Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009580.1 Hibiscus syriacus cultivar Beakdansim tig00116954_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: 1633873
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 6
Found at i:155672 original size:52 final size:52
Alignment explanation
Indices: 155594--155696 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
155584 TAGGGTGGAT
155594 ACGTGTCTACTGTAAAATATGAATTTTATTCGATTAATTATTCATTTTATTG
1 ACGTGTCTACTGTAAAATATGAATTTTATTCGATTAATTATTCATTTTATTG
* * *
155646 ACGTGTCTATCT-TAAAATCT-AGATTTTATTTGATTAATTATTTATTTTATT
1 ACGTGTCTA-CTGTAAAATATGA-ATTTTATTCGATTAATTATTCATTTTATT
155697 AATGGTGCGT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
51 1 0.02
52 43 0.93
53 2 0.04
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (52 bp):
ACGTGTCTACTGTAAAATATGAATTTTATTCGATTAATTATTCATTTTATTG
Found at i:163274 original size:2 final size:2
Alignment explanation
Indices: 163263--163294 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
163253 TTACTATCCC
163263 TA TA -A TA TA TA TA TA TA T- 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
163295 CTCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:163284 original size:13 final size:13
Alignment explanation
Indices: 163263--163293 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
163253 TTACTATCCC
*
163263 TATAATATATATA
1 TATATTATATATA
163276 TATATTATATATA
1 TATATTATATATA
163289 TATAT
1 TATAT
163294 ACTCTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATTATATATA
Found at i:166573 original size:21 final size:22
Alignment explanation
Indices: 166534--166574 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
166524 AGAGAAATCT
166534 AGAGAGAATGGAGAACTTCTAG
1 AGAGAGAATGGAGAACTTCTAG
*
166556 AGAGAGAAT-GAGAGCTTCT
1 AGAGAGAATGGAGAACTTCT
166575 CTCTCTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.39, C:0.10, G:0.32, T:0.20
Consensus pattern (22 bp):
AGAGAGAATGGAGAACTTCTAG
Found at i:168421 original size:18 final size:18
Alignment explanation
Indices: 168395--168430 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
168385 TACTATGCTG
* *
168395 CACCTCCTCCTCCTCCAC
1 CACCACCTCCTCCACCAC
168413 CACCACCTCCTCCACCAC
1 CACCACCTCCTCCACCAC
168431 ATCACAACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.67, G:0.00, T:0.17
Consensus pattern (18 bp):
CACCACCTCCTCCACCAC
Found at i:170571 original size:19 final size:19
Alignment explanation
Indices: 170547--170613 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
170537 TTTTTTAACT
170547 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
*
170566 ATCGCAACGAATTTGAAAA
1 ATCGCAACGAATTTGGAAA
* **
170585 ATCGCAACGCAATTTAGACT
1 ATCGCAACG-AATTTGGAAA
170605 ATCGCAACG
1 ATCGCAACG
170614 CGAAATGGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 27 0.64
20 15 0.36
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:172961 original size:95 final size:96
Alignment explanation
Indices: 172857--173040 Score: 361
Period size: 96 Copynumber: 1.9 Consensus size: 96
172847 CTTATTGAGT
172857 AAAAAGAGAAAATAAAAGACCATAACTAATATT-AAATTAGTGCTGCCGTCGATTAATAAAGATG
1 AAAAAGAGAAAATAAAAGACCATAACTAATATTAAAATTAGTGCTGCCGTCGATTAATAAAGATG
172921 AAAATAAAAAGAGAATGATTTAGCTGAGTAA
66 AAAATAAAAAGAGAATGATTTAGCTGAGTAA
172952 AAAAAGAGAAAATAAAAGACCATAACTAATATTAAAATTAGTGCTGCCGTCGATTAATAAAGATG
1 AAAAAGAGAAAATAAAAGACCATAACTAATATTAAAATTAGTGCTGCCGTCGATTAATAAAGATG
173017 AAAATAAAAAGAGAATGATTTAGC
66 AAAATAAAAAGAGAATGATTTAGC
173041 GATGAGAGAA
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 33 0.38
96 55 0.62
ACGTcount: A:0.52, C:0.09, G:0.16, T:0.23
Consensus pattern (96 bp):
AAAAAGAGAAAATAAAAGACCATAACTAATATTAAAATTAGTGCTGCCGTCGATTAATAAAGATG
AAAATAAAAAGAGAATGATTTAGCTGAGTAA
Found at i:176335 original size:85 final size:86
Alignment explanation
Indices: 176238--176398 Score: 270
Period size: 85 Copynumber: 1.9 Consensus size: 86
176228 ATTATTGTGT
** *
176238 AATGTTTGTTTATTAAATTAAATAAATGAGTATATAAGAATTTTTATTTTCATTTAATGAATAAA
1 AATGTTTGTTTATTAAATTAAATAAATGAGTATATAAGAATTTTTATACTCATTTAATAAATAAA
176303 -GAATAAGAATAGCACGAATA
66 CGAATAAGAATAGCACGAATA
*
176323 AATGTTTGTTTATTAAATTAAATAAATGAGTATATAAGAGTTTTTATACTCATTTAATAAATAAA
1 AATGTTTGTTTATTAAATTAAATAAATGAGTATATAAGAATTTTTATACTCATTTAATAAATAAA
*
176388 CGAATACGAAT
66 CGAATAAGAAT
176399 TCAAATATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 61 0.87
86 9 0.13
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.39
Consensus pattern (86 bp):
AATGTTTGTTTATTAAATTAAATAAATGAGTATATAAGAATTTTTATACTCATTTAATAAATAAA
CGAATAAGAATAGCACGAATA
Found at i:176675 original size:23 final size:22
Alignment explanation
Indices: 176639--176689 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
176629 ATAATAGTCT
176639 AACAT-TAAACAATATTAAATC
1 AACATATAAACAATATTAAATC
* *
176660 AACATATAAACAAATATTAATTG
1 AACATATAAAC-AATATTAAATC
176683 AACATAT
1 AACATAT
176690 TCACATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 5 0.19
22 5 0.19
23 16 0.62
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (22 bp):
AACATATAAACAATATTAAATC
Found at i:177665 original size:24 final size:24
Alignment explanation
Indices: 177636--177682 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
177626 CGTCGAGGGT
177636 TCCAAAGAAGAGAGTAGGTATGGG
1 TCCAAAGAAGAGAGTAGGTATGGG
177660 TCCAAAGAAGAGAGTAGGTATGG
1 TCCAAAGAAGAGAGTAGGTATGG
177683 AAATCTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.36, T:0.17
Consensus pattern (24 bp):
TCCAAAGAAGAGAGTAGGTATGGG
Found at i:180263 original size:22 final size:21
Alignment explanation
Indices: 180215--180267 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
180205 ATAAACATTT
*
180215 AATTTAT-TTTTTTAATTAAA
1 AATTTATATTTTTTAAATAAA
*
180235 AAGTTATATTTTTTAAATAATA
1 AATTTATATTTTTTAAATAA-A
*
180257 TATTTATATTT
1 AATTTATATTT
180268 AACATTTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 6 0.22
21 11 0.41
22 10 0.37
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
AATTTATATTTTTTAAATAAA
Found at i:180290 original size:17 final size:18
Alignment explanation
Indices: 180268--180306 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
180258 ATTTATATTT
180268 AACATTTAG-TTACAATA
1 AACATTTAGTTTACAATA
*
180285 AACATTTAGTTTCCAATA
1 AACATTTAGTTTACAATA
180303 AACA
1 AACA
180307 ATTCCGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (18 bp):
AACATTTAGTTTACAATA
Found at i:181023 original size:14 final size:13
Alignment explanation
Indices: 180998--181022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
180988 TACTAGATAA
180998 AGATAAAAAAAAT
1 AGATAAAAAAAAT
181011 AGATAAAAAAAA
1 AGATAAAAAAAA
181023 AGGAAATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AGATAAAAAAAAT
Found at i:186391 original size:80 final size:80
Alignment explanation
Indices: 186258--186417 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
186248 ATTGACTAAT
186258 AGTTACCTCAAATCCTCCACAACAAAAGAATTTATCGCAAATAATGAACAAACAGTAGTAAACAG
1 AGTTACCTCAAATCCTCCACAACAAAAGAATTTATCGCAAATAATGAACAAACAGTAGTAAACAG
186323 AACTTACAACTCTAC
66 AACTTACAACTCTAC
186338 AGTTACCTCAAATCCTCCACAACAAAAGAATTTATCGCAAATAATGAACAAACAGTAGTAAACAG
1 AGTTACCTCAAATCCTCCACAACAAAAGAATTTATCGCAAATAATGAACAAACAGTAGTAAACAG
186403 AACTTACAACTCTAC
66 AACTTACAACTCTAC
186418 GAAGAATGGG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.46, C:0.24, G:0.09, T:0.21
Consensus pattern (80 bp):
AGTTACCTCAAATCCTCCACAACAAAAGAATTTATCGCAAATAATGAACAAACAGTAGTAAACAG
AACTTACAACTCTAC
Found at i:188226 original size:77 final size:77
Alignment explanation
Indices: 188099--188252 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
188089 TTCATTTAAA
188099 ATTAAAATCGATTTGATTCAGTCCAATTTAATTTGAATTTAAATGATAAGATTTGAACCTATATT
1 ATTAAAATCGATTTGATTCAGTCCAATTTAATTTGAATTTAAATGATAAGATTTGAACCTATATT
188164 AAATGTCATATC
66 AAATGTCATATC
188176 ATTAAAATCGATTTGATTCAGTCCAATTTAATTTGAATTTAAATGATAAGATTTGAACCTATATT
1 ATTAAAATCGATTTGATTCAGTCCAATTTAATTTGAATTTAAATGATAAGATTTGAACCTATATT
188241 AAATGTCATATC
66 AAATGTCATATC
188253 TCAAACCAAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (77 bp):
ATTAAAATCGATTTGATTCAGTCCAATTTAATTTGAATTTAAATGATAAGATTTGAACCTATATT
AAATGTCATATC
Found at i:190305 original size:21 final size:20
Alignment explanation
Indices: 190281--190321 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
190271 CCACACCAGA
190281 CTAACGAAACCTCTTCTCATT
1 CTAACGAAA-CTCTTCTCATT
* *
190302 CTAACGTAATTCTTCTCATT
1 CTAACGAAACTCTTCTCATT
190322 AGTCTGCCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.27, C:0.29, G:0.05, T:0.39
Consensus pattern (20 bp):
CTAACGAAACTCTTCTCATT
Found at i:194286 original size:15 final size:16
Alignment explanation
Indices: 194266--194298 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
194256 GTTATAGGAA
194266 GACTTTCC-GTCAAAG
1 GACTTTCCGGTCAAAG
194281 GACTTTCCGGTCAAAG
1 GACTTTCCGGTCAAAG
194297 GA
1 GA
194299 GAACATGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (16 bp):
GACTTTCCGGTCAAAG
Found at i:203018 original size:21 final size:23
Alignment explanation
Indices: 202992--203043 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
202982 AGGGAATCGA
202992 TCCCCCCATG-A-GGGAACTGAT
1 TCCCCCCATGAAGGGGAACTGAT
**
203013 TCCCCCTTTGAAGGGGAACTGAT
1 TCCCCCCATGAAGGGGAACTGAT
203036 TCCCCCCA
1 TCCCCCCA
203044 CAGGGGAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 16 0.64
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (23 bp):
TCCCCCCATGAAGGGGAACTGAT
Found at i:203061 original size:21 final size:21
Alignment explanation
Indices: 203024--203063 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
203014 CCCCCTTTGA
*
203024 AGGGGAACTGATTCCCCCCAC
1 AGGGGAACTGATACCCCCCAC
203045 AGGGGAA-TCGATACCCCCC
1 AGGGGAACT-GATACCCCCC
203064 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACTGATACCCCCCAC
Found at i:205317 original size:19 final size:19
Alignment explanation
Indices: 205293--205332 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
205283 GTGTTTTAAG
205293 TGTGTTTTAAAATGATAAA
1 TGTGTTTTAAAATGATAAA
205312 TGTGTTTTAAAATGATAAA
1 TGTGTTTTAAAATGATAAA
205331 TG
1 TG
205333 GGAGAAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (19 bp):
TGTGTTTTAAAATGATAAA
Found at i:206631 original size:32 final size:32
Alignment explanation
Indices: 206590--206659 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
206580 TATGTTCATG
*
206590 TTAATTATGGGACTGATACATCGTGAATGATT
1 TTAATTATGGGACTGATACATCGTGAACGATT
206622 TTAATTATGGGACTGATACATCGTGAACGATT
1 TTAATTATGGGACTGATACATCGTGAACGATT
*
206654 TGAATT
1 TTAATT
206660 TTTTTACATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (32 bp):
TTAATTATGGGACTGATACATCGTGAACGATT
Found at i:213224 original size:37 final size:37
Alignment explanation
Indices: 213148--213224 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
213138 TTTTTATATT
*
213148 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
213185 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
213222 TTT
1 TTT
213225 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:213406 original size:20 final size:20
Alignment explanation
Indices: 213370--213407 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
213360 ATCCTATTCC
**
213370 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
213390 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
213408 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:216890 original size:64 final size:64
Alignment explanation
Indices: 216822--217051 Score: 200
Period size: 65 Copynumber: 3.6 Consensus size: 64
216812 TTGGAACACT
* *** *
216822 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAT-GCA
** ** * *
216886 TGATGCATCGATGCATGGCTTGTGCATCGATATATCAAATGCATTCGATGTTTTGAAAATATTCA
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATATGCA
* * * *
216951 T-AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAAT-T-
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATATG
217012 CA
63 CA
* * *
217014 TCGATGCATCGATGCATAGACTGATGCATCGGTGCATG
1 T-GATGCATCGATGCATGGAGTG-TGCATCGATGCATG
217052 CCTTTGAATA
Statistics
Matches: 135, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
63 7 0.05
64 59 0.44
65 67 0.50
66 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (64 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATATGCA
Found at i:216976 original size:19 final size:18
Alignment explanation
Indices: 216952--217000 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
216942 AAATATTCAT
216952 AGTGCATCGATGCATGGA
1 AGTGCATCGATGCATGGA
*
216970 GAGTGCATCGGTGCATGGA
1 -AGTGCATCGATGCATGGA
216989 A-TGCATTCGATG
1 AGTGCA-TCGATG
217001 TTCAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 17 0.63
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.24
Consensus pattern (18 bp):
AGTGCATCGATGCATGGA
Found at i:223473 original size:22 final size:21
Alignment explanation
Indices: 223431--223470 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
223421 TGAGTTGTTT
*
223431 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
223452 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
223471 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:225072 original size:64 final size:65
Alignment explanation
Indices: 225004--225129 Score: 182
Period size: 64 Copynumber: 2.0 Consensus size: 65
224994 TTGGAATACT
* *
225004 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCC
1 TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAATAGCC
*****
225068 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAATA
1 TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAATA
225130 TTCATAGTGC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
64 43 0.80
65 11 0.20
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (65 bp):
TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAATAGCC
Found at i:225159 original size:19 final size:19
Alignment explanation
Indices: 225135--225171 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
225125 AAATATTCAT
225135 AGTGCATCGATGCATGGAG
1 AGTGCATCGATGCATGGAG
*
225154 AGTGCATCGGTGCATGGA
1 AGTGCATCGATGCATGGA
225172 ATGTATTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (19 bp):
AGTGCATCGATGCATGGAG
Found at i:225168 original size:66 final size:65
Alignment explanation
Indices: 225025--225185 Score: 209
Period size: 66 Copynumber: 2.5 Consensus size: 65
225015 TGCACCAAGT
* ***
225025 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCATGATGCATCGATGCATGGAGA
* *
225089 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAATATTCAT-AGTGCATCGATGCATGGA
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATA-GCATGA-TGCATCGATGCATGGA
225153 GA
64 GA
* * *
225155 GTGCATCGGTGCATGGAATGTATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
225186 CAATTAATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
64 28 0.33
65 12 0.14
66 44 0.52
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCATGATGCATCGATGCATGGAGA
Found at i:230745 original size:14 final size:14
Alignment explanation
Indices: 230716--230785 Score: 85
Period size: 14 Copynumber: 5.1 Consensus size: 14
230706 CGTTCGTGAA
230716 CGTTCGATTATATGTT
1 CGTTC-ATT-TATGTT
230732 CGTTCATTTA---T
1 CGTTCATTTATGTT
230743 -GTTCATTTATGTT
1 CGTTCATTTATGTT
230756 CGTTCATTTATGTT
1 CGTTCATTTATGTT
*
230770 CGTTTATTTATGTT
1 CGTTCATTTATGTT
230784 CG
1 CG
230786 AACATAGGAC
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
10 9 0.18
11 1 0.02
13 1 0.02
14 30 0.61
15 3 0.06
16 5 0.10
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.56
Consensus pattern (14 bp):
CGTTCATTTATGTT
Found at i:230784 original size:24 final size:24
Alignment explanation
Indices: 230717--230776 Score: 93
Period size: 24 Copynumber: 2.4 Consensus size: 24
230707 GTTCGTGAAC
230717 GTTCGATTATATGTTCGTTCATTTAT
1 GTTC-ATT-TATGTTCGTTCATTTAT
230743 GTTCATTTATGTTCGTTCATTTAT
1 GTTCATTTATGTTCGTTCATTTAT
*
230767 GTTCGTTTAT
1 GTTCATTTAT
230777 TTATGTTCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 26 0.79
25 3 0.09
26 4 0.12
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.57
Consensus pattern (24 bp):
GTTCATTTATGTTCGTTCATTTAT
Found at i:231085 original size:24 final size:24
Alignment explanation
Indices: 231041--231100 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
231031 TTTTTTTTGT
*
231041 GTTTATGTT-GTTCGTTTGTGTTC
1 GTTTATGTTCGTTCGTTCGTGTTC
231064 GTTTATGTTCGTTCGTTCGTGTTC
1 GTTTATGTTCGTTCGTTCGTGTTC
231088 GTTTATGTTCGTT
1 GTTTATGTTCGTT
231101 TATTTATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 9 0.26
24 26 0.74
ACGTcount: A:0.05, C:0.12, G:0.25, T:0.58
Consensus pattern (24 bp):
GTTTATGTTCGTTCGTTCGTGTTC
Found at i:231102 original size:10 final size:10
Alignment explanation
Indices: 231049--231103 Score: 56
Period size: 10 Copynumber: 5.1 Consensus size: 10
231039 GTGTTTATGT
*
231049 TGTTCGTTTG
1 TGTTCGTTTA
231059 TGTTCGTTTA
1 TGTTCGTTTA
*
231069 TGTTCGTTCGTTCG
1 TGTTCG-T--TT-A
231083 TGTTCGTTTA
1 TGTTCGTTTA
231093 TGTTCGTTTA
1 TGTTCGTTTA
231103 T
1 T
231104 TTATTAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 26 0.68
11 3 0.08
13 3 0.08
14 6 0.16
ACGTcount: A:0.05, C:0.13, G:0.24, T:0.58
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:231190 original size:16 final size:16
Alignment explanation
Indices: 231169--231201 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
231159 AAGAAAATTT
231169 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
231185 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
231201 T
1 T
231202 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:243963 original size:20 final size:20
Alignment explanation
Indices: 243938--243995 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
243928 GCAAATCTTA
243938 CCTGAGTCAATAATCGTCCG
1 CCTGAGTCAATAATCGTCCG
243958 CCTGAGTCAATAATCGTCCG
1 CCTGAGTCAATAATCGTCCG
243978 CCTGAGTCAATAATCGTC
1 CCTGAGTCAATAATCGTC
243996 GGTGAGAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (20 bp):
CCTGAGTCAATAATCGTCCG
Found at i:250337 original size:23 final size:23
Alignment explanation
Indices: 250308--250352 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
250298 GGAAATTTTA
250308 GAAATGAAGTGGGAAATTGATTT
1 GAAATGAAGTGGGAAATTGATTT
250331 GAAATGAAGTGGGAAATTGATT
1 GAAATGAAGTGGGAAATTGATT
250353 GAAGTTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (23 bp):
GAAATGAAGTGGGAAATTGATTT
Found at i:250591 original size:9 final size:9
Alignment explanation
Indices: 250577--250604 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
250567 TAATATAGAA
250577 AGAAATTTT
1 AGAAATTTT
250586 AGAAATTTT
1 AGAAATTTT
250595 AGAAATTTT
1 AGAAATTTT
250604 A
1 A
250605 TGCTAATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (9 bp):
AGAAATTTT
Found at i:252277 original size:2 final size:2
Alignment explanation
Indices: 252270--252308 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
252260 ATTATTAAAT
252270 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
252309 TTCAAACTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:254251 original size:65 final size:63
Alignment explanation
Indices: 254182--254341 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 63
254172 AATTAAATTG
* *
254182 AACATCGAATGCATTTCATGCATCGATGCACATACAATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACAATGCACCGATGCACTCAGGATATTT-TG-
254246 A
63 A
* * * * *
254247 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACAATGCACCGATGCACTCAGGATATTTTGA
*
254311 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
254342 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 1 0.01
64 30 0.35
65 49 0.58
66 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACAATGCACCGATGCACTCAGGATATTTTGA
Found at i:254341 original size:17 final size:19
Alignment explanation
Indices: 254313--254361 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
254303 TATTTTGAAA
254313 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
254331 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
254350 CACCGATGCACT
1 CATCGATGCACT
254362 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:260099 original size:23 final size:23
Alignment explanation
Indices: 260051--260134 Score: 134
Period size: 23 Copynumber: 3.6 Consensus size: 23
260041 ACACTTAACA
*
260051 GTGCATTGATGCATC-CCTTTGAAT
1 GTGCATCGATGCA-CGCC-TTGAAT
260075 GTGCATCGATGCACGCCTTGAAT
1 GTGCATCGATGCACGCCTTGAAT
260098 GTGCATCGATGCACGCCTTGAAT
1 GTGCATCGATGCACGCCTTGAAT
260121 GTGCATCGATGCAC
1 GTGCATCGATGCAC
260135 ATGGTCATGC
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
23 44 0.76
24 14 0.24
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (23 bp):
GTGCATCGATGCACGCCTTGAAT
Found at i:261705 original size:21 final size:21
Alignment explanation
Indices: 261663--261705 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
261653 ACTCCGGGAG
* *
261663 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
261684 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
261705 C
1 C
261706 ACCTCCAGCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.09, C:0.44, G:0.16, T:0.30
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:262873 original size:46 final size:45
Alignment explanation
Indices: 262817--262923 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
262807 TGCACATACC
* * *
262817 ATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCACTTG
* *
262863 ATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTG
1 ATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTG
262908 ATGCATCGATGCACTC
1 ATGCATCGATGCACTC
262924 TTAGTGCACC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 33 0.60
46 19 0.35
47 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (45 bp):
ATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTG
Found at i:262921 original size:17 final size:19
Alignment explanation
Indices: 262893--262941 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
262883 TATTTTGAAA
262893 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
262911 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
262930 CACCGATGCACT
1 CATCGATGCACT
262942 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:270220 original size:48 final size:48
Alignment explanation
Indices: 270146--270313 Score: 264
Period size: 48 Copynumber: 3.5 Consensus size: 48
270136 GCCAGTACAC
*
270146 TCTCCCAAGCATCATGGTCCTATTTCAGGGCCAGCATTGGCTCCTAAA
1 TCTCCCAAGCATCATGGTCCTGTTTCAGGGCCAGCATTGGCTCCTAAA
*
270194 TCTCCCAAGCATCATGGTCCTGTTTCAGGGCCAGTATTGGCTCCTAAA
1 TCTCCCAAGCATCATGGTCCTGTTTCAGGGCCAGCATTGGCTCCTAAA
* * * *
270242 TCTCCCAAGCGTCATGGTCCTGTTCCAGGGCCAGCCTTGGCTCCTACA
1 TCTCCCAAGCATCATGGTCCTGTTTCAGGGCCAGCATTGGCTCCTAAA
* *
270290 TCTCCCAAACATCACGGTCCTGTT
1 TCTCCCAAGCATCATGGTCCTGTT
270314 GTAGCGCCGG
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 110 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (48 bp):
TCTCCCAAGCATCATGGTCCTGTTTCAGGGCCAGCATTGGCTCCTAAA
Found at i:270601 original size:207 final size:207
Alignment explanation
Indices: 270245--270705 Score: 654
Period size: 207 Copynumber: 2.2 Consensus size: 207
270235 TCCTAAATCT
* * *
270245 CCCAAGCGTCATGGTCCTGTTCCAGGGCCAGCCTTGGCTCCTACATCTCCCAAACATCACGGTCC
1 CCCAAGCATCATGGTCCGGTTTCAGGGCCAGCCTTGGCTCCTACATCTCCCAAACATCACGGTCC
* * * ** * * *
270310 TGTTGTAGCGCCGGCTTTGAGGCCAACACAGTCTCCATATCATCATGGTCCGACTTCTAGTCCAG
66 TATTGTAGCGCCGGCTTCGAGGCCAACACAGTCTCCATATCAACACAGTCCAAATGCTAGTCCAG
*
270375 GCTTGTCCCCTAGATCTACAGCACCTATAACTAAACCTCCTAAAGAATCAAGACCATCACCTTGG
131 GCTTGTCCCCTACATCTACAGCACCTATAACTAAACCTCCTAAAGAATCAAGACCATCACCTTGG
270440 CCAGCACACTCC
196 CCAGCACACTCC
* *
270452 CCCAAGCATCATGGTCCGGTTTCAGGGCCGGCCTTGGCTCCTACATCTCCCAAGCATCACGGTCC
1 CCCAAGCATCATGGTCCGGTTTCAGGGCCAGCCTTGGCTCCTACATCTCCCAAACATCACGGTCC
** * *
270517 TATTGTAGCGCCTTCTTCGGGGCCAACAC-GCTCTCCGTATCAACACAGTCCAAATGCTAGTCCA
66 TATTGTAGCGCCGGCTTCGAGGCCAACACAG-TCTCCATATCAACACAGTCCAAATGCTAGTCCA
* * ** * * *
270581 GGCTTGTCTCCTACATCTACAGCACCTGTGGCTGAACCTCCTAAAGAATCAAGACCGTCTCCTTG
130 GGCTTGTCCCCTACATCTACAGCACCTATAACTAAACCTCCTAAAGAATCAAGACCATCACCTTG
*
270646 GCCAGCACACTCT
195 GCCAGCACACTCC
**
270659 CCCAAGCATCATGGTCCGGTTTCAGTCCCAGCCTTGGCTCCTACATC
1 CCCAAGCATCATGGTCCGGTTTCAGGGCCAGCCTTGGCTCCTACATC
270706 ACCAACACCC
Statistics
Matches: 224, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
206 1 0.00
207 223 1.00
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.24
Consensus pattern (207 bp):
CCCAAGCATCATGGTCCGGTTTCAGGGCCAGCCTTGGCTCCTACATCTCCCAAACATCACGGTCC
TATTGTAGCGCCGGCTTCGAGGCCAACACAGTCTCCATATCAACACAGTCCAAATGCTAGTCCAG
GCTTGTCCCCTACATCTACAGCACCTATAACTAAACCTCCTAAAGAATCAAGACCATCACCTTGG
CCAGCACACTCC
Found at i:280661 original size:36 final size:36
Alignment explanation
Indices: 280612--280692 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
280602 AATTGAATAT
* * *
280612 TTAAATTAAAATAAGAGTTTATAATTATTATCGTAAA
1 TTAAA-TAAAATAAAAGTTTACAATTATCATCGTAAA
*
280649 TTAAATACAATAAAAGTTTACAATTATCATCGTAAA
1 TTAAATAAAATAAAAGTTTACAATTATCATCGTAAA
*
280685 CTAAATAA
1 TTAAATAA
280693 TTTTTTCAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
36 33 0.87
37 5 0.13
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (36 bp):
TTAAATAAAATAAAAGTTTACAATTATCATCGTAAA
Found at i:282567 original size:35 final size:35
Alignment explanation
Indices: 282521--282594 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
282511 GAAATTCCTG
282521 AAATCATATATGTATATGTTATTAATAATTAAAAC
1 AAATCATATATGTATATGTTATTAATAATTAAAAC
282556 AAATCATATATGTATATGTTATTAATAATTAAAAC
1 AAATCATATATGTATATGTTATTAATAATTAAAAC
282591 AAAT
1 AAAT
282595 TGTTAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (35 bp):
AAATCATATATGTATATGTTATTAATAATTAAAAC
Found at i:289994 original size:384 final size:375
Alignment explanation
Indices: 289291--290050 Score: 1382
Period size: 384 Copynumber: 2.0 Consensus size: 375
289281 TAGACCCCAT
289291 TTTTTTGAAAATTTTAAATCAACCCTTCAAATTTATAAAAAGCATTTAAGCCTCCAAAAATTTTA
1 TTTTTTGAAAATTTTAAATCAACCCTTCAAATTTATAAAAAGCATTTAAGCCTCCAAAAATTTTA
289356 ATAGCCCCAAGTTCTGTTACGCTACCTTTTATTAAAAAATCAAGTGATTTGGTACATGCATGCAA
66 ATAGCCCCAAGTTCTGTTACGCTACCTTTTATTAAAAAATCAAGTGATTTGGTACATGCATGCAA
289421 TATGCCAACAGGCTAATTTCCAGAGGCCAACATCAGACCTTGGAAGTAACCCTAATCGGAGCATT
131 TATGCCAACAGGCTAATTTCCAGAGGCCAACATCAGACCTTGGAAGTAACCCTAATCGGAGCATT
289486 GAGGTACAAGGTAGACAACAACGTTGACACGTAATGGTGGCGTTGTACGAGAGCGGATTGGTGAA
196 GAGGTACAAGGTAGACAACAACGTTGACACGTAATGGTGGCGTTGTACGAGAGCGGATTGGTGAA
289551 CGAGTGTCTTTCTGGCGAGAACAAAGGGAAAGTGCTTTACAATGACTTCGTCGTACGGAAACTTG
261 CGAGTGTCTTTCTGGCGAGAACAAAGGGAAAGTGCTTTACAATGACTTCGTCGTACGGAAACTTG
289616 AAAAGCTTTGCACATCGACGACATATCGGCGAAGAAGACACTCTCGGTCACGG
326 -AAAGCTTTGCACATCGACGAC--ATCGGCGAAGAAGACACTCTCGGTCACGG
289669 TTTTTTGAAAATTTTAAATCAACCCTTCAAATTTATAAAAAAGCATTTAAGCCTCC-AAAATTTT
1 TTTTTTGAAAATTTTAAATCAACCCTTCAAATTTAT-AAAAAGCATTTAAGCCTCCAAAAATTTT
289733 AAATAGCCCCCAAGTTCTGTTACGCTACCTTTTATGTTAAGAAAATCAAGTGATTTGGTACATGC
65 -AATAG-CCCCAAGTTCTGTTACGCTACCTTTTA--TTAA-AAAATCAAGTGATTTGGTACATGC
289798 ATGCAATATGCCAACAGGCTAATTTCCAGAGGCCAACATCAGAGACCTTGGAAGTAA-CCTAATC
125 ATGCAATATGCCAACAGGCTAATTTCCAGAGGCCAACATC--AGACCTTGGAAGTAACCCTAATC
289862 GGAGCATTGAGGTACAAGGTAGACAA-AACGTTGACAACGTAATGGTGGCGTTGTACGAGAGCGG
188 GGAGCATTGAGGTACAAGGTAGACAACAACGTTGAC-ACGTAATGGTGGCGTTGTACGAGAGCGG
289926 ATTGGTGAACGAGTGTCTTTCTGGCGAGAACAAAGGGAAAGTGCTTTACAATGACTTCGTCGTAC
252 ATTGGTGAACGAGTGTCTTTCTGGCGAGAACAAAGGGAAAGTGCTTTACAATGACTTCGTCGTAC
*
289991 GGAAACTTGAAAGCTTTGCCCATCGACGACATCGGCGAAGAAGACACTCTCGGTCACGG
317 GGAAACTTGAAAGCTTTGCACATCGACGACATCGGCGAAGAAGACACTCTCGGTCACGG
290050 T
1 T
290051 CACTTTCACT
Statistics
Matches: 372, Mismatches: 1, Indels: 15
0.96 0.00 0.04
Matches are distributed among these distances:
378 44 0.12
379 24 0.06
380 27 0.07
381 30 0.08
382 4 0.01
383 93 0.25
384 135 0.36
385 15 0.04
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (375 bp):
TTTTTTGAAAATTTTAAATCAACCCTTCAAATTTATAAAAAGCATTTAAGCCTCCAAAAATTTTA
ATAGCCCCAAGTTCTGTTACGCTACCTTTTATTAAAAAATCAAGTGATTTGGTACATGCATGCAA
TATGCCAACAGGCTAATTTCCAGAGGCCAACATCAGACCTTGGAAGTAACCCTAATCGGAGCATT
GAGGTACAAGGTAGACAACAACGTTGACACGTAATGGTGGCGTTGTACGAGAGCGGATTGGTGAA
CGAGTGTCTTTCTGGCGAGAACAAAGGGAAAGTGCTTTACAATGACTTCGTCGTACGGAAACTTG
AAAGCTTTGCACATCGACGACATCGGCGAAGAAGACACTCTCGGTCACGG
Found at i:291937 original size:2 final size:2
Alignment explanation
Indices: 291930--291957 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
291920 ATTTAATTAA
291930 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
291958 CAATCGTTAC
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:292203 original size:2 final size:2
Alignment explanation
Indices: 292196--292220 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
292186 TCTCTTTTTA
292196 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
292221 GCTTTGTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:293570 original size:34 final size:37
Alignment explanation
Indices: 293526--293627 Score: 149
Period size: 34 Copynumber: 2.8 Consensus size: 37
293516 TTTCGTCCTA
*
293526 CTAGGATTCAAACTCCTAAAAATATGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
293561 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
*
293596 GCTAGGATTCAAACTTCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
293628 GTTCTACTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
33 1 0.02
34 28 0.47
35 3 0.05
37 27 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:293616 original size:37 final size:35
Alignment explanation
Indices: 293526--293661 Score: 150
Period size: 37 Copynumber: 3.8 Consensus size: 35
293516 TTTCGTCCTA
*
293526 CTAGGATTCAAACTCCTAAAAATATGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
293561 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
* *
293596 GCTAGGATTCAAACTTCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
293633 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
293662 CCACAAGCAC
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
33 1 0.01
34 28 0.33
35 3 0.03
36 2 0.02
37 51 0.59
38 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:297475 original size:23 final size:23
Alignment explanation
Indices: 297423--297519 Score: 72
Period size: 23 Copynumber: 4.1 Consensus size: 23
297413 TCCAATCAAG
* * *
297423 AAGAAAAAAGAAAAGA-AGCAAAA
1 AAGAACAAAGAAAAAAGAG-AAAC
*
297446 AAAAACAAAGAAAAAAGAGAAAC
1 AAGAACAAAGAAAAAAGAGAAAC
*
297469 AAGAACAAAAGGAAAAAAGGAAAAAAC
1 AAGAAC-AAA-GAAAAAA-G-AGAAAC
* *
297496 AAGAATAAA-AAAAAAGAGGAAC
1 AAGAACAAAGAAAAAAGAGAAAC
297518 AA
1 AA
297520 AAAGCACATG
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
22 6 0.10
23 22 0.37
24 11 0.18
25 7 0.12
26 4 0.07
27 10 0.17
ACGTcount: A:0.76, C:0.06, G:0.16, T:0.01
Consensus pattern (23 bp):
AAGAACAAAGAAAAAAGAGAAAC
Found at i:297488 original size:8 final size:7
Alignment explanation
Indices: 297423--297494 Score: 65
Period size: 8 Copynumber: 9.3 Consensus size: 7
297413 TCCAATCAAG
297423 AAGAAAA
1 AAGAAAA
297430 AAGAAAA
1 AAGAAAA
297437 GAAGCAAAA
1 -AAG-AAAA
297446 AA-AAACA
1 AAGAAA-A
297453 AAGAAAA
1 AAGAAAA
297460 AAGAGAAA
1 AAGA-AAA
297468 CAAGAACAA
1 -AAGAA-AA
297477 AAGGAAAA
1 AA-GAAAA
297485 AAGGAAAA
1 AA-GAAAA
297493 AA
1 AA
297495 CAAGAATAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
6 3 0.05
7 15 0.26
8 26 0.46
9 13 0.23
ACGTcount: A:0.78, C:0.06, G:0.17, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:297495 original size:27 final size:27
Alignment explanation
Indices: 297465--297521 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
297455 GAAAAAAGAG
297465 AAACAAGAACAAAAGGAAAAA-AGGAA-A
1 AAACAAGAACAAAA--AAAAAGAGGAACA
*
297492 AAACAAGAATAAAAAAAAAGAGGAACA
1 AAACAAGAACAAAAAAAAAGAGGAACA
297519 AAA
1 AAA
297522 AGCACATGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
26 5 0.19
27 17 0.63
ACGTcount: A:0.75, C:0.07, G:0.16, T:0.02
Consensus pattern (27 bp):
AAACAAGAACAAAAAAAAAGAGGAACA
Found at i:297521 original size:16 final size:16
Alignment explanation
Indices: 297449--297522 Score: 51
Period size: 16 Copynumber: 4.5 Consensus size: 16
297439 AGCAAAAAAA
*
297449 AACAAAGAAAAAAGAGA
1 AACAAA-AAAAAAGAGG
* *
297466 AACAAGAACAAA-AGG
1 AACAAAAAAAAAGAGG
* * *
297481 AAAAAAGGAAAAAACAAG
1 AACAAA--AAAAAAGAGG
*
297499 AATAAAAAAAAAGAGG
1 AACAAAAAAAAAGAGG
297515 AACAAAAA
1 AACAAAAA
297523 GCACATGCAA
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
15 6 0.14
16 20 0.47
17 10 0.23
18 7 0.16
ACGTcount: A:0.76, C:0.07, G:0.16, T:0.01
Consensus pattern (16 bp):
AACAAAAAAAAAGAGG
Found at i:298166 original size:22 final size:22
Alignment explanation
Indices: 298141--298195 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
298131 GTTATCCCAT
*
298141 CAAATCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
* *
298163 CAAACCTTTGAGTATCAAATGT
1 CAAACCTTTGAGCATCAAATGC
298185 CAAACCTTTGA
1 CAAACCTTTGA
298196 CCAAACACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:298622 original size:18 final size:18
Alignment explanation
Indices: 298599--298634 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
298589 TCAACATCAA
* *
298599 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
298617 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
298635 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:299023 original size:35 final size:36
Alignment explanation
Indices: 299004--299253 Score: 177
Period size: 37 Copynumber: 7.1 Consensus size: 36
298994 TTTTTAAAAG
299004 AAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1 AAATTTCGTCTCTCTTGAGATAGTTT-CCTTGAAACA
* * *
299041 AAATTTTGTCTCTCTTGAGAAAGTTTCCCTTGAAA-T
1 AAATTTCGTCTCTCTTGAGATAGTTT-CCTTGAAACA
* *
299077 AAATTTTG-C-CTCTTGAGACAGTTTCCCTTGAAACA
1 AAATTTCGTCTCTCTTGAGATAGTTT-CCTTGAAACA
* *
299112 AAA-------TAT-TTGA-ATATGTTTTCTTTGAAAC-
1 AAATTTCGTCTCTCTTGAGATA-G-TTTCCTTGAAACA
* * * * *
299140 AAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACT
1 AAATTTCGTCTCTCTTGAGATAGTTTC-CTTGAAACA
* * *
299177 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-
1 AAATTTCGTCTCTCTTGAGATAGTTTC-CTTGAAACA
* *
299213 AAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACA
1 AAATTTCGTCTCTCTTGAGATAGTTT-CCTTGAAACA
299250 AAAT
1 AAAT
299254 CTTTGAATTT
Statistics
Matches: 176, Mismatches: 20, Indels: 34
0.77 0.09 0.15
Matches are distributed among these distances:
28 5 0.03
29 13 0.07
30 4 0.02
34 23 0.13
35 9 0.05
36 51 0.29
37 71 0.40
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (36 bp):
AAATTTCGTCTCTCTTGAGATAGTTTCCTTGAAACA
Found at i:299196 original size:136 final size:138
Alignment explanation
Indices: 298990--299314 Score: 422
Period size: 138 Copynumber: 2.4 Consensus size: 138
298980 CACTTGAGAT
* * *
298990 TGTTTT-TTTAAAAGAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCT
1 TGTTTTCTTTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCT
* * *
299054 CTTGAGAAAGTTTCCCTTGAAATAAATTTTG-C-CTCTTGAGACAGTTTCCCTTGAAACAAAATA
66 CTTGAGAAAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATA
299117 TTTGAATA
131 TTTGAATA
* ** * * *
299125 TGTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
1 TGTTTTCTTTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCT
* * *
299190 CTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATC
66 CTTGAGAAAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATA
*
299255 TTTGAATT
131 TTTGAATA
* * ** * * *
299263 TATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
1 TGTTTTCTTTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACA
299315 CAAAATCTTC
Statistics
Matches: 161, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
135 6 0.04
136 76 0.47
137 1 0.01
138 78 0.48
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (138 bp):
TGTTTTCTTTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCT
CTTGAGAAAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATA
TTTGAATA
Found at i:299236 original size:36 final size:36
Alignment explanation
Indices: 299128--299251 Score: 169
Period size: 36 Copynumber: 3.4 Consensus size: 36
299118 TTGAATATGT
*
299128 TTTCT-TTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * * *
299163 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
*
299200 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
299236 TTTCCCTTGAAACAAA
1 TTTCTCTTGAAACAAA
299252 ATCTTTGAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
35 5 0.06
36 41 0.53
37 31 0.40
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:299313 original size:65 final size:65
Alignment explanation
Indices: 299209--299383 Score: 224
Period size: 65 Copynumber: 2.6 Consensus size: 65
299199 GTTTCTCTTG
* ** * **
299209 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
* *
299274 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
299339 TA
64 TA
* * *
299341 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
299384 CAGATATCTT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
65 31 0.33
66 6 0.06
67 31 0.33
68 27 0.28
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:300218 original size:105 final size:105
Alignment explanation
Indices: 299987--300543 Score: 705
Period size: 105 Copynumber: 5.3 Consensus size: 105
299977 GCCATCCGCG
* * * * *
299987 ATTTCAACTCCACGACGGAGGATATCGTGGCAC-TCGAGACAACACAAGTTCAACTTCACAACGA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTTC-AGACAACGCAAGTTCAACTTCACGACGA
* *
300051 AGGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
62 AGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
*
300096 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
300161 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * *
300201 ATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
300266 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * * * *
300306 ATTTCAACTTCACAACGAAGAATATTGGACTCCAAACAACGCAAATTCAACTTCACGACAAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * **
300371 ACCACTGCTTGTCAATAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
300406 ATTTCAACTTCACAACGAAGGATATTGGAC-TCGAGACAACACAAGTTCAACTTCACAACGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTC-AGACAACGCAAGTTCAACTTCACGACGAAGG
* * * ** *
300470 GACGGCTGGTTGTCAACAAACAATTTCTCGGTTCCAGAGCCA
65 GACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* *
300512 ATTTCAACTTCACGACGGAGGATATTGGACTT
1 ATTTCAACTTCACAACGAAGGATATTGGACTT
300544 GGAACAATGC
Statistics
Matches: 398, Mismatches: 41, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
99 1 0.00
100 75 0.19
101 3 0.01
102 3 0.01
103 4 0.01
104 4 0.01
105 200 0.50
106 80 0.20
107 6 0.02
109 22 0.06
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:301134 original size:34 final size:37
Alignment explanation
Indices: 301090--301191 Score: 158
Period size: 34 Copynumber: 2.8 Consensus size: 37
301080 TTTCGTCCTA
*
301090 CTAGGATTCAAACTCCTAAAAATATGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
301125 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
301160 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
301192 GTTCTACTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
33 1 0.02
34 28 0.46
35 3 0.05
37 28 0.46
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:301175 original size:37 final size:35
Alignment explanation
Indices: 301090--301225 Score: 159
Period size: 37 Copynumber: 3.8 Consensus size: 35
301080 TTTCGTCCTA
*
301090 CTAGGATTCAAACTCCTAAAAATATGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
301125 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
301160 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
301197 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
301226 CCACAATCAC
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
33 1 0.01
34 28 0.32
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:301909 original size:23 final size:23
Alignment explanation
Indices: 301857--301909 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
301847 TTATGTGTAT
*
301857 TTTATTTATTTATATATATTACC
1 TTTATTTATTTATATATATTAAC
301880 TTT-TTTATTT-TATAT-TTATAC
1 TTTATTTATTTATATATATTA-AC
301901 TATTATTTA
1 T-TTATTTA
301910 CTATCATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.12
21 7 0.27
22 9 0.35
23 7 0.27
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTATTTATTTATATATATTAAC
Found at i:301936 original size:4 final size:4
Alignment explanation
Indices: 301927--302004 Score: 65
Period size: 4 Copynumber: 20.2 Consensus size: 4
301917 TTTTCTATGC
* * *
301927 TTTA TTTA TTTA TTTA TTTA -TTA TTTTA TTT- CTT- TTTA TTT- TGTC
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA
** *
301972 TGAA TTTA TTTA TTTA TTTA TTTA TTTT TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
302005 ATCTAACATG
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
3 9 0.15
4 49 0.80
5 3 0.05
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:302907 original size:2 final size:2
Alignment explanation
Indices: 302900--302946 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
302890 TGTTAATAAT
302900 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
302940 TA -A TA TA
1 TA TA TA TA
302947 GTAATTCGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:304008 original size:2 final size:2
Alignment explanation
Indices: 304001--304029 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
303991 AGTAATCACG
304001 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
304030 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:304034 original size:2 final size:2
Alignment explanation
Indices: 304029--304090 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
304019 TCTCTCTCTC
304029 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
304071 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
304091 GTGATAAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:305161 original size:20 final size:20
Alignment explanation
Indices: 305122--305163 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
305112 ATTTTATTGT
* **
305122 TTTTAAATACATTTTTAATC
1 TTTTAAATAAATTTAAAATC
305142 TTTTAAATAAATTTAAAATC
1 TTTTAAATAAATTTAAAATC
305162 TT
1 TT
305164 ATTTTATAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTAAATAAATTTAAAATC
Found at i:305792 original size:20 final size:21
Alignment explanation
Indices: 305767--305818 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
305757 TTTTCCCAAT
*
305767 TCGCAATGCGAA-TAGGTAAA
1 TCGCAATGCGAATTAGGAAAA
*
305787 TCGCAACGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
305808 TCGCAATGCGA
1 TCGCAATGCGA
305819 TACTAACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:305832 original size:20 final size:20
Alignment explanation
Indices: 305807--305941 Score: 92
Period size: 20 Copynumber: 6.7 Consensus size: 20
305797 AATTAGGAAA
305807 ATCGCAATGCGATACTAACT
1 ATCGCAATGCGATACTAACT
* * *
305827 ATCGCAATGAGATATTTACT
1 ATCGCAATGCGATACTAACT
* **
305847 ATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTA-ACT
* * *
305868 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTAACT
* * * *
305888 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTAACT
* * *
305908 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTAAC-T
305928 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
305942 TTTCAAAGCG
Statistics
Matches: 91, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
19 2 0.02
20 64 0.70
21 25 0.27
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTAACT
Found at i:305872 original size:41 final size:40
Alignment explanation
Indices: 305807--305900 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 40
305797 AATTAGGAAA
* ** * * *
305807 ATCGCAATGCGATACTAACTATCGCAATGAGATATTTACT
1 ATCGCAATGCGATAATAAAAATCGCAACGAGATACTGACT
305847 ATCGCAATGCGATAATACAAAATCGCAACGAGATACTGACT
1 ATCGCAATGCGATAATA-AAAATCGCAACGAGATACTGACT
* *
305888 TTCGCAACGCGAT
1 ATCGCAATGCGAT
305901 TCTGACTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 16 0.36
41 29 0.64
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (40 bp):
ATCGCAATGCGATAATAAAAATCGCAACGAGATACTGACT
Found at i:305913 original size:61 final size:61
Alignment explanation
Indices: 305786--305935 Score: 160
Period size: 61 Copynumber: 2.5 Consensus size: 61
305776 GAATAGGTAA
* * * * * *
305786 ATCGCAACGCGA-ATTAGGAAAATCGCAATGCGATACTAACTATCGCAATGAGATATTTACT
1 ATCGCAACGCGATAATA-CAAAATCGCAACGAGATACTAACTATCGCAACGAGATATTGACT
* * * *
305847 ATCGCAATGCGATAATACAAAATCGCAACGAGATACTGACTTTCGCAACGCGAT-TCTGACT
1 ATCGCAACGCGATAATACAAAATCGCAACGAGATACTAACTATCGCAACGAGATAT-TGACT
* *
305908 TTCGCAACGCGATAATACATAATCGCAA
1 ATCGCAACGCGATAATACAAAATCGCAA
305936 TGCGATTTTC
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
60 1 0.01
61 70 0.95
62 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (61 bp):
ATCGCAACGCGATAATACAAAATCGCAACGAGATACTAACTATCGCAACGAGATATTGACT
Found at i:307382 original size:20 final size:20
Alignment explanation
Indices: 307357--307402 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
307347 TAGTTTACTT
*
307357 TCGCAACATGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
307377 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
307397 TCGCAA
1 TCGCAA
307403 TGCGAAATGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:307411 original size:19 final size:20
Alignment explanation
Indices: 307368--307411 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
307358 CGCAACATGA
307368 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
307388 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
307407 AAATG
1 AAATG
307412 CAAATCGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:307418 original size:19 final size:18
Alignment explanation
Indices: 307396--307492 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
307386 GGAAATGGCT
307396 ATCGCAATGCGAAATGCAA
1 ATCGCAATGCGAAATG-AA
*
307415 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
307429 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
307448 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
307462 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAA
307480 AGTCGCAATGCGA
1 A-TCGCAATGCGA
307493 TTTGTGTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
14 18 0.28
16 8 0.12
17 8 0.12
18 3 0.05
19 27 0.42
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.13
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:307432 original size:14 final size:14
Alignment explanation
Indices: 307413--307468 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
307403 TGCGAAATGC
307413 AAATCGCAACGACA
1 AAATCGCAACGACA
*
307427 AAATCGCAATGCGAAATGA
1 AAATCGCAA--CG--A-CA
307446 AAATCGCAACGACA
1 AAATCGCAACGACA
307460 AAATCGCAA
1 AAATCGCAA
307469 TGCGAAATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:307438 original size:33 final size:32
Alignment explanation
Indices: 307396--307487 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 32
307386 GGAAATGGCT
307396 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
307429 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
307462 ATCGCAATGCGAAATGAAAGTCGCAA
1 ATCGCAATGCGAAATGAAA-TCGCAA
307488 TGCGATTTGT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 3 0.05
33 54 0.95
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.13
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAA
Found at i:307504 original size:19 final size:18
Alignment explanation
Indices: 307499--307638 Score: 89
Period size: 20 Copynumber: 7.9 Consensus size: 18
307489 GCGATTTGTG
*
307499 TTTCGCGTTGCGATTTCA
1 TTTCGCATTGCGATTTCA
307517 TTTCGCATTGCGATTT--
1 TTTCGCATTGCGATTTCA
* *
307533 TGTCG--TTGCTATTTTCA
1 TTTCGCATTGCGA-TTTCA
307550 TTTCGCATTGCGATTT--
1 TTTCGCATTGCGATTTCA
*
307566 TGTCG--TTGCGATTTGCA
1 TTTCGCATTGCGATTT-CA
**
307583 TTTCGCATTGCGATAGCCA
1 TTTCGCATTGCGAT-TTCA
* *
307602 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCATTGCGAT-TTCA
*
307622 TTTTCGCGTTGCGATTT
1 -TTTCGCATTGCGATTT
307639 TAAGTTTCGT
Statistics
Matches: 97, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.14
15 3 0.03
16 8 0.08
17 8 0.08
18 18 0.19
19 18 0.19
20 25 0.26
21 3 0.03
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (18 bp):
TTTCGCATTGCGATTTCA
Found at i:307554 original size:33 final size:33
Alignment explanation
Indices: 307504--307596 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
307494 TTGTGTTTCG
307504 CGTTGCGA-TTTCATTTCGCATTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
*
307536 CGTTGCTATTTTCATTTCGCATTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
*
307569 CGTTGCGATTTGCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
307597 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 7 0.12
33 50 0.88
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:309531 original size:14 final size:14
Alignment explanation
Indices: 309497--309535 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
309487 TTGATTGTTT
309497 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
309511 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
309525 TGTTGATTTGT
1 AATTGATTTGT
309536 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:309681 original size:14 final size:14
Alignment explanation
Indices: 309662--309715 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
309652 GAAACTGACT
309662 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
309676 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
309695 ATCGCAACAAGAAA
1 ATCGCAACGAGAAA
309709 ATCGCAA
1 ATCGCAA
309716 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 1 0.03
18 1 0.03
19 11 0.32
ACGTcount: A:0.50, C:0.20, G:0.19, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:309696 original size:19 final size:18
Alignment explanation
Indices: 309671--309720 Score: 63
Period size: 14 Copynumber: 2.9 Consensus size: 18
309661 TATCGCAACG
309671 AGAAAATCGCAATGCGAA
1 AGAAAATCGCAATGCGAA
309689 ATGAAAATCGCAA--C--A
1 A-GAAAATCGCAATGCGAA
309704 AGAAAATCGCAATGCGA
1 AGAAAATCGCAATGCGA
309721 TTTTCAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
14 11 0.41
15 2 0.07
16 1 0.04
17 1 0.04
18 1 0.04
19 11 0.41
ACGTcount: A:0.50, C:0.18, G:0.20, T:0.12
Consensus pattern (18 bp):
AGAAAATCGCAATGCGAA
Found at i:313020 original size:33 final size:33
Alignment explanation
Indices: 312974--313100 Score: 200
Period size: 33 Copynumber: 3.8 Consensus size: 33
312964 GGAAATTACT
* *
312974 ATCGCAATACGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
313007 ATCGCAATGCGAAATGAAAATCGCAACGCGAGT
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
313040 TTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
313073 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
313101 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 85 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:313030 original size:19 final size:19
Alignment explanation
Indices: 312974--313104 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
312964 GGAAATTACT
*
312974 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
312993 ATCACAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
313007 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
313026 ATCGCAACGCG--A-G--T
1 ATCGCAATGCGAAATGAAA
*
313040 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
313059 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
313073 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
313092 ATCGCAACGCGAA
1 ATCGCAATGCGAA
313105 TTTAATTTCG
Statistics
Matches: 82, Mismatches: 15, Indels: 30
0.65 0.12 0.24
Matches are distributed among these distances:
14 27 0.33
15 2 0.02
16 6 0.07
17 6 0.07
18 2 0.02
19 39 0.48
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:313058 original size:66 final size:66
Alignment explanation
Indices: 312975--313103 Score: 231
Period size: 66 Copynumber: 2.0 Consensus size: 66
312965 GAAATTACTA
312975 TCGCAATACGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAGT
1 TCGCAATACGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAGT
313040 T
66 T
* * *
313041 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGA
1 TCGCAATACGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGA
313104 ATTTAATTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (66 bp):
TCGCAATACGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAGT
T
Found at i:313282 original size:14 final size:14
Alignment explanation
Indices: 313263--313299 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
313253 CATCAATTAA
313263 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
313277 ACAAATCACCTTTT
1 ACAAATCAACTTTT
313291 ACAAATCAA
1 ACAAATCAA
313300 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:314739 original size:42 final size:42
Alignment explanation
Indices: 314693--314772 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
314683 CGATGACAGT
* * *
314693 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
314735 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
314773 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:315169 original size:91 final size:90
Alignment explanation
Indices: 314994--315178 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
314984 ATTTTAAACT
*
314994 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
315059 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
315087 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
315151 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
315178 T
1 T
315179 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:316924 original size:20 final size:20
Alignment explanation
Indices: 316866--316918 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
316856 TTTTGGTTGA
*
316866 AATGAAAATCGCAACGAGAT
1 AATGAGAATCGCAACGAGAT
316886 AATGAGAATCGCAACGAGAT
1 AATGAGAATCGCAACGAGAT
316906 AATGAGAATCGCA
1 AATGAGAATCGCA
316919 TTGAGAGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (20 bp):
AATGAGAATCGCAACGAGAT
Found at i:316950 original size:33 final size:33
Alignment explanation
Indices: 316889--316985 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 33
316879 ACGAGATAAT
* * **
316889 GAGAATCGCAACGAGATAATGAGAATCGCATTGA
1 GAGAATCGCAACGCGA-AATGACAATCGCAACGA
*
316923 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACAATCGCAACGA
* *
316956 GAGAATCGCAACGCGAAATGAAAATTGCAA
1 GAGAATCGCAACGCGAAATGACAATCGCAA
316986 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 40 0.73
34 15 0.27
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.14
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACAATCGCAACGA
Found at i:317008 original size:19 final size:19
Alignment explanation
Indices: 316986--317033 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
316976 AAAATTGCAA
*
316986 TGCGATTTTGGTTT-CGCGT
1 TGCGATTTT-ATTTCCGCGT
*
317005 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTTCCGCGT
317025 TGCGATTTT
1 TGCGATTTT
317034 CATTCTCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.46
Consensus pattern (19 bp):
TGCGATTTTATTTCCGCGT
Found at i:317594 original size:20 final size:19
Alignment explanation
Indices: 317553--317606 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
317543 GCTATGTAAA
*
317553 TCGCATTGCGATAGTAAGAT
1 TCGCATTGCGAT-TTAAGAT
*
317573 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTAAG-AT
*
317593 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
317607 TCCTAATTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (19 bp):
TCGCATTGCGATTTAAGAT
Found at i:317617 original size:21 final size:20
Alignment explanation
Indices: 317571--317618 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
317561 CGATAGTAAG
*
317571 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACCT
* *
317591 ATTCGCGTTGCGATTTTCCT
1 ATTCGCATTGCGATTTACCT
317611 AATTCGCA
1 -ATTCGCA
317619 ATTAGGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACCT
Found at i:317692 original size:76 final size:76
Alignment explanation
Indices: 317550--317692 Score: 164
Period size: 76 Copynumber: 1.9 Consensus size: 76
317540 GGCGCTATGT
* ** * *
317550 AAATCGCATTGCGATAGTAAGATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCCTAATT
1 AAATCGCATTGCGATAGTAAGATTCGCATTACGATTTACAAATTCGCATTGCGATTTTACTAATT
317615 CGCAATTAGGA
66 CGCAATTAGGA
* * * * *
317626 AAATTGCATTGCGATAGTCAG-TATCGCATTACGATTTTCCAAATTTGCATTGCGA-TTTACTTA
1 AAATCGCATTGCGATAGTAAGAT-TCGCATTACGA-TTTACAAATTCGCATTGCGATTTTACTAA
317689 TTCG
64 TTCG
317693 TATTGCGAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
75 1 0.02
76 39 0.71
77 15 0.27
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (76 bp):
AAATCGCATTGCGATAGTAAGATTCGCATTACGATTTACAAATTCGCATTGCGATTTTACTAATT
CGCAATTAGGA
Found at i:326272 original size:297 final size:296
Alignment explanation
Indices: 325268--326451 Score: 1910
Period size: 296 Copynumber: 4.0 Consensus size: 296
325258 ACTGGATTTG
* *
325268 TTGTAACTAGTTTTAACTAAGAACACTCTGTTGATACGATACGTGTTTTGAGTTTTGTTTGTTTC
1 TTGTAACTAGTTTTAACTAAGAACACTCTGTTGATACGATACGTGTTTTGACTTTTGATTGTTTC
* * * * *
325333 GGCTTTGTTTTGCTTATTTGTTGTTTGGCTTCCGACGAAGTTAGTTAAAGCTCAGATTATTGACT
66 GACTTTGTTTTGCTTATTTATTGTTTGGCTTCCGAGGAAGTTAGTTAAAGCTCAGATTCTCGACT
** * *
325398 CAAGATTTTTCCATTTAGTTTTGTTATTATTATTATTTTTAGGTTCTGTTTGTTCAAAATTCGTT
131 CAAGATTTTTCCATTTCTTTTTGTTATTAGTATTATTTTTAGGTTCTGTTTGTTCAAAATTTGTT
* * * *
325463 CCAAGAACTCTCAAATGAGGTTGAATTTTCGCATAGGTC-GAAGGTGGATTGTTTGCTGATATGA
196 TCAAGAACTCTCAAATGAGGTTGAATTTTCGCAGAGGTCAGAAGGAGGATTGTTTGTTGATATGA
325527 ATACGTTTCTAGCATTTGGGAAAGATCACGTGGCTT
261 ATACGTTTCTAGCATTTGGGAAAGATCACGTGGCTT
*
325563 TTGTAACTAGTTTTAACTAAGAACACTCTGTTGATA-GTATACGTGTTTTGACTTATGATTGTTT
1 TTGTAACTAGTTTTAACTAAGAACACTCTGTTGATACG-ATACGTGTTTTGACTTTTGATTGTTT
*
325627 CGACTTTGTTTTGCTTATTTATTGTTTGGTTTCCGAGGAAGTTAGTTAAAGCTCAGATTCTCGAC
65 CGACTTTGTTTTGCTTATTTATTGTTTGGCTTCCGAGGAAGTTAGTTAAAGCTCAGATTCTCGAC
* *
325692 TCAAGATTTTTTTCCATTTCTTTTTGTCATTAGTATTA-TTTTAGGTTCTGTTTATTCAAAATTT
130 TCAAGA--TTTTTCCATTTCTTTTTGTTATTAGTATTATTTTTAGGTTCTGTTTGTTCAAAATTT
* * * *
325756 GTTTCAAGAGCTCTCAAATGAGGATGAATATTCGCAGAGGTCAGAAGGAGTATTGTTTGTTGATA
193 GTTTCAAGAACTCTCAAATGAGGTTGAATTTTCGCAGAGGTCAGAAGGAGGATTGTTTGTTGATA
325821 TGAATACG-TTCTAGCATTTGGGAAAGATCACGTGGCTT
258 TGAATACGTTTCTAGCATTTGGGAAAGATCACGTGGCTT
* *
325859 TTGTAACTAGTTTTAACTAAGAACACTCTTTTGATACGATATGTGTTTTGACTTTTGATTGTTTC
1 TTGTAACTAGTTTTAACTAAGAACACTCTGTTGATACGATACGTGTTTTGACTTTTGATTGTTTC
* * * * *
325924 GACTTTGTTTTGCTTATTTGTTGTTTGGCATCCAAGGTAGTTAGTTAAAGCTCGGATTCTCGACT
66 GACTTTGTTTTGCTTATTTATTGTTTGGCTTCCGAGGAAGTTAGTTAAAGCTCAGATTCTCGACT
325989 CAAGATTTTTTCCATTTCTTTTTGTTATTAGTATTATTTTTAGGTTCTGTTTGTTCAAAATTTGT
131 CAAGA-TTTTTCCATTTCTTTTTGTTATTAGTATTATTTTTAGGTTCTGTTTGTTCAAAATTTGT
**
326054 TTCAAGCGCTCTCAAATGAGGTTGAATTTTCGCAGAGGTCAGAAGGAGGATTGTTTGTTGATATG
195 TTCAAGAACTCTCAAATGAGGTTGAATTTTCGCAGAGGTCAGAAGGAGGATTGTTTGTTGATATG
* *
326119 AATACGTTTCTAGCATTTGGAAAAGATGACGTGGCTT
260 AATACGTTTCTAGCATTTGGGAAAGATCACGTGGCTT
* *
326156 TTGTAACTAATTTTAACTAAGAACACTCTTTTGATACGATACGTGTTTTGACTTTTGATTGTTTC
1 TTGTAACTAGTTTTAACTAAGAACACTCTGTTGATACGATACGTGTTTTGACTTTTGATTGTTTC
*
326221 GACTTTGTTTTGCTTATTTATTGTTTGGCTTCCGAGGAAGTTAGTTAAAGCTCAGATTCTTGACT
66 GACTTTGTTTTGCTTATTTATTGTTTGGCTTCCGAGGAAGTTAGTTAAAGCTCAGATTCTCGACT
326286 CAAGATTTTTCCATTTCTTTTTGTTATTAGTATTATTTTTAGGTTCTGTTTG-TCAAAATTTGTT
131 CAAGATTTTTCCATTTCTTTTTGTTATTAGTATTATTTTTAGGTTCTGTTTGTTCAAAATTTGTT
* *
326350 TCAAGAACTCTCAAATGAGGTCGAATTTTTTGCAGAGGTCAGAAGGAGGATTGTTTGTTGATATG
196 TCAAGAACTCTCAAATGAGGTTGAA-TTTTCGCAGAGGTCAGAAGGAGGATTGTTTGTTGATATG
* * *
326415 AATACATTTCTAGCATTCGGGAAAGATCATGTGGCTT
260 AATACGTTTCTAGCATTTGGGAAAGATCACGTGGCTT
326452 GGAATTACGA
Statistics
Matches: 824, Mismatches: 57, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
294 1 0.00
295 188 0.23
296 426 0.52
297 209 0.25
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (296 bp):
TTGTAACTAGTTTTAACTAAGAACACTCTGTTGATACGATACGTGTTTTGACTTTTGATTGTTTC
GACTTTGTTTTGCTTATTTATTGTTTGGCTTCCGAGGAAGTTAGTTAAAGCTCAGATTCTCGACT
CAAGATTTTTCCATTTCTTTTTGTTATTAGTATTATTTTTAGGTTCTGTTTGTTCAAAATTTGTT
TCAAGAACTCTCAAATGAGGTTGAATTTTCGCAGAGGTCAGAAGGAGGATTGTTTGTTGATATGA
ATACGTTTCTAGCATTTGGGAAAGATCACGTGGCTT
Found at i:326428 original size:593 final size:590
Alignment explanation
Indices: 325268--326451 Score: 1926
Period size: 593 Copynumber: 2.0 Consensus size: 590
325258 ACTGGATTTG
* *
325268 TTGTAACTAGTTTTAACTAAGAACACTCTGTTGATACGATACGTGTTTTGAGTTTTGTTTGTTTC
1 TTGTAACTAGTTTTAACTAAGAACACTCTGTTGATACGATACGTGTTTTGACTTTTGATTGTTTC
* * * *
325333 GGCTTTGTTTTGCTTATTTGTTGTTTGGCTTCCGACGAAGTTAGTTAAAGCTCAGATTATTGACT
66 GACTTTGTTTTGCTTATTTGTTGTTTGGCATCCAACGAAGTTAGTTAAAGCTCAGATTATCGACT
*
325398 CAAGATTTTTCCATTTAGTTTTGTTATTATTATTATTTTTAGGTTCTGTTTGTTCAAAATTCGTT
131 CAAGATTTTTCCATTTAGTTTTGTTATTAGTATTATTTTTAGGTTCTGTTTGTTCAAAATTCGTT
* *
325463 CCAAGAACTCTCAAATGAGGTTGAATTTTCGCATAGGTCGAAGGTGGATTGTTTGCTGATATGAA
196 CCAAGAACTCTCAAATGAGGTTGAATTTTCGCAGAGGTCGAAGGAGGATTGTTTGCTGATATGAA
* *
325528 TACGTTTCTAGCATTTGGGAAAGATCACGTGGCTTTTGTAACTAGTTTTAACTAAGAACACTCTG
261 TACGTTTCTAGCATTTGGAAAAGATCACGTGGCTTTTGTAACTAATTTTAACTAAGAACACTCTG
*
325593 TTGATAGTATACGTGTTTTGACTTATGATTGTTTCGACTTTGTTTTGCTTATTTATTGTTTGGTT
326 TTGATAGTATACGTGTTTTGACTTATGATTGTTTCGACTTTGTTTTGCTTATTTATTGTTTGGCT
325658 TCCGAGGAAGTTAGTTAAAGCTCAGATTCTCGACTCAAGATTTTTTTCCATTTCTTTTTGTCATT
391 TCCGAGGAAGTTAGTTAAAGCTCAGATTCTCGACTCAAGA-TTTTTTCCATTTCTTTTTGTCATT
* *
325723 AGTATTATTTTAGGTTCTGTTTATTCAAAATTTGTTTCAAGAGCTCTCAAATGAGGATGAATATT
455 AGTATTATTTTAGGTTCTGTTTAGTCAAAATTTGTTTCAAGAACTCTCAAATGAGGATGAATATT
* *
325788 CGCAGAGGTCAGAAGGAGTATTGTTTGTTGATATGAATACGTTCTAGCATTTGGGAAAGATCACG
520 CGCAGAGGTCAGAAGGAGGATTGTTTGTTGATATGAATACGTTCTAGCATTCGGGAAAGATCACG
325853 TGGCTT
585 TGGCTT
* *
325859 TTGTAACTAGTTTTAACTAAGAACACTCTTTTGATACGATATGTGTTTTGACTTTTGATTGTTTC
1 TTGTAACTAGTTTTAACTAAGAACACTCTGTTGATACGATACGTGTTTTGACTTTTGATTGTTTC
* * * *
325924 GACTTTGTTTTGCTTATTTGTTGTTTGGCATCCAAGGTAGTTAGTTAAAGCTCGGATTCTCGACT
66 GACTTTGTTTTGCTTATTTGTTGTTTGGCATCCAACGAAGTTAGTTAAAGCTCAGATTATCGACT
** *
325989 CAAGATTTTTTCCATTTCTTTTTGTTATTAGTATTATTTTTAGGTTCTGTTTGTTCAAAATTTGT
131 CAAGA-TTTTTCCATTTAGTTTTGTTATTAGTATTATTTTTAGGTTCTGTTTGTTCAAAATTCGT
* ** *
326054 TTCAAGCGCTCTCAAATGAGGTTGAATTTTCGCAGAGGTCAGAAGGAGGATTGTTTGTTGATATG
195 TCCAAGAACTCTCAAATGAGGTTGAATTTTCGCAGAGGTC-GAAGGAGGATTGTTTGCTGATATG
*
326119 AATACGTTTCTAGCATTTGGAAAAGATGACGTGGCTTTTGTAACTAATTTTAACTAAGAACACTC
259 AATACGTTTCTAGCATTTGGAAAAGATCACGTGGCTTTTGTAACTAATTTTAACTAAGAACACTC
* *
326184 TTTTGATACG-ATACGTGTTTTGACTTTTGATTGTTTCGACTTTGTTTTGCTTATTTATTGTTTG
324 TGTTGATA-GTATACGTGTTTTGACTTATGATTGTTTCGACTTTGTTTTGCTTATTTATTGTTTG
* *
326248 GCTTCCGAGGAAGTTAGTTAAAGCTCAGATTCTTGACTCAAGA-TTTTTCCATTTCTTTTTGTTA
388 GCTTCCGAGGAAGTTAGTTAAAGCTCAGATTCTCGACTCAAGATTTTTTCCATTTCTTTTTGTCA
326312 TTAGTATTATTTTTAGGTTCTGTTT-GTCAAAATTTGTTTCAAGAACTCTCAAATGAGG-TCGAA
453 TTAGTATTA-TTTTAGGTTCTGTTTAGTCAAAATTTGTTTCAAGAACTCTCAAATGAGGAT-GAA
* * *
326375 TTTTTTGCAGAGGTCAGAAGGAGGATTGTTTGTTGATATGAATACATTTCTAGCATTCGGGAAAG
516 -TATTCGCAGAGGTCAGAAGGAGGATTGTTTGTTGATATGAATAC-GTTCTAGCATTCGGGAAAG
*
326440 ATCATGTGGCTT
579 ATCACGTGGCTT
326452 GGAATTACGA
Statistics
Matches: 548, Mismatches: 38, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
590 1 0.00
591 186 0.34
592 147 0.27
593 213 0.39
594 1 0.00
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (590 bp):
TTGTAACTAGTTTTAACTAAGAACACTCTGTTGATACGATACGTGTTTTGACTTTTGATTGTTTC
GACTTTGTTTTGCTTATTTGTTGTTTGGCATCCAACGAAGTTAGTTAAAGCTCAGATTATCGACT
CAAGATTTTTCCATTTAGTTTTGTTATTAGTATTATTTTTAGGTTCTGTTTGTTCAAAATTCGTT
CCAAGAACTCTCAAATGAGGTTGAATTTTCGCAGAGGTCGAAGGAGGATTGTTTGCTGATATGAA
TACGTTTCTAGCATTTGGAAAAGATCACGTGGCTTTTGTAACTAATTTTAACTAAGAACACTCTG
TTGATAGTATACGTGTTTTGACTTATGATTGTTTCGACTTTGTTTTGCTTATTTATTGTTTGGCT
TCCGAGGAAGTTAGTTAAAGCTCAGATTCTCGACTCAAGATTTTTTCCATTTCTTTTTGTCATTA
GTATTATTTTAGGTTCTGTTTAGTCAAAATTTGTTTCAAGAACTCTCAAATGAGGATGAATATTC
GCAGAGGTCAGAAGGAGGATTGTTTGTTGATATGAATACGTTCTAGCATTCGGGAAAGATCACGT
GGCTT
Found at i:336656 original size:20 final size:20
Alignment explanation
Indices: 336631--336669 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
336621 GGGCTGGAGC
*
336631 AGGGAATTCACGTGGTGAGG
1 AGGGAATTCACGGGGTGAGG
*
336651 AGGGAATTGACGGGGTGAG
1 AGGGAATTCACGGGGTGAG
336670 CTGATAAAGA
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:0.26, C:0.08, G:0.49, T:0.18
Consensus pattern (20 bp):
AGGGAATTCACGGGGTGAGG
Found at i:340440 original size:42 final size:42
Alignment explanation
Indices: 340178--340481 Score: 314
Period size: 42 Copynumber: 7.3 Consensus size: 42
340168 AAATTAATAA
*
340178 TAATTATTTAACTTTAATGATTTAATGATT-ATTATTTAACTT
1 TAATGATTTAACTTTAATGATTTAAT-ATTAATTATTTAACTT
* * * * * *
340220 TAATGATTTAAATTAAATAATTTAATAATCATTACTTAACTT
1 TAATGATTTAACTTTAATGATTTAATATTAATTATTTAACTT
* *
340262 TAATGATTTAACTTTAATGATTTAATAATAATTACTTAACTT
1 TAATGATTTAACTTTAATGATTTAATATTAATTATTTAACTT
* *
340304 TAATGATTTAACTTTAATGATTTAATAATAATTACTTAACTT
1 TAATGATTTAACTTTAATGATTTAATATTAATTATTTAACTT
* * *
340346 TAATGATTT-ACTTTAATAATTTAACT-TTAATAATTTAA-TAA
1 TAATGATTTAACTTTAATGATTTAA-TATTAATTATTTAACT-T
* * * *
340387 TAATTATTTAATTTTAATGATTTAATTTTAATAATTTAACTT
1 TAATGATTTAACTTTAATGATTTAATATTAATTATTTAACTT
* * * *
340429 TAATGATTTAA-TAATAATTATTTAACT-TTAATGATTTAATTT
1 TAATGATTTAACT-TTAATGATTTAA-TATTAATTATTTAACTT
*
340471 TAATAATTTAA
1 TAATGATTTAA
340482 TAATAGTAAA
Statistics
Matches: 229, Mismatches: 25, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
40 1 0.00
41 35 0.15
42 191 0.83
43 2 0.01
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (42 bp):
TAATGATTTAACTTTAATGATTTAATATTAATTATTTAACTT
Found at i:340482 original size:14 final size:14
Alignment explanation
Indices: 340136--340481 Score: 260
Period size: 14 Copynumber: 24.8 Consensus size: 14
340126 TATTAAATAA
* *
340136 TAATTATTTAAATT
1 TAATGATTTAACTT
*
340150 TAATGATTTAAATT
1 TAATGATTTAACTT
** * *
340164 TAAAAAATTAA-TAA
1 TAATGATTTAACT-T
*
340178 TAATTATTTAACTT
1 TAATGATTTAACTT
340192 TAATGATTTAA-TGAT
1 TAATGATTTAACT--T
*
340207 T-ATTATTTAACTT
1 TAATGATTTAACTT
*
340220 TAATGATTTAAATT
1 TAATGATTTAACTT
* * *
340234 AAATAATTTAA-TAA
1 TAATGATTTAACT-T
* * *
340248 TCATTACTTAACTT
1 TAATGATTTAACTT
340262 TAATGATTTAACTT
1 TAATGATTTAACTT
*
340276 TAATGATTTAA-TAA
1 TAATGATTTAACT-T
* *
340290 TAATTACTTAACTT
1 TAATGATTTAACTT
340304 TAATGATTTAACTT
1 TAATGATTTAACTT
*
340318 TAATGATTTAA-TAA
1 TAATGATTTAACT-T
* *
340332 TAATTACTTAACTT
1 TAATGATTTAACTT
340346 TAATGATTT-ACTT
1 TAATGATTTAACTT
*
340359 TAATAATTTAACTT
1 TAATGATTTAACTT
* *
340373 TAATAATTTAA-TAA
1 TAATGATTTAACT-T
* *
340387 TAATTATTTAATTT
1 TAATGATTTAACTT
*
340401 TAATGATTTAATTT
1 TAATGATTTAACTT
*
340415 TAATAATTTAACTT
1 TAATGATTTAACTT
*
340429 TAATGATTTAA-TAA
1 TAATGATTTAACT-T
*
340443 TAATTATTTAACTT
1 TAATGATTTAACTT
*
340457 TAATGATTTAATTT
1 TAATGATTTAACTT
*
340471 TAATAATTTAA
1 TAATGATTTAA
340482 TAATAGTAAA
Statistics
Matches: 265, Mismatches: 50, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
13 21 0.08
14 235 0.89
15 9 0.03
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (14 bp):
TAATGATTTAACTT
Found at i:343352 original size:29 final size:31
Alignment explanation
Indices: 343261--343341 Score: 117
Period size: 32 Copynumber: 2.6 Consensus size: 31
343251 CCCCCTTCCA
* * * *
343261 TGAAGAAGACGACTAGTACTCAACCGAAATG
1 TGAAGAAGACGCCGAGTACTCACCCCAAATG
343292 TGAAGAAGACGCCGAGTACTCCACCCCAAATG
1 TGAAGAAGACGCCGAGTACT-CACCCCAAATG
343324 TGAAGAAGACGCCGAGTA
1 TGAAGAAGACGCCGAGTA
343342 TTCCTCTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 18 0.40
32 27 0.60
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (31 bp):
TGAAGAAGACGCCGAGTACTCACCCCAAATG
Found at i:354907 original size:6 final size:6
Alignment explanation
Indices: 354896--354929 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
354886 ATATTAGGTG
354896 GGTGCT GGTGCT GGTGCT GGTGCT GGTGCT GGTG
1 GGTGCT GGTGCT GGTGCT GGTGCT GGTGCT GGTG
354930 GTTGTGGCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.15, G:0.53, T:0.32
Consensus pattern (6 bp):
GGTGCT
Found at i:364868 original size:22 final size:21
Alignment explanation
Indices: 364822--364871 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
364812 CCTTTATTTA
364822 TTTTTTTAAAATCCGTATCCC
1 TTTTTTTAAAATCCGTATCCC
**
364843 TTTTTTTAAAATTTGTATCCC
1 TTTTTTTAAAATCCGTATCCC
364864 TTTTTTTA
1 TTTTTTTA
364872 TTTTCGGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.16, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTTTTAAAATCCGTATCCC
Found at i:365111 original size:17 final size:16
Alignment explanation
Indices: 365078--365113 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
365068 TATTTTCATT
365078 TTATTAATTTATTATC
1 TTATTAATTTATTATC
*
365094 TTATTTATTTATTTATC
1 TTATTAATTTA-TTATC
365111 TTA
1 TTA
365114 GCTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTAATTTATTATC
Found at i:366113 original size:10 final size:10
Alignment explanation
Indices: 366098--366131 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
366088 TTCATTTACC
366098 ATTTATTTTT
1 ATTTATTTTT
366108 ATTTATTTTT
1 ATTTATTTTT
* *
366118 ATCTATTTCT
1 ATTTATTTTT
366128 ATTT
1 ATTT
366132 TACTAACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:376398 original size:105 final size:105
Alignment explanation
Indices: 376216--376990 Score: 1336
Period size: 105 Copynumber: 7.4 Consensus size: 105
376206 AGGTTTTACC
376216 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
376281 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
376321 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCGGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
376386 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
376426 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCGGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
376491 ACGAAGGGACCGCTGGTTGTCAAC-AACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
376530 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCGGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
376595 ACGAAGGGACCGCTAGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
376635 CAGAGCCAATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
376700 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
376740 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
376805 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
376845 CAGAGCCAATTTCAACTTCCCAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
376910 ACGAAGGGACCGCTGGTTGTCAACAAGCAATTTCCCAGTTC
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
* * * * * * *
376951 CAAAACCAGTTCCAACGTCACAGCGGAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
376991 GAAACAATAC
Statistics
Matches: 642, Mismatches: 26, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
104 103 0.16
105 499 0.78
106 40 0.06
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:376788 original size:314 final size:315
Alignment explanation
Indices: 376216--376935 Score: 1334
Period size: 314 Copynumber: 2.3 Consensus size: 315
376206 AGGTTTTACC
376216 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
376281 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACG
*
376346 AAGGATATTGGACTCCGGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
* *
376411 AACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCGGACAACGC
196 AACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
376476 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACATTTCTCAATTT
261 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
376530 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCGGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
376595 ACGAAGGGACCGCTAGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCGCAACG
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACG
376660 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
376725 AACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
196 AACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
* *
376790 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCATTT
261 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
376845 CAGAGCCAATTTCAACTTCCCAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
376910 ACGAAGGGACCGCTGGTTGTCAACAA
66 ACGAAGGGACCGCTGGTTGTCAACAA
376936 GCAATTTCCC
Statistics
Matches: 392, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
314 291 0.74
315 101 0.26
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (315 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACG
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
AACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:378851 original size:20 final size:21
Alignment explanation
Indices: 378797--378845 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
378787 CCTTTATTTA
**
378797 TTTTTTTAAAATCCGTATCCC
1 TTTTTTTAAAATTTGTATCCC
378818 TTTTTTTAAAATTTGTATCCC
1 TTTTTTTAAAATTTGTATCCC
378839 TTTTTTT
1 TTTTTTT
378846 TTATTTTCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.59
Consensus pattern (21 bp):
TTTTTTTAAAATTTGTATCCC
Found at i:378971 original size:6 final size:6
Alignment explanation
Indices: 378962--378986 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
378952 TTTCTTTTTC
378962 TGTATT TGTATT TGTATT TGTATT T
1 TGTATT TGTATT TGTATT TGTATT T
378987 TTTACTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TGTATT
Found at i:379084 original size:17 final size:16
Alignment explanation
Indices: 379051--379086 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
379041 TATTTTCATT
379051 TTATTAATTTATTATC
1 TTATTAATTTATTATC
*
379067 TTATTTATTTATTTATC
1 TTATTAATTTA-TTATC
379084 TTA
1 TTA
379087 GCTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTAATTTATTATC
Found at i:381555 original size:16 final size:18
Alignment explanation
Indices: 381534--381583 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
381524 TTTAGACAAA
381534 ATTTATATT-TTTTTAC-
1 ATTTATATTCTTTTTACT
381550 ATTTATAATTTCTTTTTACT
1 ATTTAT-A-TTCTTTTTACT
*
381570 ATTT-TATTGTTTTT
1 ATTTATATTCTTTTT
381584 TTTATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 6 0.21
17 8 0.28
18 3 0.10
19 8 0.28
20 4 0.14
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (18 bp):
ATTTATATTCTTTTTACT
Found at i:381586 original size:21 final size:19
Alignment explanation
Indices: 381541--381587 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
381531 AAAATTTATA
381541 TTTTTTTACATTTATAATT
1 TTTTTTTACATTTATAATT
* *
381560 TCTTTTTACTATTT-TATTGT
1 TTTTTTTAC-ATTTATAAT-T
381580 TTTTTTTA
1 TTTTTTTA
381588 TTAAAATAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTTTACATTTATAATT
Found at i:382186 original size:35 final size:35
Alignment explanation
Indices: 382134--382234 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 35
382124 AAAACAGTCC
* *
382134 TCAATTTTATTCTAAACCCCAAATTCCAAAGTAAT
1 TCAAATTTATTCTAAACCCCAAATTCCAAAATAAT
* * *
382169 TCAAATTTATTCCAAACCCTAAATTCCAAAATTAT
1 TCAAATTTATTCTAAACCCCAAATTCCAAAATAAT
* * *
382204 TC-AATTAGATTATAAACCCCAAATTCTAAAA
1 TCAAATT-TATTCTAAACCCCAAATTCCAAAA
382235 CAGTCCAAGC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 4 0.07
35 51 0.93
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.33
Consensus pattern (35 bp):
TCAAATTTATTCTAAACCCCAAATTCCAAAATAAT
Found at i:383607 original size:21 final size:21
Alignment explanation
Indices: 383565--383607 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
383555 TTTTCGGGCT
* * *
383565 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
383586 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
383607 A
1 A
383608 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:384420 original size:148 final size:147
Alignment explanation
Indices: 384142--384440 Score: 514
Period size: 148 Copynumber: 2.0 Consensus size: 147
384132 GGTAGAGGGT
384142 TACGCGGTTCTTTGGGACATATGTATATTCTTGGAACATGTGTGAAGTCTTGAAAAGACACATAC
1 TACGCGGTTCTTTGGGACATATGTATATTCTTGGAACATGTGTGAAGTCTTGAAAAGACACATAC
* *
384207 TTGATCCCTAGTATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTATATG
66 TTGATCCATAGTATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATATG
384272 GCACTACGG-TGCAATTC
131 GCA-TACGGTTGCAATTC
*
384289 TACGCGGTTCTTTGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTG-AAAGACACATA
1 TACGCGGTTCTTTGGGACATATGTATATTC-TTGGAACATGTGTGAAGTCTTGAAAAGACACATA
384353 CTTGATCCATAGTATATGTATATGATTCTTAAGGAA-TCTATGTGGTCCTTATGGACATCATTAT
65 CTTGATCCATAG--TATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
384417 ATGGCATACGGTTGCAATTC
128 ATGGCATACGGTTGCAATTC
384437 TACG
1 TACG
384441 GGGCACTTCG
Statistics
Matches: 145, Mismatches: 3, Indels: 7
0.94 0.02 0.05
Matches are distributed among these distances:
147 56 0.39
148 67 0.46
149 22 0.15
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.36
Consensus pattern (147 bp):
TACGCGGTTCTTTGGGACATATGTATATTCTTGGAACATGTGTGAAGTCTTGAAAAGACACATAC
TTGATCCATAGTATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATATG
GCATACGGTTGCAATTC
Found at i:385738 original size:24 final size:24
Alignment explanation
Indices: 385711--385758 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
385701 TATGCTTCTT
385711 GAACTATGAGATTGATGTAAAGGA
1 GAACTATGAGATTGATGTAAAGGA
385735 GAACTATGAGATTGATGTAAAGGA
1 GAACTATGAGATTGATGTAAAGGA
385759 TTGTTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.25
Consensus pattern (24 bp):
GAACTATGAGATTGATGTAAAGGA
Found at i:386183 original size:35 final size:35
Alignment explanation
Indices: 386133--386206 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
386123 TTCATGTTCA
* * *
386133 AAATTCTAAAGTAATTCAATTTCATTCTAAACCCT
1 AAATTCCAAAATAATTCAATTACATTCTAAACCCT
*
386168 AAATTCCAAAATAATTCAATTACATTCTAAACCTT
1 AAATTCCAAAATAATTCAATTACATTCTAAACCCT
386203 AAAT
1 AAAT
386207 CGAAGTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (35 bp):
AAATTCCAAAATAATTCAATTACATTCTAAACCCT
Done.