Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008704.1 Hibiscus syriacus cultivar Beakdansim tig00111743_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: 516901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:213863 original size:21 final size:21
Alignment explanation
Indices: 213839--213878 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
213829 TATCTTCGAT
213839 TAAATAAA-TAAATTATTTTAA
1 TAAA-AAATTAAATTATTTTAA
213860 TAAAAAATTAAATTATTTT
1 TAAAAAATTAAATTATTTT
213879 TATTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAAAATTAAATTATTTTAA
Found at i:215249 original size:2 final size:2
Alignment explanation
Indices: 215238--215271 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
215228 TATTATTTTA
215238 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
215272 AATTTAGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:218575 original size:24 final size:23
Alignment explanation
Indices: 218543--218587 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
218533 ATCTTTACTT
* *
218543 TTTATTATTTTCTTCATTTTTATA
1 TTTACTATTTTATT-ATTTTTATA
218567 TTTACTATTTTATTATTTTTA
1 TTTACTATTTTATTATTTTTA
218588 GTAATTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTACTATTTTATTATTTTTATA
Found at i:219839 original size:2 final size:2
Alignment explanation
Indices: 219834--219922 Score: 55
Period size: 2 Copynumber: 45.0 Consensus size: 2
219824 TTTTATTAAC
*
219834 AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T TT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* *
219875 CAT AT CAT AT CAT AT -T AT A- ACT -T AT AT A- AT AT AC AT AT TT
1 -AT AT -AT AT -AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
*
219915 AT CT AT AT
1 AT AT AT AT
219923 TCACCTTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 22
0.70 0.07 0.22
Matches are distributed among these distances:
1 6 0.09
2 55 0.80
3 8 0.12
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:220023 original size:17 final size:17
Alignment explanation
Indices: 219979--220030 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
219969 ATCTTTACTT
219979 TTTATTA-TTTT-CTAA
1 TTTATTATTTTTACTAA
* * *
219994 TTTTTTATATTTACTAC
1 TTTATTATTTTTACTAA
*
220011 TTTATTATTTTTAGTAA
1 TTTATTATTTTTACTAA
220028 TTT
1 TTT
220031 TGGTGTTTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 6 0.21
16 3 0.11
17 19 0.68
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATTATTTTTACTAA
Found at i:221967 original size:21 final size:21
Alignment explanation
Indices: 221938--221996 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
221928 AAATATTTGA
* *
221938 AAAAAGATCGACCCCTTTGGT
1 AAAATGATCGATCCCTTTGGT
* *
221959 AAAATGATCGATACCTTTGTT
1 AAAATGATCGATCCCTTTGGT
221980 AAAATGATCGATCCCTT
1 AAAATGATCGATCCCTT
221997 GTGCCTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (21 bp):
AAAATGATCGATCCCTTTGGT
Found at i:227414 original size:2 final size:2
Alignment explanation
Indices: 227341--227402 Score: 92
Period size: 2 Copynumber: 32.0 Consensus size: 2
227331 AAAACAAAAC
* *
227341 AT AT AT AT AT AC AT -T CT A- 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
227381 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
227403 GTAAAAATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:228497 original size:2 final size:2
Alignment explanation
Indices: 228478--228515 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
228468 AAATGAAATA
* *
228478 AT AT AC AT AT AC AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
228516 ATAGCAATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:229243 original size:105 final size:105
Alignment explanation
Indices: 229046--229986 Score: 1238
Period size: 105 Copynumber: 9.0 Consensus size: 105
229036 GTATTGTTCC
* * ** * * * *
229046 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTATATATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAATTGGGAAGTTAT-TGTTGACAA
* * *
229111 GCAACGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
229152 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCCCTGAAAGTAGGAAGTTGTTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAATTGGGAAGTTATTGTTGACAAC
229217 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** *
229257 GAGTCCAAT-TCCTTCGATGTGATGTTGAAATTGGCTTTGAAATTGGGAAGTTGTTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAATTGGGAAGTTATTGTTGACAAC
*
229321 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
229361 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC-AAAATTGGGAAGTTGTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGC-CCTGAAATTGGGAAGTTATTGTTGACAA
* *
229425 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
229466 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAATTGGGAAGTTATTGTTGACAAC
* * * * *
229531 CAGCAGTCCCTTCGTCATGAAGTTGAACTTACGTTGTTTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
229571 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTATTGTTGAAAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAATTGGGAAGTTATTGTTGACAAC
* * *
229636 TAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** *
229676 GAGTCCAATATCATTCGCTGTGAAGTTGAAACTGGCCCCAAAATTGGGAAGTTATTGTTAACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAATTGGGAAGTTATTGTTGACAAC
*
229741 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * **
229781 GAGTCCAATATCCTTCACTGTGAAGCTGAAATTGGCCCCGAAATTAAGAAGTTATTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAATTGGGAAGTTATTGTTGACAAC
* *
229846 CAACGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
229886 GAGTCCAATATCCTTCGCTGTAAAGTTGAAATTGGCTCC-GAAATT-----GTCA---TTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGC-CCTGAAATTGGGAAGTTATTGTTGACAA
* * * * *
229942 CCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
229983 GAGT
1 GAGT
229987 GATATCCTCC
Statistics
Matches: 754, Mismatches: 77, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
97 47 0.06
100 3 0.00
104 97 0.13
105 560 0.74
106 47 0.06
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAATTGGGAAGTTATTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:241264 original size:27 final size:26
Alignment explanation
Indices: 241224--241315 Score: 66
Period size: 27 Copynumber: 3.5 Consensus size: 26
241214 AGATGATAAA
* *
241224 ATAAAGAAAGCAAAGATAAAATAGTA-
1 ATAAAAAAAACAAAGATAAAATA-TAT
*
241250 AGTAAAAAAAACAAATAATAAAATATAT
1 A-TAAAAAAAACAAA-GATAAAATATAT
* *
241278 ATAAAAAAGAA-AAAGA-AAAAGA-AA
1 ATAAAAAA-AACAAAGATAAAATATAT
*
241302 ATAAATAAAACAAA
1 ATAAAAAAAACAAA
241316 TAAACAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
23 2 0.04
24 11 0.20
25 5 0.09
26 2 0.04
27 23 0.43
28 11 0.20
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (26 bp):
ATAAAAAAAACAAAGATAAAATATAT
Found at i:241369 original size:4 final size:4
Alignment explanation
Indices: 241362--241386 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
241352 TATATATATA
241362 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
241387 TAAATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:241773 original size:2 final size:2
Alignment explanation
Indices: 241679--241760 Score: 132
Period size: 2 Copynumber: 42.0 Consensus size: 2
241669 AAAACAAAAC
* *
241679 AT AT AT AT AT AC AT -T CT A- 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
241719 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
241761 GTAAAAAATA
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
1 2 0.03
2 73 0.97
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:242217 original size:32 final size:32
Alignment explanation
Indices: 242176--242239 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
242166 CCCAGGAATC
**
242176 CGGTGGTGGCCACCTCGTCGGCCGCCGTTGAT
1 CGGTGGTGGCCACCTCACCGGCCGCCGTTGAT
242208 CGGTGGTGGCCACCTCACCGGCCGCCGTTGAT
1 CGGTGGTGGCCACCTCACCGGCCGCCGTTGAT
242240 GGGCGCTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.08, C:0.36, G:0.36, T:0.20
Consensus pattern (32 bp):
CGGTGGTGGCCACCTCACCGGCCGCCGTTGAT
Found at i:242250 original size:32 final size:32
Alignment explanation
Indices: 242182--242250 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
242172 AATCCGGTGG
** * *
242182 TGGCCACCTCGTCGGCCGCCGTTGATCGGTGG
1 TGGCCACCTCACCGGCCGCCGTTGATCGGCGC
*
242214 TGGCCACCTCACCGGCCGCCGTTGATGGGCGC
1 TGGCCACCTCACCGGCCGCCGTTGATCGGCGC
242246 TGGCC
1 TGGCC
242251 GCCGTTCATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.07, C:0.38, G:0.36, T:0.19
Consensus pattern (32 bp):
TGGCCACCTCACCGGCCGCCGTTGATCGGCGC
Found at i:252367 original size:33 final size:33
Alignment explanation
Indices: 252330--252392 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
252320 AGAGTATTAA
*
252330 ATTATTAA-AATAATAATAATATTAAATTATATT
1 ATTA-TAATAATAAAAATAATATTAAATTATATT
* *
252363 ATTATAATATTAAAAATAATATTATATTAT
1 ATTATAATAATAAAAATAATATTAAATTAT
252393 TAAAATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 3 0.12
33 23 0.88
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
ATTATAATAATAAAAATAATATTAAATTATATT
Found at i:252402 original size:17 final size:18
Alignment explanation
Indices: 252281--252403 Score: 60
Period size: 17 Copynumber: 6.7 Consensus size: 18
252271 TTTATTTAAA
252281 TAAAAA-TATTATAA-AT
1 TAAAAATTATTATAATAT
* *
252297 TAAATTAATTATTTATAAAAG
1 TAAA--AATTA-TTATAATAT
* *
252318 T-AAGAGTATTA-AATTAT
1 TAAAAATTATTATAA-TAT
* *
252335 T-AAAATAATAATAATAT
1 TAAAAATTATTATAATAT
252352 TAAATTATATTATTATAATAT
1 TAAA--A-ATTATTATAATAT
*
252373 TAAAAATAATATTATATTAT
1 TAAAAAT--TATTATAATAT
252393 T-AAAATTATTA
1 TAAAAATTATTA
252404 ATAAATATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 25
0.69 0.10 0.21
Matches are distributed among these distances:
16 6 0.07
17 20 0.24
18 11 0.13
19 8 0.10
20 20 0.24
21 17 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TAAAAATTATTATAATAT
Found at i:253351 original size:29 final size:29
Alignment explanation
Indices: 253296--253352 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
253286 AAAGTTTAGG
* *
253296 GTTTTTTTTTAAATTTATGTTTTTTTTTT
1 GTTTTTTTTTAAATTAATGTTTATTTTTT
253325 GTTTTTTTTTAAATATAAT-TTTATTTTT
1 GTTTTTTTTTAAAT-TAATGTTTATTTTT
253353 AAAATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.75
Consensus pattern (29 bp):
GTTTTTTTTTAAATTAATGTTTATTTTTT
Found at i:253491 original size:76 final size:76
Alignment explanation
Indices: 253405--253556 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 76
253395 TATCGGGAAA
*
253405 AACTAACGGCATTAACGACCTGGACACCTAAAAGGATAATGTTTGTAAAGTTAGACACCCGGATG
1 AACTAACGGCATTAACGACCTGAACACCTAAAAGGATAATGTTTGTAAAGTTAGACACCCGGATG
253470 GGCCAAAAAAC
66 GGCCAAAAAAC
*
253481 AACTAACGGCATTAACGACCTGAACACCTAAAAGGATAATGTTTGTAACGTTAGACACCCGGATG
1 AACTAACGGCATTAACGACCTGAACACCTAAAAGGATAATGTTTGTAAAGTTAGACACCCGGATG
253546 GGCCAAAAAAC
66 GGCCAAAAAAC
253557 CCGTAGGCAC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (76 bp):
AACTAACGGCATTAACGACCTGAACACCTAAAAGGATAATGTTTGTAAAGTTAGACACCCGGATG
GGCCAAAAAAC
Found at i:254429 original size:25 final size:25
Alignment explanation
Indices: 254388--254435 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
254378 ATAAGAAAAT
* *
254388 AAAAACATTAAATAAATTAAAAGGG
1 AAAAACATAAAATAAATAAAAAGGG
254413 AAAAA-ATAAAATGAAATAAAAAG
1 AAAAACATAAAAT-AAATAAAAAG
254436 TAATAAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (25 bp):
AAAAACATAAAATAAATAAAAAGGG
Found at i:255820 original size:3 final size:3
Alignment explanation
Indices: 255786--255849 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
255776 GGCCTACAAA
* * *
255786 AAT AAA AAT AAA AAT AA- AATT ATT AAT AAAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT
255832 AAT -AT AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT
255850 TTTTCTATAG
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
2 8 0.16
3 37 0.76
4 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:256225 original size:28 final size:28
Alignment explanation
Indices: 256185--256243 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
256175 AAGTTTGGTG
** *
256185 TTTCAAGAGAAACATTTTCAAGGGTTTT
1 TTTCAAGAGAAACAACTTCAAAGGTTTT
256213 TTTCAAGAGAAACAACTTCAAAGGTTTT
1 TTTCAAGAGAAACAACTTCAAAGGTTTT
256241 TTT
1 TTT
256244 GTGTTTCAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (28 bp):
TTTCAAGAGAAACAACTTCAAAGGTTTT
Found at i:256251 original size:34 final size:35
Alignment explanation
Indices: 256213--256293 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
256203 CAAGGGTTTT
256213 TTTCAAGAGAAACAACTTCAAAG-GTTTTTTTGTG
1 TTTCAAGAGAAACAACTTCAAAGAGTTTTTTTGTG
* * *
256247 TTTCAAGAGAAACGATTTCAAAGATTTTTTTTGTG
1 TTTCAAGAGAAACAACTTCAAAGAGTTTTTTTGTG
256282 TTTCAAGAGAAA
1 TTTCAAGAGAAA
256294 TTGTCTCCAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
34 21 0.49
35 22 0.51
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (35 bp):
TTTCAAGAGAAACAACTTCAAAGAGTTTTTTTGTG
Found at i:256403 original size:67 final size:66
Alignment explanation
Indices: 256277--256441 Score: 188
Period size: 67 Copynumber: 2.5 Consensus size: 66
256267 AAGATTTTTT
* * * * * * *
256277 TTGTGTTTCAAGAGAAATTGTCTCCAGGGAGGCAAAATTTTGCTTCAAGAGAAACATATTCAGAT
1 TTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGCTTCAAGAGAAACATATTCAAAG
256342 A
66 A
* * * *
256343 TTGGTGTTTCAAAAGAAACTGTCTCAAGTGAGACAAAACTTTGTTTCAAG-GAAAATATATTCAA
1 TT-GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGCTTCAAGAG-AAACATATTCAA
256407 AGA
64 AGA
* *
256410 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 TTGTGTTTCAAGAGAAACTGTCTCAAGAGAGA
256442 TGGACCCTTG
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
66 29 0.35
67 54 0.65
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (66 bp):
TTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGCTTCAAGAGAAACATATTCAAAG
A
Found at i:256821 original size:106 final size:106
Alignment explanation
Indices: 256636--256835 Score: 303
Period size: 106 Copynumber: 1.9 Consensus size: 106
256626 AGCATTGTTC
* *
256636 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCCGAAACCGGGAAATTATTTGTTGACA
256701 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * ** *
256742 CGAGTCCAATTTCCTTCG-CTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTCCGTC-GTGAAGTTGAAATTGGCTCCGAAACCGGGAAATTATTTGTTGAC
* *
256806 AACTAGCTGTCCCTTCGTTGTGAAGTTGAA
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAA
256836 ATTGGCTCTG
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
105 1 0.01
106 83 0.99
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (106 bp):
CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCCGAAACCGGGAAATTATTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:256868 original size:63 final size:63
Alignment explanation
Indices: 256754--256898 Score: 209
Period size: 63 Copynumber: 2.3 Consensus size: 63
256744 AGTCCAATTT
* * * * * *
256754 CCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACTAGCTGTC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAATTGGTTATTGACAACCAGCGGTC
* *
256817 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAATTGGTTATTGACAACCAGCGGTC
*
256880 CCTTCGTCGTGAAGTTGAA
1 CCTTCGTTGTGAAGTTGAA
256899 CTTGCGTTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 73 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (63 bp):
CCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAATTGGTTATTGACAACCAGCGGTC
Found at i:256936 original size:169 final size:169
Alignment explanation
Indices: 256652--257004 Score: 499
Period size: 169 Copynumber: 2.1 Consensus size: 169
256642 CAATATCCTC
* * * *
256652 CGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTATTTGTTGACAACCAGCCGTCCCTTCG
1 CGTCGTGAAGTTGAAATTGGCTCTGAAACCGAGAAATTAGTTATTGACAACCAGCCGTCCCTTCG
* * * *
256717 TTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATTTCCTTCGCTGTGAAGTTGAAATTGGCTCC
66 TCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
* * * * *
256782 GAAATTGGGAAATTGTTTGTTGACAACTAGCTGTCCCTT
131 GAAATTGAGAAATTGGTTATTGACAACCAGCGGTCCCTT
* ** * * *
256821 CGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCG
1 CGTCGTGAAGTTGAAATTGGCTCTGAAACCGAGAAATTAGTTATTGACAACCAGCCGTCCCTTCG
* *
256886 TCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
66 TCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
* *
256951 GAAATTGAGAAGTTGGTTATTGACAACCATCGGTCCCTT
131 GAAATTGAGAAATTGGTTATTGACAACCAGCGGTCCCTT
256990 CGTCGTGAAGTTGAA
1 CGTCGTGAAGTTGAA
257005 CTTGCGTTGT
Statistics
Matches: 160, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
169 160 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (169 bp):
CGTCGTGAAGTTGAAATTGGCTCTGAAACCGAGAAATTAGTTATTGACAACCAGCCGTCCCTTCG
TCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
GAAATTGAGAAATTGGTTATTGACAACCAGCGGTCCCTT
Found at i:257002 original size:106 final size:106
Alignment explanation
Indices: 256817--257374 Score: 1071
Period size: 106 Copynumber: 5.3 Consensus size: 106
256807 ACTAGCTGTC
256817 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCC
*
256882 TTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
66 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
256923 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCATCGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCC
256988 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
66 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
257029 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCC
*
257094 TTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATAT
66 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
257135 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCC
257200 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
66 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
257241 CTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCC
257306 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
66 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
257347 CCTTCGTTGTGAAGTTGAAATTGGCTCT
1 CCTTCGTTGTGAAGTTGAAATTGGCTCT
257375 AAAGGCTGTA
Statistics
Matches: 443, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 443 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCC
TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:262475 original size:22 final size:22
Alignment explanation
Indices: 262442--262494 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
262432 GGCCTACAAA
*
262442 AATAAAAAATAAAAATAA-AATT
1 AATAATAAATAAAAATAATAA-T
* *
262464 ATTAATAAATAATAATAATAAT
1 AATAATAAATAAAAATAATAAT
262486 AATAATAAA
1 AATAATAAA
262495 ATATAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAATAAATAAAAATAATAAT
Found at i:262477 original size:3 final size:3
Alignment explanation
Indices: 262466--262506 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
262456 ATAAAATTAT
262466 TAA TAAA TAA TAA TAA TAA TAA TAA TAA -AA T-A TAA T-A TAA T
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
262507 TTTTCTGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 6 0.18
3 25 0.74
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:262500 original size:22 final size:21
Alignment explanation
Indices: 262442--262506 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
262432 GGCCTACAAA
* * *
262442 AATAAAAAATAAAAATAAAATT
1 AATAATAAATAATAATATAA-T
*
262464 ATTAATAAATAATAATAATAAT
1 AATAATAAATAATAAT-ATAAT
262486 AATAATAAA-ATATAATATAAT
1 AATAATAAATA-ATAATATAAT
262507 TTTTCTGTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 6 0.17
22 27 0.75
23 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AATAATAAATAATAATATAAT
Found at i:265945 original size:14 final size:14
Alignment explanation
Indices: 265926--265972 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
265916 TAAAAATATA
265926 TAATTTTATAATTT
1 TAATTTTATAATTT
265940 TAA-TTTATATATTT
1 TAATTTTATA-ATTT
**
265954 TCTTTTTATAATTT
1 TAATTTTATAATTT
*
265968 AAATT
1 TAATT
265973 CATAAAATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 6 0.23
14 14 0.54
15 6 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TAATTTTATAATTT
Found at i:266616 original size:18 final size:19
Alignment explanation
Indices: 266576--266613 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
266566 TGGTTCACAT
266576 AATGTAAGATTACCAGTGGG
1 AATGTAAGATTACCAG-GGG
266596 AATGTAAGATTACCAGGG
1 AATGTAAGATTACCAGGG
266614 AATAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (19 bp):
AATGTAAGATTACCAGGGG
Found at i:271155 original size:16 final size:16
Alignment explanation
Indices: 271131--271164 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
271121 TATCGCCGAT
*
271131 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
271147 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
271163 CG
1 CG
271165 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:271638 original size:36 final size:36
Alignment explanation
Indices: 271593--271664 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 36
271583 ACATCTACCA
*
271593 AAATTTTACCAAACTTTG-AAAAACATTTTTCAAAG
1 AAATTTTACCAAACTTTGAAAAAACATTTTCCAAAG
271628 AAATATTTACCAAACTTTGAAAAAACATTTTCCAAAG
1 AAAT-TTTACCAAACTTTGAAAAAACATTTTCCAAAG
271665 TTGGTTGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 4 0.12
36 14 0.41
37 16 0.47
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (36 bp):
AAATTTTACCAAACTTTGAAAAAACATTTTCCAAAG
Found at i:271683 original size:35 final size:36
Alignment explanation
Indices: 271598--271684 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
271588 TACCAAAATT
* *
271598 TTACCAAACTTTG-AAAAACATTTTTCAAAGAAATAT
1 TTACCAAACTTTGAAAAAACATTTTCCAAAG-AATAG
* *
271634 TTACCAAACTTTGAAAAAACATTTTCCAAAG-TTGG
1 TTACCAAACTTTGAAAAAACATTTTCCAAAGAATAG
*
271669 TTGCCAAACTTTGAAA
1 TTACCAAACTTTGAAA
271685 CTTTTAACAG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 16 0.36
36 13 0.29
37 16 0.36
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (36 bp):
TTACCAAACTTTGAAAAAACATTTTCCAAAGAATAG
Found at i:271859 original size:39 final size:37
Alignment explanation
Indices: 271808--271887 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 37
271798 AACAAGTTGA
* *
271808 AAAATATTTATATATTTTCTTTAAAAAATTTAAAATCAT
1 AAAATATTTATATAATTT-TTTAAAAAATTGAAAAT-AT
*
271847 AAAAT-TTATATATAATTTTTTACAAAATTGAAAATAT
1 AAAATATT-TATATAATTTTTTAAAAAATTGAAAATAT
271884 AAAA
1 AAAA
271888 AGGTTTAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 6 0.16
38 17 0.46
39 14 0.38
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (37 bp):
AAAATATTTATATAATTTTTTAAAAAATTGAAAATAT
Found at i:271881 original size:38 final size:36
Alignment explanation
Indices: 271813--271887 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 36
271803 GTTGAAAAAT
*
271813 ATTTATATATTTTCTTTAAAAAATTTAAAATCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAAT-ATAAA
*
271850 ATTTATATATAATTT-TTTACAAAATTGAAAATATAAA
1 ATTTATATAT--TTTCTTTAAAAAATTGAAAATATAAA
271887 A
1 A
271888 AGGTTTAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 16 0.47
38 15 0.44
39 3 0.09
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATATAAA
Found at i:276009 original size:3 final size:3
Alignment explanation
Indices: 275997--276034 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
275987 GTCACTACAA
275997 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
276035 CTATGACATG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:282651 original size:32 final size:32
Alignment explanation
Indices: 282598--282660 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
282588 TGTCAGGTTA
* *
282598 ATATCATATTAGTTAGATTTCGGGTTGGGTCG
1 ATATCAAATTAGTTAGATTTCGGCTTGGGTCG
*
282630 ATATCAAATTGGTT-GATTTTCGGCTTGGGTC
1 ATATCAAATTAGTTAGA-TTTCGGCTTGGGTC
282661 AACCTTTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.21, C:0.11, G:0.27, T:0.41
Consensus pattern (32 bp):
ATATCAAATTAGTTAGATTTCGGCTTGGGTCG
Found at i:284500 original size:21 final size:21
Alignment explanation
Indices: 284454--284501 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
284444 TATAGTCGAA
*
284454 AAAATATTTTGTAACTTTTAAT
1 AAAATATTTAGTAAC-TTTAAT
284476 -AAATATTTAGTATAC-TTAAT
1 AAAATATTTAGTA-ACTTTAAT
284496 AAAATA
1 AAAATA
284502 ATATTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (21 bp):
AAAATATTTAGTAACTTTAAT
Found at i:289932 original size:109 final size:109
Alignment explanation
Indices: 289741--289948 Score: 256
Period size: 109 Copynumber: 1.9 Consensus size: 109
289731 TAAAATCTCC
* * * * *
289741 ACATCCTAACCCTAACCTAATATCGTCGCCCTTTTCAACTATAACCACCGTCGTCGACATAGTCC
1 ACATCCTAACCCTAACCCAATATCGTCACCCTTTTCAACTACAACCACCGTCGCCGACATAATCC
*
289806 TTACCATCCTCGTAGTCATACATCGTTGTAGTTGCCACCAATTG
66 TTACCATCCTCCTAGTCATACATCGTTGTAGTTGCCACCAATTG
* * * ** * * *
289850 ACATCCTAACCCTAACCCAATATTGTTACTCTTTTCGGCTACAACCACCTTCGCCGACTTAATCG
1 ACATCCTAACCCTAACCCAATATCGTCACCCTTTTCAACTACAACCACCGTCGCCGACATAATCC
**
289915 TTGA-CATCCTCCTAGTCATATGTCGTTGTAGTTG
66 TT-ACCATCCTCCTAGTCATACATCGTTGTAGTTG
289949 TCTCCGTTTG
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
109 81 0.99
110 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.31
Consensus pattern (109 bp):
ACATCCTAACCCTAACCCAATATCGTCACCCTTTTCAACTACAACCACCGTCGCCGACATAATCC
TTACCATCCTCCTAGTCATACATCGTTGTAGTTGCCACCAATTG
Found at i:300552 original size:55 final size:55
Alignment explanation
Indices: 300423--300564 Score: 157
Period size: 55 Copynumber: 2.6 Consensus size: 55
300413 ACATTCAAAG
* * *
300423 GATCCATGAAGAAAGACATCCT-ATGAATGAATAAATTTGAACTTGATTGAAGAAT
1 GATCCATGAAAAAAGACAT-CTGATGAATGAAGAAATCTGAACTTGATTGAAGAAT
* * * *
300478 GATTCAT-TAAGATGAACATCTGATGAATGAAGAAATCTGAAAC-TGATTGAAG-AT
1 GATCCATGAAAAAAG-ACATCTGATGAATGAAGAAATCTG-AACTTGATTGAAGAAT
300532 CGATCCATGAAAAAAGACATCTGATGAATGAAG
1 -GATCCATGAAAAAAGACATCTGATGAATGAAG
300565 TTTGAAGTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
54 7 0.10
55 57 0.80
56 7 0.10
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (55 bp):
GATCCATGAAAAAAGACATCTGATGAATGAAGAAATCTGAACTTGATTGAAGAAT
Found at i:305478 original size:17 final size:18
Alignment explanation
Indices: 305456--305497 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
305446 CGGGTACTTG
305456 AATTATAATT-TTTTTAA
1 AATTATAATTATTTTTAA
305473 AATTAT-ATTATTTTTAA
1 AATTATAATTATTTTTAA
305490 AATATATA
1 AAT-TATA
305498 CAAAAATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTATAATTATTTTTAA
Found at i:305614 original size:17 final size:18
Alignment explanation
Indices: 305560--305617 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
305550 AAATGTTTTA
305560 AAAAAATAAATTACATAATT
1 AAAAAA-AAATTA-ATAATT
* * *
305580 GAAAAAATATTAAAAATT
1 AAAAAAAAATTAATAATT
305598 AAAAAAAAATT-ATAATT
1 AAAAAAAAATTAATAATT
305615 AAA
1 AAA
305618 TTTCAAATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 8 0.25
18 14 0.44
19 5 0.16
20 5 0.16
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAAAAAATTAATAATT
Found at i:305703 original size:39 final size:39
Alignment explanation
Indices: 305660--305764 Score: 106
Period size: 39 Copynumber: 2.7 Consensus size: 39
305650 TAAAAAATAT
305660 TTTAGAATGTTAATGTGAAATAATTTAAGAAAATAAGAA
1 TTTAGAATGTTAATGTGAAATAATTTAAGAAAATAAGAA
* * * * *
305699 TTTAGGATGTT-ATGGTTGCAA-AATATAAGAAATTAGGAA
1 TTTAGAATGTTAAT-G-TGAAATAATTTAAGAAAATAAGAA
* * *
305738 TTTAGAATGTTAGTATTAAATAATTTA
1 TTTAGAATGTTAATGTGAAATAATTTA
305765 GGAATTAGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
38 5 0.10
39 41 0.80
40 5 0.10
ACGTcount: A:0.45, C:0.01, G:0.17, T:0.37
Consensus pattern (39 bp):
TTTAGAATGTTAATGTGAAATAATTTAAGAAAATAAGAA
Found at i:309510 original size:13 final size:13
Alignment explanation
Indices: 309492--309517 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
309482 GTGAAGGAGC
309492 TCTTAACCAACAA
1 TCTTAACCAACAA
309505 TCTTAACCAACAA
1 TCTTAACCAACAA
309518 CCGGGCGCGG
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:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (13 bp):
TCTTAACCAACAA
Found at i:318027 original size:16 final size:17
Alignment explanation
Indices: 317997--318039 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
317987 TAACCAAAAT
317997 TTATA-ATTAATATATA
1 TTATATATTAATATATA
*
318013 TTATATATTAA-ATATT
1 TTATATATTAATATATA
*
318029 TTATATTTTAA
1 TTATATATTAA
318040 GCTAATTCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATATATTAATATATA
Found at i:320138 original size:29 final size:29
Alignment explanation
Indices: 320103--320184 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
320093 AAACTAAATT
*
320103 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
320132 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
320161 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
320185 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:324908 original size:29 final size:29
Alignment explanation
Indices: 324873--324954 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
324863 AAACTAAATT
*
324873 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
324902 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
324931 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
324955 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:328657 original size:31 final size:31
Alignment explanation
Indices: 328593--328681 Score: 135
Period size: 31 Copynumber: 2.9 Consensus size: 31
328583 TAAAATCGTT
* * *
328593 AATTTTTTGTTCGACTCGTGCTCGTT-AAAA
1 AATTTGTTGCTCGACTCGTGCTTGTTAAAAA
328623 AATTTGTTGCTCGACTCGTGCTTGTTAAAAA
1 AATTTGTTGCTCGACTCGTGCTTGTTAAAAA
*
328654 AATTTGTTGCTCGACTCATGCTTGTTAA
1 AATTTGTTGCTCGACTCGTGCTTGTTAA
328682 GCTCATTGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
30 23 0.43
31 31 0.57
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.42
Consensus pattern (31 bp):
AATTTGTTGCTCGACTCGTGCTTGTTAAAAA
Found at i:329098 original size:11 final size:11
Alignment explanation
Indices: 329082--329128 Score: 69
Period size: 11 Copynumber: 4.4 Consensus size: 11
329072 CCAACAAACC
329082 ATAACAAACTA
1 ATAACAAACTA
*
329093 ATAACAAGCTA
1 ATAACAAACTA
*
329104 ATAACAAAC-C
1 ATAACAAACTA
329114 ATAACAAACTA
1 ATAACAAACTA
329125 ATAA
1 ATAA
329129 TGCTCTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 9 0.29
11 22 0.71
ACGTcount: A:0.62, C:0.19, G:0.02, T:0.17
Consensus pattern (11 bp):
ATAACAAACTA
Found at i:329117 original size:21 final size:22
Alignment explanation
Indices: 329074--329128 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
329064 CCAAGTAACC
*
329074 AACAAAC-CATAACAAACTAAT
1 AACAAACTAATAACAAACTAAT
* *
329095 AACAAGCTAATAACAAAC-CAT
1 AACAAACTAATAACAAACTAAT
329116 AACAAACTAATAA
1 AACAAACTAATAA
329129 TGCTCTAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.62, C:0.22, G:0.02, T:0.15
Consensus pattern (22 bp):
AACAAACTAATAACAAACTAAT
Found at i:330905 original size:14 final size:14
Alignment explanation
Indices: 330888--330916 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
330878 CCAACAAACC
330888 ATAACAAACTAATA
1 ATAACAAACTAATA
330902 ATAACAAACTAATA
1 ATAACAAACTAATA
330916 A
1 A
330917 CAAGCTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAACAAACTAATA
Found at i:330914 original size:11 final size:11
Alignment explanation
Indices: 330900--330949 Score: 75
Period size: 11 Copynumber: 4.6 Consensus size: 11
330890 AACAAACTAA
330900 TAATAACAAAC
1 TAATAACAAAC
*
330911 TAATAACAAGC
1 TAATAACAAAC
330922 TAATAACAAAC
1 TAATAACAAAC
*
330933 -CATAACAAAC
1 TAATAACAAAC
330943 TAATAAC
1 TAATAAC
330950 GCTCTAACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 9 0.26
11 25 0.74
ACGTcount: A:0.60, C:0.20, G:0.02, T:0.18
Consensus pattern (11 bp):
TAATAACAAAC
Found at i:333336 original size:352 final size:352
Alignment explanation
Indices: 332692--333386 Score: 1212
Period size: 352 Copynumber: 2.0 Consensus size: 352
332682 CCTGGTGATA
332692 GATTTTCGAGCTTTATTATCGTCTGCCGTAGAGAACGGTCGAAAGCTTCATCAGAAGTTAAAAAC
1 GATTTTCGAGCTTTATTATCGTCTGCCGTAGAGAACGGTCGAAAGCTTCATCAGAAGTTAAAAAC
* **
332757 CCGTCACTGATTTTTGTTGATTCAAGTTGTTATCAACGACCGTTTGCCTCACCGCCACCACCATC
66 CCGTCACTGATTTTCGTTGATTCAAGCCGTTATCAACGACCGTTTGCCTCACCGCCACCACCATC
332822 AGGTTCCTCGCTCTATTCCAACCAAAATCCTACAGATTGCATTCTCTCTTATCGTCGTTTCCTCC
131 AGGTTCCTCGCTCTATTCCAACCAAAATCCTACAGATTGCATTCTCTCTTATCGTCGTTTCCTCC
332887 GACCGTCATTGGGTAAGTGCCGATTGTTTTATATTTAATTTTCATCATTGATTGGTTGAATTATT
196 GACCGTCATTGGGTAAGTGCCGATTGTTTTATATTTAATTTTCATCATTGATTGGTTGAATTATT
*
332952 GGGTTATGTTATTTTGGAATGTTTCGATTAATCAACTGTCATCCCCTATCCCTATCGTCATCTCA
261 GGGTTATGTTATTTTGGAATGTTTCGATTAATCAACTGTCATCCCCTATCCCTACCGTCATCTCA
333017 CATGCCACAACACGCCTCACCGCCACT
326 CATGCCACAACACGCCTCACCGCCACT
* **
333044 GATTTTCGAGCTTTATTATTGTCTTTCGTAGAGAACGGTCGAAAGCTTCATCAGAAGTTAAAAAC
1 GATTTTCGAGCTTTATTATCGTCTGCCGTAGAGAACGGTCGAAAGCTTCATCAGAAGTTAAAAAC
333109 CCGTCACTGATTTTCGTTGATT-AAGGCCGTTATCAACGACCGTTTGCCTCACCGCCACCACCAT
66 CCGTCACTGATTTTCGTTGATTCAA-GCCGTTATCAACGACCGTTTGCCTCACCGCCACCACCAT
** *
333173 CAGGTTCCTCGCTCTATTCTGACCAAAATCCTACCGATTGCATTCTCTCTTATCGTCGTTTCCTC
130 CAGGTTCCTCGCTCTATTCCAACCAAAATCCTACAGATTGCATTCTCTCTTATCGTCGTTTCCTC
* *
333238 CGACCGTCGTTGGGTAAGTGCCGATTGTTTTATATTTAATTTTCATCATTGATTGGTTGTATTAT
195 CGACCGTCATTGGGTAAGTGCCGATTGTTTTATATTTAATTTTCATCATTGATTGGTTGAATTAT
* * *
333303 TGGGTTATGTTATTTTGGAATGTTTCGATTAATCGACTGTCGTCCCCTGTCCCTACCGTCATCTC
260 TGGGTTATGTTATTTTGGAATGTTTCGATTAATCAACTGTCATCCCCTATCCCTACCGTCATCTC
* * *
333368 ACGTGCCACCACGCGCCTC
325 ACATGCCACAACACGCCTC
333387 TGTCGCGCGT
Statistics
Matches: 324, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
351 2 0.01
352 322 0.99
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (352 bp):
GATTTTCGAGCTTTATTATCGTCTGCCGTAGAGAACGGTCGAAAGCTTCATCAGAAGTTAAAAAC
CCGTCACTGATTTTCGTTGATTCAAGCCGTTATCAACGACCGTTTGCCTCACCGCCACCACCATC
AGGTTCCTCGCTCTATTCCAACCAAAATCCTACAGATTGCATTCTCTCTTATCGTCGTTTCCTCC
GACCGTCATTGGGTAAGTGCCGATTGTTTTATATTTAATTTTCATCATTGATTGGTTGAATTATT
GGGTTATGTTATTTTGGAATGTTTCGATTAATCAACTGTCATCCCCTATCCCTACCGTCATCTCA
CATGCCACAACACGCCTCACCGCCACT
Found at i:333558 original size:18 final size:17
Alignment explanation
Indices: 333519--333572 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
333509 AGTGCACCCG
* *
333519 TTGACTTTGACTTTAACG
1 TTGAC-TTGACTTTGACA
333537 TTGACTTGAACTTTGACA
1 TTGACTTG-ACTTTGACA
333555 TTGACCCTTGACTTTGAC
1 TTGA--CTTGACTTTGAC
333573 CAAAAGTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 3 0.10
18 16 0.52
19 8 0.26
20 4 0.13
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (17 bp):
TTGACTTGACTTTGACA
Found at i:334256 original size:26 final size:26
Alignment explanation
Indices: 334208--334264 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
334198 ATTCAAAAAC
*
334208 CCAAAATACTTTTGAACCTTAAAAGGA
1 CCAAAATACTCTTGAACCTT-AAAGGA
*
334235 CCAAAATAC-CTTGAA-CTCTAAATGA
1 CCAAAATACTCTTGAACCT-TAAAGGA
334260 CCAAA
1 CCAAA
334265 TAACATCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 12 0.44
26 6 0.22
27 9 0.33
ACGTcount: A:0.46, C:0.23, G:0.09, T:0.23
Consensus pattern (26 bp):
CCAAAATACTCTTGAACCTTAAAGGA
Found at i:340814 original size:2 final size:2
Alignment explanation
Indices: 340807--340866 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
340797 CATATACTCC
340807 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
340849 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
340867 TAGGGTTGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:342989 original size:12 final size:12
Alignment explanation
Indices: 342956--342996 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
342946 GAAGACCGAT
*
342956 CATGGCCATGGC
1 CATGGCCATGAC
* *
342968 CACGGTCATGAC
1 CATGGCCATGAC
342980 CATGGCCATGAC
1 CATGGCCATGAC
342992 CATGG
1 CATGG
342997 GAAGAAAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.22, C:0.32, G:0.29, T:0.17
Consensus pattern (12 bp):
CATGGCCATGAC
Found at i:347832 original size:7 final size:7
Alignment explanation
Indices: 347820--347848 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
347810 AAAAGAGGGA
347820 TGGATAT
1 TGGATAT
347827 TGGATAT
1 TGGATAT
347834 TGGATAT
1 TGGATAT
347841 TGGATAT
1 TGGATAT
347848 T
1 T
347849 AGACATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (7 bp):
TGGATAT
Found at i:353301 original size:29 final size:30
Alignment explanation
Indices: 353246--353304 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
353236 TAATATTTTT
353246 GAAAAAAAAATTGGTTCAATTAACGGTTAAA
1 GAAAAAAAAATTGGTTCAATT-ACGGTTAAA
*
353277 GAAAAAAAATTTCGGTT-AATT-CGGTTAA
1 GAAAAAAAAATT-GGTTCAATTACGGTTAA
353305 TGATAGTTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 7 0.27
31 15 0.58
32 4 0.15
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.29
Consensus pattern (30 bp):
GAAAAAAAAATTGGTTCAATTACGGTTAAA
Found at i:353750 original size:4 final size:4
Alignment explanation
Indices: 353734--353765 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
353724 GAACTAGTGG
*
353734 TTTC TTTC CTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
353766 AAAAAAGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:363181 original size:25 final size:25
Alignment explanation
Indices: 363127--363181 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
363117 AGTCACATTT
363127 CATATAACACTTATATTACATATTC
1 CATATAACACTTATATTACATATTC
*
363152 C-TATAATTACTTATATTA-ATA-TC
1 CATATAA-CACTTATATTACATATTC
363175 ACATATA
1 -CATATA
363182 TCATAAGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 2 0.08
24 9 0.35
25 15 0.58
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (25 bp):
CATATAACACTTATATTACATATTC
Found at i:364698 original size:98 final size:98
Alignment explanation
Indices: 364529--364711 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 98
364519 GTCCAAGTCA
* *
364529 AATTTGGCTTTGGCAGCCGGTAGGTGAAGCTGATTTTGTTGAATTTTTAGCATTGGAAAATTATA
1 AATTTGGCTTTGGCAGCCGGTAGGTGAAGCTGATTTTGTTAAATTTTTAGCATTGGAAAATTACA
364594 AATTTAGTCCT-TGCACTTTAGAATATTTACAAG
66 AATTTAGT-CTATGCACTTTAGAATATTTACAAG
* *
364627 AATTTGGCTTTGGCAGCCGGTAGGTGGAGCTGATTTTGTTAAATTTTTGGCA-TGGAAAAATTAC
1 AATTTGGCTTTGGCAGCCGGTAGGTGAAGCTGATTTTGTTAAATTTTTAGCATTGG-AAAATTAC
364691 AAATTTAGTCTATGCACTTTA
65 AAATTTAGTCTATGCACTTTA
364712 AGGCATTTAC
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
97 5 0.06
98 74 0.94
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.38
Consensus pattern (98 bp):
AATTTGGCTTTGGCAGCCGGTAGGTGAAGCTGATTTTGTTAAATTTTTAGCATTGGAAAATTACA
AATTTAGTCTATGCACTTTAGAATATTTACAAG
Found at i:369173 original size:21 final size:21
Alignment explanation
Indices: 369147--369190 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
369137 ATTTCTGGGT
* *
369147 AAGGGGAATCGGTACCCATTC
1 AAGGGGAACCGATACCCATTC
*
369168 AAGGGGAACCGATACCCCTTC
1 AAGGGGAACCGATACCCATTC
369189 AA
1 AA
369191 ACGACAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (21 bp):
AAGGGGAACCGATACCCATTC
Found at i:369747 original size:23 final size:24
Alignment explanation
Indices: 369704--369750 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
369694 ATATGGCCTG
*
369704 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
369728 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
369751 ACAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:369966 original size:31 final size:31
Alignment explanation
Indices: 369928--370052 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
369918 AGGGTCGAGG
369928 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
369959 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
369990 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
370021 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
370052 G
1 G
370053 GTCCTTCGGG
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 86 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:371296 original size:34 final size:34
Alignment explanation
Indices: 371237--371303 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
371227 TTCTTGAGAG
*
371237 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTTA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTTA
371271 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
371304 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTTA
Found at i:379871 original size:28 final size:28
Alignment explanation
Indices: 379814--379873 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
379804 CACCTGGTTA
* * *
379814 AAAAATTACGAAAATACCCTTATGAGGT
1 AAAAATAACCAAAATACCCTTATAAGGT
*
379842 AAAAATAACCAAAATATCCTT-TAAGTGT
1 AAAAATAACCAAAATACCCTTATAAG-GT
379870 AAAA
1 AAAA
379874 TGACTATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (28 bp):
AAAAATAACCAAAATACCCTTATAAGGT
Found at i:383541 original size:51 final size:51
Alignment explanation
Indices: 383465--383571 Score: 196
Period size: 51 Copynumber: 2.1 Consensus size: 51
383455 CCGGAGTAAA
*
383465 ATCATTCTTAATATTAAATGTCTTACGGACTTCCTCCGGCGTTTTCCCTTT
1 ATCATTCTTAATATTAAATGTCTTACGGACTTCCTCCGGCGTTTCCCCTTT
*
383516 ATCATTCTTAATATTAAATGTCTTACGGATTTCCTCCGGCGTTTCCCCTTT
1 ATCATTCTTAATATTAAATGTCTTACGGACTTCCTCCGGCGTTTCCCCTTT
383567 ATCAT
1 ATCAT
383572 GTCCGCCACA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.43
Consensus pattern (51 bp):
ATCATTCTTAATATTAAATGTCTTACGGACTTCCTCCGGCGTTTCCCCTTT
Found at i:400107 original size:28 final size:28
Alignment explanation
Indices: 400062--400116 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
400052 GGTTCGGCCT
*
400062 TGGTGGTGTCCCTTGCACATGACATGAA
1 TGGTGGTGTCCCTAGCACATGACATGAA
*
400090 TGGTGGTG-CGCCTAGCACATGGCATGA
1 TGGTGGTGTC-CCTAGCACATGACATGA
400117 CTTTATTGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.25
Consensus pattern (28 bp):
TGGTGGTGTCCCTAGCACATGACATGAA
Found at i:405849 original size:76 final size:76
Alignment explanation
Indices: 405723--405881 Score: 230
Period size: 76 Copynumber: 2.1 Consensus size: 76
405713 TGTGTCTTCA
* * * * *
405723 ACGTGTGGACCAGCTTTGTTATGTTTGGTAGTAGAAAGTCTGCAGCAAAATAAGGAATTCATGGG
1 ACGTGGGGACCAACTTTGTTATGTTTGGTAGCAGAAAGTCTGCAGCAAAATAAGGAAATCATAGG
405788 AAGAATAATGC
66 AAGAATAATGC
* * *
405799 ACGTGGGGACCAACTTTGTTATGTTTGGTAGCATG-ATGTTTGCAGGAAAATAAGGAAATCATAG
1 ACGTGGGGACCAACTTTGTTATGTTTGGTAGCA-GAAAGTCTGCAGCAAAATAAGGAAATCATAG
405863 GAAGAATAATGC
65 GAAGAATAATGC
405875 ACGTGGG
1 ACGTGGG
405882 ACGGGAATGA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
76 73 0.99
77 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (76 bp):
ACGTGGGGACCAACTTTGTTATGTTTGGTAGCAGAAAGTCTGCAGCAAAATAAGGAAATCATAGG
AAGAATAATGC
Found at i:406473 original size:22 final size:22
Alignment explanation
Indices: 406434--406475 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
406424 ATGTAATAGA
* *
406434 TTTAACAGATTTTAAAGAATAT
1 TTTAACAAATTTGAAAGAATAT
*
406456 TTTAACAAATTTGCAAGAAT
1 TTTAACAAATTTGAAAGAAT
406476 TTATAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (22 bp):
TTTAACAAATTTGAAAGAATAT
Found at i:408071 original size:14 final size:14
Alignment explanation
Indices: 408052--408090 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
408042 GGCAGGGTAG
408052 GGTCGGTGAGGATT
1 GGTCGGTGAGGATT
408066 GGTCGGTGAGGATT
1 GGTCGGTGAGGATT
408080 GGTCGGTGAGG
1 GGTCGGTGAGG
408091 CATGCCAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.13, C:0.08, G:0.54, T:0.26
Consensus pattern (14 bp):
GGTCGGTGAGGATT
Found at i:408776 original size:28 final size:28
Alignment explanation
Indices: 408745--408818 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
408735 AAGTTTAATT
* *
408745 ATTAAAGTGAATTAATTATTATTAAATC
1 ATTAAAGTGAAATAATTATTAATAAATC
*
408773 ATTAAAGTTAAATAATTATTAATAAATC
1 ATTAAAGTGAAATAATTATTAATAAATC
* *
408801 ATTAAAGTTAAATTATTA
1 ATTAAAGTGAAATAATTA
408819 AAGTGAAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (28 bp):
ATTAAAGTGAAATAATTATTAATAAATC
Found at i:408779 original size:42 final size:42
Alignment explanation
Indices: 408677--408790 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
408667 ATATCATTAC
* * * *
408677 TATTATTAAATTATTAAACTTTAATCATTAAAGTTAAATAAT
1 TATTATTAAATCATTAAAGTTTAATAATTAAAGTGAAATAAT
* * *
408719 TATTAATAAATCATTAAAGTTTAATTATTAAAGTGAATTAAT
1 TATTATTAAATCATTAAAGTTTAATAATTAAAGTGAAATAAT
*
408761 TATTATTAAATCATTAAAGTTAAATAATTA
1 TATTATTAAATCATTAAAGTTTAATAATTA
408791 TTAATAAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (42 bp):
TATTATTAAATCATTAAAGTTTAATAATTAAAGTGAAATAAT
Found at i:408785 original size:70 final size:70
Alignment explanation
Indices: 408699--408860 Score: 297
Period size: 70 Copynumber: 2.3 Consensus size: 70
408689 ATTAAACTTT
* *
408699 AATCATTAAAGTTAAATAATTATTAATAAATCATTAAAGTTTAATTATTAAAGTGAATTAATTAT
1 AATCATTAAAGTTAAATAATTATTAATAAATCATTAAAGTTAAATTATTAAAGTGAAGTAATTAT
408764 TATTA
66 TATTA
408769 AATCATTAAAGTTAAATAATTATTAATAAATCATTAAAGTTAAATTATTAAAGTGAAGTAATTAT
1 AATCATTAAAGTTAAATAATTATTAATAAATCATTAAAGTTAAATTATTAAAGTGAAGTAATTAT
408834 TATTA
66 TATTA
*
408839 AATCATTAAAGTTAAATCATTA
1 AATCATTAAAGTTAAATAATTA
408861 AAGTTAAGTA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 89 1.00
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (70 bp):
AATCATTAAAGTTAAATAATTATTAATAAATCATTAAAGTTAAATTATTAAAGTGAAGTAATTAT
TATTA
Found at i:408799 original size:84 final size:83
Alignment explanation
Indices: 408677--408961 Score: 187
Period size: 84 Copynumber: 3.4 Consensus size: 83
408667 ATATCATTAC
* * * *
408677 TATTATTAAATTATTAAACTTTAATCATTA--AAGTTAAATAATTATTAATAAATCATTAAAGTT
1 TATTATTAAATCATTAAAGTTAAATAATTATTAA--TAAATAATTATTAATAAATCATTAAAGTT
* *
408740 TAATTATTAAAGTGAATTAAT
64 TAATTATTAAA-TAAAATAAT
* *
408761 TATTATTAAATCATTAAAGTTAAATAATTATTAATAAATCATTA--AAGTTAAATTATTAAAGTG
1 TATTATTAAATCATTAAAGTTAAATAATTATTAATAAATAATTATTAA--TAAATCATTAAAGT-
* * *
408824 AAGTAATTATT--ATTAAATCAT
63 --TTAATTATTAAATAAAATAAT
* * * *
408845 TA-AAGTTAAATCATTAAAGTTAAGTAATTATTATTAAAGTATTTAATT--TAAATCATTAAAGT
1 TATTA-TTAAATCATTAAAGTTAAATAATTATTAATAAA-TAATT-ATTAATAAATCATTAAAGT
* * * *
408907 TAAATAATAATT-ATTAAAGTATT
63 T---TAATTATTAAATAAAATAAT
*
408930 TAAT-TTAAATCATTAAAGTTAAATAATTATTA
1 TATTATTAAATCATTAAAGTTAAATAATTATTA
408962 TGAAATCAGT
Statistics
Matches: 159, Mismatches: 25, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
82 2 0.01
83 1 0.01
84 134 0.84
85 11 0.07
86 3 0.02
87 8 0.05
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (83 bp):
TATTATTAAATCATTAAAGTTAAATAATTATTAATAAATAATTATTAATAAATCATTAAAGTTTA
ATTATTAAATAAAATAAT
Found at i:408832 original size:28 final size:28
Alignment explanation
Indices: 408684--409028 Score: 95
Period size: 28 Copynumber: 12.3 Consensus size: 28
408674 TACTATTATT
* * * *
408684 AAATTATTAAACTTTAATCATTAAAGTT
1 AAATAATTAAAGTTAAATCATTAAAGTG
*
408712 AAATAATTATTAA--TAAATCATTAAAGTT
1 AAATAATTA--AAGTTAAATCATTAAAGTG
* * * * * * *
408740 TAATTATTAAAGTGAATTAATTATTA-TT
1 AAATAATTAAAGTTAAATCATTA-AAGTG
* *
408768 AAATCATTAAAGTTAAATAATTATTAA-T-
1 AAATAATTAAAGTTAAATCATTA--AAGTG
* *
408796 AAATCATTAAAGTTAAATTATTAAAGTG
1 AAATAATTAAAGTTAAATCATTAAAGTG
* * *
408824 AAGTAATTATTA-TTAAATCATTAAAGTT
1 AAATAATTA-AAGTTAAATCATTAAAGTG
* * * * *
408852 AAATCATTAAAGTTAAGTAATTATTA-TT
1 AAATAATTAAAGTTAAATCATTA-AAGTG
* * *
408880 AAAGT-ATTTAATTTAAATCATTAAAGTT
1 AAA-TAATTAAAGTTAAATCATTAAAGTG
* * *
408908 AAATAA-TAATTA-TTAAAGT-ATTTAATTT
1 AAATAATTAA--AGTTAAA-TCATTAAAGTG
* * *
408936 AAATCATTAAAGTTAAATAATTATTA-TG
1 AAATAATTAAAGTTAAATCATTA-AAGTG
* * * * *
408964 AAATCAGTAAAGTTAAATAATTATTA-TT
1 AAATAATTAAAGTTAAATCATTA-AAGTG
* * * * *
408992 AAATCATTAAATTTAAATGATTAAATTT
1 AAATAATTAAAGTTAAATCATTAAAGTG
409020 AAATAATTA
1 AAATAATTA
409029 TTATTAAATA
Statistics
Matches: 251, Mismatches: 44, Indels: 44
0.74 0.13 0.13
Matches are distributed among these distances:
26 4 0.02
27 9 0.04
28 223 0.89
29 13 0.05
30 2 0.01
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (28 bp):
AAATAATTAAAGTTAAATCATTAAAGTG
Found at i:408903 original size:22 final size:22
Alignment explanation
Indices: 408877--408948 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
408867 AGTAATTATT
408877 ATTAAAGTATTTAATTTAAATC
1 ATTAAAGTATTTAATTTAAATC
* * *
408899 ATTAAAG---TTAAATAATAATT
1 ATTAAAGTATTTAATTTA-AATC
408919 ATTAAAGTATTTAATTTAAATC
1 ATTAAAGTATTTAATTTAAATC
408941 ATTAAAGT
1 ATTAAAGT
408949 TAAATAATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 6 0.15
20 10 0.25
22 18 0.45
23 6 0.15
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (22 bp):
ATTAAAGTATTTAATTTAAATC
Found at i:408995 original size:42 final size:42
Alignment explanation
Indices: 408766--408986 Score: 293
Period size: 42 Copynumber: 5.3 Consensus size: 42
408756 TTAATTATTA
*
408766 TTAAATCATTAAAGTTAAATAATTATTAATAAATCATTAAAG
1 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAG
* * *
408808 TTAAATTATTAAAGTGAAGTAATTATTATTAAATCATTAAAG
1 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAG
* * *
408850 TTAAATCATTAAAGTTAAGTAATTATTATTAAAGT-ATTTAAT
1 TTAAATCATTAAAGTTAAATAATTATTATTAAA-TCATTAAAG
* * *
408892 TTAAATCATTAAAGTTAAATAATAATTATTAAAGT-ATTTAAT
1 TTAAATCATTAAAGTTAAATAATTATTATTAAA-TCATTAAAG
* *
408934 TTAAATCATTAAAGTTAAATAATTATTATGAAATCAGTAAAG
1 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAG
*
408976 TTAAATAATTA
1 TTAAATCATTA
408987 TTATTAAATC
Statistics
Matches: 161, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
41 1 0.01
42 159 0.99
43 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (42 bp):
TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAG
Found at i:409008 original size:70 final size:70
Alignment explanation
Indices: 408894--409037 Score: 218
Period size: 70 Copynumber: 2.1 Consensus size: 70
408884 TATTTAATTT
* *
408894 AAATCATTAAAGTTAAATAATAATTATTAAAGTATTTAATTTAAATCATTAAAGTTAAATAATTA
1 AAATCAGTAAAGTTAAATAATAATTATTAAAGTATTAAATTTAAATCATTAAAGTTAAATAATTA
408959 TTATG
66 TTATG
* * *
408964 AAATCAGTAAAGTTAAATAATTATTATTAAA-TCATTAAATTTAAATGATTAAATTTAAATAATT
1 AAATCAGTAAAGTTAAATAATAATTATTAAAGT-ATTAAATTTAAATCATTAAAGTTAAATAATT
*
409028 ATTATT
65 ATTATG
409034 AAAT
1 AAAT
409038 ATATACTCGA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 1 0.01
70 66 0.99
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.42
Consensus pattern (70 bp):
AAATCAGTAAAGTTAAATAATAATTATTAAAGTATTAAATTTAAATCATTAAAGTTAAATAATTA
TTATG
Found at i:409008 original size:84 final size:83
Alignment explanation
Indices: 408766--409028 Score: 284
Period size: 84 Copynumber: 3.1 Consensus size: 83
408756 TTAATTATTA
* * *
408766 TTAAATCATTAAAGTTAAATAATTATTAATAAATCATTAAAGTTAAATTATTAAAGTGAAGTAAT
1 TTAAATCATTAAAGTTAAATAATTATT-ATAAATCATTAAAGTTAAATAATTAAAGTTAAAT-AT
*
408831 T-ATTATTAAATCATTAAAG
64 TAATTATTAAATCATTAAAT
* * * * *
408850 TTAAATCATTAAAGTTAAGTAATTATTATTAAAGT-ATTTAATTTAAATCATTAAAGTTAAATAA
1 TTAAATCATTAAAGTTAAATAATTATTA-TAAA-TCATTAAAGTTAAATAATTAAAGTTAAATAT
*
408914 TAATTATTAAAGT-ATTTAAT
64 TAATTATTAAA-TCATTAAAT
* *
408934 TTAAATCATTAAAGTTAAATAATTATTATGAAATCAGTAAAGTTAAATAATTATTA-TTAAATCA
1 TTAAATCATTAAAGTTAAATAATTATTAT-AAATCATTAAAGTTAAATAATTA-AAGTTAAAT-A
* *
408998 TTAAAT-TTAAATGATTAAAT
63 TTAATTATTAAATCATTAAAT
*
409018 TTAAATAATTA
1 TTAAATCATTA
409029 TTATTAAATA
Statistics
Matches: 151, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
83 6 0.04
84 137 0.91
85 8 0.05
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.41
Consensus pattern (83 bp):
TTAAATCATTAAAGTTAAATAATTATTATAAATCATTAAAGTTAAATAATTAAAGTTAAATATTA
ATTATTAAATCATTAAAT
Found at i:412184 original size:31 final size:31
Alignment explanation
Indices: 412143--412202 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
412133 ACACCCTTTA
* *
412143 TTTTACTTTTGCTTTGTTTTCAATCATATTT
1 TTTTACTTTTGATTTGTTTTAAATCATATTT
*
412174 TTTTGCTTTTGATTTGTTTTAAATCATAT
1 TTTTACTTTTGATTTGTTTTAAATCATAT
412203 AAGTATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.63
Consensus pattern (31 bp):
TTTTACTTTTGATTTGTTTTAAATCATATTT
Found at i:412412 original size:76 final size:76
Alignment explanation
Indices: 412279--412440 Score: 288
Period size: 76 Copynumber: 2.1 Consensus size: 76
412269 TCTCATTCAC
*
412279 GTCCCCACGTGCATTATTCTTCCCATGATTTCCTTATTTTCCTGCAAACATCATGCTACCAAACA
1 GTCCCCACGTGCATTATTCTTCCCATGAATTCCTTATTTTCCTGCAAACATCATGCTACCAAACA
412344 TAACAAAGCTG
66 TAACAAAGCTG
* * *
412355 GTCCCCACGTGCATTATTCTTCCCATGAATTCCTTATTTTGCTGCAAACTTCTTGCTACCAAACA
1 GTCCCCACGTGCATTATTCTTCCCATGAATTCCTTATTTTCCTGCAAACATCATGCTACCAAACA
412420 TAACAAAGCTG
66 TAACAAAGCTG
412431 GTCCCCACGT
1 GTCCCCACGT
412441 TGAAGACACA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 82 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (76 bp):
GTCCCCACGTGCATTATTCTTCCCATGAATTCCTTATTTTCCTGCAAACATCATGCTACCAAACA
TAACAAAGCTG
Found at i:416407 original size:75 final size:74
Alignment explanation
Indices: 416266--416470 Score: 277
Period size: 74 Copynumber: 2.7 Consensus size: 74
416256 CAAAGCCAAA
* * * **
416266 AATTCCAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACTGATTCCCCCTAAATGGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
416331 TTGGCCCCGAG
65 TT-GCCCCGAG
*
416342 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTT
*
416407 TGCTCCGAG
66 TGCCCCGAG
* * * *
416416 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCC
416471 CTTGTACAAC
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
74 50 0.43
75 40 0.34
76 26 0.22
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.20
Consensus pattern (74 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTT
TGCCCCGAG
Found at i:419469 original size:31 final size:31
Alignment explanation
Indices: 419404--419491 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 31
419394 ATTGATTTTC
* * * *
419404 TGAAAAATAATTTACATAAAAT-AGA-TTACC
1 TGAAAATTATTTTACGTAAAATGA-ATTTACA
*
419434 TGAAAATTATTTTACGTAAAGTGAATTTACA
1 TGAAAATTATTTTACGTAAAATGAATTTACA
*
419465 TGAAAATTATTTTATGTAAAATGAATT
1 TGAAAATTATTTTACGTAAAATGAATT
419492 ACCTAAAACT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
30 19 0.39
31 30 0.61
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.38
Consensus pattern (31 bp):
TGAAAATTATTTTACGTAAAATGAATTTACA
Found at i:419818 original size:19 final size:19
Alignment explanation
Indices: 419794--419845 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
419784 TATTAGTATT
419794 TTATTAACA-TAATACTAAA
1 TTATT-ACATTAATACTAAA
*
419813 TTATTACATTAATATTAAA
1 TTATTACATTAATACTAAA
*
419832 -TATATAAATTAATA
1 TTAT-TACATTAATA
419846 TTACTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
TTATTACATTAATACTAAA
Found at i:419862 original size:24 final size:22
Alignment explanation
Indices: 419822--419941 Score: 63
Period size: 23 Copynumber: 5.5 Consensus size: 22
419812 ATTATTACAT
*
419822 TAATATTA-AATATATAAATTAA
1 TAATATTATATTA-ATAAATTAA
* *
419844 TATTACTTATTATTAATAATTTAA
1 TAATA-TTA-TATTAATAAATTAA
* *
419868 TAATATTATATTTATAAAAATAA
1 TAATATTATATTAAT-AAATTAA
*
419891 TAGATA-AATATTAAT-AATT--
1 TA-ATATTATATTAATAAATTAA
* *
419910 TATTA-TATATTACTAAATTAA
1 TAATATTATATTAATAAATTAA
* *
419931 AAATATCATAT
1 TAATATTATAT
419942 CATATATATT
Statistics
Matches: 73, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
18 9 0.12
19 6 0.08
21 6 0.08
22 14 0.19
23 20 0.27
24 15 0.21
25 3 0.04
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.45
Consensus pattern (22 bp):
TAATATTATATTAATAAATTAA
Found at i:419970 original size:23 final size:23
Alignment explanation
Indices: 419943--420012 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
419933 ATATCATATC
*
419943 ATATATATTATTATAATATATGA
1 ATATATATTATTAAAATATATGA
* * * *
419966 GTATATATTAATAGAATATTAAGA
1 ATATATATTATTAAAATA-TATGA
419990 ATATAATATTATTAAAATTATAT
1 ATAT-ATATTATTAAAA-TATAT
420013 TATACATATT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 15 0.42
24 7 0.19
25 12 0.33
26 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (23 bp):
ATATATATTATTAAAATATATGA
Found at i:420263 original size:42 final size:42
Alignment explanation
Indices: 420181--420263 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
420171 TATGAAAATG
* * * *
420181 AATTACAACTATCAAACACTGGAAAATGGTTTCCATAAAACC
1 AATTACAACTATCAAACACCGAAAAATAGTTTCCAGAAAACC
* *
420223 AATTACAACTATCAAACACCGAAAAATATTTTTCAGAAAAC
1 AATTACAACTATCAAACACCGAAAAATAGTTTCCAGAAAAC
420264 ATTTCCAGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.24
Consensus pattern (42 bp):
AATTACAACTATCAAACACCGAAAAATAGTTTCCAGAAAACC
Found at i:420482 original size:42 final size:42
Alignment explanation
Indices: 420431--420510 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
420421 TTACATTGGG
**
420431 AAAAACAATTACAACTATTAAACACTGAAAAATATTTTCCGT
1 AAAAACAATTACAACTACCAAACACTGAAAAATATTTTCCGT
* * *
420473 AAAACCAATTGCAGCTACCAAACACTGAAAAATATTTT
1 AAAAACAATTACAACTACCAAACACTGAAAAATATTTT
420511 TGGAAAACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (42 bp):
AAAAACAATTACAACTACCAAACACTGAAAAATATTTTCCGT
Found at i:420531 original size:14 final size:13
Alignment explanation
Indices: 420498--420537 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
420488 TACCAAACAC
420498 TGAAAAATATTTT
1 TGAAAAATATTTT
* *
420511 TGGAAAACATTTT
1 TGAAAAATATTTT
420524 TCGAAAAATATTTT
1 T-GAAAAATATTTT
420538 CCAACTATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (13 bp):
TGAAAAATATTTT
Found at i:420998 original size:19 final size:19
Alignment explanation
Indices: 420966--421024 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
420956 TAATCCATTA
* *
420966 ATTTTTCATATATTTTTTT
1 ATTTTTAATTTATTTTTTT
* ** *
420985 ATTTTTTATTTATTCATTC
1 ATTTTTAATTTATTTTTTT
*
421004 ATTTTAAATTTATTTTTTT
1 ATTTTTAATTTATTTTTTT
421023 AT
1 AT
421025 CAAATTTAAA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTTTAATTTATTTTTTT
Found at i:424200 original size:2 final size:2
Alignment explanation
Indices: 424193--424217 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
424183 GAAAATAAAT
424193 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
424218 TTAAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:424925 original size:30 final size:28
Alignment explanation
Indices: 424889--424996 Score: 126
Period size: 30 Copynumber: 3.7 Consensus size: 28
424879 TAGAAAATAA
*
424889 TTTACGTAAAATGGATTATCTAAAAATTGT
1 TTTACGTAAAATGAATTA-CT-AAAATTGT
424919 TTTACGTAAAATGAATTACATGAAAATTGT
1 TTTACGTAAAATGAATTAC-T-AAAATTGT
* * *
424949 TTTATGTAAAATGAATTACCTAAAACTAT
1 TTTACGTAAAATGAATTA-CTAAAATTGT
*
424978 TTTACGTAAAATAAATTAC
1 TTTACGTAAAATGAATTAC
424997 ATTTTTTGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 1 0.01
29 23 0.33
30 44 0.64
31 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (28 bp):
TTTACGTAAAATGAATTACTAAAATTGT
Found at i:424929 original size:15 final size:15
Alignment explanation
Indices: 424911--424989 Score: 54
Period size: 15 Copynumber: 5.3 Consensus size: 15
424901 GGATTATCTA
424911 AAAATTGTTTTACGT
1 AAAATTGTTTTACGT
** *
424926 AAAA-TGAATTACAT
1 AAAATTGTTTTACGT
*
424940 GAAAATTGTTTTATGT
1 -AAAATTGTTTTACGT
** *
424956 AAAA-TGAATTACCT
1 AAAATTGTTTTACGT
* *
424970 AAAACTATTTTACGT
1 AAAATTGTTTTACGT
424985 AAAAT
1 AAAAT
424990 AAATTACATT
Statistics
Matches: 45, Mismatches: 16, Indels: 6
0.67 0.24 0.09
Matches are distributed among these distances:
14 17 0.38
15 22 0.49
16 6 0.13
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (15 bp):
AAAATTGTTTTACGT
Found at i:425333 original size:29 final size:29
Alignment explanation
Indices: 425283--425341 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
425273 TTTTCTCTAC
* *
425283 TATTTATTATTATGGGCTTAATTTTTTAA
1 TATTTATTATTATGGGCCTAATTTTATAA
*
425312 TATTTATTATTA-GGTTCCTAATTTTATAA
1 TATTTATTATTATGG-GCCTAATTTTATAA
425341 T
1 T
425342 TTATTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (29 bp):
TATTTATTATTATGGGCCTAATTTTATAA
Found at i:426366 original size:31 final size:31
Alignment explanation
Indices: 426331--426408 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
426321 ATTTCAAAAG
426331 TTATAAATTGATCACTAACGTTATCGATTGA
1 TTATAAATTGATCACTAACGTTATCGATTGA
*
426362 TTATAAATTGATCACTAACGTTATCGATTGG
1 TTATAAATTGATCACTAACGTTATCGATTGA
*
426393 TTATAAATTGGTCACT
1 TTATAAATTGATCACT
426409 TAATGTTAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (31 bp):
TTATAAATTGATCACTAACGTTATCGATTGA
Found at i:428414 original size:11 final size:11
Alignment explanation
Indices: 428400--428431 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
428390 AAAAATGAAT
428400 AATAAATAATA
1 AATAAATAATA
428411 AATAAATAAT-
1 AATAAATAATA
428421 AATAAA-AATA
1 AATAAATAATA
428431 A
1 A
428432 TGTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 3 0.15
10 7 0.35
11 10 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAATAATA
Found at i:428940 original size:33 final size:33
Alignment explanation
Indices: 428916--428988 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
428906 CTCAAATGCT
*
428916 TTGATTTTAGTGTTTTAATAGGACTTAAATACG
1 TTGATTTTAGTGTTTCAATAGGACTTAAATACG
* *
428949 TTGGTTTTAGTGTTTCAATAAGACTTAAATACG
1 TTGATTTTAGTGTTTCAATAGGACTTAAATACG
428982 TTGATTT
1 TTGATTT
428989 ATTTTATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGATTTTAGTGTTTCAATAGGACTTAAATACG
Found at i:429051 original size:3 final size:3
Alignment explanation
Indices: 429038--429074 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
429028 GGCCTGCAAA
429038 AAT AAT AAAT AAT AAT AAT AAT AAT -AT AAT -AT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
429075 AATGTTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:429059 original size:16 final size:16
Alignment explanation
Indices: 429038--429074 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
429028 GGCCTGCAAA
429038 AATAATAA-ATAATAAT
1 AATAATAATATAAT-AT
429054 AATAATAATATAATAT
1 AATAATAATATAATAT
429070 AATAA
1 AATAA
429075 AATGTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAATAATATAATAT
Found at i:429062 original size:19 final size:19
Alignment explanation
Indices: 429038--429074 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
429028 GGCCTGCAAA
429038 AATAATA-AATAATAATAAT
1 AATAATATAAT-ATAATAAT
429057 AATAATATAATATAATAA
1 AATAATATAATATAATAA
429075 AATGTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AATAATATAATATAATAAT
Found at i:430710 original size:21 final size:21
Alignment explanation
Indices: 430684--430728 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
430674 GATTTCTGGG
* *
430684 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
430705 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
430726 CAA
1 CAA
430729 ACGAACAAGA
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:431569 original size:31 final size:31
Alignment explanation
Indices: 431531--431686 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
431521 AGGGTCGAGG
431531 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
431562 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
431593 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
431624 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
431655 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
431686 G
1 G
431687 GGACTTCGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:434694 original size:21 final size:21
Alignment explanation
Indices: 434668--434712 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
434658 GATTTCTGGG
* *
434668 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
434689 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
434710 CAA
1 CAA
434713 ACGAACAAGA
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:435553 original size:31 final size:31
Alignment explanation
Indices: 435515--435670 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
435505 AGGGTCGAGG
435515 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
435546 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
435577 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
435608 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
435639 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
435670 G
1 G
435671 GTCCTTCGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:436605 original size:110 final size:106
Alignment explanation
Indices: 436408--436657 Score: 347
Period size: 110 Copynumber: 2.3 Consensus size: 106
436398 GTATTGCTCC
* * * * * *
436408 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCAGGAAATGGAAAATTGTTTGTTGACAA
*
436473 TCAGTCCCCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTT
66 TCAGACCCCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTT
* *
436514 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCAGAATGAAATTGAAAAGTTGTTTGTTG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCAG---GAAATGGAAAA-TTGTTTGTTG
* * *
436579 ACAATCAGACGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
62 ACAATCAGACCCCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTT
*
436624 GGGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
436658 GCTCTGAAAT
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
106 35 0.28
109 8 0.06
110 83 0.66
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCAGGAAATGGAAAATTGTTTGTTGACAA
TCAGACCCCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTT
Found at i:441048 original size:33 final size:33
Alignment explanation
Indices: 441011--441092 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
441001 AGTCATACTT
*
441011 GGACTCAAATGC-TTCGGTTTTAGTGTTTCAATA
1 GGACTCAAATACGTT-GGTTTTAGTGTTTCAATA
441044 GGACTCAAATACGTTGGTTTTAGTGTTTCAATA
1 GGACTCAAATACGTTGGTTTTAGTGTTTCAATA
*
441077 AGACTCAAATACGTTG
1 GGACTCAAATACGTTG
441093 ATTTATTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 44 0.96
34 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (33 bp):
GGACTCAAATACGTTGGTTTTAGTGTTTCAATA
Found at i:441169 original size:5 final size:5
Alignment explanation
Indices: 441149--441180 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
441139 CTGCAAAAAA
441149 ATAAT A-AAT A-AAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
441181 AATATTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:441267 original size:17 final size:17
Alignment explanation
Indices: 441245--441304 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
441235 TTTTAATAAT
441245 TAATATTTTTATTAAAA
1 TAATATTTTTATTAAAA
** **
441262 TAATATTAAAATATTAATT
1 TAATATT--TTTATTAAAA
441281 TAATATTTTTATTAAAA
1 TAATATTTTTATTAAAA
441298 TAATATT
1 TAATATT
441305 AAAATATTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 20 0.61
19 13 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATATTTTTATTAAAA
Found at i:441270 original size:11 final size:11
Alignment explanation
Indices: 441254--441310 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
441244 TTAATATTTT
441254 TATTAAAATAA
1 TATTAAAATAA
*
441265 TATTAAAATAT
1 TATTAAAATAA
* **
441276 TAATTTAATATTTT
1 T-A-TTAA-AATAA
441290 TATTAAAATAA
1 TATTAAAATAA
441301 TATTAAAATA
1 TATTAAAATA
441311 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 23 0.62
12 5 0.14
13 5 0.14
14 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TATTAAAATAA
Found at i:441276 original size:19 final size:18
Alignment explanation
Indices: 441254--441342 Score: 81
Period size: 19 Copynumber: 4.8 Consensus size: 18
441244 TTAATATTTT
441254 TATTAAAATAATATTAAAA
1 TATTAAAATAATATT-AAA
** **
441273 TATTAATTTAATATT-TT
1 TATTAAAATAATATTAAA
441290 TATTAAAATAATATTAAAA
1 TATTAAAATAATATT-AAA
**
441309 TATTAATTTAATATTAAA
1 TATTAAAATAATATTAAA
*
441327 TGTATAAAATAATATT
1 TAT-TAAAATAATATT
441343 TTTTTTGAGT
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
17 13 0.24
18 5 0.09
19 36 0.67
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (18 bp):
TATTAAAATAATATTAAA
Found at i:441287 original size:36 final size:36
Alignment explanation
Indices: 441225--441323 Score: 162
Period size: 36 Copynumber: 2.7 Consensus size: 36
441215 TACAATATGT
*
441225 ATATTAAATATTTTAATAATTAATATTTTTATTAAAATA
1 ATATTAAA-ATATTAAT--TTAATATTTTTATTAAAATA
441264 ATATTAAAATATTAATTTAATATTTTTATTAAAATA
1 ATATTAAAATATTAATTTAATATTTTTATTAAAATA
441300 ATATTAAAATATTAATTTAATATT
1 ATATTAAAATATTAATTTAATATT
441324 AAATGTATAA
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
36 44 0.75
38 7 0.12
39 8 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
ATATTAAAATATTAATTTAATATTTTTATTAAAATA
Found at i:441310 original size:25 final size:25
Alignment explanation
Indices: 441265--441312 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
441255 ATTAAAATAA
* *
441265 TATTAAAATATTAATTTAATATTTT
1 TATTAAAATAATAATTAAATATTTT
441290 TATTAAAATAAT-ATTAAAATATT
1 TATTAAAATAATAATT-AAATATT
441313 AATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTAAAATAATAATTAAATATTTT
Found at i:441504 original size:42 final size:42
Alignment explanation
Indices: 441458--441538 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
441448 TTACATTGAG
**
441458 AAAATCAATTACAACAATTAAACACTGAAAAATATTTTTTGT
1 AAAATCAATTACAACAATTAAACACCAAAAAATATTTTTTGT
* *
441500 AAAATTAATTACAACTATTAAACACCAAAAAATATTTTT
1 AAAATCAATTACAACAATTAAACACCAAAAAATATTTTT
441539 AAGCTATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (42 bp):
AAAATCAATTACAACAATTAAACACCAAAAAATATTTTTTGT
Found at i:441582 original size:15 final size:15
Alignment explanation
Indices: 441562--441593 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
441552 CAAGAAAATT
441562 AAAAAAATATTTTTC
1 AAAAAAATATTTTTC
441577 AAAAAAATATTTTTC
1 AAAAAAATATTTTTC
441592 AA
1 AA
441594 TTATAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAAAATATTTTTC
Found at i:444344 original size:17 final size:19
Alignment explanation
Indices: 444322--444361 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
444312 GTAAGGACCG
444322 AGAGAAATTATT-ATTT-T
1 AGAGAAATTATTAATTTAT
*
444339 AGAGAAGTTATTAATTTAT
1 AGAGAAATTATTAATTTAT
444358 AGAG
1 AGAG
444362 GTTATACTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 4 0.20
19 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (19 bp):
AGAGAAATTATTAATTTAT
Found at i:444365 original size:17 final size:17
Alignment explanation
Indices: 444322--444366 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
444312 GTAAGGACCG
* *
444322 AGAGAAATTATTATTTT
1 AGAGAAGTTATTAATTT
444339 AGAGAAGTTATTAATTT
1 AGAGAAGTTATTAATTT
* *
444356 ATAGAGGTTAT
1 AGAGAAGTTAT
444367 ACTGTAACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (17 bp):
AGAGAAGTTATTAATTT
Done.