Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007979.1 Hibiscus syriacus cultivar Beakdansim tig00110418_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: 2767453
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 13
Found at i:180123 original size:113 final size:113
Alignment explanation
Indices: 179988--180643 Score: 1068
Period size: 113 Copynumber: 5.8 Consensus size: 113
179978 GATAGAATTA
* *
179988 TTGAACAAGTTCTTCTTA-TATGAACTTCTTCTTCCTTC-TCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * *
180051 CTTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGCAAAAGG
66 CTTTCTCTGGAAAAGATGATCCATCAA-ATGATGGATTCAAGTAAAAGG
*
180100 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * * * *
180165 CTTTATCTGGAAAAGCTGATCCATCAAGTAATGAATTCAGGTAAAATG
66 CTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAAGTAAAAGG
180213 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
180278 CTTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGTAAAAGG
66 CTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAAGTAAAAGG
*
180326 TTGAACAAATTCTTCTCATTATGAAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
180391 CTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAAGTAAAAGG
66 CTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAAGTAAAAGG
*
180439 TTGAACAAATTCTTCTCATTATGAAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
180504 CTTTCTCTGGAAAAGCTGATCCATCAAA--ATGGATTCAAGTAAAAGG
66 CTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAAGTAAAAGG
180550 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* **
180615 CTTTCTCTGGAAATGACAATCCATCAAAT
66 CTTTCTCTGGAAAAGATGATCCATCAAAT
180644 AATAGATTTG
Statistics
Matches: 514, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
111 106 0.21
112 16 0.03
113 343 0.67
114 49 0.10
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (113 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAAGTAAAAGG
Found at i:181709 original size:88 final size:83
Alignment explanation
Indices: 181441--181713 Score: 431
Period size: 83 Copynumber: 3.2 Consensus size: 83
181431 CTTATTTCTA
* *
181441 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAC
1 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
181506 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
181524 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
181589 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
181607 CTATGAGCACATTCATCATCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATCCAATAAC
1 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAG-----ATAAC
*
181672 TCAAAGAAAACTTCCAGAAGATG
61 TCAAAGAACACTTCCAGAAGATG
181695 CTATTG-GCAAATTCATCTT
1 CTA-TGAGCAAATTCATCTT
181714 TCAGTTAATG
Statistics
Matches: 177, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
83 134 0.76
88 41 0.23
89 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:182857 original size:8 final size:8
Alignment explanation
Indices: 182844--182885 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
182834 TTGACCCCTC
182844 TTTTTCTT
1 TTTTTCTT
182852 TTTTTCTTT
1 TTTTTC-TT
182861 TTTTTCTT
1 TTTTTCTT
*
182869 CTTTTCTT
1 TTTTTCTT
*
182877 TTTCTCTT
1 TTTTTCTT
182885 T
1 T
182886 CTTCTTCAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:182866 original size:17 final size:17
Alignment explanation
Indices: 182844--182879 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
182834 TTGACCCCTC
*
182844 TTTTTCTTTTTTTCTTT
1 TTTTTCTTCTTTTCTTT
182861 TTTTTCTTCTTTTCTTT
1 TTTTTCTTCTTTTCTTT
182878 TT
1 TT
182880 CTCTTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTCTTCTTTTCTTT
Found at i:182872 original size:20 final size:20
Alignment explanation
Indices: 182846--182891 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 20
182836 GACCCCTCTT
*
182846 TTTCTTTTTTTC-TTTT-T-
1 TTTCTTCTTTTCTTTTTCTC
182863 TTTCTTCTTTTCTTTTTCTC
1 TTTCTTCTTTTCTTTTTCTC
182883 TTTCTTCTT
1 TTTCTTCTT
182892 CAAGCATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 11 0.44
18 4 0.16
19 1 0.04
20 9 0.36
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTCTTCTTTTCTTTTTCTC
Found at i:193560 original size:17 final size:17
Alignment explanation
Indices: 193538--193572 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
193528 AAAATAAAAC
*
193538 ATATAAATATTATGAAA
1 ATATAAAAATTATGAAA
*
193555 ATATAAAAATTTTGAAA
1 ATATAAAAATTATGAAA
193572 A
1 A
193573 GAAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
ATATAAAAATTATGAAA
Found at i:194267 original size:13 final size:13
Alignment explanation
Indices: 194223--194269 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
194213 CTTTTCTTTG
*
194223 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
194237 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
194249 TTTATTTAAAATAA
1 -ATATTTAAAATAA
194263 ATATTTA
1 ATATTTA
194270 TTTATTATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:195695 original size:3 final size:3
Alignment explanation
Indices: 195687--195754 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
195677 AATATATATT
*
195687 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
195735 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
195755 TGGGTAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:196158 original size:85 final size:86
Alignment explanation
Indices: 195990--196159 Score: 236
Period size: 85 Copynumber: 2.0 Consensus size: 86
195980 TATATGTGTG
* *
195990 ACACATAGCCAAGCTTACAATTGTTAGAAGAGACATATATATCCGTATAAGCATGAATCAATAAA
1 ACACACAGCCAAGCTTACAATTGTTAGAAGAGAC--A-ATATCCGTATAAGCATGAACCAATAAA
***
196055 ACACTTGAAAAGGCAATGAATGAC
63 ACACTTGAAAAAAAAATGAATGAC
*
196079 ACACACAGCCAAGCTTACAATTGTTAGAAGAGAC-GTATCCGTATAAGCATGAACCAATAAAACA
1 ACACACAGCCAAGCTTACAATTGTTAGAAGAGACAATATCCGTATAAGCATGAACCAATAAAACA
196143 CTT-AACAAAAAAATGAA
66 CTTGAA-AAAAAAATGAA
196160 CTACCTTCTT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
84 2 0.03
85 39 0.53
89 33 0.45
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (86 bp):
ACACACAGCCAAGCTTACAATTGTTAGAAGAGACAATATCCGTATAAGCATGAACCAATAAAACA
CTTGAAAAAAAAATGAATGAC
Found at i:197457 original size:27 final size:29
Alignment explanation
Indices: 197413--197471 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 29
197403 CATTTATGTG
* * * *
197413 TGAAACATATACTTTTCT-TTGTTTGA-A
1 TGAAACAAATAATATTCTCTTGGTTGATA
197440 TGAAACAAATAATATTCTCTTGGTTGATA
1 TGAAACAAATAATATTCTCTTGGTTGATA
197469 TGA
1 TGA
197472 CATAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 15 0.58
28 7 0.27
29 4 0.15
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (29 bp):
TGAAACAAATAATATTCTCTTGGTTGATA
Found at i:198169 original size:3 final size:3
Alignment explanation
Indices: 198161--198227 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
198151 TCTTTCGCCC
198161 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
198209 GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG G
198228 TTACTTTGGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:198550 original size:11 final size:11
Alignment explanation
Indices: 198503--198553 Score: 50
Period size: 11 Copynumber: 4.4 Consensus size: 11
198493 CATGTTTGAT
198503 AATAATATTAA
1 AATAATATTAA
198514 AA-AATATTTAA
1 AATAATA-TTAA
*
198525 TAATATATTTATAA
1 -AATA-ATAT-TAA
198539 AATAATATTAA
1 AATAATATTAA
198550 AATA
1 AATA
198554 TAAAAGTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
10 4 0.12
11 13 0.39
12 5 0.15
13 6 0.18
14 5 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATAATATTAA
Found at i:201758 original size:22 final size:22
Alignment explanation
Indices: 201716--201760 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
201706 AATCGTTGTC
*
201716 AAAAGAGAGTATTGATGCTACT
1 AAAAGAGAGTATTGATACTACT
*
201738 AAAAGGGAGTATT-ATTACTACT
1 AAAAGAGAGTATTGA-TACTACT
201760 A
1 A
201761 TTATAAGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (22 bp):
AAAAGAGAGTATTGATACTACT
Found at i:207283 original size:2 final size:2
Alignment explanation
Indices: 207276--207317 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
207266 ATGAGCTTTA
207276 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
207318 GCATGTTGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:208619 original size:19 final size:19
Alignment explanation
Indices: 208569--208650 Score: 76
Period size: 20 Copynumber: 4.2 Consensus size: 19
208559 ATTAAATGTT
* *
208569 GATTTTAGGTTGGAACCTA
1 GATTTTAGGTTGCAACCCA
* * *
208588 TAATTTTAAGTTGCAAGCCA
1 -GATTTTAGGTTGCAACCCA
208608 TG-TTTTAGGTTGCAACCCA
1 -GATTTTAGGTTGCAACCCA
*
208627 GAATTTTAGGTTGCAAACCA
1 G-ATTTTAGGTTGCAACCCA
208647 GATT
1 GATT
208651 CTTTTTAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
18 1 0.02
19 18 0.35
20 32 0.63
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (19 bp):
GATTTTAGGTTGCAACCCA
Found at i:211227 original size:90 final size:89
Alignment explanation
Indices: 211117--211371 Score: 410
Period size: 90 Copynumber: 2.9 Consensus size: 89
211107 ATTTAATTTC
*
211117 AATT-AATTAATTAAATATAGATTTAATTAATTTGAAATAAAAAAATCCTCAATATGATTAGGGT
1 AATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCTCAATATGATTAGGGT
211181 AACTTGGATATAAGAGGATTATTAA
66 AACTTGGATATAAGAGGATTA-TAA
* *
211206 ATTTCAGTTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAT-CTCCAATATGATTAGGG
1 AATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCT-CAATATGATTAGGG
*
211270 TAACTCGGATATAAGAGGATTATAA
65 TAACTTGGATATAAGAGGATTATAA
211295 AATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCAT-AATATGATTAGGG
1 AATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCC-TCAATATGATTAGGG
*
211358 TAACTTGGCTATAA
65 TAACTTGGATATAA
211372 AAGGGTGTGT
Statistics
Matches: 154, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
88 25 0.16
89 53 0.34
90 76 0.49
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (89 bp):
AATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCTCAATATGATTAGGGT
AACTTGGATATAAGAGGATTATAA
Found at i:211822 original size:25 final size:25
Alignment explanation
Indices: 211763--211822 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 25
211753 TGTCATAACC
* *
211763 ATTTTAAAAAAAATAATTATTTATT
1 ATTTAAAAAAAAATAATGATTTATT
*
211788 ATTTTAAAAAAACAATTATGATTT-TT
1 A-TTTAAAAAAA-AATAATGATTTATT
*
211814 ATTTGAAAA
1 ATTTAAAAA
211823 TTTTAGTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 8 0.28
26 12 0.41
27 9 0.31
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (25 bp):
ATTTAAAAAAAAATAATGATTTATT
Found at i:230164 original size:21 final size:21
Alignment explanation
Indices: 230135--230193 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
230125 CATAGAAGTC
* *
230135 GGACTGTCACGACAGCATAGT
1 GGACCGTCACGTCAGCATAGT
230156 GGACCGTCACGTCAGCATAGT
1 GGACCGTCACGTCAGCATAGT
* *
230177 AGACCATCACGTCAGCA
1 GGACCGTCACGTCAGCA
230194 CCTTGAACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (21 bp):
GGACCGTCACGTCAGCATAGT
Found at i:230653 original size:13 final size:13
Alignment explanation
Indices: 230637--230662 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
230627 TTATTCCTAG
230637 TTGTTAAATGTGA
1 TTGTTAAATGTGA
230650 TTGTTAAATGTGA
1 TTGTTAAATGTGA
230663 GTTTATAGAA
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:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TTGTTAAATGTGA
Found at i:230831 original size:39 final size:39
Alignment explanation
Indices: 230786--230873 Score: 176
Period size: 39 Copynumber: 2.3 Consensus size: 39
230776 TCTCATTGGT
230786 CTGAAGACGCTGTACACTCCTGGAGTCTTCTCAATTCGC
1 CTGAAGACGCTGTACACTCCTGGAGTCTTCTCAATTCGC
230825 CTGAAGACGCTGTACACTCCTGGAGTCTTCTCAATTCGC
1 CTGAAGACGCTGTACACTCCTGGAGTCTTCTCAATTCGC
230864 CTGAAGACGC
1 CTGAAGACGC
230874 CATGCAGGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (39 bp):
CTGAAGACGCTGTACACTCCTGGAGTCTTCTCAATTCGC
Found at i:234880 original size:52 final size:54
Alignment explanation
Indices: 234816--234916 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 54
234806 GATGACGAGT
*
234816 ACTGAACTCTGTTAACCTCTAACATTATTGATACTTCATTCGCT-CATCCTCGG
1 ACTGAACTCTGTTAACCTCTAACATTACTGATACTTCATTCGCTGCATCCTCGG
** * *
234869 ACTGAA-TCTGTTGGCCTCTAGCATTACTGATGCTTCATTCGCTGCATC
1 ACTGAACTCTGTTAACCTCTAACATTACTGATACTTCATTCGCTGCATC
234917 GCAAACTAGC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 32 0.76
53 10 0.24
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.36
Consensus pattern (54 bp):
ACTGAACTCTGTTAACCTCTAACATTACTGATACTTCATTCGCTGCATCCTCGG
Found at i:235306 original size:24 final size:24
Alignment explanation
Indices: 235279--235358 Score: 151
Period size: 24 Copynumber: 3.3 Consensus size: 24
235269 AATCGGGCTT
235279 CCTTCTTCCTTCCGGACATGCCTA
1 CCTTCTTCCTTCCGGACATGCCTA
235303 CCTTCTTCCTTCCGGACATGCCTA
1 CCTTCTTCCTTCCGGACATGCCTA
*
235327 CCTTCTTCCTTCCGGACACGCCTA
1 CCTTCTTCCTTCCGGACATGCCTA
235351 CCTTCTTC
1 CCTTCTTC
235359 GATATCACCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.11, C:0.44, G:0.11, T:0.34
Consensus pattern (24 bp):
CCTTCTTCCTTCCGGACATGCCTA
Found at i:240948 original size:5 final size:5
Alignment explanation
Indices: 240937--240977 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
240927 TCCTCTATTT
* * *
240937 CTTTC TTTTC TTTTC CTTTC TTTTC CTTTC CTTTC CTTTC C
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC C
240978 ATTATTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (5 bp):
CTTTC
Found at i:240955 original size:15 final size:15
Alignment explanation
Indices: 240937--240977 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
240927 TCCTCTATTT
*
240937 CTTTCTTTTCTTTTC
1 CTTTCTTTTCCTTTC
240952 CTTTCTTTTCCTTTC
1 CTTTCTTTTCCTTTC
*
240967 CTTTCCTTTCC
1 CTTTCTTTTCC
240978 ATTATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (15 bp):
CTTTCTTTTCCTTTC
Found at i:240956 original size:10 final size:10
Alignment explanation
Indices: 240934--240976 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
240924 GGTTCCTCTA
*
240934 TTTC-TTTCT
1 TTTCTTTTCC
240943 TTTCTTTTCC
1 TTTCTTTTCC
240953 TTTCTTTTCC
1 TTTCTTTTCC
*
240963 TTTCCTTTCC
1 TTTCTTTTCC
240973 TTTC
1 TTTC
240977 CATTATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 4 0.13
10 27 0.87
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTTTCC
Found at i:242714 original size:2 final size:2
Alignment explanation
Indices: 242705--242756 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
242695 CTTTTGTGTG
242705 TA TA -A 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
242746 TA TA TA TA TA T
1 TA TA TA TA TA T
242757 GAGTTAAGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:243915 original size:18 final size:18
Alignment explanation
Indices: 243889--243933 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
243879 TCAAAGAATG
243889 TAAGATTACCGACAAGAA
1 TAAGATTACCGACAAGAA
* **
243907 TATGATTACCGACGGGAA
1 TAAGATTACCGACAAGAA
243925 TAAGATTAC
1 TAAGATTAC
243934 TGAGAATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (18 bp):
TAAGATTACCGACAAGAA
Found at i:247782 original size:15 final size:15
Alignment explanation
Indices: 247762--247792 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
247752 CAACAAATAG
247762 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
247777 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
247792 A
1 A
247793 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:247988 original size:20 final size:20
Alignment explanation
Indices: 247952--247989 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
247942 ATCCTATTCC
**
247952 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
247972 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
247990 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:251040 original size:18 final size:18
Alignment explanation
Indices: 250999--251040 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
250989 AAAAAACAAT
*
250999 ATTCGAACAATTGTTTAA
1 ATTCTAACAATTGTTTAA
**
251017 GGTCTAACAATTGTTTAA
1 ATTCTAACAATTGTTTAA
251035 ATTCTA
1 ATTCTA
251041 TCCAAATTAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
ATTCTAACAATTGTTTAA
Found at i:252282 original size:36 final size:36
Alignment explanation
Indices: 252235--252317 Score: 166
Period size: 36 Copynumber: 2.3 Consensus size: 36
252225 AATGAGAATA
252235 ATAAAACATTTAAAAACACTTTCTTATTCAATCCAT
1 ATAAAACATTTAAAAACACTTTCTTATTCAATCCAT
252271 ATAAAACATTTAAAAACACTTTCTTATTCAATCCAT
1 ATAAAACATTTAAAAACACTTTCTTATTCAATCCAT
252307 ATAAAACATTT
1 ATAAAACATTT
252318 CATATTGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (36 bp):
ATAAAACATTTAAAAACACTTTCTTATTCAATCCAT
Found at i:252733 original size:30 final size:30
Alignment explanation
Indices: 252676--252733 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
252666 ACTTTTCCAT
* *
252676 AGCATTTTCACGTAGAAAACATCCATATAA
1 AGCACTTTCACATAGAAAACATCCATATAA
* * *
252706 AGCACTTTCACATGGAACACATTCATAT
1 AGCACTTTCACATAGAAAACATCCATAT
252734 GTTAATAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (30 bp):
AGCACTTTCACATAGAAAACATCCATATAA
Found at i:267531 original size:32 final size:31
Alignment explanation
Indices: 267476--267539 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
267466 ATAGATAGAT
267476 TTATTGCGGCGTTTTTCAAAAAACCGACATTA
1 TTATTGCGGCGTTTTTCAAAAAA-CGACATTA
* * *
267508 TTATTGCGGC-TTTATTGATAAAACGCCATTA
1 TTATTGCGGCGTTT-TTCAAAAAACGACATTA
267539 T
1 T
267540 AAATGGATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (31 bp):
TTATTGCGGCGTTTTTCAAAAAACGACATTA
Found at i:269083 original size:41 final size:41
Alignment explanation
Indices: 269038--269191 Score: 263
Period size: 41 Copynumber: 3.8 Consensus size: 41
269028 ATTCACGTTG
* * *
269038 CATTTCACATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
269079 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
269120 CATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
269161 CATTTCGCGTTGCGATAGTTGAAAATCGCGT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGT
269192 CGCGTTGCGA
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 106 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:269175 original size:20 final size:20
Alignment explanation
Indices: 269063--269176 Score: 111
Period size: 20 Copynumber: 5.6 Consensus size: 20
269053 TAGTTGAAAA
*
269063 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
269083 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
269104 TCGCATTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** *
269124 TCGCGTTGCGATAGTTGAAAT
1 TCGCGTTGCGAT-TTTCCATT
269145 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
269165 TCGCGTTGCGAT
1 TCGCGTTGCGAT
269177 AGTTGAAAAT
Statistics
Matches: 71, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
20 41 0.58
21 30 0.42
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:269220 original size:22 final size:21
Alignment explanation
Indices: 269193--269287 Score: 79
Period size: 22 Copynumber: 4.5 Consensus size: 21
269183 AAATCGCGTC
269193 GCGTTGCGATAGTCTGCAGTT
1 GCGTTGCGATAGTCTGCAGTT
* * *
269214 GTCGTTGCGAT--TTTCCATTT
1 G-CGTTGCGATAGTCTGCAGTT
* * *
269234 CGCGTTGCGATAGT-TGAAAATC
1 -GCGTTGCGATAGTCTG-CAGTT
269256 GCGTTGCGATAGTCTGCAGTT
1 GCGTTGCGATAGTCTGCAGTT
269277 GTCGTTGCGAT
1 G-CGTTGCGAT
269288 TTTCCAAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
20 15 0.26
21 19 0.33
22 23 0.40
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.36
Consensus pattern (21 bp):
GCGTTGCGATAGTCTGCAGTT
Found at i:269290 original size:63 final size:64
Alignment explanation
Indices: 269124--269293 Score: 256
Period size: 68 Copynumber: 2.6 Consensus size: 64
269114 ATTTTCCATT
* *
269124 TCGCGTTGCGATAGT-TGAAATTCG-CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAAT
1 TCGCGTTGCGATAGTCTGCAGTT-GTCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA-
269187 CGC
64 --C
269190 GTCGCGTTGCGATAGTCTGCAGTTGTCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA-
1 -TCGCGTTGCGATAGTCTGCAGTTGTCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAAC
269254 TCGCGTTGCGATAGTCTGCAGTTGTCGTTGCGATTTTCCA
1 TCGCGTTGCGATAGTCTGCAGTTGTCGTTGCGATTTTCCA
269294 AATTCGTTGA
Statistics
Matches: 99, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
63 40 0.40
67 16 0.16
68 43 0.43
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (64 bp):
TCGCGTTGCGATAGTCTGCAGTTGTCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAAC
Found at i:269362 original size:6 final size:6
Alignment explanation
Indices: 269351--269382 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
269341 AGATAGTATC
269351 CGACCA CGACCA CGACCA CGACCA CGA-CA CGA
1 CGACCA CGACCA CGACCA CGACCA CGACCA CGA
269383 GACGAGACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.34, C:0.47, G:0.19, T:0.00
Consensus pattern (6 bp):
CGACCA
Found at i:269874 original size:5 final size:5
Alignment explanation
Indices: 269860--269895 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
269850 CCGCCGCCGC
269860 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
269896 GGTCGTGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.00, C:0.42, G:0.22, T:0.36
Consensus pattern (5 bp):
CGTCT
Found at i:269901 original size:15 final size:15
Alignment explanation
Indices: 269867--269901 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
269857 CGCCGTCCGT
*
269867 CTCGTCTCGTCTCGT
1 CTCGTCTCGTCTCGG
269882 CTCGTCTCGTCTCGG
1 CTCGTCTCGTCTCGG
*
269897 GTCGT
1 CTCGT
269902 GGTCGTGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.37, G:0.26, T:0.37
Consensus pattern (15 bp):
CTCGTCTCGTCTCGG
Found at i:269907 original size:6 final size:6
Alignment explanation
Indices: 269896--269946 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
269886 TCTCGTCTCG
269896 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
269944 GGT
1 GGT
269947 AATACGTGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:270093 original size:41 final size:42
Alignment explanation
Indices: 270018--270119 Score: 156
Period size: 41 Copynumber: 2.5 Consensus size: 42
270008 AAAATCTTTT
* *
270018 TTTTTAACTATCGCAA--CGAATTTGGAAAATCGCAACGCGA
1 TTTTCAACTATCGCAACGCGAATATGGAAAATCGCAACGCGA
270058 TTTTCAACTATCGCAACGCGAA-ATGGAAAATCGCAACGCGA
1 TTTTCAACTATCGCAACGCGAATATGGAAAATCGCAACGCGA
*
270099 ATTTCAACTATCGCAACGCGA
1 TTTTCAACTATCGCAACGCGA
270120 TTTTCAACTA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 15 0.26
41 38 0.67
42 4 0.07
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
TTTTCAACTATCGCAACGCGAATATGGAAAATCGCAACGCGA
Found at i:270148 original size:21 final size:21
Alignment explanation
Indices: 270046--270141 Score: 131
Period size: 21 Copynumber: 4.6 Consensus size: 21
270036 AATTTGGAAA
*
270046 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAATTTCAACT
* ** *
270067 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAATTTCAACT
270087 ATCGCAACGCGAATTTCAACT
1 ATCGCAACGCGAATTTCAACT
*
270108 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAATTTCAACT
270129 ATCGCAACGCGAA
1 ATCGCAACGCGAA
270142 ATGCAACGCG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.25
21 47 0.75
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAATTTCAACT
Found at i:277963 original size:22 final size:22
Alignment explanation
Indices: 277920--277963 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
277910 ACTATTATAG
**
277920 ATGTTAAAAATATAAACGTTTA
1 ATGTTAAAAATATAAAAATTTA
277942 ATGTTAAAAA-ATTAAAAATTTA
1 ATGTTAAAAATA-TAAAAATTTA
277964 TCTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (22 bp):
ATGTTAAAAATATAAAAATTTA
Found at i:279335 original size:229 final size:226
Alignment explanation
Indices: 278930--279377 Score: 781
Period size: 229 Copynumber: 2.0 Consensus size: 226
278920 GTAAATTATC
* *
278930 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATATTTAGT
**
278995 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
279060 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG-AACACTATT-AAAAAAATT
279125 GAAACATAAA-TACATAACTTTCAAAAAAGTATA
194 GAAACATAAATTACATAACTTT-AAAAAAGTATA
*
279158 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAATATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAATATATTTATTATTATATTTAG
*
279223 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
279288 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAACACTATTAAATAAATTG
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAACACTATTAAAAAAATTG
279353 AAACATAAATTACATAACTTTAAAA
195 AAACATAAATTACATAACTTTAAAA
279378 GCAGTTATAA
Statistics
Matches: 210, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
227 22 0.10
228 56 0.27
229 132 0.63
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAACACTATTAAAAAAATTGA
AACATAAATTACATAACTTTAAAAAAGTATA
Found at i:279632 original size:20 final size:18
Alignment explanation
Indices: 279609--279654 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
279599 CGATATAACA
279609 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGAT-AAACC
*
279629 GGTATCAAAATGATAAACC
1 GGTA-AAAAATGATAAACC
279648 GGTAAAA
1 GGTAAAA
279655 TGATACCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 9 0.39
20 9 0.39
21 3 0.13
ACGTcount: A:0.52, C:0.11, G:0.17, T:0.20
Consensus pattern (18 bp):
GGTAAAAAATGATAAACC
Found at i:281928 original size:21 final size:21
Alignment explanation
Indices: 281883--281945 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
281873 GACAATCAAA
* *
281883 AGTCGAAGAGAAACTTGATCA-
1 AGTCGAAGAGAAACTCGA-GAG
*
281904 AGTCGTAGAGAAACTCGAGAG
1 AGTCGAAGAGAAACTCGAGAG
* *
281925 AGTCGAAGATACACTCGAGAG
1 AGTCGAAGAGAAACTCGAGAG
281946 CCATAAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.40, C:0.16, G:0.29, T:0.16
Consensus pattern (21 bp):
AGTCGAAGAGAAACTCGAGAG
Found at i:282021 original size:33 final size:33
Alignment explanation
Indices: 281979--282044 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
281969 CAATAGATGG
*
281979 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
282012 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
282045 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:283854 original size:19 final size:19
Alignment explanation
Indices: 283830--283878 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
283820 AATGTAGGGT
283830 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
283849 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
283868 T-ATTTTCGTAT
1 TAATTTT-GTAT
283879 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:285063 original size:198 final size:198
Alignment explanation
Indices: 284003--285081 Score: 2087
Period size: 197 Copynumber: 5.5 Consensus size: 198
283993 GGCCAAAAGG
284003 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
284068 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
284133 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
284198 AAT
196 AAT
*
284201 ATGTAATTTTTCAATCTAACCGGTATAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
284266 TGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
*
284330 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
284395 AAT
196 AAT
284398 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
284463 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
284528 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
284592 AAT
196 AAT
284595 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
284660 TGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
284724 ATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
284787 AAT
196 AAT
284790 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
284855 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
284920 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
284985 AAT
196 AAT
284988 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
285053 TGTCGACACTAATATAGTTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
285082 CTAATTTAAA
Statistics
Matches: 868, Mismatches: 8, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
194 20 0.02
195 124 0.14
196 98 0.11
197 317 0.37
198 309 0.36
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (198 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AAT
Found at i:286259 original size:183 final size:183
Alignment explanation
Indices: 285951--287851 Score: 3573
Period size: 183 Copynumber: 10.4 Consensus size: 183
285941 CTTTCAACAT
** * * * * * * *
285951 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGATTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
286016 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
286081 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
286134 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
286199 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
286264 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
286317 ATTATAATGTAATAGATAATTTTTTAATATAACAGGTAT-AA-ATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
286380 -GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
286444 AATGTGTCGATACGATTT-AAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
286496 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
286561 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
286626 AATGTGTCGATACGATTTAAAAAAGTGTCAACATTTACACATCGGAACTCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
286679 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
286744 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
286809 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
286862 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
286927 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* * *
286992 AATGTGTCGATAAGATTTAAAAAAGTGTCGACATTTACACTTCGGAATCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
287045 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
*
287110 GGTCTACAACCTATATCGACACTTTTCAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
287175 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
287228 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
287293 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
287358 AATGTGTCGATACGATTT-AAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
287410 ATTATAATGTAATAGATAATTTTGT-A-ATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
287473 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
287538 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
287591 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
287656 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
287721 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* * *
287774 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
*
287839 TGTCTACAACCTA
66 GGTCTACAACCTA
287852 AAATGTGTCG
Statistics
Matches: 1684, Mismatches: 27, Indels: 14
0.98 0.02 0.01
Matches are distributed among these distances:
179 72 0.04
180 204 0.12
181 104 0.06
182 144 0.09
183 1160 0.69
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:287801 original size:912 final size:911
Alignment explanation
Indices: 285951--287851 Score: 3608
Period size: 912 Copynumber: 2.1 Consensus size: 911
285941 CTTTCAACAT
** * * * *
285951 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGATTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
286016 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
286081 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
131 AATGTGTCGATAAGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
286146 TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
196 TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
*
286211 ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
261 ATATCGACACTTTTCAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
*
286276 CGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTT
326 CGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTG
286341 TAATATAACAGGTATAAATACCGGTTGTATGAGCGAATAGTCTACAACCTATATCGACACTTTTT
391 TAATATAACAGGTATAAATACCGGTTGTATGAGCGAATAGTCTACAACCTATATCGACACTTTTT
286406 AATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAGTGT
456 AATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAGTGT
286471 CGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACAGGTATA
521 CGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACAGGTATA
286536 AATATACCGGTTGTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGG
586 AATATACCGGTTGTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGG
286601 TACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCAACATTTACAC
651 TACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCAACATTTACAC
*
286666 ATCGGAACTCATAATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTT
716 ATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTT
286731 GTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
781 GTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
286796 ATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAT
846 ATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAT
286861 A
911 A
* * *
286862 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
286927 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
286992 AATGTGTCGATAAGATTTAAAAAAGTGTCGACATTTACACTTCGGAATCCATAATTATAATGTAA
131 AATGTGTCGATAAGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
287057 TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
196 TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
287122 ATATCGACACTTTTCAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
261 ATATCGACACTTTTCAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
287187 CGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTG
326 CGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTG
287252 TAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCTATATCGACACTT
391 TAATATAACAGGTAT-AA-ATACCGGTTGTATGAGCGAATA-GTCTACAACCTATATCGACACTT
287317 TTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAG
453 TTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAG
287382 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGT-A-ATAACAGGT
518 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACAGGT
287445 ATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGT
583 ATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGT
*
287510 CGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTA
648 CGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCAACATTTA
287575 CACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCG
713 CACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCG
287640 GTTGTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATG
778 GTTGTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATG
287705 TCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACC
843 TCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACC
287770 CATA
908 CATA
287774 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
287839 TGTCTACAACCTA
66 GGTCTACAACCTA
287852 AAATGTGTCG
Statistics
Matches: 967, Mismatches: 20, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
911 391 0.40
912 412 0.43
913 23 0.02
914 141 0.15
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (911 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATAAGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
ATATCGACACTTTTCAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
CGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTG
TAATATAACAGGTATAAATACCGGTTGTATGAGCGAATAGTCTACAACCTATATCGACACTTTTT
AATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAGTGT
CGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACAGGTATA
AATATACCGGTTGTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGG
TACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCAACATTTACAC
ATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTT
GTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
ATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAT
A
Found at i:290359 original size:22 final size:23
Alignment explanation
Indices: 290334--290384 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 23
290324 TAACTACAAG
*
290334 TATATAATGTAATAGGTATCG-T
1 TATATAATGTAATAGGTAGCGCT
290356 TATATAATGTAATAGGTAGCGCT
1 TATATAATGTAATAGGTAGCGCT
290379 TATATA
1 TATATA
290385 TATATTGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (23 bp):
TATATAATGTAATAGGTAGCGCT
Found at i:290836 original size:18 final size:18
Alignment explanation
Indices: 290815--290851 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
290805 GTAATTGGAG
290815 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
290833 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
290851 T
1 T
290852 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:290859 original size:24 final size:24
Alignment explanation
Indices: 290807--290853 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
290797 TTTCATATGT
* *
290807 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
290831 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
290854 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:291150 original size:39 final size:39
Alignment explanation
Indices: 291107--291193 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
291097 TCCGATGCTC
*
291107 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
291146 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
291185 ATCAAAATC
1 ATCAAAATC
291194 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:291659 original size:23 final size:23
Alignment explanation
Indices: 291609--291680 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
291599 ATAGGTAAAA
*
291609 ATATGATGTAATA-GTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
291631 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
291654 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
291677 ATAT
1 ATAT
291681 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 12 0.28
23 31 0.72
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:292064 original size:22 final size:21
Alignment explanation
Indices: 292034--292090 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
292024 AATAGGTAAA
*
292034 ATATGATGTAATAGTAGCGCTT
1 ATATAATGTAATAGTAGCG-TT
*
292056 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATA-GTAGCGTT
292078 -TATAATGTAATAG
1 ATATAATGTAATAG
292091 GTAGTGGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 1 0.03
21 12 0.38
22 14 0.44
23 5 0.16
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (21 bp):
ATATAATGTAATAGTAGCGTT
Found at i:292083 original size:21 final size:23
Alignment explanation
Indices: 292034--292103 Score: 83
Period size: 21 Copynumber: 3.2 Consensus size: 23
292024 AATAGGTAAA
*
292034 ATATGATGTAATA-GTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
292056 ATATAATGTAATAGGTATCG-TT
1 ATATAATGTAATAGGTAGCGCTT
* *
292078 -TATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
292100 ATAT
1 ATAT
292104 TGTAAAGTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 17 0.41
22 16 0.39
23 8 0.20
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:292251 original size:426 final size:426
Alignment explanation
Indices: 291399--292441 Score: 1892
Period size: 426 Copynumber: 2.5 Consensus size: 426
291389 TTATCTTTGG
291399 TTAATGTTGTTAAATTAAAAATTC-AAATAATATTTTATAAAATATCAAAAAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATA-TTTATAAAATATCAAAAAATCAAATAATTTT
291463 TTGTGCAAATG-AATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
65 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
*
291527 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGGTATGGACACTTT
130 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
291592 CAATATAATAGGTAAAAATATGATGTAATAGTAGCGCTTATATAATGTAATAGGTATCGTTTATA
195 CAATATAATAGGTAAAAATATGATGTAATAGTAGCGCTTATATAATGTAATAGGTATCGTTTATA
291657 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
260 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
291722 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTTTAGTAATTA
325 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTTTAGTAATTA
291787 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATA
390 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATA
291824 TTTAATGTTGTTAAATTAAAAATTCTAAATAATATTTATAAAATATCAAAAAATCAAATAA-TTT
1 -TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTATAAAATATCAAAAAATCAAATAATTTT
291888 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
65 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
291953 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
130 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
292018 CAATATAATAGGT-AAAATATGATGTAATAGTAGCGCTTATATAATGTAATAGGTATCG-TT-TA
195 CAATATAATAGGTAAAAATATGATGTAATAGTAGCGCTTATATAATGTAATAGGTATCGTTTATA
292080 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
260 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
*
292145 TTCACTGTTG-AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAA
325 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGA-TTT--TTTAGTAA
292209 TTATAGGCGTCTAATGA-TTATTTTTTACGTTACGATATA
387 TTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATA
* * * *
292248 -TATTATTATTAAATTAAAAATTCTAAATAATATTT-TAAAATATCAAATAATCAAATAATTTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTATAAAATATCAAAAAATCAAATAATTTTT
*
292311 TGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-CAAAAAATT
66 TGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATT
*
292375 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAATGTATGGACACTTTC
131 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
292440 AA
196 AA
292442 CATATTATAA
Statistics
Matches: 603, Mismatches: 8, Indels: 17
0.96 0.01 0.03
Matches are distributed among these distances:
421 96 0.16
422 131 0.22
423 79 0.13
424 24 0.04
425 84 0.14
426 181 0.30
427 8 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (426 bp):
TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTATAAAATATCAAAAAATCAAATAATTTTT
TGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATT
GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
AATATAATAGGTAAAAATATGATGTAATAGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
AATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTT
TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTTTAGTAATTAT
AGGCGTCTAATGATTTATTTTTTACGTTACGATATA
Found at i:292970 original size:20 final size:20
Alignment explanation
Indices: 292941--293078 Score: 200
Period size: 20 Copynumber: 7.2 Consensus size: 20
292931 TACATATTCA
*
292941 CAATGTGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
292961 CAATGCGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
292981 CAATGCGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
*
293001 CAATGCGAATATGTAAATCA
1 CAATGCGAATATGTAAATCG
293021 CAATGCGAATATG----T--
1 CAATGCGAATATGTAAATCG
293035 -AATGCGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
*
293054 CAACGCGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
293074 CAATG
1 CAATG
293079 AGATTCTGAC
Statistics
Matches: 107, Mismatches: 4, Indels: 14
0.86 0.03 0.11
Matches are distributed among these distances:
13 12 0.11
16 1 0.01
17 1 0.01
20 93 0.87
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (20 bp):
CAATGCGAATATGTAAATCG
Found at i:292981 original size:60 final size:60
Alignment explanation
Indices: 292938--293078 Score: 170
Period size: 53 Copynumber: 2.5 Consensus size: 60
292928 ATTTACATAT
* * *
292938 TCACAATGTGAATATGTAAATCGCAATGCGAATATGTAAATCGCAATGCGAATATGTAAA
1 TCACAATGCGAATATGTAAATCACAATGCGAATATGTAAATCGCAATGAGAATATGTAAA
*
292998 TCGCAATGCGAATATGTAAATCACAATGCGAATATGT-AAT-GC-----GAATATGTAAA
1 TCACAATGCGAATATGTAAATCACAATGCGAATATGTAAATCGCAATGAGAATATGTAAA
* * *
293051 TCGCAACGCGAATATGTAAATCGCAATG
1 TCACAATGCGAATATGTAAATCACAATG
293079 AGATTCTGAC
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
53 37 0.49
58 2 0.03
59 3 0.04
60 34 0.45
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (60 bp):
TCACAATGCGAATATGTAAATCACAATGCGAATATGTAAATCGCAATGAGAATATGTAAA
Found at i:293040 original size:13 final size:13
Alignment explanation
Indices: 293022--293049 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
293012 TGTAAATCAC
293022 AATGCGAATATGT
1 AATGCGAATATGT
293035 AATGCGAATATGT
1 AATGCGAATATGT
293048 AA
1 AA
293050 ATCGCAACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (13 bp):
AATGCGAATATGT
Found at i:293044 original size:33 final size:33
Alignment explanation
Indices: 293002--293069 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
292992 TGTAAATCGC
*
293002 AATGCGAATATGTAAATCACAATGCGAATATGT
1 AATGCGAATATGTAAATCACAACGCGAATATGT
*
293035 AATGCGAATATGTAAATCGCAACGCGAATATGT
1 AATGCGAATATGTAAATCACAACGCGAATATGT
293068 AA
1 AA
293070 ATCGCAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (33 bp):
AATGCGAATATGTAAATCACAACGCGAATATGT
Found at i:293103 original size:20 final size:20
Alignment explanation
Indices: 293070--293195 Score: 155
Period size: 20 Copynumber: 6.3 Consensus size: 20
293060 GAATATGTAA
* *
293070 ATCGCAATGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
293090 ATCACAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
293110 ATCGCAACGAGATTATGACT
1 ATCGCAACGCGATTCTGACT
* * *
293130 ATAGCAACGAGATTATGACT
1 ATCGCAACGCGATTCTGACT
293150 ATCGC-ACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
293169 ATCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
293189 ATCGCAA
1 ATCGCAA
293196 TACGATTTTC
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
19 17 0.18
20 77 0.82
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:293188 original size:59 final size:60
Alignment explanation
Indices: 293073--293195 Score: 167
Period size: 59 Copynumber: 2.1 Consensus size: 60
293063 TATGTAAATC
* * * *
293073 GCAATGAGATTCTGACTATCACAATGCGATTCTGACTATCGCAACGAGATTATGACTATA
1 GCAACGAGATTATGACTATCACAACGCGATTCTGACTATCGCAACGAGATGATGACTATA
* * * *
293133 GCAACGAGATTATGACTATCGC-ACGCGATTCTGACTATCGCAACGCGATGCTGACTATC
1 GCAACGAGATTATGACTATCACAACGCGATTCTGACTATCGCAACGAGATGATGACTATA
293192 GCAA
1 GCAA
293196 TACGATTTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 36 0.65
60 19 0.35
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (60 bp):
GCAACGAGATTATGACTATCACAACGCGATTCTGACTATCGCAACGAGATGATGACTATA
Found at i:293810 original size:20 final size:20
Alignment explanation
Indices: 293785--293893 Score: 130
Period size: 20 Copynumber: 5.4 Consensus size: 20
293775 GAAATTCAGT
* *
293785 GTTGCGACAGTCAGAATCAC
1 GTTGCGATAGTCAGAATCGC
* *
293805 GTTGCGATAGTCAAAATCTC
1 GTTGCGATAGTCAGAATCGC
*
293825 GTTGCGATAATCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
**
293845 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
293866 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
293886 GTTGCGAT
1 GTTGCGAT
293894 TTACATATTC
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
19 2 0.03
20 57 0.76
21 15 0.20
22 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:293881 original size:41 final size:41
Alignment explanation
Indices: 293785--293894 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 41
293775 GAAATTCAGT
* * *
293785 GTTGCGACAGTCAGAATCACGTTGCGA-TAGTCAAAATCTC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTAGTCAAAATCGC
* **
293825 GTTGCGATAATCAGAATCGCGTTGCGATTATGT-ATTATCGC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTA-GTCAAAATCGC
293866 GTTGCGATAGTCAGAATCGCGTTGCGATT
1 GTTGCGATAGTCAGAATCGCGTTGCGATT
293895 TACATATTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 24 0.39
41 35 0.57
42 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (41 bp):
GTTGCGATAGTCAGAATCGCGTTGCGATTAGTCAAAATCGC
Found at i:294943 original size:2 final size:2
Alignment explanation
Indices: 294936--294977 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
294926 AAATTATCTA
294936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
294978 TAACCGGATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:297215 original size:57 final size:56
Alignment explanation
Indices: 297099--297217 Score: 132
Period size: 56 Copynumber: 2.1 Consensus size: 56
297089 TGTGCATCGA
* * * ****
297099 TGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGTCTTG
1 TGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGAGGCATCGATGCATGGAGAG
**
297155 TGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGGGCATCGATGCATGGAGAG
1 TGCATCAAATGCATTCGATG-TTTGAAAAATAGCCAGA-GGCATCGATGCATGGAGAG
297212 TGCATC
1 TGCATC
297218 GGTGCATGGA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
56 28 0.54
57 24 0.46
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (56 bp):
TGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGAGGCATCGATGCATGGAGAG
Found at i:297216 original size:19 final size:19
Alignment explanation
Indices: 297189--297239 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
297179 GAAAATATTC
*
297189 AGAGGGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
297208 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
297227 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
297240 TTCAATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 18 0.64
ACGTcount: A:0.25, C:0.16, G:0.37, T:0.22
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:305781 original size:57 final size:56
Alignment explanation
Indices: 305665--305783 Score: 132
Period size: 56 Copynumber: 2.1 Consensus size: 56
305655 TGTGCATCGA
* * * ****
305665 TGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGTCTTG
1 TGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGAGGCATCGATGCATGGAGAG
**
305721 TGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGGGCATCGATGCATGGAGAG
1 TGCATCAAATGCATTCGATG-TTTGAAAAATAGCCAGA-GGCATCGATGCATGGAGAG
305778 TGCATC
1 TGCATC
305784 GGTGCATGGA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
56 28 0.54
57 24 0.46
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (56 bp):
TGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGAGGCATCGATGCATGGAGAG
Found at i:305782 original size:19 final size:19
Alignment explanation
Indices: 305755--305793 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
305745 GAAAATATTC
305755 AGAGGGCATCGATGCATGG
1 AGAGGGCATCGATGCATGG
* *
305774 AGAGTGCATCGGTGCATGG
1 AGAGGGCATCGATGCATGG
305793 A
1 A
305794 ATGCATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.41, T:0.18
Consensus pattern (19 bp):
AGAGGGCATCGATGCATGG
Found at i:313237 original size:181 final size:181
Alignment explanation
Indices: 312573--314901 Score: 4235
Period size: 181 Copynumber: 12.9 Consensus size: 181
312563 AGACACACTG
312573 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
312638 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
312703 -CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
131 CCCT-TGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
* *
312753 A-ACAGTCATATAACGTGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
312817 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
312882 -CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
131 CCCT-TGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
* *
312932 A-ACAGTCATATAACGTGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
312996 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
*
313061 CCCTTGATTAAGCTTACTTTGAACTTTAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
313112 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
313177 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
313242 -CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
131 CCCT-TGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
* *
313292 A-ACAGTCATATAACGTGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
* * *
313356 TTACTCTATCTATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATAAAAACACAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
313421 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
313472 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
313537 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
313602 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
313653 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
313718 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
313783 -CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
131 CCCT-TGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
* *
313833 A-ACAGTCATATAACGTGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
* *
313897 TTACTCTATCTATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
313962 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
314013 ACACAAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGG
1 ACAC-AGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGG
*
314078 TTTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACA-CAT
65 TTTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAAT
314142 TCCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
130 TCCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
314194 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
314259 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
314324 -CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
131 CCCT-TGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
*
314374 A-ACAGTCA--TAACGTGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
* *
314436 TTACTCTATCTATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
314501 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
314552 ACACAAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGG
1 ACAC-AGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGG
*
314617 TTTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAAT
65 TTTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAAT
314682 TCCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
130 TCCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
314734 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
314799 TTACTCTATATATTACTAGGCTTATTAACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
* *
314864 CCCGTGATTAAGCTTACTTTGAACTTCAACTTCTATTA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTA
314902 ATTGATTTGA
Statistics
Matches: 2090, Mismatches: 39, Indels: 39
0.96 0.02 0.02
Matches are distributed among these distances:
177 159 0.08
178 6 0.00
179 690 0.33
180 162 0.08
181 783 0.37
182 290 0.14
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (181 bp):
ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
Found at i:313291 original size:360 final size:362
Alignment explanation
Indices: 312573--314901 Score: 4235
Period size: 360 Copynumber: 6.5 Consensus size: 362
312563 AGACACACTG
312573 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
312638 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
*
312703 -CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AAA-ACAGTCATATA
131 CCCT-TGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTA
*
312765 ACGTGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATAT
195 ACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATAT
*
312830 TACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT-CCTGTGATTAAG
260 TACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCT-TGATTAAG
312894 CTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
324 CTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
* *
312932 A-ACAGTCATATAACGTGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
312996 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
*
313061 CCCTTGATTAAGCTTACTTTGAACTTTAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAA
313126 CGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATT
196 CGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATT
*
313191 ACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT-CCTGTGATTAAGC
261 ACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCT-TGATTAAGC
313255 TTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
325 TTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
* *
313292 A-ACAGTCATATAACGTGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
* * *
313356 TTACTCTATCTATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATAAAAACACAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
313421 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAA
313486 CGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATT
196 CGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATT
313551 ACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCT
261 ACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCT
313616 TACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
326 TACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
313653 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
313718 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
*
313783 -CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AAA-ACAGTCATATA
131 CCCT-TGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTA
* *
313845 ACGTGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATCTAT
195 ACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATAT
313910 TACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGC
260 TACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGC
313975 TTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
325 TTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
314013 ACACAAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGG
1 ACAC-AGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGG
*
314078 TTTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACA-CAT
65 TTTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAAT
314142 TCCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTA
130 TCCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTA
*
314207 ACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTATTCTATATAT
195 ACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATAT
*
314272 TACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT-CCTGTGATTAAG
260 TACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCT-TGATTAAG
314336 CTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
324 CTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
*
314374 A-ACAGTCA--TAACGTGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
* *
314436 TTACTCTATCTATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
314501 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAAGTCATTTA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAC-AGTCATTTA
314566 ACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATAT
195 ACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATAT
314631 TACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGC
260 TACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGC
314696 TTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
325 TTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
314734 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
314799 TTACTCTATATATTACTAGGCTTATTAACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
* *
314864 CCCGTGATTAAGCTTACTTTGAACTTCAACTTCTATTA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTA
314902 ATTGATTTGA
Statistics
Matches: 1913, Mismatches: 38, Indels: 34
0.96 0.02 0.02
Matches are distributed among these distances:
357 112 0.06
358 226 0.12
359 180 0.09
360 760 0.40
361 151 0.08
362 333 0.17
363 151 0.08
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (362 bp):
ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAA
CGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATT
ACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCT
TACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
Found at i:313755 original size:541 final size:542
Alignment explanation
Indices: 312573--314901 Score: 4485
Period size: 541 Copynumber: 4.3 Consensus size: 542
312563 AGACACACTG
312573 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
312638 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
312703 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATATAACG
131 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATATAACG
*
312768 TGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTAC
196 TGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATCTATTAC
*
312833 TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT-CCTGTGATTAAGCTT
261 TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCT-TGATTAAGCTT
*
312897 ACTTTGAACTTCAATTTCTATTATTAAAAATTT-AAA-AC-AGTCATATAACGTGTGGTCTGCAT
325 ACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAAGTCATTTAACGTGTGGTCTGCAT
*
312959 GGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCA
390 GGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCA
* *
313024 CTGACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTACTTTGAACTTTA
455 CTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTACTTTGAACTTCA
313089 ATTTCTATTATTAAAAATTTAAA
520 ATTTCTATTATTAAAAATTTAAA
313112 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
313177 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
313242 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATATAACG
131 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATATAACG
313307 TGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATCTATTAC
196 TGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATCTATTAC
*
313372 TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATAAAAACACAATTCCCTTGATTAAGCTTA
261 TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTA
313437 CTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAC-AGTCATTTAACGTGTGGTCTGCATG
326 CTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAAGTCATTTAACGTGTGGTCTGCATG
313501 GTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCAC
391 GTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCAC
313566 TGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTACTTTGAACTTCAA
456 TGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTACTTTGAACTTCAA
313631 TTTCTATTATTAAAAATTTAAA
521 TTTCTATTATTAAAAATTTAAA
313653 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
313718 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
313783 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATATAACG
131 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATATAACG
313848 TGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATCTATTAC
196 TGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATCTATTAC
313913 TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTA
261 TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTA
313978 CTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAAGTCATTTAACGTGTGGTCTGCATG
326 CTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAAGTCATTTAACGTGTGGTCTGCATG
314043 GTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCAC
391 GTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCAC
314108 TGACCATTTCTCACTTCTTCAAATCAAAACAC-ATTCCCTTGATTAAGCTTACTTTGAACTTCAA
456 TGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTACTTTGAACTTCAA
314172 TTTCTATTATTAAAAATTTAAA
521 TTTCTATTATTAAAAATTTAAA
314194 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
314259 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
314324 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTC--ATAACG
131 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATATAACG
314387 TGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATCTATTAC
196 TGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATCTATTAC
314452 TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTA
261 TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTA
314517 CTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAAGTCATTTAACGTGTGGTCTGCATG
326 CTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAAGTCATTTAACGTGTGGTCTGCATG
314582 GTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCAC
391 GTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCAC
314647 TGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTACTTTGAACTTCAA
456 TGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTACTTTGAACTTCAA
314712 TTTCTATTATTAAAAATTTAAA
521 TTTCTATTATTAAAAATTTAAA
314734 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
* *
314799 TTACTCTATATATTACTAGGCTTATTAACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
* *
314864 CCCGTGATTAAGCTTACTTTGAACTTCAACTTCTATTA
131 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTA
314902 ATTGATTTGA
Statistics
Matches: 1771, Mismatches: 14, Indels: 9
0.99 0.01 0.01
Matches are distributed among these distances:
539 647 0.37
540 224 0.13
541 778 0.44
542 122 0.07
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (542 bp):
ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
TTATTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATATAACG
TGTGGTCTGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATCTATTAC
TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTA
CTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAAGTCATTTAACGTGTGGTCTGCATG
GTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCAC
TGACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTACTTTGAACTTCAA
TTTCTATTATTAAAAATTTAAA
Found at i:316341 original size:44 final size:44
Alignment explanation
Indices: 316291--316375 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
316281 TTAAATTCAT
* * *
316291 AAACACCATTATATGACATAACATTTAGTGGCATTTTTGGGAAC
1 AAACACCACTATATGACAGAACATTTAGCGGCATTTTTGGGAAC
*
316335 AAACACCACTATATGTCAGAACATTTAGCGGCATTTTTGGG
1 AAACACCACTATATGACAGAACATTTAGCGGCATTTTTGGG
316376 GAAAATGCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (44 bp):
AAACACCACTATATGACAGAACATTTAGCGGCATTTTTGGGAAC
Found at i:317816 original size:22 final size:21
Alignment explanation
Indices: 317785--317833 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
317775 TCCACTAAAT
*
317785 TTTTATATCTAAAATTCTCAA
1 TTTTAAATCTAAAATTCTCAA
**
317806 TATTTAAATCTCCAATTCTCAA
1 T-TTTAAATCTAAAATTCTCAA
317828 TTTTAA
1 TTTTAA
317834 TTTCCTAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTAAATCTAAAATTCTCAA
Found at i:322329 original size:54 final size:54
Alignment explanation
Indices: 322266--322388 Score: 192
Period size: 54 Copynumber: 2.3 Consensus size: 54
322256 CCCATAGGGT
* * *
322266 GTACCGATACCCCTACGCTAATTTTGGCTCCGAGAAAAACAGAATGTCAAATGG
1 GTACCGATACCCCTACGCCAATTTTGGCTCCGAGAAAAACAGAATGCCAAATAG
* * *
322320 GTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAATAGAATGCCTAATAG
1 GTACCGATACCCCTACGCCAATTTTGGCTCCGAGAAAAACAGAATGCCAAATAG
322374 GTACCGATACCCCTA
1 GTACCGATACCCCTA
322389 GTCATTTAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (54 bp):
GTACCGATACCCCTACGCCAATTTTGGCTCCGAGAAAAACAGAATGCCAAATAG
Found at i:324701 original size:19 final size:19
Alignment explanation
Indices: 324677--324714 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
324667 TTGGCTTCTT
324677 GGTCAAAGTCAACAGTCTA
1 GGTCAAAGTCAACAGTCTA
* *
324696 GGTCAAATTCAACGGTCTA
1 GGTCAAAGTCAACAGTCTA
324715 AGTTAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (19 bp):
GGTCAAAGTCAACAGTCTA
Found at i:325895 original size:37 final size:36
Alignment explanation
Indices: 325820--325895 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
325810 TTTTTATATT
*
325820 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
325856 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
325893 TTT
1 TTT
325896 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:334144 original size:18 final size:18
Alignment explanation
Indices: 334118--334152 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
334108 TGATCCACCA
334118 CACTCCAATAAAAACAAT
1 CACTCCAATAAAAACAAT
*
334136 CACTGCAATAAAAACAA
1 CACTCCAATAAAAACAA
334153 GAGCACAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.26, G:0.03, T:0.14
Consensus pattern (18 bp):
CACTCCAATAAAAACAAT
Found at i:337023 original size:30 final size:29
Alignment explanation
Indices: 336982--337065 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 29
336972 AAATGATGAT
*
336982 GGAAGTATTTTACAAGCTTTAGAAAATTTG
1 GGAACTATTTTACAA-CTTTAGAAAATTTG
* * *
337012 GGAACTATTTTATAATTTTTGAAAATTTGG
1 GGAACTATTTTACAACTTTAGAAAATTT-G
* * **
337042 GGATCAATTCGACAACTTTAGAAA
1 GGAACTATTTTACAACTTTAGAAA
337066 TTGATGGGTT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 11 0.26
30 31 0.74
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (29 bp):
GGAACTATTTTACAACTTTAGAAAATTTG
Found at i:337828 original size:40 final size:40
Alignment explanation
Indices: 337782--337890 Score: 191
Period size: 40 Copynumber: 2.7 Consensus size: 40
337772 GACACTAAAG
*
337782 TGTATATGGTGGGCACGACCTTATGTGTAATACATTTTGA
1 TGTATATGGTGGGCACGACCTTATGTGTAATACACTTTGA
* *
337822 TGTATATGGTGGGCACGACCTTATGTGTAATATACTTTGG
1 TGTATATGGTGGGCACGACCTTATGTGTAATACACTTTGA
337862 TGTATATGGTGGGCACGACCTTATGTGTA
1 TGTATATGGTGGGCACGACCTTATGTGTA
337891 GCACTACGGT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.37
Consensus pattern (40 bp):
TGTATATGGTGGGCACGACCTTATGTGTAATACACTTTGA
Found at i:342064 original size:21 final size:21
Alignment explanation
Indices: 342030--342083 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
342020 TTTTCTTGCC
342030 ATTTATTTTT-TTTATTT-TG
1 ATTTATTTTTATTTATTTCTG
342049 ATTTATTTTTTATTTATTTCTG
1 ATTTA-TTTTTATTTATTTCTG
342071 -TTTATTTTTATTT
1 ATTTATTTTTATTT
342084 TACTAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.16
20 14 0.44
21 11 0.34
22 2 0.06
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (21 bp):
ATTTATTTTTATTTATTTCTG
Found at i:342085 original size:21 final size:20
Alignment explanation
Indices: 342030--342085 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
342020 TTTTCTTGCC
342030 ATTTA-TTTTTTTTATTTTG
1 ATTTATTTTTTTTTATTTTG
342049 ATTTATTTTTTATTTATTTCTG
1 ATTTATTTTTT-TTTATTT-TG
342071 -TTTATTTTTATTTTA
1 ATTTATTTTT-TTTTA
342086 CTAAATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.15
20 5 0.15
21 20 0.61
22 3 0.09
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (20 bp):
ATTTATTTTTTTTTATTTTG
Found at i:346688 original size:18 final size:18
Alignment explanation
Indices: 346661--346696 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
346651 TCAACATCAA
*
346661 ATATTAGGGCATTTTTGG
1 ATATTAGGGCATCTTTGG
*
346679 ATATTGGGGCATCTTTGG
1 ATATTAGGGCATCTTTGG
346697 GGATTTCAAC
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):
ATATTAGGGCATCTTTGG
Found at i:347231 original size:36 final size:37
Alignment explanation
Indices: 347184--347259 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 37
347174 GTGCTCACCA
* *
347184 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-CT
1 TTGTCTCTCTTGAGACAGTTTCCCTTAAAAAAAACCT
347220 TTGTCTCTCTTGAGACAGTTTCCCTTAAAAAAAACCT
1 TTGTCTCTCTTGAGACAGTTTCCCTTAAAAAAAACCT
347257 TTG
1 TTG
347260 AAATTGTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
36 32 0.86
37 5 0.14
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTAAAAAAAACCT
Found at i:347269 original size:28 final size:31
Alignment explanation
Indices: 347237--347294 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
347227 TCTTGAGACA
347237 GTTTCCCTT-AA-A-AAAAACCTTTGAAATT
1 GTTTCCCTTAAACACAAAAACCTTTGAAATT
*
347265 GTTTCTCTTGAAACACAAAAACCTTTGAAA
1 GTTTCCCTT-AAACACAAAAACCTTTGAAA
347295 CATAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 8 0.32
30 2 0.08
31 1 0.04
32 14 0.56
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (31 bp):
GTTTCCCTTAAACACAAAAACCTTTGAAATT
Found at i:348424 original size:106 final size:105
Alignment explanation
Indices: 348121--348651 Score: 765
Period size: 106 Copynumber: 5.0 Consensus size: 105
348111 TCGCGCAACC
* * *
348121 CGAGACAACACAAGTTCAACTTCACAACGAAGGGAAGGCTGGTTGTCAACAAAGAACTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGG-ACGCTGGTTGTCAACAAACAATTTCCCAAT
* * * * *
348186 TTCAGAGCCAATTTTAACTTCACAACGAAAGATATTGGACC
65 TTCAGAGCCAATTTCAACTTCACAGCGAAGGACATTGGACT
* * *
348227 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGCTGGTTGTCAACAAATAATTTTCCAATT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGCTGGTTGTCAACAAACAATTTCCCAATT
* *
348292 TCAGAGTCAATTTCAACTTCACAGCGAAGGGCATTGGACT
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGACATTGGACT
348332 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGAC-GCTGGTTGTCAACAAACAATTTCCCAAT
* *
348397 TTCAGAGCCAATTTCAACTTCATAGCGAAGGGCATTGGACT
65 TTCAGAGCCAATTTCAACTTCACAGCGAAGGACATTGGACT
*
348438 CGAGACAGCACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACG-CTGGTTGTCAACAAACAATTTCCCAAT
* * *
348503 TTCAAAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
65 TTCAGAGCCAATTTCAACTTCACAGCGAAGGACATTGGACT
* * * *
348544 CGAGACAACACAAGTTCAACTTCACAACGAAGGTACGGTTGGATGTCAACAAACAATTTCCCAGT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGAC-GCTGGTTGTCAACAAACAATTTCCCAAT
* * * * * *
348609 TCCAGAACTAATTTCAACTTCACGGCGGAGGATATTGGACT
65 TTCAGAGCCAATTTCAACTTCACAGCGAAGGACATTGGACT
348650 CG
1 CG
348652 GAACAATACA
Statistics
Matches: 389, Mismatches: 33, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
105 96 0.25
106 292 0.75
107 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (105 bp):
CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGCTGGTTGTCAACAAACAATTTCCCAATT
TCAGAGCCAATTTCAACTTCACAGCGAAGGACATTGGACT
Found at i:350230 original size:4 final size:4
Alignment explanation
Indices: 350221--350285 Score: 53
Period size: 4 Copynumber: 15.5 Consensus size: 4
350211 CTTCGTTTTG
* *
350221 TTTA TTTA TTT- TATT- TTTA TTTTC TTTA TTCA TTTA TTCTA TTTTA
1 TTTA TTTA TTTA T-TTA TTTA -TTTA TTTA TTTA TTTA TT-TA -TTTA
350267 TTTA TTTA TTTA TCTTA TT
1 TTTA TTTA TTTA T-TTA TT
350286 CCATTGTCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.06
4 35 0.69
5 11 0.22
6 2 0.04
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:350235 original size:9 final size:9
Alignment explanation
Indices: 350221--350285 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
350211 CTTCGTTTTG
350221 TTTATTTAT
1 TTTATTTAT
350230 TTTA--T-T
1 TTTATTTAT
350236 TTTATTT-T
1 TTTATTTAT
*
350244 CTTTATTCA-
1 -TTTATTTAT
350253 TTTATTCTAT
1 TTTATT-TAT
350263 TTTATTTA-
1 TTTATTTAT
350271 TTTATTTAT
1 TTTATTTAT
*
350280 CTTATT
1 TTTATT
350286 CCATTGTCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
6 5 0.11
7 1 0.02
8 16 0.35
9 18 0.39
10 6 0.13
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTATTTAT
Found at i:350270 original size:22 final size:22
Alignment explanation
Indices: 350238--350279 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
350228 ATTTTATTTT
*
350238 TATTTTCTTTATTCATTTATTC
1 TATTTTATTTATTCATTTATTC
*
350260 TATTTTATTTATTTATTTAT
1 TATTTTATTTATTCATTTAT
350280 CTTATTCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTTTATTTATTCATTTATTC
Found at i:350284 original size:27 final size:26
Alignment explanation
Indices: 350221--350321 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 26
350211 CTTCGTTTTG
* *
350221 TTTATTTATTTTATTTTTATTTTCTTTA
1 TTTATTTATTCTA-TTTTA-TTTATTTA
*
350249 TTCATTTATTCTATTTTATTTATTTA
1 TTTATTTATTCTATTTTATTTATTTA
* * * *
350275 TTTATCTTATTCCATTGTCTTTATTTT
1 TTTAT-TTATTCTATTTTATTTATTTA
* *
350302 TTTATATATTC-CTTTTATTT
1 TTTATTTATTCTATTTTATTT
350322 TCATAATCTC
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
25 6 0.10
26 16 0.27
27 27 0.45
28 11 0.18
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.71
Consensus pattern (26 bp):
TTTATTTATTCTATTTTATTTATTTA
Found at i:355603 original size:34 final size:34
Alignment explanation
Indices: 355588--355715 Score: 177
Period size: 34 Copynumber: 3.8 Consensus size: 34
355578 CGCGTTCGTT
* * * * *
355588 TATCATTCGCTAACATATTCATTTCA-CGTTCGTT
1 TATCATTCGCGAACATGTTCGTTT-AGCATTAGTT
* *
355622 TATCATTCGCTAACATGTTCGCTTAGCATTAGTT
1 TATCATTCGCGAACATGTTCGTTTAGCATTAGTT
355656 TATCATTCGCGAACATGTTCGTTTAGCATTAGTT
1 TATCATTCGCGAACATGTTCGTTTAGCATTAGTT
355690 TATCATTCGCGAACATGTTCGTTTAG
1 TATCATTCGCGAACATGTTCGTTTAG
355716 AATAAAAAGG
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
33 1 0.01
34 85 0.99
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.41
Consensus pattern (34 bp):
TATCATTCGCGAACATGTTCGTTTAGCATTAGTT
Found at i:355637 original size:68 final size:68
Alignment explanation
Indices: 355563--355715 Score: 200
Period size: 68 Copynumber: 2.2 Consensus size: 68
355553 TTATTGTTCA
* * * * * *
355563 CGAACATGTTCGTTTCGCGTTCGTTTATCATTCGCTAACATATTCATTTCA-CGTTCGTTTATCA
1 CGAACATGTTCGTTTAGCATTAGTTTATCATTCGCGAACATATTCATTT-AGCATTAGTTTATCA
355627 TTCG
65 TTCG
* * * *
355631 CTAACATGTTCGCTTAGCATTAGTTTATCATTCGCGAACATGTTCGTTTAGCATTAGTTTATCAT
1 CGAACATGTTCGTTTAGCATTAGTTTATCATTCGCGAACATATTCATTTAGCATTAGTTTATCAT
355696 TCG
66 TCG
355699 CGAACATGTTCGTTTAG
1 CGAACATGTTCGTTTAG
355716 AATAAAAAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
67 1 0.01
68 71 0.99
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (68 bp):
CGAACATGTTCGTTTAGCATTAGTTTATCATTCGCGAACATATTCATTTAGCATTAGTTTATCAT
TCG
Found at i:356214 original size:18 final size:18
Alignment explanation
Indices: 356193--356229 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
356183 TATATGTGTA
356193 ACTATGTATATTATTATC
1 ACTATGTATATTATTATC
356211 ACTATGTATATTATTATC
1 ACTATGTATATTATTATC
356229 A
1 A
356230 ATCAATCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (18 bp):
ACTATGTATATTATTATC
Found at i:359973 original size:22 final size:22
Alignment explanation
Indices: 359942--360003 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
359932 AAAAAATATA
*
359942 TAAATGTTAATATTATTAATAAT
1 TAAATTTTAATATTATTAA-AAT
*
359965 TTAA-TTTAAT-TTAATTTAAAAT
1 TAAATTTTAATATT-A-TTAAAAT
359987 TAAATTTTAATA-TATTA
1 TAAATTTTAATATTATTA
360004 TTTTTTCAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
21 5 0.16
22 13 0.41
23 14 0.44
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAAATTTTAATATTATTAAAAT
Found at i:366696 original size:21 final size:21
Alignment explanation
Indices: 366666--366713 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
366656 GCAGGGGTAC
* *
366666 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
366687 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
366708 ATGCCA
1 ATGCCA
366714 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:366746 original size:21 final size:21
Alignment explanation
Indices: 366717--366831 Score: 178
Period size: 21 Copynumber: 5.5 Consensus size: 21
366707 TATGCCATCT
366717 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
366738 CCACAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
366759 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
* *
366780 CCGCATGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
*
366801 CCGCCA-GGTTACATTCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
366822 CCGCAGGGTT
1 CCGCAGGGTT
366832 TTATACCATA
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
20 2 0.02
21 84 0.95
22 2 0.02
ACGTcount: A:0.19, C:0.34, G:0.25, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:367446 original size:34 final size:33
Alignment explanation
Indices: 367350--367449 Score: 128
Period size: 33 Copynumber: 3.0 Consensus size: 33
367340 GATAAATGTT
367350 TTTAAAATACAAATTATATTATTCAAAATTTAAA
1 TTTAAAATA-AAATTATATTATTCAAAATTTAAA
* * * **
367384 ATAAAAATAAAATAATATTATTTGAAATTTAAA
1 TTTAAAATAAAATTATATTATTCAAAATTTAAA
*
367417 TTTAAAATATAAATTATAGTATTCAAAATTTAA
1 TTTAAAATA-AAATTATATTATTCAAAATTTAA
367450 CATTAAATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 28 0.52
34 26 0.48
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (33 bp):
TTTAAAATAAAATTATATTATTCAAAATTTAAA
Found at i:367456 original size:34 final size:32
Alignment explanation
Indices: 367351--367456 Score: 122
Period size: 34 Copynumber: 3.2 Consensus size: 32
367341 ATAAATGTTT
367351 TTAAAATACAAATTATATTATTCAAAATTTAAAA
1 TTAAAATA-AAATTATATTATTCAAAATTT-AAA
* * **
367385 TAAAAATAAAATAATATTATTTGAAATTTAAA
1 TTAAAATAAAATTATATTATTCAAAATTTAAA
*
367417 TTTAAAATATAAATTATAGTATTCAAAATTTAACA
1 -TTAAAATA-AAATTATATTATTCAAAATTTAA-A
367452 TTAAA
1 TTAAA
367457 TTTCAACTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.42
34 31 0.52
35 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (32 bp):
TTAAAATAAAATTATATTATTCAAAATTTAAA
Found at i:369107 original size:128 final size:128
Alignment explanation
Indices: 368869--369240 Score: 665
Period size: 128 Copynumber: 2.9 Consensus size: 128
368859 TTACCTGATT
368869 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *
368934 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACACACCTTTATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTAATGTGAATAGTGAAATAATAGG
*
368997 TACTGATATATCTAGCGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
369062 TAACAAAATAATAGAAGGCGCGCCCCCGGGAACGCGCCTTAATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTAATGTGAATAGTGAAATAATAGG
*
369125 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCT-
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
369189 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTAATGTGAATAGT
369241 ACTCTGATTA
Statistics
Matches: 233, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
127 49 0.21
128 184 0.79
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTAATGTGAATAGTGAAATAATAGG
Found at i:376047 original size:21 final size:21
Alignment explanation
Indices: 376005--376055 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
375995 ATAGGAATAT
* *
376005 TCTAATTTTATAATTCATTTA
1 TCTAATTTTATAATTAAGTTA
376026 T-TAATTTTATTAATTAAGTTA
1 TCTAATTTTA-TAATTAAGTTA
376047 TCTAATTTT
1 TCTAATTTT
376056 TTTTTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.31
21 11 0.42
22 7 0.27
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (21 bp):
TCTAATTTTATAATTAAGTTA
Found at i:376990 original size:42 final size:42
Alignment explanation
Indices: 376931--377014 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
376921 TATGGACTCC
376931 GGCTTCTGCCTCTCACTGGGCTTCCAACTTCTCTTGGGCTCA
1 GGCTTCTGCCTCTCACTGGGCTTCCAACTTCTCTTGGGCTCA
376973 GGCTTCTGCCTCTCACTGGGCTTCCAACTTCTCTTGGGCTCA
1 GGCTTCTGCCTCTCACTGGGCTTCCAACTTCTCTTGGGCTCA
377015 CTGGGCTGCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.10, C:0.36, G:0.21, T:0.33
Consensus pattern (42 bp):
GGCTTCTGCCTCTCACTGGGCTTCCAACTTCTCTTGGGCTCA
Found at i:379568 original size:29 final size:29
Alignment explanation
Indices: 379536--379603 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
379526 TAATAGAATT
**
379536 ATTCAGCGTTAAATGTTGAACCGTTCAGC
1 ATTCAGCGCGAAATGTTGAACCGTTCAGC
379565 ATTCAGCGCGAAATGTTGAACCGTTCAGC
1 ATTCAGCGCGAAATGTTGAACCGTTCAGC
*
379594 ATTCAACGCG
1 ATTCAGCGCG
379604 TTTGTTTCGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (29 bp):
ATTCAGCGCGAAATGTTGAACCGTTCAGC
Found at i:380774 original size:2 final size:2
Alignment explanation
Indices: 380763--380868 Score: 75
Period size: 2 Copynumber: 57.0 Consensus size: 2
380753 TAAAAATAAT
* *
380763 TA TA -A TA TA TA TA TA TA TA TA TA TA TA -A T- TA -A TA AA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
380801 TA -A TT TA AA T- TA AA TA TA TA TA TA TA TA TA TA TA 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
* * * *
380840 TA TT TA TA TA TT TA -A TT TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
380869 CCCGGCCCGA
Statistics
Matches: 78, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
1 8 0.10
2 70 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:392960 original size:13 final size:13
Alignment explanation
Indices: 392942--392986 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
392932 CCAGTAGTTA
392942 ATTTGACAAACTG
1 ATTTGACAAACTG
** *
392955 ATTTGATTAGCTG
1 ATTTGACAAACTG
*
392968 ATTTGAGAAACTG
1 ATTTGACAAACTG
392981 ATTTGA
1 ATTTGA
392987 TTAACTGTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (13 bp):
ATTTGACAAACTG
Found at i:392992 original size:13 final size:13
Alignment explanation
Indices: 392950--392993 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
392940 TAATTTGACA
392950 AACTGATTTGATT
1 AACTGATTTGATT
* **
392963 AGCTGATTTGAGA
1 AACTGATTTGATT
392976 AACTGATTTGATT
1 AACTGATTTGATT
392989 AACTG
1 AACTG
392994 TTTATAGAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (13 bp):
AACTGATTTGATT
Found at i:393002 original size:26 final size:26
Alignment explanation
Indices: 392942--392993 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
392932 CCAGTAGTTA
* *
392942 ATTTGACAAACTGATTTGATTAGCTG
1 ATTTGAGAAACTGATTTGATTAACTG
392968 ATTTGAGAAACTGATTTGATTAACTG
1 ATTTGAGAAACTGATTTGATTAACTG
392994 TTTATAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (26 bp):
ATTTGAGAAACTGATTTGATTAACTG
Found at i:400287 original size:14 final size:14
Alignment explanation
Indices: 400270--400302 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
400260 AAATGCCCTT
400270 AAAAAAATTCTTTC
1 AAAAAAATTCTTTC
400284 AAAAAAATTCTTTC
1 AAAAAAATTCTTTC
400298 AAAAA
1 AAAAA
400303 TATCCTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAAAATTCTTTC
Found at i:400495 original size:37 final size:37
Alignment explanation
Indices: 400453--400526 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
400443 TCATTAAACC
* *
400453 TTTTTAT-ATTTTCAATTTTGTAAAAAAAATTATATAA
1 TTTTTATGAATTTAAATTTTGTAAAAAAAA-TATATAA
* *
400490 TTTTTATGAATTTAAATTTTTTAAAGAAAATATATAA
1 TTTTTATGAATTTAAATTTTGTAAAAAAAATATATAA
400527 ATAATTTCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 14 0.44
38 18 0.56
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (37 bp):
TTTTTATGAATTTAAATTTTGTAAAAAAAATATATAA
Found at i:407275 original size:31 final size:31
Alignment explanation
Indices: 407240--407363 Score: 135
Period size: 31 Copynumber: 4.0 Consensus size: 31
407230 ATCCTCGACA
* *
407240 ACTGTCCATAGGTCCCGAAGAACCTAGGTAT
1 ACTGTCCATATGTCCCGAAGAACATAGGTAT
* **
407271 ACTGTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATATGTCCCGAAGAACATAGGTAT
*
407302 ACTATCCATATGTCCCGAA-AGACATAGGTAATT
1 ACTGTCCATATGTCCCGAAGA-ACATAGGT-A-T
* *
407335 A-TGTCCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATATGTCCCGAAGAACATAGGTA
407364 AACCCTCGAC
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
30 1 0.01
31 50 0.65
32 23 0.30
33 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGTCCATATGTCCCGAAGAACATAGGTAT
Found at i:407356 original size:63 final size:62
Alignment explanation
Indices: 407244--407363 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 62
407234 TCGACAACTG
* *
407244 TCCATAGGTCCCGAAGAACCTAGGTATACTGTCCATATGTTCCTTAGAACATAGGTATACTA
1 TCCATAGGTCCCGAAGAACATAGGTATACTGTCCATATGTTCCGTAGAACATAGGTATACTA
*
407306 TCCATATGTCCCGAA-AGACATAGGTAATTA-TGTCCATATGTTCCGTAGAACATAGGTA
1 TCCATAGGTCCCGAAGA-ACATAGGT-A-TACTGTCCATATGTTCCGTAGAACATAGGTA
407364 AACCCTCGAC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 1 0.02
62 21 0.40
63 28 0.54
64 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (62 bp):
TCCATAGGTCCCGAAGAACATAGGTATACTGTCCATATGTTCCGTAGAACATAGGTATACTA
Found at i:408433 original size:21 final size:21
Alignment explanation
Indices: 408409--408453 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
408399 CCATGTTCGT
* *
408409 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
408430 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
408451 TTG
1 TTG
408454 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:411811 original size:30 final size:30
Alignment explanation
Indices: 411775--411858 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 30
411765 CCCGAATGAC
* *
411775 CTATCCAGAGGTCACAAGGAACCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
411805 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* * * *
411835 CTGTCCATAGGTCCCGAAGAACCT
1 CTATCCAGAGGTCACAAAGAACCT
411859 AGGTATACTG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGCAA
Found at i:411869 original size:31 final size:31
Alignment explanation
Indices: 411834--411957 Score: 126
Period size: 31 Copynumber: 4.0 Consensus size: 31
411824 ATCCTCGGCA
* *
411834 ACTGTCCATAGGTCCCGAAGAACCTAGGTAT
1 ACTGTCCATATGTCCCGAAGAACATAGGTAT
* **
411865 ACTGTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATATGTCCCGAAGAACATAGGTAT
* *
411896 ACTATCCATATGTCCTGAA-AGACATAGGTAATT
1 ACTGTCCATATGTCCCGAAGA-ACATAGGT-A-T
* *
411929 A-TGTCCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATATGTCCCGAAGAACATAGGTA
411958 AACCCTCGAC
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
30 1 0.01
31 49 0.65
32 22 0.29
33 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGTCCATATGTCCCGAAGAACATAGGTAT
Found at i:413033 original size:21 final size:21
Alignment explanation
Indices: 413003--413047 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
412993 CCATGTTTGT
* *
413003 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
413024 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
413045 TTG
1 TTG
413048 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:415458 original size:44 final size:46
Alignment explanation
Indices: 415376--415462 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
415366 TATAGCATGT
* * **
415376 TATATGATATGAGATTAAGTGATGAAACATAGATGATATATATATA
1 TATATGATATAAGAATAAGACATGAAACATAGATGATATATATATA
*
415422 TATATGATATAAGAATAAGACATGAATCA-A-ATGATATATAT
1 TATATGATATAAGAATAAGACATGAAACATAGATGATATATAT
415463 GTTTATGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 11 0.31
45 1 0.03
46 24 0.67
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (46 bp):
TATATGATATAAGAATAAGACATGAAACATAGATGATATATATATA
Found at i:415724 original size:21 final size:21
Alignment explanation
Indices: 415698--415772 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
415688 GGGTTTACGC
415698 GGTCCTTCGGGATAATACAGT
1 GGTCCTTCGGGATAATACAGT
415719 GGTCCTTCGGGATAATACAGT
1 GGTCCTTCGGGATAATACAGT
* *
415740 GGTCCTTCGGGACAATATAGT
1 GGTCCTTCGGGATAATACAGT
415761 GGTCCTTCGGGA
1 GGTCCTTCGGGA
415773 AAAATTTCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (21 bp):
GGTCCTTCGGGATAATACAGT
Done.