29 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (25 bp):
TAATAATATTATTATATATTTTAAT
Found at i:228951 original size:32 final size:32
Alignment explanation
Indices: 228895--228977 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 32
228885 AAATATTACT
**
228895 ATAATAATATTATT-AT-ATATTTTAATCTAATA
1 ATAATAATATT-TTAATAATATTTTAAAAT-ATA
228927 ATAATAATATTTTAATAATA-TTTAAAATATA
1 ATAATAATATTTTAATAATATTTTAAAATATA
*
228958 CTAATTAATATTTTAA-AATA
1 ATAA-TAATATTTTAATAATA
228978 GAAAATAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
31 12 0.27
32 30 0.67
33 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (32 bp):
ATAATAATATTTTAATAATATTTTAAAATATA
Found at i:228983 original size:29 final size:31
Alignment explanation
Indices: 228931--228989 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
228921 CTAATAATAA
* *
228931 TAATATTTTAATAATATTTAAAATATACTAAT
1 TAATATTTTAATAATA-TGAAAATAAACTAAT
228963 TAATATTTTAA-AATA-GAAAATAAACTA
1 TAATATTTTAATAATATGAAAATAAACTA
228990 TACTTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
31 4 0.16
32 11 0.44
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (31 bp):
TAATATTTTAATAATATGAAAATAAACTAAT
Found at i:229064 original size:25 final size:25
Alignment explanation
Indices: 229029--229105 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 25
229019 AGTTTATTTC
* *
229029 AATAAAATATATTTAAATTTTTATT
1 AATAAATTATATTTAAATTTTTAAT
*** *
229054 AATAAATTATAAAAAAATATTTAAT
1 AATAAATTATATTTAAATTTTTAAT
*
229079 AATAAATTAT-TTTATA-TTTTAAT
1 AATAAATTATATTTAAATTTTTAAT
229102 AATA
1 AATA
229106 TTAAGTTTAT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 10 0.24
24 2 0.05
25 29 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATAAATTATATTTAAATTTTTAAT
Found at i:229103 original size:20 final size:20
Alignment explanation
Indices: 229078--229158 Score: 54
Period size: 23 Copynumber: 3.8 Consensus size: 20
229068 AAATATTTAA
229078 TAATAAATTATTTTATATTT
1 TAATAAATTATTTTATATTT
* **
229098 TAATAATATTAAGTTTATGATAA
1 TAATAA-ATT-ATTTTAT-ATTT
* *
229121 TAATATTATTTATTTAATATTT
1 TAATA--AATTATTTTATATTT
*
229143 ATAATAAATAATTTTA
1 -TAATAAATTATTTTA
229159 AAAACTCATC
Statistics
Matches: 44, Mismatches: 11, Indels: 11
0.67 0.17 0.17
Matches are distributed among these distances:
20 6 0.14
21 10 0.23
22 8 0.18
23 17 0.39
24 2 0.05
25 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATAAATTATTTTATATTT
Found at i:229330 original size:14 final size:15
Alignment explanation
Indices: 229291--229331 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
229281 ATTTTTCTAG
* *
229291 AATTCAAATTCTAGT
1 AATTCAATTTCCAGT
229306 AATTC-ATTTCCA-T
1 AATTCAATTTCCAGT
229319 AATTCAATTTCCA
1 AATTCAATTTCCA
229332 AAACCATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 6 0.26
14 12 0.52
15 5 0.22
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (15 bp):
AATTCAATTTCCAGT
Found at i:236300 original size:24 final size:25
Alignment explanation
Indices: 236201--236300 Score: 112
Period size: 25 Copynumber: 4.0 Consensus size: 25
236191 GAGTCGAGGG
236201 TTCTACGCGGTCCCTTCGGGACAAAT
1 TTCTACGCGGT-CCTTCGGGACAAAT
* *
236227 TTCTACGTGGTCATTCGGGACAAAT
1 TTCTACGCGGTCCTTCGGGACAAAT
* * * * * *
236252 TTCTATGTGATTCTTCAGGA-AAAA
1 TTCTACGCGGTCCTTCGGGACAAAT
236276 TTCTACGCGGTCCTTCGGGACAAAT
1 TTCTACGCGGTCCTTCGGGACAAAT
236301 CTATGTGGCA
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 18 0.31
25 31 0.53
26 10 0.17
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (25 bp):
TTCTACGCGGTCCTTCGGGACAAAT
Found at i:236314 original size:23 final size:24
Alignment explanation
Indices: 236298--236344 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
236288 CTTCGGGACA
*
236298 AATCTATGTGGCACTTCGGTGCAT
1 AATCTACGTGGCACTTCGGTGCAT
*
236322 ATTCTACGTGGCACTTCGGTGCA
1 AATCTACGTGGCACTTCGGTGCA
236345 AATTTTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (24 bp):
AATCTACGTGGCACTTCGGTGCAT
Found at i:238989 original size:23 final size:23
Alignment explanation
Indices: 238954--239001 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
238944 ATCAAGTATA
* **
238954 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAAAGCTTAT
*
238977 ATAATGTAATAGGTAAAGCTTAT
1 ATAATATAATAGGTAAAGCTTAT
239000 AT
1 AT
239002 TGACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAAAGCTTAT
Found at i:239728 original size:162 final size:162
Alignment explanation
Indices: 239459--239793 Score: 571
Period size: 162 Copynumber: 2.1 Consensus size: 162
239449 TTTCGATACT
239459 GATTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCAACAC
1 GATTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCAACAC
* * *
239524 TTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCTAAAAGTGTCGATACTTATAATAAAATATC
66 TTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAATATC
* * *
239589 GACACTTTCAACATATCTGGTAGCTCTTTACC
131 GACACTATCAACATATCCGGTAGCGCTTTACC
* * * *
239621 GGTTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
1 GATTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCAACAC
239686 TTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAATATC
66 TTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAATATC
239751 GACACTATCAACATATCCGGTAGCGCTTTACC
131 GACACTATCAACATATCCGGTAGCGCTTTACC
*
239783 TATTTTGTCAT
1 GATTTTGTCAT
239794 TTATAGACCG
Statistics
Matches: 161, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 161 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (162 bp):
GATTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCAACAC
TTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAATATC
GACACTATCAACATATCCGGTAGCGCTTTACC
Found at i:239979 original size:112 final size:111
Alignment explanation
Indices: 239741--239981 Score: 419
Period size: 111 Copynumber: 2.2 Consensus size: 111
239731 GATACTTATA
* *
239741 ATAAAATATCGACACTATCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCGAT
*
239806 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
239852 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCGAT
239917 TTTGTCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTT-TTTACCTGTTATATTGTTATGGATCGATACATTTTT
239964 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
239982 ATTGGCGTTA
Statistics
Matches: 123, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
111 70 0.57
112 53 0.43
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (111 bp):
ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCGAT
TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:240124 original size:21 final size:20
Alignment explanation
Indices: 240077--240127 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
240067 CTCTTTACCG
240077 GTTTTGTCATTTCGAGACCA
1 GTTTTGTCATTTCGAGACCA
*
240097 GTTTTGTCATTTGGAGACCA
1 GTTTTGTCATTTCGAGACCA
240117 GTTTTTGTCAT
1 G-TTTTGTCAT
240128 ATTTTTACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.45
Consensus pattern (20 bp):
GTTTTGTCATTTCGAGACCA
Found at i:240434 original size:112 final size:111
Alignment explanation
Indices: 240237--240691 Score: 663
Period size: 112 Copynumber: 4.1 Consensus size: 111
240227 GATACTTATA
* * * *
240237 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACC-AG
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGA-
*
240301 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
65 TTTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
* * * *
240349 ATAAAATATCGACACTTTCAATATATCCGGTTGCTATTTACCTGTTTTGTCAATTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGAT
* *
240414 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
* * *
240461 ATAAAGTATCGACACTTTCAAAATATCCGGTAGCTATTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGAT
* *
240526 TTTGTCATTGTTTACCTGTTATA---TTATAGATCAATATATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
* *
240569 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGAT
*
240634 TTTGTCATTTTTTACCT-AT-TATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
240678 -TAAAGTATCGACAC
1 ATAAAGTATCGACAC
240692 AAACTGATAA
Statistics
Matches: 315, Mismatches: 24, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
106 2 0.01
107 1 0.00
108 109 0.35
109 19 0.06
111 15 0.05
112 168 0.53
113 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (111 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGAT
TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
Found at i:240617 original size:220 final size:219
Alignment explanation
Indices: 240237--240691 Score: 682
Period size: 220 Copynumber: 2.1 Consensus size: 219
240227 GATACTTATA
* * *
240237 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCAGT
1 ATAAAGTATCGACACTATCAAAATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCAGT
* * *
240302 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAATATCGACACTTT
66 TTTGTCATTTGTTTACCTGTTATA-T-TTATAGATCAATATATTTTTATAAAATATCGACACTTT
* *
240367 CAATATATCCGGTTGCTATTTACCTGTTTTGTCAATTATAGACCGATTTTGTCATTTTTTTACCT
129 CAATATATCCGGTAGCGATTTACCTGTTTTGTCAATTATAGACCGATTTTGTCA-TTTTTTACCT
* *
240432 GTTATATTGTTATGGATCGATACATTTTT
193 -AT-TATTGTTATGGATCAATACATTTTT
* * *
240461 ATAAAGTATCGACACTTTCAAAATATCCGGTAGCTATTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAAAATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCAGT
*
240526 TTTGTCA-TTGTTTACCTGTTATA-TTATAGATCAATATATTTTTATAAAGTATCGACACTTTCA
66 TTTGTCATTTGTTTACCTGTTATATTTATAGATCAATATATTTTTATAAAATATCGACACTTTCA
* * *
240589 ATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTATT
131 ATATATCCGGTAGCGATTTACCTGTTTTGTCAATTATAGACCGATTTTGTCATTTTTTACCTATT
*
240654 ATTGTTATGGATCAATATATTTTT
196 ATTGTTATGGATCAATACATTTTT
240678 -TAAAGTATCGACAC
1 ATAAAGTATCGACAC
240692 AAACTGATAA
Statistics
Matches: 213, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
216 14 0.07
217 23 0.11
218 1 0.00
219 10 0.05
220 84 0.39
223 15 0.07
224 66 0.31
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (219 bp):
ATAAAGTATCGACACTATCAAAATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCAGT
TTTGTCATTTGTTTACCTGTTATATTTATAGATCAATATATTTTTATAAAATATCGACACTTTCA
ATATATCCGGTAGCGATTTACCTGTTTTGTCAATTATAGACCGATTTTGTCATTTTTTACCTATT
ATTGTTATGGATCAATACATTTTT
Found at i:240973 original size:7 final size:7
Alignment explanation
Indices: 240961--240994 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
240951 GGAGCATCTG
240961 AAAATAA
1 AAAATAA
240968 AAAATAA
1 AAAATAA
240975 AAAAT-A
1 AAAATAA
240981 AAAAT-A
1 AAAATAA
240987 AAAATAA
1 AAAATAA
240994 A
1 A
240995 TGTATTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:240976 original size:6 final size:6
Alignment explanation
Indices: 240961--240994 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
240951 GGAGCATCTG
240961 AAAATAA AAAATAA AAAATA AAAATA AAAATA AA
1 AAAAT-A AAAAT-A AAAATA AAAATA AAAATA AA
240995 TGTATTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 15 0.56
7 12 0.44
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:240983 original size:13 final size:13
Alignment explanation
Indices: 240961--240994 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
240951 GGAGCATCTG
240961 AAAATAAAAAATA
1 AAAATAAAAAATA
240974 AAAA-ATAAAAATA
1 AAAATA-AAAAATA
240987 AAAATAAA
1 AAAATAAA
240995 TGTATTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 17 0.89
14 1 0.05
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:247356 original size:20 final size:20
Alignment explanation
Indices: 247307--247380 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
247297 ATAGTATTGG
* *
247307 TACTGCAAGAACAATACAAA
1 TACTACAAGAACAATACAGA
* **
247327 TATTGTAAGAACAATACAGA
1 TACTACAAGAACAATACAGA
* **
247347 TACTACAAGAATAATATTGA
1 TACTACAAGAACAATACAGA
247367 TACTACAAGAACAA
1 TACTACAAGAACAA
247381 AATCGATACT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.53, C:0.15, G:0.11, T:0.22
Consensus pattern (20 bp):
TACTACAAGAACAATACAGA
Found at i:247388 original size:20 final size:20
Alignment explanation
Indices: 247345--247391 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
247335 GAACAATACA
* * *
247345 GATACTACAAGAATAATATT
1 GATACTACAAGAACAAAATC
247365 GATACTACAAGAACAAAATC
1 GATACTACAAGAACAAAATC
247385 GATACTA
1 GATACTA
247392 TAATAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.23
Consensus pattern (20 bp):
GATACTACAAGAACAAAATC
Found at i:253184 original size:55 final size:55
Alignment explanation
Indices: 253117--253222 Score: 203
Period size: 55 Copynumber: 1.9 Consensus size: 55
253107 TTCATTGGTT
253117 TTAAAATATTAATTAAAATGAGTGGTGTATATTCATCCGACTTACCAAAAGTAAA
1 TTAAAATATTAATTAAAATGAGTGGTGTATATTCATCCGACTTACCAAAAGTAAA
*
253172 TTAAAATGTTAATTAAAATGAGTGGTGTATATTCATCCGACTTACCAAAAG
1 TTAAAATATTAATTAAAATGAGTGGTGTATATTCATCCGACTTACCAAAAG
253223 GATATTAGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (55 bp):
TTAAAATATTAATTAAAATGAGTGGTGTATATTCATCCGACTTACCAAAAGTAAA
Found at i:256663 original size:23 final size:24
Alignment explanation
Indices: 256561--256654 Score: 131
Period size: 23 Copynumber: 4.0 Consensus size: 24
256551 CACAAAAGTG
256561 CCACATAG-ATTTGTCCCGAAGGA
1 CCACATAGAATTTGTCCCGAAGGA
* **
256584 CCACGTAGAATTTGT-CATAAGGA
1 CCACATAGAATTTGTCCCGAAGGA
256607 CCACATAGAATTTGTCCCGAAGGA
1 CCACATAGAATTTGTCCCGAAGGA
*
256631 CCACATAGAA-TTGTCCTGAAGGA
1 CCACATAGAATTTGTCCCGAAGGA
256654 C
1 C
256655 TGCGTAGAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
23 40 0.65
24 22 0.35
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (24 bp):
CCACATAGAATTTGTCCCGAAGGA
Found at i:258043 original size:45 final size:45
Alignment explanation
Indices: 257973--258315 Score: 287
Period size: 45 Copynumber: 7.6 Consensus size: 45
257963 GTAACCTCCG
* *
257973 TTTCTGTTTATAATACA-CCATTATGCACTTT-AACATATAACATCT
1 TTTCTGTTGATAATGCACCCA-TATGCA-TTTCAACATATAACATCT
* * **
258018 TTTCTATTGATAATGCACCCATATGCATTTAAAC-TATAGTATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACATATAACAT-CT
* * * *
258063 TTTCTGTTGATAATGTACCCGTATACATTTCAACCATAGT-ATAT-T
1 TTTCTGTTGATAATGCACCCATATGCATTTCAA-CATA-TAACATCT
* * * *
258108 TTTCTATTGATAATGTACCCATATACATTTCAAC-TATAGCATGCT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACATATAACAT-CT
* *
258153 TTTCTGTTGATAATGCATCCATATGCATTTCAAC-TCTAGCACA-CT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACATATA--ACATCT
* * *
258198 GTTCTGTTGATAATGCACCCATATGCATTTAAAC-TCTAACAATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACATATAAC-AT-CT
* * *
258244 TTTCTGTTGAT-ATG-ACCCATATACATTTCAAC-TATAGCATCC
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACATATAACATCT
* *
258286 TTTCATGCTAATAATGCACCCATATGCATT
1 TTTC-TGTTGATAATGCACCCATATGCATT
258316 AGTATTTTCA
Statistics
Matches: 248, Mismatches: 33, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
42 6 0.02
43 13 0.05
44 34 0.14
45 171 0.69
46 16 0.06
47 7 0.03
48 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (45 bp):
TTTCTGTTGATAATGCACCCATATGCATTTCAACATATAACATCT
Found at i:258128 original size:90 final size:89
Alignment explanation
Indices: 258016--258315 Score: 340
Period size: 90 Copynumber: 3.3 Consensus size: 89
258006 CATATAACAT
*
258016 CTTTTCTATTGATAATGCACCCATATGCATTTAAACTATAGTATACTTTTCTGTTGATAATGTAC
1 CTTTTCTATTGATAATGCACCCATATGCATTTAAACTATAGAATACTTTTCTGTTGATAATG-AC
* * *
258081 CCGTATACATTTCAACCATAGTATA
65 CCATATACATTTCAACCATAGCACA
* * * * * * *
258106 TTTTTCTATTGATAATGTACCCATATACATTTCAACTATAGCATGCTTTTCTGTTGATAATGCAT
1 CTTTTCTATTGATAATGCACCCATATGCATTTAAACTATAGAATACTTTTCTGTTGATAATG-AC
*
258171 CCATATGCATTTCAACTC-TAGCACA
65 CCATATACATTTCAAC-CATAGCACA
* * * *
258196 CTGTTCTGTTGATAATGCACCCATATGCATTTAAACTCTAACAATACTTTTCTGTTGAT-ATGAC
1 CTTTTCTATTGATAATGCACCCATATGCATTTAAACTAT-AGAATACTTTTCTGTTGATAATGAC
*
258260 CCATATACATTTCAACTATAGCATC-
65 CCATATACATTTCAACCATAGCA-CA
*
258285 C-TTTC-ATGCTAATAATGCACCCATATGCATT
1 CTTTTCTAT--TGATAATGCACCCATATGCATT
258316 AGTATTTTCA
Statistics
Matches: 176, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
87 1 0.01
88 3 0.02
89 43 0.24
90 112 0.64
91 17 0.10
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (89 bp):
CTTTTCTATTGATAATGCACCCATATGCATTTAAACTATAGAATACTTTTCTGTTGATAATGACC
CATATACATTTCAACCATAGCACA
Found at i:258203 original size:135 final size:133
Alignment explanation
Indices: 258008--258315 Score: 386
Period size: 135 Copynumber: 2.3 Consensus size: 133
257998 CACTTTAACA
* * * * *
258008 TATAACATCTTTTCTATTGATAATGCACCCATATGCATTTAAACTATAGTATACTTTTCTGTTGA
1 TATAGCATCTTTTCTGTTGATAATGCACCCATATGCATTTAAACTATAGCACACTGTTCTGTTGA
* * * ** *
258073 TAATGTACCCGTATACATTTCAAC-C-ATAGTATATTTTTCTATTGATAATGTACCCATATACAT
66 TAATGCACCCATATACATTTAAACTCTA-ACAATACTTTTCTATTGAT-ATG-ACCCATATACAT
258136 TTCAAC
128 TTCAAC
* * *
258142 TATAGCATGCTTTTCTGTTGATAATGCATCCATATGCATTTCAACTCTAGCACACTGTTCTGTTG
1 TATAGCAT-CTTTTCTGTTGATAATGCACCCATATGCATTTAAACTATAGCACACTGTTCTGTTG
* *
258207 ATAATGCACCCATATGCATTTAAACTCTAACAATACTTTTCTGTTGATATGACCCATATACATTT
65 ATAATGCACCCATATACATTTAAACTCTAACAATACTTTTCTATTGATATGACCCATATACATTT
258272 CAAC
130 CAAC
* * *
258276 TATAGCATCCTTTCATGCTAATAATGCACCCATATGCATT
1 TATAGCATCTTTTC-TGTTGATAATGCACCCATATGCATT
258316 AGTATTTTCA
Statistics
Matches: 150, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
133 5 0.03
134 55 0.37
135 73 0.49
136 16 0.11
137 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (133 bp):
TATAGCATCTTTTCTGTTGATAATGCACCCATATGCATTTAAACTATAGCACACTGTTCTGTTGA
TAATGCACCCATATACATTTAAACTCTAACAATACTTTTCTATTGATATGACCCATATACATTTC
AAC
Found at i:260548 original size:16 final size:17
Alignment explanation
Indices: 260517--260551 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
260507 AATATCATCA
260517 CAAATATCCAAAACAAC
1 CAAATATCCAAAACAAC
*
260534 CAAATATTC-AAACAAC
1 CAAATATCCAAAACAAC
260550 CA
1 CA
260552 TAACCAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAATATCCAAAACAAC
Found at i:268405 original size:44 final size:45
Alignment explanation
Indices: 268355--268452 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
268345 AATCTAACAA
**
268355 TATCGATACCTAT-CAAAAAGTATAGATACTACTATGTGTAGTAG
1 TATCGATACCTATCCAAAAAGTATAGATACTACTATGTAAAGTAG
* * ** *
268399 TATCGATA-TTGTCCAAGGAGTATCGATACTACTATGTAAAGTAG
1 TATCGATACCTATCCAAAAAGTATAGATACTACTATGTAAAGTAG
*
268443 TATTGATACC
1 TATCGATACC
268453 GGTCATGGTA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
43 2 0.05
44 41 0.95
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (45 bp):
TATCGATACCTATCCAAAAAGTATAGATACTACTATGTAAAGTAG
Found at i:284671 original size:21 final size:21
Alignment explanation
Indices: 284645--284684 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
284635 CCGCGTAAAA
284645 ATGTCCCGAAAGACCATATGG
1 ATGTCCCGAAAGACCATATGG
*
284666 ATGTCCCGAAGGACCATAT
1 ATGTCCCGAAAGACCATAT
284685 ATAACATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.20
Consensus pattern (21 bp):
ATGTCCCGAAAGACCATATGG
Found at i:287833 original size:23 final size:23
Alignment explanation
Indices: 287807--287875 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
287797 CACCACAGCT
* *
287807 CGTATAATTACACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
287830 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
287853 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
287876 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:288064 original size:103 final size:103
Alignment explanation
Indices: 287891--288108 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
287881 TAATGTCCAT
* *
287891 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
287956 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
287994 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
288059 AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
288097 AAGGACCACATA
1 AAGGACCACATA
288109 GACCCTTTAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:299635 original size:13 final size:13
Alignment explanation
Indices: 299617--299651 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
299607 ATCCATTGGC
*
299617 ATTACTTCTGATA
1 ATTACTTCTGACA
299630 ATTACTTCTGACA
1 ATTACTTCTGACA
299643 ATTACTTCT
1 ATTACTTCT
299652 CAAAACTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.46
Consensus pattern (13 bp):
ATTACTTCTGACA
Found at i:301391 original size:24 final size:24
Alignment explanation
Indices: 301340--301391 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
301330 AACTGCCGTG
* * *
301340 TAGAATTTGCACCAAAGGGTAACG
1 TAGAATATGCACCAAAGGGCAACA
* *
301364 TAGAATATGCACCAAAGTGCCACA
1 TAGAATATGCACCAAAGGGCAACA
301388 TAGA
1 TAGA
301392 TTTTTCCCGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (24 bp):
TAGAATATGCACCAAAGGGCAACA
Found at i:301409 original size:23 final size:23
Alignment explanation
Indices: 301383--301454 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
301373 CACCAAAGTG
* *
301383 CCACATAGATTTTTCCCGAAGGA
1 CCACATAAATTTATCCCGAAGGA
* * *
301406 CCACGTAAAATTTGTCACGAAGGA
1 CCACAT-AAATTTATCCCGAAGGA
* *
301430 CCATATAAAATTATCCCGAAGGA
1 CCACATAAATTTATCCCGAAGGA
301453 CC
1 CC
301455 GCGTAGAACC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (23 bp):
CCACATAAATTTATCCCGAAGGA
Found at i:301418 original size:24 final size:24
Alignment explanation
Indices: 301391--301459 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
301381 TGCCACATAG
*
301391 ATTTTTCCCGAAGGACCACGTAAA
1 ATTTATCCCGAAGGACCACGTAAA
* * **
301415 ATTTGTCACGAAGGACCATATAAA
1 ATTTATCCCGAAGGACCACGTAAA
*
301439 A-TTATCCCGAAGGACCGCGTA
1 ATTTATCCCGAAGGACCACGTA
301460 GAACCCTCGA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 15 0.42
24 21 0.58
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (24 bp):
ATTTATCCCGAAGGACCACGTAAA
Found at i:302107 original size:20 final size:20
Alignment explanation
Indices: 302082--302128 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
302072 TTACATTATT
302082 GATACCTTACTCTTGGTATC
1 GATACCTTACTCTTGGTATC
302102 GATACCTTACTCTTGGTATC
1 GATACCTTACTCTTGGTATC
302122 GATACCT
1 GATACCT
302129 CCACATGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (20 bp):
GATACCTTACTCTTGGTATC
Found at i:303356 original size:23 final size:25
Alignment explanation
Indices: 303330--303397 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 25
303320 AAATTCAGAC
*
303330 ATTCTTTAAAATA-ATTTT-AGAAA
1 ATTCGTTAAAATATATTTTCAGAAA
*
303353 ATTCGTTCAAATATATTTTCAGAAA
1 ATTCGTTAAAATATATTTTCAGAAA
*
303378 ATATCATATAAAAATATATT
1 AT-TCGT-T-AAAATATATT
303398 GGGTAATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 11 0.31
24 5 0.14
25 7 0.19
26 3 0.08
27 1 0.03
28 9 0.25
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.41
Consensus pattern (25 bp):
ATTCGTTAAAATATATTTTCAGAAA
Found at i:304116 original size:95 final size:95
Alignment explanation
Indices: 303953--304143 Score: 382
Period size: 95 Copynumber: 2.0 Consensus size: 95
303943 ATATAAAAAT
303953 CATTTCGTTATTTGATAACAACTTCAACATTTCCAAATTACTCTTCAATTCCATAAATATTCATA
1 CATTTCGTTATTTGATAACAACTTCAACATTTCCAAATTACTCTTCAATTCCATAAATATTCATA
304018 TTCATCACCAAACTACTCAACTTTCATAAA
66 TTCATCACCAAACTACTCAACTTTCATAAA
304048 CATTTCGTTATTTGATAACAACTTCAACATTTCCAAATTACTCTTCAATTCCATAAATATTCATA
1 CATTTCGTTATTTGATAACAACTTCAACATTTCCAAATTACTCTTCAATTCCATAAATATTCATA
304113 TTCATCACCAAACTACTCAACTTTCATAAA
66 TTCATCACCAAACTACTCAACTTTCATAAA
304143 C
1 C
304144 TTTACAATTT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.37
Consensus pattern (95 bp):
CATTTCGTTATTTGATAACAACTTCAACATTTCCAAATTACTCTTCAATTCCATAAATATTCATA
TTCATCACCAAACTACTCAACTTTCATAAA
Found at i:305091 original size:453 final size:453
Alignment explanation
Indices: 304245--305146 Score: 1804
Period size: 453 Copynumber: 2.0 Consensus size: 453
304235 CCAAACTTAA
304245 TAAAAAAAATTCCAGCATTAAAATAATATATTCAATCTAATACAATCACATTTGAAAACTTGTCA
1 TAAAAAAAATTCCAGCATTAAAATAATATATTCAATCTAATACAATCACATTTGAAAACTTGTCA
304310 TTTAATCCCAAAATTCCCAATCCTTTCTAATAAACCACTAAACTTAACCAAATTTGCAATTTGGT
66 TTTAATCCCAAAATTCCCAATCCTTTCTAATAAACCACTAAACTTAACCAAATTTGCAATTTGGT
304375 CCTAAATCATCATTTTAACTTCAAATTCATCATCCAAACATTAATTTCAATCATTGTAATACTTC
131 CCTAAATCATCATTTTAACTTCAAATTCATCATCCAAACATTAATTTCAATCATTGTAATACTTC
304440 ACTCAATCTAATACTTTAACATTTGAAAACTTGCAATTACATCCCCAACTTTCTAGCATAATTTG
196 ACTCAATCTAATACTTTAACATTTGAAAACTTGCAATTACATCCCCAACTTTCTAGCATAATTTG
304505 AATTAGCCACTAACTTTTCCAAATTCTTACAATTTGACCCAAAACAATATTCTATCATCAAATTC
261 AATTAGCCACTAACTTTTCCAAATTCTTACAATTTGACCCAAAACAATATTCTATCATCAAATTC
304570 AACATTTAAACATTAAATTCCAGCAATAAACACCCATGATTAAACATTTATACTTCAATGCCCCA
326 AACATTTAAACATTAAATTCCAGCAATAAACACCCATGATTAAACATTTATACTTCAATGCCCCA
304635 TGATTTCCAAAACTTGTAAAGTGGTAATTTTACTATCTCAAGGTTCCAAATTGATCCAAGTTG
391 TGATTTCCAAAACTTGTAAAGTGGTAATTTTACTATCTCAAGGTTCCAAATTGATCCAAGTTG
304698 TAAAAAAAATTCCAGCATTAAAATAATATATTCAATCTAATACAATCACATTTGAAAACTTGTCA
1 TAAAAAAAATTCCAGCATTAAAATAATATATTCAATCTAATACAATCACATTTGAAAACTTGTCA
304763 TTTAATCCCAAAATTCCCAATCCTTTCTAATAAACCACTAAACTTAACCAAATTTGCAATTTGGT
66 TTTAATCCCAAAATTCCCAATCCTTTCTAATAAACCACTAAACTTAACCAAATTTGCAATTTGGT
304828 CCTAAATCATCATTTTAACTTCAAATTCATCATCCAAACATTAATTTCAATCATTGTAATACTTC
131 CCTAAATCATCATTTTAACTTCAAATTCATCATCCAAACATTAATTTCAATCATTGTAATACTTC
304893 ACTCAATCTAATACTTTAACATTTGAAAACTTGCAATTACATCCCCAACTTTCTAGCATAATTTG
196 ACTCAATCTAATACTTTAACATTTGAAAACTTGCAATTACATCCCCAACTTTCTAGCATAATTTG
304958 AATTAGCCACTAACTTTTCCAAATTCTTACAATTTGACCCAAAACAATATTCTATCATCAAATTC
261 AATTAGCCACTAACTTTTCCAAATTCTTACAATTTGACCCAAAACAATATTCTATCATCAAATTC
305023 AACATTTAAACATTAAATTCCAGCAATAAACACCCATGATTAAACATTTATACTTCAATGCCCCA
326 AACATTTAAACATTAAATTCCAGCAATAAACACCCATGATTAAACATTTATACTTCAATGCCCCA
305088 TGATTTCCAAAACTTGTAAAGTGGTAATTTTACTATCTCAAGGTTCCAAATTGATCCAA
391 TGATTTCCAAAACTTGTAAAGTGGTAATTTTACTATCTCAAGGTTCCAAATTGATCCAA
305147 ATCAACTTCC
Statistics
Matches: 449, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
453 449 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.34
Consensus pattern (453 bp):
TAAAAAAAATTCCAGCATTAAAATAATATATTCAATCTAATACAATCACATTTGAAAACTTGTCA
TTTAATCCCAAAATTCCCAATCCTTTCTAATAAACCACTAAACTTAACCAAATTTGCAATTTGGT
CCTAAATCATCATTTTAACTTCAAATTCATCATCCAAACATTAATTTCAATCATTGTAATACTTC
ACTCAATCTAATACTTTAACATTTGAAAACTTGCAATTACATCCCCAACTTTCTAGCATAATTTG
AATTAGCCACTAACTTTTCCAAATTCTTACAATTTGACCCAAAACAATATTCTATCATCAAATTC
AACATTTAAACATTAAATTCCAGCAATAAACACCCATGATTAAACATTTATACTTCAATGCCCCA
TGATTTCCAAAACTTGTAAAGTGGTAATTTTACTATCTCAAGGTTCCAAATTGATCCAAGTTG
Found at i:308515 original size:48 final size:48
Alignment explanation
Indices: 308459--308592 Score: 250
Period size: 48 Copynumber: 2.8 Consensus size: 48
308449 GATAGAAAAA
*
308459 CATAAAACACTCACCACCAACAGGGATGTAAAAAGTTGAACTGACTTG
1 CATAAAACACTCACCACCAACAGGGATGTAAAAAGTTGAACTGACCTG
308507 CATAAAACACTCACCACCAACAGGGATGTAAAAAGTTGAACTGACCTG
1 CATAAAACACTCACCACCAACAGGGATGTAAAAAGTTGAACTGACCTG
*
308555 CATAAAACACTCACCCCCAACAGGGATGTAAAAAGTTG
1 CATAAAACACTCACCACCAACAGGGATGTAAAAAGTTG
308593 GAGTGACATA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.42, C:0.25, G:0.16, T:0.17
Consensus pattern (48 bp):
CATAAAACACTCACCACCAACAGGGATGTAAAAAGTTGAACTGACCTG
Found at i:308635 original size:22 final size:22
Alignment explanation
Indices: 308610--308668 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
308600 ATACAACACT
308610 AACTGTTTGTGATTTAAGTCAA
1 AACTGTTTGTGATTTAAGTCAA
308632 AACTGTTTGTGATTTAAGTCAA
1 AACTGTTTGTGATTTAAGTCAA
* *
308654 AACCGTTTATGATTT
1 AACTGTTTGTGATTT
308669 GAGGTGGTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (22 bp):
AACTGTTTGTGATTTAAGTCAA
Found at i:308986 original size:16 final size:16
Alignment explanation
Indices: 308967--309012 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
308957 TGAACTGATC
308967 TGATATTTACCTGACT
1 TGATATTTACCTGACT
*
308983 TGATATTTACCTAACT
1 TGATATTTACCTGACT
*
308999 TAATATTTACCTGA
1 TGATATTTACCTGA
309013 TAAAATGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (16 bp):
TGATATTTACCTGACT
Found at i:309325 original size:2 final size:2
Alignment explanation
Indices: 309313--309480 Score: 103
Period size: 2 Copynumber: 83.0 Consensus size: 2
309303 AAAATTAAAT
* * * * * *
309313 TA TA AA TA TA TA TA TA TA TA TA CA TG CA TCA TA CA TA CA TCA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA T-A TA
* * * * *
309357 CA TA TG TA TA TA CA TG CA 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
* * *
309399 TA TA TA TA TA TA TA TA TA TA TA TCA CT- TA TG TA CA TA CA TCA
1 TA TA TA TA TA TA TA TA TA TA TA T-A -TA TA TA TA TA TA TA T-A
*
309441 T- TGA TCA TA CA TA -A T- TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA T-A T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
309481 CGTTGAATGT
Statistics
Matches: 124, Mismatches: 31, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
1 5 0.04
2 108 0.87
3 10 0.08
4 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.42
Consensus pattern (2 bp):
TA
Found at i:309562 original size:2 final size:2
Alignment explanation
Indices: 309557--309584 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
309547 ACACACACAC
309557 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
309585 TTTTATGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:318193 original size:28 final size:28
Alignment explanation
Indices: 318153--318209 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
318143 TAAGCAAAAT
318153 GAAAGAGACGTTAATGTAAAACAAGATC
1 GAAAGAGACGTTAATGTAAAACAAGATC
318181 GAAAGAGACGTTAATGTAAAACAAGATC
1 GAAAGAGACGTTAATGTAAAACAAGATC
318209 G
1 G
318210 TTGTATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.49, C:0.11, G:0.23, T:0.18
Consensus pattern (28 bp):
GAAAGAGACGTTAATGTAAAACAAGATC
Found at i:318812 original size:41 final size:41
Alignment explanation
Indices: 318767--318912 Score: 114
Period size: 50 Copynumber: 3.1 Consensus size: 41
318757 TCAGAACCTG
*
318767 ACCGGTTAGCGAACCGG-TCATGCTACCGGTTTACTGGTTCA
1 ACCGGTTAGCGAACCGGCT-ATGCTACCGGTTCACTGGTTCA
318808 ACCGGTCGAACGGTTAGCGAACCGGCTATGCTACCGGTTCACTGGTTCAACCGGTCGA
1 A-----C---CGGTTAGCGAACCGGCTATGCTACCGGTTCACTGG-T-------TC-A
318866 ACCGGTTAGCGAACCGGCTATGCTACCGGTTCACTGGTTCA
1 ACCGGTTAGCGAACCGGCTATGCTACCGGTTCACTGGTTCA
318907 ACCGGT
1 ACCGGT
318913 CAACCGGTCC
Statistics
Matches: 86, Mismatches: 1, Indels: 36
0.70 0.01 0.29
Matches are distributed among these distances:
41 8 0.09
42 2 0.02
46 1 0.01
49 33 0.38
50 37 0.43
53 1 0.01
57 2 0.02
58 2 0.02
ACGTcount: A:0.20, C:0.29, G:0.28, T:0.23
Consensus pattern (41 bp):
ACCGGTTAGCGAACCGGCTATGCTACCGGTTCACTGGTTCA
Found at i:318893 original size:50 final size:50
Alignment explanation
Indices: 318767--318920 Score: 269
Period size: 49 Copynumber: 3.1 Consensus size: 50
318757 TCAGAACCTG
*
318767 ACCGGTTAGCGAACCGG-TCATGCTACCGGTTTACTGGTTCAACCGGTCGA
1 ACCGGTTAGCGAACCGGCT-ATGCTACCGGTTCACTGGTTCAACCGGTCGA
318817 A-CGGTTAGCGAACCGGCTATGCTACCGGTTCACTGGTTCAACCGGTCGA
1 ACCGGTTAGCGAACCGGCTATGCTACCGGTTCACTGGTTCAACCGGTCGA
318866 ACCGGTTAGCGAACCGGCTATGCTACCGGTTCACTGGTTCAACCGGTC-A
1 ACCGGTTAGCGAACCGGCTATGCTACCGGTTCACTGGTTCAACCGGTCGA
318915 ACCGGT
1 ACCGGT
318921 CCGACCGGTC
Statistics
Matches: 101, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
49 53 0.52
50 48 0.48
ACGTcount: A:0.20, C:0.29, G:0.28, T:0.23
Consensus pattern (50 bp):
ACCGGTTAGCGAACCGGCTATGCTACCGGTTCACTGGTTCAACCGGTCGA
Found at i:338370 original size:19 final size:19
Alignment explanation
Indices: 338346--338383 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
338336 ATTTATTTAT
338346 GTGATTAACCATAGGTAGA
1 GTGATTAACCATAGGTAGA
338365 GTGATTAACCATAGGTAGA
1 GTGATTAACCATAGGTAGA
338384 AACCTTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (19 bp):
GTGATTAACCATAGGTAGA
Found at i:340262 original size:19 final size:20
Alignment explanation
Indices: 340240--340277 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
340230 TTCTTACATT
*
340240 ATTTATTT-ATTTATTTTGA
1 ATTTATTTAATTTACTTTGA
340259 ATTTATTTAATTTACTTTG
1 ATTTATTTAATTTACTTTG
340278 TTAAATCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTATTTAATTTACTTTGA
Found at i:345553 original size:124 final size:123
Alignment explanation
Indices: 345257--345579 Score: 348
Period size: 124 Copynumber: 2.6 Consensus size: 123
345247 GGGTGTTACA
* *
345257 AAAGAGTAAGATCGTTCCACGACTCAGCGTCTTTTAGATGAAAA-AGTGAGATCGTCACCAGATT
1 AAAGAGTAAGATCATTTCACGACTCAGCGTCTTTTAGA--AAAAGAGTGAGATCGTCACCAGATT
* ** * * *
345321 CAACATCCTTTAGTAAAATAAATGAATCACCTACCAATTATGACTTAGCTTCCTTCAGAG
64 CAACATCCTTCAACAAAAGAAATGAATCACCTACCAATTACGACTTAGCGTCCTTCAGAG
* * * * * *
345381 AAAGGAGTAAGAT-TTTTCCACGATTCAGCATCTATCA-AAAGAATGAGTGAGATCGTCACTAGA
1 AAA-GAGTAAGATCATTT-CACGACTCAGCGTCTTTTAGAAA-AA-GAGTGAGATCGTCACCAGA
* * *
345444 TTC-ACATCCTTCAACAAAAGAAATGGATCGCTTACCAATTACGACTTAGCGTCCTTCAGAGG
62 TTCAACATCCTTCAACAAAAGAAATGAATCACCTACCAATTACGACTTAGCGTCCTTCAGA-G
** * * *
345506 AAAGAGTAAGATCATTTCATAACTCAGTGCCTTTTAGACAAAAGAGTGGGATCGTCACCAGATTC
1 AAAGAGTAAGATCATTTCACGACTCAGCGTCTTTTAGA-AAAAGAGTGAGATCGTCACCAGATTC
345571 AACATCCTT
65 AACATCCTT
345580 TAAAGAATAA
Statistics
Matches: 162, Mismatches: 27, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
122 2 0.01
123 2 0.01
124 94 0.58
125 62 0.38
126 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (123 bp):
AAAGAGTAAGATCATTTCACGACTCAGCGTCTTTTAGAAAAAGAGTGAGATCGTCACCAGATTCA
ACATCCTTCAACAAAAGAAATGAATCACCTACCAATTACGACTTAGCGTCCTTCAGAG
Found at i:346728 original size:21 final size:20
Alignment explanation
Indices: 346704--346754 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
346694 AAAAAAACAT
*
346704 AAAAAGAAAGAAATTCAAAAA
1 AAAAAGAAAGAAA-ACAAAAA
* **
346725 AAAAAAAAAGAAAACTGAAA
1 AAAAAGAAAGAAAACAAAAA
346745 AAAAAGAAAG
1 AAAAAGAAAG
346755 GAGAAGTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.78, C:0.04, G:0.12, T:0.06
Consensus pattern (20 bp):
AAAAAGAAAGAAAACAAAAA
Found at i:349195 original size:51 final size:50
Alignment explanation
Indices: 349092--349316 Score: 221
Period size: 51 Copynumber: 4.5 Consensus size: 50
349082 CCAGTATAAT
*
349092 TATGTGTTAAGTGCTACACTTTTATTTTATTTTATTCACTTACACCGGTGTAAG
1 TATGTGTTAAGTGCTACAC--TT-TTTTATTTTATTCACTTACA-CTGTGTAAG
* * *
349146 TATGCGTTAAGTGTTACACTTTTTTATTTTATTTACTTACACTGTTGTAAG
1 TATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACTG-TGTAAG
* * * * *
349197 AATATGTTAAGTGTTACAC-----TATTTTTTTCACTTACACTAATGT-AG
1 TATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACT-GTGTAAG
* * *
349242 TATGTGTTAAGTGCTACACTTGTTTATTTTATTCACTTACACCAGTATAAG
1 TATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACA-CTGTGTAAG
*
349293 TATGTGTTAAGTGCTATA-TTTTTT
1 TATGTGTTAAGTGCTACACTTTTTT
349317 GTAGTATGAA
Statistics
Matches: 143, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
45 18 0.13
46 20 0.14
50 25 0.17
51 61 0.43
52 2 0.01
54 17 0.12
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.48
Consensus pattern (50 bp):
TATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACTGTGTAAG
Found at i:349301 original size:96 final size:101
Alignment explanation
Indices: 349075--349308 Score: 264
Period size: 96 Copynumber: 2.3 Consensus size: 101
349065 AGATGTACAT
* **
349075 ACTTACACCAGTATAATTATGTGTTAAGTGCTACACTTTTATTTTATTTTATTCACTTACACCGG
1 ACTTACACCAGTATAAGTATGTGTTAAGTGCTACAC--TTA--TTATTTTATTCACTTACACCAA
* * *
349140 TGTAAGTATGCGTTAAGTGTTACACTTTTTTATTTTATTT
62 TGTAAGTATGCGTTAAGTGCTACACTTGTTTATTTTATTC
* * * * * *
349180 ACTTACA-CTGTTGTAAGAATATGTTAAGTGTTACAC-TA-T-TTTT-TTCACTTACACTAATGT
1 ACTTACACCAG-TATAAGTATGTGTTAAGTGCTACACTTATTATTTTATTCACTTACACCAATGT
*
349240 -AGTATGTGTTAAGTGCTACACTTGTTTATTTTATTC
65 AAGTATGCGTTAAGTGCTACACTTGTTTATTTTATTC
349276 ACTTACACCAGTATAAGTATGTGTTAAGTGCTA
1 ACTTACACCAGTATAAGTATGTGTTAAGTGCTA
349309 TATTTTTTGT
Statistics
Matches: 109, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
96 57 0.52
97 16 0.15
98 4 0.04
99 1 0.01
102 2 0.02
104 2 0.02
105 27 0.25
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (101 bp):
ACTTACACCAGTATAAGTATGTGTTAAGTGCTACACTTATTATTTTATTCACTTACACCAATGTA
AGTATGCGTTAAGTGCTACACTTGTTTATTTTATTC
Found at i:352523 original size:8 final size:8
Alignment explanation
Indices: 352510--352550 Score: 73
Period size: 8 Copynumber: 5.1 Consensus size: 8
352500 GCAAGGAATC
352510 GTACGTAT
1 GTACGTAT
352518 GTACGTAT
1 GTACGTAT
352526 GTACGTAT
1 GTACGTAT
352534 GTACGTAT
1 GTACGTAT
*
352542 GTATGTAT
1 GTACGTAT
352550 G
1 G
352551 ATTACAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (8 bp):
GTACGTAT
Found at i:356420 original size:55 final size:53
Alignment explanation
Indices: 356345--356501 Score: 228
Period size: 55 Copynumber: 2.9 Consensus size: 53
356335 TGATACTAAG
356345 TGTGCAAAAACTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTTTA
1 TGTGC-AAAAC-TAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCAC--TA
356402 TGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTA
1 TGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTA
* * *
356455 TGTAC-GAACTAAGAAATTCATACCAAGTGTATGAATTT-TCGTATGGG
1 TGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCT-GTATGGG
356502 AAATATATGT
Statistics
Matches: 96, Mismatches: 3, Indels: 7
0.91 0.03 0.07
Matches are distributed among these distances:
51 1 0.01
52 38 0.40
53 6 0.06
55 41 0.43
56 5 0.05
57 5 0.05
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (53 bp):
TGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTA
Found at i:357291 original size:68 final size:68
Alignment explanation
Indices: 356678--357273 Score: 888
Period size: 68 Copynumber: 8.8 Consensus size: 68
356668 AAAGATTAAT
* * *
356678 AGGCCTAACTGTGCATTTGACAGAAAGTTATCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
356743 TTG
66 TTG
* *
356746 AGGCCTAACTGTGCGTTTGACAGAAAGGTTTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
356811 TTG
66 TTG
* * *
356814 AGGCTTAACTGTGCATTTTG-TAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGTC
1 AGGCCTAACTGTGCA-TTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCC
356878 TTTG
65 TTTG
*** * * * * **
356882 AGATATAATTATGCATTTGACAGAAAGATGTCATTTATGCCAGTTAGATGAAATGCTAAGTATCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
356947 TTG
66 TTG
* * * *
356950 AGGCCTAACTGTGCATTTGGCAGAAAGGTGTCATTTATGTCAATTAGATGAAAGGCTAAGTTCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
357015 TTG
66 TTG
* *
357018 AGACCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
357083 TTG
66 TTG
* * * *
357086 AGGCCTAATTGTGCATTTGATAGAAATGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
357151 TTG
66 TTG
* * *
357154 AGGTCTAACTGTGCATTTGGCAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
357219 TTG
66 TTG
* *
357222 AGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
357274 CGGTTAAATA
Statistics
Matches: 472, Mismatches: 54, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
67 4 0.01
68 464 0.98
69 4 0.01
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:357361 original size:81 final size:81
Alignment explanation
Indices: 357224--357622 Score: 568
Period size: 81 Copynumber: 4.9 Consensus size: 81
357214 TGCCTTTGAG
** *
357224 GCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
1 GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTT
357289 GAGTAAAAGAATAATA
66 GAGTAAAAGAATAATA
* * *
357305 GTCTAACTGTGCATTTGGCA-AATAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACTAT
1 GCCTAACTGTGCATTTGGCAGAA-AGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
357369 TGAGTAAAAGAATAATA
65 TGAGTAAAAGAATAATA
* * * *
357386 GCCTAACTTTGCATTTGGCAGAAAGGTGTCAACTATGCTAGTTAGATGAATGGTTAAATACTGTT
1 GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTT
* *
357451 TAGTAAACA-AATAATG
66 GAGTAAA-AGAATAATA
* * * *
357467 GCTTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGAAGAACGATTAAATACCGTT
1 GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTT
*
357532 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATA
* * * * *
357548 GCCTAGCTGTGCATTTGGCAGAAATGTTTCATTTATGCCAGTTAGATGAACGGTTAAACACTGTT
1 GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTT
357613 GAGTAAAAGA
66 GAGTAAAAGA
357623 TGAACGGTTA
Statistics
Matches: 283, Mismatches: 31, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
80 3 0.01
81 277 0.98
82 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (81 bp):
GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTT
GAGTAAAAGAATAATA
Found at i:357633 original size:29 final size:29
Alignment explanation
Indices: 357591--357649 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
357581 TATGCCAGTT
357591 AGATGAACGGTTAAACACTGTTGAGTAAA
1 AGATGAACGGTTAAACACTGTTGAGTAAA
357620 AGATGAACGGTTAAACACTGTTGAGTAAA
1 AGATGAACGGTTAAACACTGTTGAGTAAA
357649 A
1 A
357650 AGAATAATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (29 bp):
AGATGAACGGTTAAACACTGTTGAGTAAA
Found at i:357707 original size:111 final size:110
Alignment explanation
Indices: 357514--357733 Score: 289
Period size: 111 Copynumber: 2.0 Consensus size: 110
357504 CCAGTTAGAA
* * * * * *
357514 GAACGATTAAATACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGCAGAAATGTTTCA
1 GAACGATTAAACACCGTTGAGTAAAAGAATAATGGACTAGCTGAGCATTTGACAGAAAAGTGTCA
** * * *
357579 TTTATGCCAGTTAGATGAACGGTTAAA-CACTGTTGAGTAAAAGAT
66 AATATGCAAGTTAGATGAAAGGTTAAATAACT-TTGAGTAAAAGAT
* *
357624 GAACGGTTAAACACTGTTGAGTAAAAAGAATAATGGACTAGCTGAGCATTTGACAGAAAAGTGTC
1 GAACGATTAAACACCGTTGAGT-AAAAGAATAATGGACTAGCTGAGCATTTGACAGAAAAGTGTC
*
357689 AAATATGCAAGTTAGATGAAAGGTTAAATAACTTTGGGTAAAAGA
65 AAATATGCAAGTTAGATGAAAGGTTAAATAACTTTGAGTAAAAGA
357734 ATAAAGGAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
110 19 0.20
111 72 0.77
112 3 0.03
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (110 bp):
GAACGATTAAACACCGTTGAGTAAAAGAATAATGGACTAGCTGAGCATTTGACAGAAAAGTGTCA
AATATGCAAGTTAGATGAAAGGTTAAATAACTTTGAGTAAAAGAT
Found at i:367795 original size:3 final size:3
Alignment explanation
Indices: 367787--367889 Score: 199
Period size: 3 Copynumber: 34.7 Consensus size: 3
367777 GGGAGGGTAA
367787 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
367834 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
367882 AAG AAG AA
1 AAG AAG AA
367890 AGGGGTGGCA
Statistics
Matches: 99, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 97 0.98
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:372653 original size:30 final size:30
Alignment explanation
Indices: 372619--372686 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
372609 GCGCCGATGG
372619 TCCGAATTCCGACAACGGTGATAATTTGGC
1 TCCGAATTCCGACAACGGTGATAATTTGGC
* * *
372649 TCCGAATTCTGGCAATGGTGATAATTTGGC
1 TCCGAATTCCGACAACGGTGATAATTTGGC
372679 TCCGAATT
1 TCCGAATT
372687 GAGTTATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (30 bp):
TCCGAATTCCGACAACGGTGATAATTTGGC
Found at i:373804 original size:9 final size:9
Alignment explanation
Indices: 373772--373851 Score: 69
Period size: 9 Copynumber: 8.9 Consensus size: 9
373762 AATTGGAATT
373772 AAAATA-TA
1 AAAATATTA
*
373780 AAAATCTT-
1 AAAATATTA
373788 -AAAT-TTA
1 AAAATATTA
*
373795 ATAATATTA
1 AAAATATTA
373804 AAAATATTATA
1 AAAATA-T-TA
*
373815 AAAATATTT
1 AAAATATTA
373824 AAAATATTA
1 AAAATATTA
373833 AAAATATTA
1 AAAATATTA
373842 TTAAAATATT
1 --AAAATATT
373852 TAATTTTAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
6 2 0.03
7 4 0.07
8 8 0.14
9 27 0.46
10 2 0.03
11 16 0.27
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAATATTA
Found at i:373817 original size:35 final size:33
Alignment explanation
Indices: 373776--373872 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 33
373766 GGAATTAAAA
373776 TATAAAAATCTTAAATTTAATAATATTAAAAATAT
1 TATAAAAAT-TTAAATTTAA-AATATTAAAAATAT
373811 TATAAAAA--T--ATTTAAAATATTAAAAATAT
1 TATAAAAATTTAAATTTAAAATATTAAAAATAT
* *
373840 TATTAAAATATTTAATTTTAAAATATAAAAAAT
1 TA-TAAAA-ATTTAAATTTAAAATATTAAAAAT
373873 GAAATATAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
29 16 0.30
30 11 0.20
31 1 0.02
32 1 0.02
33 1 0.02
35 24 0.44
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (33 bp):
TATAAAAATTTAAATTTAAAATATTAAAAATAT
Found at i:373818 original size:11 final size:10
Alignment explanation
Indices: 373790--373854 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 10
373780 AAAATCTTAA
*
373790 ATTTAATAAT
1 ATTTAAAAAT
373800 A-TTAAAAAT
1 ATTTAAAAAT
373809 ATTATAAAAAT
1 ATT-TAAAAAT
373820 ATTT-AAAAT
1 ATTTAAAAAT
373829 A-TTAAAAAT
1 ATTTAAAAAT
*
373838 ATTATTAAAAT
1 ATT-TAAAAAT
373849 ATTTAA
1 ATTTAA
373855 TTTTAAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 2 0.04
9 20 0.43
10 6 0.13
11 19 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATTTAAAAAT
Found at i:373822 original size:20 final size:19
Alignment explanation
Indices: 373790--373854 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
373780 AAAATCTTAA
*
373790 ATTTAATAATATTAAAAAT
1 ATTTAAAAATATTAAAAAT
*
373809 ATTATAAAAATATTTAAAAT
1 ATT-TAAAAATATTAAAAAT
373829 A-TTAAAAATATTATTAAAAT
1 ATTTAAAAATATTA--AAAAT
373849 ATTTAA
1 ATTTAA
373855 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 10 0.26
19 4 0.10
20 21 0.54
21 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTAAAAATATTAAAAAT
Found at i:373832 original size:29 final size:30
Alignment explanation
Indices: 373790--373855 Score: 116
Period size: 29 Copynumber: 2.2 Consensus size: 30
373780 AAAATCTTAA
373790 ATTTAATAATATTAAAAATATTATAAAAAT
1 ATTTAATAATATTAAAAATATTATAAAAAT
*
373820 ATTTAA-AATATTAAAAATATTATTAAAAT
1 ATTTAATAATATTAAAAATATTATAAAAAT
373849 ATTTAAT
1 ATTTAAT
373856 TTTAAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 28 0.82
30 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
ATTTAATAATATTAAAAATATTATAAAAAT
Found at i:373854 original size:9 final size:9
Alignment explanation
Indices: 373790--373865 Score: 68
Period size: 9 Copynumber: 8.2 Consensus size: 9
373780 AAAATCTTAA
373790 ATTTAATAAT
1 ATTTAA-AAT
*
373800 ATTAAAAAT
1 ATTTAAAAT
373809 ATTATAAAAAT
1 ATT-T-AAAAT
373820 ATTTAAAAT
1 ATTTAAAAT
*
373829 ATTAAAAAT
1 ATTTAAAAT
373838 ATTATTAAAAT
1 A-T-TTAAAAT
373849 ATTT--AAT
1 ATTTAAAAT
373856 -TTTAAAAT
1 ATTTAAAAT
373864 AT
1 AT
373866 AAAAAATGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
6 3 0.05
7 3 0.05
8 3 0.05
9 23 0.42
10 8 0.15
11 15 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:373879 original size:14 final size:14
Alignment explanation
Indices: 373860--373886 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
373850 TTTAATTTTA
373860 AAATATAAAAAATG
1 AAATATAAAAAATG
373874 AAATATAAAAAAT
1 AAATATAAAAAAT
373887 ATTATTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
AAATATAAAAAATG
Found at i:373949 original size:27 final size:28
Alignment explanation
Indices: 373919--373977 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
373909 TTATAGCTAG
*
373919 AAATATTAAATTAT-TTTTAAATTATAA
1 AAATATTAAATTATGTTTTAAAATATAA
* * *
373946 AAATGTTAACTTTTGTTTTAAAATATAA
1 AAATATTAAATTATGTTTTAAAATATAA
373974 AAAT
1 AAAT
373978 TTCCTTTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (28 bp):
AAATATTAAATTATGTTTTAAAATATAA
Found at i:377315 original size:18 final size:18
Alignment explanation
Indices: 377269--377308 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
377259 ACAACTCAAA
377269 AGGTCACATTGAGGGAAT
1 AGGTCACATTGAGGGAAT
*
377287 ATGTCACATTGAGGGAAT
1 AGGTCACATTGAGGGAAT
377305 AGGT
1 AGGT
377309 TCCATTGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.25
Consensus pattern (18 bp):
AGGTCACATTGAGGGAAT
Found at i:379352 original size:21 final size:19
Alignment explanation
Indices: 379296--379352 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
379286 TAGTCTGTAA
379296 GGTCAGTATCGATACTCAG
1 GGTCAGTATCGATACTCAG
*
379315 GGTACAATATCGATACTCTGAG
1 GGT-CAGTATCGATACTC--AG
*
379337 GGTCAGTATGGATACT
1 GGTCAGTATCGATACT
379353 AAGGTATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
21 11 0.34
22 5 0.16
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (19 bp):
GGTCAGTATCGATACTCAG
Found at i:380109 original size:32 final size:32
Alignment explanation
Indices: 380072--380155 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 32
380062 GATCTTCCCA
380072 TAGTTTCTCTCGAACACTAAAGATCTTTAACT
1 TAGTTTCTCTCGAACACTAAAGATCTTTAACT
* **
380104 TAGTTTCTCTTGAACACTACGGATCTTTAACT
1 TAGTTTCTCTCGAACACTAAAGATCTTTAACT
*
380136 TAGTTTCTCTCAAACACTAA
1 TAGTTTCTCTCGAACACTAA
380156 GTAATATACT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (32 bp):
TAGTTTCTCTCGAACACTAAAGATCTTTAACT
Found at i:393674 original size:20 final size:20
Alignment explanation
Indices: 393649--393687 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
393639 GTTTCCGTAT
*
393649 TTTATATATTTATATTTTAG
1 TTTATATATATATATTTTAG
*
393669 TTTATATATATATGTTTTA
1 TTTATATATATATATTTTA
393688 TGGAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTATATATATATATTTTAG
Found at i:400928 original size:20 final size:20
Alignment explanation
Indices: 400900--401132 Score: 272
Period size: 20 Copynumber: 11.7 Consensus size: 20
400890 TTTACCACAA
* *
400900 ATTTTTAAAGCCTTCGGGTT
1 ATTTGTAAAGCCTTCGGGTC
*
400920 ATTTGTAAAGCCTCCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
** * *
400940 ATTTGTAAAATCTCCGAGTC
1 ATTTGTAAAGCCTTCGGGTC
400960 ATTTGTAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
**
400980 ATTTGTAAATACTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
* *
401000 ATTTGTAAAGTCTTCGGGTT
1 ATTTGTAAAGCCTTCGGGTC
401020 ATTTGTAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
401040 ATTTGTAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
* * *
401060 ATTTATAAA-ACTTCTGGGGC
1 ATTTGTAAAGCCTTC-GGGTC
*
401080 ATTTGTAAAGCC-TCTAGGTC
1 ATTTGTAAAGCCTTC-GGGTC
* * *
401100 ATTTGTAAAGCATACGGGTA
1 ATTTGTAAAGCCTTCGGGTC
401120 ATTTGTAAAGCCT
1 ATTTGTAAAGCCT
401133 CTGTGTAATT
Statistics
Matches: 181, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
19 4 0.02
20 175 0.97
21 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (20 bp):
ATTTGTAAAGCCTTCGGGTC
Found at i:401682 original size:5 final size:5
Alignment explanation
Indices: 401672--401719 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
401662 AGTGACCTAC
* *
401672 ATATA ATATA ATATA ATATA ATATA TTAT- ATAATA ATATT AT-TA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATAT
401720 TATTATTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 4 0.11
5 30 0.83
6 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (5 bp):
ATATA
Found at i:401702 original size:12 final size:12
Alignment explanation
Indices: 401672--401725 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
401662 AGTGACCTAC
*
401672 ATATAATATAAT
1 ATATTATATAAT
401684 ATA--ATATAAT
1 ATATTATATAAT
401694 ATATTATATAAT
1 ATATTATATAAT
401706 AATATTAT-TAAT
1 -ATATTATATAAT
401718 ATTATTAT
1 A-TATTAT
401726 TTACAAGTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.26
11 1 0.03
12 20 0.53
13 7 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTATATAAT
Found at i:402795 original size:2 final size:2
Alignment explanation
Indices: 402772--402814 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
402762 TTTCGTATTT
* *
402772 TA TA TA TT TA TA T- TT TA GTA 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
402814 T
1 T
402815 TATGAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
1 1 0.03
2 33 0.92
3 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (2 bp):
TA
Found at i:410074 original size:29 final size:30
Alignment explanation
Indices: 410028--410087 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
410018 TAAAGTTTGG
*
410028 AAAAGTTTAAAGACCAAAAG-GTAATTTTC
1 AAAAGTTTAAAGAACAAAAGTGTAATTTTC
** *
410057 AAAAGTTTAGGGAACAAAAGTTTAATTTTC
1 AAAAGTTTAAAGAACAAAAGTGTAATTTTC
410087 A
1 A
410088 TTTTTATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.30
Consensus pattern (30 bp):
AAAAGTTTAAAGAACAAAAGTGTAATTTTC
Found at i:411274 original size:20 final size:19
Alignment explanation
Indices: 411249--411294 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
411239 GTCTATGCTA
*
411249 GAAATTAATGTTAGAATGTT
1 GAAATTAATGTTAGAAT-AT
*
411269 GAAATTGATGTTAGAATAT
1 GAAATTAATGTTAGAATAT
411288 GAAATTA
1 GAAATTA
411295 GGTCACTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (19 bp):
GAAATTAATGTTAGAATAT
Found at i:412617 original size:26 final size:26
Alignment explanation
Indices: 412581--412683 Score: 145
Period size: 26 Copynumber: 4.0 Consensus size: 26
412571 AAGTCTTGGT
412581 ATAAATAGCACTTTCGAGTGCGAGTG
1 ATAAATAGCACTTTCGAGTGCGAGTG
*
412607 ATAAATAGCACTTTCGAGTACGAGTG
1 ATAAATAGCACTTTCGAGTGCGAGTG
* *
412633 ATAAATAGAAC-CTCGAGTGCGAGTG
1 ATAAATAGCACTTTCGAGTGCGAGTG
* * *
412658 ATAAATGGCATTTTCGAGTGCAAGTG
1 ATAAATAGCACTTTCGAGTGCGAGTG
412684 GAAAATGGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
25 20 0.30
26 47 0.70
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (26 bp):
ATAAATAGCACTTTCGAGTGCGAGTG
Found at i:415225 original size:44 final size:44
Alignment explanation
Indices: 415175--415265 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
415165 ACCGATATCA
** *
415175 ATACTACTTTACATAGTAGTATGGATACTCCTTGGAT-GGTATTG
1 ATACTACTACACATAGTAGTATCGATACTCCTT-GATAGGTATTG
*
415219 ATACTACTACACATAGTAGTATCGATACTCCTTTATAGGTATTG
1 ATACTACTACACATAGTAGTATCGATACTCCTTGATAGGTATTG
415263 ATA
1 ATA
415266 TTGTTAGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (44 bp):
ATACTACTACACATAGTAGTATCGATACTCCTTGATAGGTATTG
Found at i:416379 original size:103 final size:102
Alignment explanation
Indices: 416159--416380 Score: 234
Period size: 103 Copynumber: 2.2 Consensus size: 102
416149 GATTTTTGGT
*
416159 TTTTGATCAAGAAAAATAGGTTGAGTTAAGATTTTTGGTGTTTGTAAAGATCAAATAACATTTTT
1 TTTTGATCAA-AAAAATAGGTTGAGTTAAGATTTTTGGTGTTTGTAAAGATCAAATAACAATTTT
* * * * * *
416224 GGGGATGAACAAAGGATGAAAAGGCTTAAAGTTTTGGA
65 AGGGATGAACAAAGGATGAAAAGGATGAAACTATAGGA
* ** * * *
416262 TTTTCATTTTAAAAAATAGGTT-AGGTTAAGGTTTTTGGTGTTTGTAATGATTAAATAA-AGATT
1 TTTTGA-TCAAAAAAATAGGTTGA-GTTAAGATTTTTGGTGTTTGTAAAGATCAAATAACA-ATT
* *
416325 TTAGGGATGAACAAAGGATGAACACGGATGAAACTATAGTA
63 TTAGGGATGAACAAAGGATGAA-AAGGATGAAACTATAGGA
*
416366 -TTTGATCGAAAAAAT
1 TTTTGATCAAAAAAAT
416381 TAAAATTTTA
Statistics
Matches: 97, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
102 10 0.10
103 74 0.76
104 13 0.13
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (102 bp):
TTTTGATCAAAAAAATAGGTTGAGTTAAGATTTTTGGTGTTTGTAAAGATCAAATAACAATTTTA
GGGATGAACAAAGGATGAAAAGGATGAAACTATAGGA
Found at i:418332 original size:17 final size:17
Alignment explanation
Indices: 418310--418343 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
418300 TAAAGATAGC
*
418310 ATAAATAACCAAGTCAT
1 ATAAATAACCAAATCAT
*
418327 ATAAATACCCAAATCAT
1 ATAAATAACCAAATCAT
418344 CCAAGTCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.21, G:0.03, T:0.24
Consensus pattern (17 bp):
ATAAATAACCAAATCAT
Found at i:421043 original size:53 final size:53
Alignment explanation
Indices: 420952--421258 Score: 341
Period size: 53 Copynumber: 5.8 Consensus size: 53
420942 TAACGGGTCT
* * ** *** *
420952 GCTCGCTCTTG-TTCAGGGATTAAGGAACTATAACAATCTTCTAAAAATTGGTTC
1 GCTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCTACCTATGGGTTC
* * * * *
421006 GCTCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTTACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTATGGGTTC
* * *
421059 ACTCCCTCTTGCTTCAGAGG-GTAGAACTCAAACAATCTTCTGCCTATGGGTTC
1 GCTCCCTCTTGCTTCAG-GGAGTAGAACTCGAACAATCTTCTACCTATGGGTTC
* * * *
421112 ACTCTC-CTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTACCTACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTATGGGTTC
* * * *
421164 GCTCCGTCTTGCTTCAGGGAGTAAAACTCGAACAATCTTATGCCTATGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTATGGGTTC
*
421217 GCTCCCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTA
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTA
421259 GTGTGATTCT
Statistics
Matches: 215, Mismatches: 34, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
51 2 0.01
52 44 0.20
53 148 0.69
54 12 0.06
55 9 0.04
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (53 bp):
GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTATGGGTTC
Found at i:421139 original size:105 final size:106
Alignment explanation
Indices: 421001--421258 Score: 367
Period size: 105 Copynumber: 2.4 Consensus size: 106
420991 TCTAAAAATT
* * * * *
421001 GGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTTACGGGTTCACTCCCT
1 GGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTACGGGTTCACTCCCT
* *
421066 CTTGCTTCAGAGG-GTAGAACTCAAACAATCTTCTGCCTATG
66 CTTGCTTCAG-GGAGTAAAACTCAAACAATCTTATGCCTATG
* * * *
421107 GGTTCACTCTC-CTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTACCTACGGGTTCGCTCCGT
1 GGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTACGGGTTCACTCCCT
*
421171 CTTGCTTCAGGGAGTAAAACTCGAACAATCTTATGCCTATG
66 CTTGCTTCAGGGAGTAAAACTCAAACAATCTTATGCCTATG
* *
421212 GGTTCGCTCCCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTA
1 GGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTA
421259 GTGTGATTCT
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
104 2 0.01
105 90 0.67
106 42 0.31
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (106 bp):
GGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTACGGGTTCACTCCCT
CTTGCTTCAGGGAGTAAAACTCAAACAATCTTATGCCTATG
Found at i:421570 original size:42 final size:41
Alignment explanation
Indices: 421480--421594 Score: 131
Period size: 42 Copynumber: 2.8 Consensus size: 41
421470 CCCGAAGAAC
* * ** * **
421480 TTATCATCTTGCTCGAAAGACGTACAAATGTCCCGAACGAT
1 TTATCATCATGCTCGAAAGACTTACTGATGGCCAAAACGAT
*
421521 TTAATCATCATGCTCGAAAGACTTACTGATGGCCAAAATGACT
1 TT-ATCATCATGCTCGAAAGACTTACTGATGGCCAAAACGA-T
*
421564 TTATCATCATGCTAGAAAGACTTACTGATGG
1 TTATCATCATGCTCGAAAGACTTACTGATGG
421595 GTTTGCTTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 58 0.92
43 3 0.05
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (41 bp):
TTATCATCATGCTCGAAAGACTTACTGATGGCCAAAACGAT
Found at i:421659 original size:22 final size:21
Alignment explanation
Indices: 421633--421709 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
421623 TTACAAATTT
*
421633 CTCGAAGGATTTAATCATCATG
1 CTCGAAGGACTT-ATCATCATG
* *
421655 CTCGAAAGACTTA-C-TGATGG
1 CTCGAAGGACTTATCATCAT-G
*
421675 CCCGAAGGACTTCATCATCATG
1 CTCGAAGGACTT-ATCATCATG
*
421697 CTCGAAAGACTTA
1 CTCGAAGGACTTA
421710 CTGATGGCAG
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
19 3 0.07
20 12 0.28
21 3 0.07
22 22 0.51
23 3 0.07
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (21 bp):
CTCGAAGGACTTATCATCATG
Done.