Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 137 of 284
Found at i:45763543 original size:26 final size:26
Alignment explanation
Indices: 45763461--45763544 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
45763451 GCATAGCTCG
*
45763461 AAATGAATAAATTAATCAAAGATAGC
1 AAATGAATAAGTTAATCAAAGATAGC
* *
45763487 AAATGCAATAAG--AA-GAAA-ATTAACTC
1 AAATG-AATAAGTTAATCAAAGA-T-A-GC
45763513 GAAATGAATAAGTTAATCAAAGATAGC
1 -AAATGAATAAGTTAATCAAAGATAGC
45763540 AAATG
1 AAATG
45763545 TATTAATAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 18
0.66 0.07 0.27
Matches are distributed among these distances:
23 1 0.02
24 4 0.09
25 3 0.07
26 17 0.39
27 11 0.25
28 3 0.07
29 4 0.09
30 1 0.02
ACGTcount: A:0.56, C:0.08, G:0.14, T:0.21
Consensus pattern (26 bp):
AAATGAATAAGTTAATCAAAGATAGC
Found at i:45764666 original size:53 final size:53
Alignment explanation
Indices: 45764586--45764689 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
45764576 GCTTCTACTC
45764586 AATTTCCTTCTTATTACATTTTCTATCTTTGATTAACTTATTCATTTCGAGTT
1 AATTTCCTTCTTATTACATTTTCTATCTTTGATTAACTTATTCATTTCGAGTT
* *
45764639 AATTTCCTTCTTATTGCATTTTCTATCTTTGATTAATTTATTCATTTCGAG
1 AATTTCCTTCTTATTACATTTTCTATCTTTGATTAACTTATTCATTTCGAG
45764690 CTATGCTCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.55
Consensus pattern (53 bp):
AATTTCCTTCTTATTACATTTTCTATCTTTGATTAACTTATTCATTTCGAGTT
Found at i:45765168 original size:46 final size:46
Alignment explanation
Indices: 45765090--45765177 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
45765080 AGAAAAAGCC
* *
45765090 ACAAATCCTATACCCCTGAGTTGCAATGGGATGGATTGAAGATGAT
1 ACAAATCCTATACCCCTGAGTTGCAATAGGATGGATGGAAGATGAT
* ** *
45765136 ACAAATCCTATACCCTTGAGTTTTAGTAGGATGGATGGAAGA
1 ACAAATCCTATACCCCTGAGTTGCAATAGGATGGATGGAAGA
45765178 AACCAAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGTTGCAATAGGATGGATGGAAGATGAT
Found at i:45767101 original size:47 final size:47
Alignment explanation
Indices: 45767047--45767598 Score: 843
Period size: 47 Copynumber: 11.6 Consensus size: 47
45767037 TATTTGAATA
*
45767047 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
45767094 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
45767143 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
45767190 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
45767239 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
45767286 AATGTGAAAGTGTATATATATGTGATAAAGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
45767335 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
45767382 AATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTG-AAA-GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
45767431 AATGTAAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
45767478 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * * *
45767525 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
45767572 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
45767599 TCCCGAAGGG
Statistics
Matches: 463, Mismatches: 34, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
47 284 0.61
48 6 0.01
49 173 0.37
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:45767155 original size:96 final size:96
Alignment explanation
Indices: 45767047--45767598 Score: 959
Period size: 96 Copynumber: 5.8 Consensus size: 96
45767037 TATTTGAATA
45767047 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
45767112 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
45767143 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
45767208 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
45767239 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
45767304 TATGTGATAAAGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
45767335 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
45767400 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
45767431 AATGTAAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
45767494 TATGTGATAAGGCCTAATGGCCAATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
45767525 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
45767589 -ATGTGATAAG
66 TATGTGATAAG
45767599 TCCCGAAGGG
Statistics
Matches: 434, Mismatches: 20, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
94 94 0.22
95 1 0.00
96 339 0.78
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:45770110 original size:143 final size:143
Alignment explanation
Indices: 45769851--45770447 Score: 802
Period size: 143 Copynumber: 4.2 Consensus size: 143
45769841 ATCGAAGCAT
* *
45769851 CAGCCTTATCTCCCTGAAGTTACAGCGGAGCAGACTAAAGAAAGCGAATCTTATTTCCCTGAAGT
1 CAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGAAAGCAAATCTTATTTCCCTGAAGT
* * ** * * * *
45769916 TGCAGTGAAATAGATTGAAGCTATGAAGTATGGCGGATCTTTTCTTTCTGAAGTTGCAATGGAGC
66 TGCAGTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGC
*
45769981 AGATTGAAGCCAT
131 AGATTGAAGCCAC
* * * * *
45769994 CAG-CTCTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAAGCAAATTTTATTTTCTTGGAG
1 CAGCCT-TATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGAAAGCAAATCTTATTTCCCTGAAG
* *
45770058 TTGCAGTGGAACAAATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAG
65 TTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAG
45770123 CAGATTGAAGCCAC
130 CAGATTGAAGCCAC
* *
45770137 CAGCCTTATCTCCCTGAAGTTGTAGCGGAGCAGACTAAAGACAA-CGAATCTTATTTCCCTGAAG
1 CAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGA-AAGCAAATCTTATTTCCCTGAAG
* * * *
45770201 TTGCATTAGAACAGATTGAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAATTGCAGTGGAG
65 TTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAG
45770266 CAGATTGAAGCCAC
130 CAGATTGAAGCCAC
* * * * * * *
45770280 CAGCCTTATCTCTCTGAAGTTGCAGCGGAGCAGCCTGAATATAGCACATCTTATTTCCCTGACGT
1 CAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGAAAGCAAATCTTATTTCCCTGAAGT
* * * * *
45770345 TGCAATCGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTAGAGT
66 TGCAGTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGC
*
45770410 AGGTTGAAGCCAC
131 AGATTGAAGCCAC
* * *
45770423 AAGTCTTATCTCCTTGAAGTTGCAG
1 CAGCCTTATCTCCCTGAAGTTGCAG
45770448 TAAAAGCAGA
Statistics
Matches: 398, Mismatches: 52, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
142 3 0.01
143 391 0.98
144 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (143 bp):
CAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGAAAGCAAATCTTATTTCCCTGAAGT
TGCAGTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGC
AGATTGAAGCCAC
Found at i:45770167 original size:44 final size:44
Alignment explanation
Indices: 45770097--45770312 Score: 153
Period size: 44 Copynumber: 4.7 Consensus size: 44
45770087 TATGGCGGAT
* *
45770097 CTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
* * * * * * **
45770141 CTTATCTCCCTGAAGTTGTAGCGGAGCAGACTAAAGACAACGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACCAGC
* * * * * *
45770186 CTTATTTCCCTGAAGTTGCATTAGAACAGATTGAAGCTACAAATTATGGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C-----A--CCAG-C
* *
45770240 CTTATCTTCCTGAAATTGCAGTGGAGCAGATTGAAGCCACCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
* *
45770284 CTTATCTCTCTGAAGTTGCAGCGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
45770313 CCTGAATATA
Statistics
Matches: 127, Mismatches: 34, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
44 56 0.44
45 35 0.28
47 1 0.01
51 1 0.01
52 1 0.01
53 1 0.01
54 32 0.25
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
Found at i:45770205 original size:286 final size:286
Alignment explanation
Indices: 45769670--45770447 Score: 854
Period size: 286 Copynumber: 2.8 Consensus size: 286
45769660 TAGATCGAAG
* * * * * *
45769670 ATGGCAGATCTTATCTTCCTTAAGTTGCAGTGGAGTAAATTGAAGCCACCAGCCCTATCTCCCTG
1 ATGGCAGATCTTATCTTCCTGAAATTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * ** * * * * * * *
45769735 AACTTGCAGCGAAGCAGACTGAAGACAGTGATTCTTATCTCCTTGAAGTT-CCAGC-AGACTAGA
66 AAGTTGCAGCGGAGCAGACTGAAGAAAGCAAATCTTATTTCCCTGACGTTGCAATCGA-AC-AAA
** * * * * *
45769798 TCGAAGCTAC-AA--AT--C---TC-T-TCTCCCTGAAATTACATTGGAGC-GAATCGAAG-CAT
129 TTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAG-ATTGAAGCCAC
*
45769851 CAGCCTTATCTCCCTGAAGTTACAGCGGAGCAGACTAAAGAAAGCGAATCTTATTTCCCTGAAGT
193 CAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGAAAGCGAATCTTATTTCCCTGAAGT
* **
45769916 TGCAGTGA-AATAGATTGAAGCTATGAAGT
258 TGCA-TGAGAACAGATTGAAGCTACAAAGT
* * * * *
45769945 ATGGCGGATCTTTTCTTTCTGAAGTTGCAATGGAGCAGATTGAAGCCATCAG-CTCTATCTCCCT
1 ATGGCAGATCTTATCTTCCTGAAATTGCAATGGAGCAGATTGAAGCCACCAGCCT-TATCTCCCT
* * * * *
45770009 GAAGTTGCAGCGGAGCAGACTGAAGAAAGCAAATTTTATTTTCTTGGA-GTTGCAGTGGAACAAA
65 GAAGTTGCAGCGGAGCAGACTGAAGAAAGCAAATCTTATTTCCCT-GACGTTGCAATCGAACAAA
*
45770073 TTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACC
129 TTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACC
*
45770138 AGCCTTATCTCCCTGAAGTTGTAGCGGAGCAGACTAAAGACAA-CGAATCTTATTTCCCTGAAGT
194 AGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGA-AAGCGAATCTTATTTCCCTGAAGT
* *
45770202 TGCATTAGAACAGATTGAAGCTACAAATT
258 TGCATGAGAACAGATTGAAGCTACAAAGT
* *
45770231 ATGGCAGATCTTATCTTCCTGAAATTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCTCTG
1 ATGGCAGATCTTATCTTCCTGAAATTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * * *
45770296 AAGTTGCAGCGGAGCAGCCTGAATATAGCACATCTTATTTCCCTGACGTTGCAATCGAACAGATT
66 AAGTTGCAGCGGAGCAGACTGAAGAAAGCAAATCTTATTTCCCTGACGTTGCAATCGAACAAATT
* * * * *
45770361 AAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTAGAGTAGGTTGAAGCCACAAG
131 AAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAG
* *
45770426 TCTTATCTCCTTGAAGTTGCAG
196 CCTTATCTCCCTGAAGTTGCAG
45770448 TAAAAGCAGA
Statistics
Matches: 421, Mismatches: 62, Indels: 29
0.82 0.12 0.06
Matches are distributed among these distances:
274 1 0.00
275 103 0.24
276 7 0.02
277 1 0.00
278 2 0.00
280 1 0.00
283 2 0.00
284 1 0.00
285 30 0.07
286 269 0.64
287 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (286 bp):
ATGGCAGATCTTATCTTCCTGAAATTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
AAGTTGCAGCGGAGCAGACTGAAGAAAGCAAATCTTATTTCCCTGACGTTGCAATCGAACAAATT
AAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAG
CCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGAAAGCGAATCTTATTTCCCTGAAGTTGC
ATGAGAACAGATTGAAGCTACAAAGT
Found at i:45770876 original size:14 final size:15
Alignment explanation
Indices: 45770857--45770891 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
45770847 CAAATCAACT
*
45770857 AAACCCAAAAT-TAC
1 AAACCCAAAATATAA
45770871 AAACCCAAAATATAA
1 AAACCCAAAATATAA
45770886 AAACCC
1 AAACCC
45770892 TAAGCCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.60, C:0.29, G:0.00, T:0.11
Consensus pattern (15 bp):
AAACCCAAAATATAA
Found at i:45771967 original size:17 final size:18
Alignment explanation
Indices: 45771937--45771972 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
45771927 TTTATTATGG
*
45771937 TTTTTACTTTTAATTTAA
1 TTTTTACTTCTAATTTAA
45771955 TTTTTA-TTCTAATTTAA
1 TTTTTACTTCTAATTTAA
45771972 T
1 T
45771973 CCCTAACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTACTTCTAATTTAA
Found at i:45772091 original size:24 final size:24
Alignment explanation
Indices: 45772064--45772340 Score: 151
Period size: 24 Copynumber: 11.3 Consensus size: 24
45772054 TTAAGCTATT
45772064 TTATTTATTTTAAATTTTTATATA
1 TTATTTATTTTAAATTTTTATATA
* * *
45772088 TTATTTATATTAAACTGTTT-TCTA
1 TTATTTATTTTAAA-TTTTTATATA
45772112 TTATTTATTTTAAACTGTTTCATATATA
1 TTATTTATTTTAAA-T-TTT--TATATA
*
45772140 TTATTTATTTTAGATTTTT-TAT-
1 TTATTTATTTTAAATTTTTATATA
* *** * *
45772162 TTCTTT-TAAAAAATGCTTTATATG
1 TTATTTATTTTAAAT-TTTTATATA
* *
45772186 TTATTTATTTTAAATTGCTT-TAGA
1 TTATTTATTTTAAATT-TTTATATA
* *
45772210 TTATTTATTTCAAACTGTTTTATATT
1 TTATTTATTTTAAA-T-TTTTATATA
*
45772236 TTATTTATGTT-AATTTTT-T-TA
1 TTATTTATTTTAAATTTTTATATA
* * *
45772257 ATGTTTATTTTGAACCATTTTT-T-TG
1 TTATTTATTTT-AA--ATTTTTATATA
* *
45772282 TAATTTATTTTAATTTTTTCCTATATA
1 TTATTTATTTTAA-ATTTT--TATATA
*
45772309 TTATTTATTTCAAACTTTTTATATA
1 TTATTTATTTTAAA-TTTTTATATA
45772334 TTATTTA
1 TTATTTA
45772341 CTTCGAATTG
Statistics
Matches: 190, Mismatches: 41, Indels: 43
0.69 0.15 0.16
Matches are distributed among these distances:
21 13 0.07
22 9 0.05
23 15 0.08
24 55 0.29
25 48 0.25
26 16 0.08
27 18 0.09
28 16 0.08
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (24 bp):
TTATTTATTTTAAATTTTTATATA
Found at i:45772092 original size:43 final size:44
Alignment explanation
Indices: 45772015--45772256 Score: 170
Period size: 46 Copynumber: 5.2 Consensus size: 44
45772005 TTTTTTATTT
*
45772015 ATTTTTTATTCATTTT-AATAGTTTTATATATTATTTATTTTAAG
1 ATTTTTTATTTATTTTAAAT-GTTTTATATATTATTTATTTTAAG
* * *
45772059 CTATTTTATTTATTTTAAAT-TTTTATATATTATTTATATTAAACTG
1 ATTTTTTATTTATTTTAAATGTTTTATATATTATTTAT-TTTAA--G
*
45772105 TTTTCTATTATTTATTTTAAACTGTTTCATATATATTATTTATTTT-AG
1 ATTT-T-TTATTTATTTTAAA-TGTTT--TATATATTATTTATTTTAAG
* * *
45772153 ATTTTTTATTTCTTTTAAAAAATGCTTTATATGTTATTTATTTTAA-
1 ATTTTTTATTTATTTT---AAATGTTTTATATATTATTTATTTTAAG
* * *
45772199 ATTGCTTTAGATTATTTATTTCAAACTGTTTTATATTTTATTTATGTTAA-
1 A-T--TTT---TTATTTATTTTAAA-TGTTTTATATATTATTTATTTTAAG
*
45772249 TTTTTTTA
1 ATTTTTTA
45772257 ATGTTTATTT
Statistics
Matches: 160, Mismatches: 17, Indels: 42
0.73 0.08 0.19
Matches are distributed among these distances:
43 17 0.11
44 20 0.12
45 3 0.02
46 30 0.19
47 7 0.04
48 22 0.14
49 11 0.07
50 25 0.16
51 2 0.01
52 23 0.14
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (44 bp):
ATTTTTTATTTATTTTAAATGTTTTATATATTATTTATTTTAAG
Found at i:45772199 original size:98 final size:92
Alignment explanation
Indices: 45772035--45772254 Score: 253
Period size: 98 Copynumber: 2.3 Consensus size: 92
45772025 CATTTTAATA
* * *
45772035 GTTTTATATATTATTTATTTTAAGCTATTTTATTTATTTTAAATTTTTATATATTATTTATATTA
1 GTTTTATATATTATTTATTTT-AGATTTTTTATTTATTTTAAATCTTTATATATTATTTATATTA
* ** *
45772100 AACTGTTTTCTATTATTTATTTTAAACT
65 AACTGCTTTAGATTATTTATTTCAAACT
* *
45772128 GTTTCATATATATTATTTATTTTAGATTTTTTATTTCTTTTAAAAAATGCTTTATATGTTATTTA
1 GTTT--TATATATTATTTATTTTAGATTTTTTATTTATTTT---AAAT-CTTTATATATTATTTA
* *
45772193 TTTTAAATTGCTTTAGATTATTTATTTCAAACT
60 TATTAAACTGCTTTAGATTATTTATTTCAAACT
* *
45772226 GTTTTATATTTTATTTATGTTA-ATTTTTT
1 GTTTTATATATTATTTATTTTAGATTTTTT
45772255 TAATGTTTAT
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
93 4 0.04
94 15 0.14
95 24 0.22
96 16 0.15
97 4 0.04
98 45 0.42
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (92 bp):
GTTTTATATATTATTTATTTTAGATTTTTTATTTATTTTAAATCTTTATATATTATTTATATTAA
ACTGCTTTAGATTATTTATTTCAAACT
Found at i:45772217 original size:28 final size:29
Alignment explanation
Indices: 45772148--45772219 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 29
45772138 TATTATTTAT
* *
45772148 TTTAGATTTTTTATTTCTTTTAAAAAATGC
1 TTTAGATTATTTATTTATTTT-AAAAATGC
*
45772178 TTT--A-TATGTTATTTATTTT-AAATTGC
1 TTTAGATTAT-TTATTTATTTTAAAAATGC
45772204 TTTAGATTATTTATTT
1 TTTAGATTATTTATTT
45772220 CAAACTGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
26 9 0.26
27 2 0.06
28 18 0.51
29 3 0.09
30 3 0.09
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (29 bp):
TTTAGATTATTTATTTATTTTAAAAATGC
Found at i:45772357 original size:25 final size:25
Alignment explanation
Indices: 45772304--45772357 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
45772294 ATTTTTTCCT
* *
45772304 ATATATTATTTATTTCAAACTTTTT
1 ATATATTATTTACTTCAAACTTTTA
*
45772329 ATATATTATTTACTTCGAA-TTGTTA
1 ATATATTATTTACTTCAAACTT-TTA
45772354 ATAT
1 ATAT
45772358 TGATATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
ATATATTATTTACTTCAAACTTTTA
Found at i:45773934 original size:25 final size:26
Alignment explanation
Indices: 45773892--45773943 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
45773882 AGTTGTAAAT
45773892 TAGAAAAATATCTCTAGA-AATTTTC
1 TAGAAAAATATCTCTAGAGAATTTTC
* * * *
45773917 TAGAATAATCTCTTTAGAGACTTTTC
1 TAGAAAAATATCTCTAGAGAATTTTC
45773943 T
1 T
45773944 CTCTACAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (26 bp):
TAGAAAAATATCTCTAGAGAATTTTC
Found at i:45774064 original size:11 final size:12
Alignment explanation
Indices: 45774047--45774096 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
45774037 ACTTAATCAC
45774047 TTTAATATTAAA
1 TTTAATATTAAA
45774059 -TTAATA-TAATA
1 TTTAATATTAA-A
*
45774070 TTTATTAGATTAAA
1 TTTA--ATATTAAA
45774084 TTTAATATTAAA
1 TTTAATATTAAA
45774096 T
1 T
45774097 CTTATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
12 11 0.35
14 7 0.23
15 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:45774075 original size:20 final size:21
Alignment explanation
Indices: 45774052--45774092 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45774042 ATCACTTTAA
45774052 TATTAAATT-AATATAATATT
1 TATTAAATTAAATATAATATT
* *
45774072 TATTAGATTAAATTTAATATT
1 TATTAAATTAAATATAATATT
45774093 AAATCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTAAATTAAATATAATATT
Found at i:45776647 original size:21 final size:21
Alignment explanation
Indices: 45776622--45776661 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
45776612 CTACCAAGAC
45776622 AACATGGTTTTCAAAACCCTA
1 AACATGGTTTTCAAAACCCTA
45776643 AACATGGTTTTCAAAACCC
1 AACATGGTTTTCAAAACCC
45776662 ATTCCTTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (21 bp):
AACATGGTTTTCAAAACCCTA
Found at i:45777777 original size:17 final size:17
Alignment explanation
Indices: 45777755--45777792 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
45777745 TAAGTTGTCT
45777755 TTCTCGCAATGTAAACG
1 TTCTCGCAATGTAAACG
45777772 TTCTCGCAATGTAAACG
1 TTCTCGCAATGTAAACG
45777789 TTCT
1 TTCT
45777793 TACAATGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (17 bp):
TTCTCGCAATGTAAACG
Found at i:45777798 original size:17 final size:17
Alignment explanation
Indices: 45777755--45777799 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
45777745 TAAGTTGTCT
*
45777755 TTCTCGCAATGTAAACG
1 TTCTCACAATGTAAACG
*
45777772 TTCTCGCAATGTAAACG
1 TTCTCACAATGTAAACG
*
45777789 TTCTTACAATG
1 TTCTCACAATG
45777800 CTACTTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (17 bp):
TTCTCACAATGTAAACG
Found at i:45779714 original size:31 final size:31
Alignment explanation
Indices: 45779676--45779737 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
45779666 TTTAGGAATG
* *
45779676 GACAGAAAATGCGCCCTACAGAGCGTGCTTT
1 GACAGAAAATGCGCCCTACAAAACGTGCTTT
45779707 GACAGAAAATGCGCCCTACAAAACGTGCTTT
1 GACAGAAAATGCGCCCTACAAAACGTGCTTT
45779738 CTCTAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (31 bp):
GACAGAAAATGCGCCCTACAAAACGTGCTTT
Found at i:45785818 original size:20 final size:20
Alignment explanation
Indices: 45785793--45785832 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45785783 CCTAGAAAAC
45785793 AAAGAAAAATCTAATCTAAT
1 AAAGAAAAATCTAATCTAAT
45785813 AAAGAAAAATCTAATCTAAT
1 AAAGAAAAATCTAATCTAAT
45785833 CTAACCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAGAAAAATCTAATCTAAT
Found at i:45792805 original size:30 final size:30
Alignment explanation
Indices: 45792769--45792829 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
45792759 GAACAGAAGT
45792769 AAGTGGAATTATTTATCAACAAATGAAATC
1 AAGTGGAATTATTTATCAACAAATGAAATC
45792799 AAGTGGAATTATTTATCAACAAATGAAATC
1 AAGTGGAATTATTTATCAACAAATGAAATC
45792829 A
1 A
45792830 TTACAAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.30
Consensus pattern (30 bp):
AAGTGGAATTATTTATCAACAAATGAAATC
Found at i:45793927 original size:16 final size:16
Alignment explanation
Indices: 45793908--45793947 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
45793898 TCAATTACTA
45793908 ATTACAGCTCTATTAC-
1 ATTACAGCTCTATT-CT
*
45793924 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCT
45793940 ATTACAGC
1 ATTACAGC
45793948 GAACCAAACG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCT
Found at i:45797492 original size:48 final size:48
Alignment explanation
Indices: 45797320--45797640 Score: 307
Period size: 48 Copynumber: 6.7 Consensus size: 48
45797310 TGATATGTGT
* * * *
45797320 GCTAGTGTAAGACCATGTTTGGGACATGACCT-TAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGA-CCACATTATGAGA
* *
45797368 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGA-A
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCACATTATGAGA
45797415 GGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCACATTATGAGA
1 -GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCACATTATGAGA
* * **
45797464 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCACATTATGAGA
* * * * * * *
45797512 GCTAGAGTAAGACCCTATCTGGGACATGACATCG---GCATTGA-GAAGGGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCACATT-ATG-A--GA
* * * *
45797560 GCTAGTGTAAGACCATGTCT-GAGACATGGCATCGACCTCGA-CATGTGA
1 GCTAGTGTAAGACCATGTTTGGA-ACATGGCATCGACCAC-ATTATGAGA
* *
45797608 GCTAGTGTAAGACCATGTTTGGGATATGGCATC
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATC
45797641 AGTAATTTAC
Statistics
Matches: 226, Mismatches: 33, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
45 3 0.01
46 2 0.01
47 2 0.01
48 213 0.94
49 2 0.01
50 1 0.00
51 2 0.01
52 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCACATTATGAGA
Found at i:45798973 original size:18 final size:18
Alignment explanation
Indices: 45798950--45798985 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45798940 ACCATTTCCA
* *
45798950 AAGCGTGTTTTGGACCTC
1 AAGCGTATTTTGAACCTC
45798968 AAGCGTATTTTGAACCTC
1 AAGCGTATTTTGAACCTC
45798986 GTAGGTCTAT
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:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (18 bp):
AAGCGTATTTTGAACCTC
Found at i:45801609 original size:49 final size:48
Alignment explanation
Indices: 45801534--45801798 Score: 165
Period size: 49 Copynumber: 5.5 Consensus size: 48
45801524 TGTGTGTGCT
* *
45801534 AGTGTAAGACCTGTCTGGGATATGGCATCGGCACTTATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGAACATGGCATCGGCAC-TATAGATGAGAGCC
* * * * * *
45801583 AGCGTAAGACCTGTCTGGAACATGGCATTGG--CT-T-GAGGCGTGTC
1 AGTGTAAGACCTGTCTGGAACATGGCATCGGCACTATAGATGAGAGCC
* * * *
45801627 AGTGTAAGACCTGTCTAGAACATGGCGTCGACACAGATA-AGTGAGAGCC
1 AGTGTAAGACCTGTCTGGAACATGGCATCGGCAC-TATAGA-TGAGAGCC
* * * *
45801676 AGTGTAAGACCTG-CTTGGGACATGGCATCGGCTTCGAT-GTATG-GAAGTC
1 AGTGTAAGACCTGTC-TGGAACATGGCATCGGC-ACTATAG-ATGAG-AGCC
* * *
45801725 AGTGTAAGACCTGCCTGGGAGATGGCATC-G-ACT-TAGATGTGAGAGCC
1 AGTGTAAGACCTGTCTGGAACATGGCATCGGCACTATAGA--TGAGAGCC
* * *
45801772 AGTGTAAAACCATGTTTAGAACATGGC
1 AGTGTAAGACC-TGTCTGGAACATGGC
45801799 GTCAGCATCG
Statistics
Matches: 165, Mismatches: 34, Indels: 35
0.71 0.15 0.15
Matches are distributed among these distances:
44 32 0.19
45 3 0.02
46 4 0.02
47 16 0.10
48 16 0.10
49 91 0.55
50 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGAACATGGCATCGGCACTATAGATGAGAGCC
Found at i:45801699 original size:93 final size:93
Alignment explanation
Indices: 45801534--45801709 Score: 230
Period size: 93 Copynumber: 1.9 Consensus size: 93
45801524 TGTGTGTGCT
* * * * **
45801534 AGTGTAAGACCTGTCTGGGATATGGCATCGGCACTTATAGATGAGAGCCAGCGTAAGACCTGTCT
1 AGTGTAAGACCTGTCTAGAACATGGCATCGACACAGATAGATGAGAGCCAGCGTAAGACCTGTCT
*
45801599 GGAACATGGCATTGGCTTGAGGCGTGTC
66 GGAACATGGCATCGGCTTGAGGCGTGTC
* *
45801627 AGTGTAAGACCTGTCTAGAACATGGCGTCGACACAGATA-AGTGAGAGCCAGTGTAAGACCTG-C
1 AGTGTAAGACCTGTCTAGAACATGGCATCGACACAGATAGA-TGAGAGCCAGCGTAAGACCTGTC
*
45801690 TTGGGACATGGCATCGGCTT
65 -TGGAACATGGCATCGGCTT
45801710 CGATGTATGG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACCTGTCTAGAACATGGCATCGACACAGATAGATGAGAGCCAGCGTAAGACCTGTCT
GGAACATGGCATCGGCTTGAGGCGTGTC
Found at i:45802844 original size:28 final size:28
Alignment explanation
Indices: 45802804--45802859 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
45802794 CAAGGTTTTT
45802804 GGACACGGACGTGT-CATGGCCGTGTGAG
1 GGACACGGACGTGTCCA-GGCCGTGTGAG
45802832 GGACACGGACGTGTGCCAGGCCGTGTGA
1 GGACACGGACGTGT-CCAGGCCGTGTGA
45802860 AAACCCCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 14 0.54
29 10 0.38
30 2 0.08
ACGTcount: A:0.18, C:0.23, G:0.43, T:0.16
Consensus pattern (28 bp):
GGACACGGACGTGTCCAGGCCGTGTGAG
Found at i:45803026 original size:21 final size:22
Alignment explanation
Indices: 45802985--45803026 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
45802975 GTCAAGAAGG
*
45802985 CCACACGGGCGTGTCGCCCCTT
1 CCACACGGGCGTATCGCCCCTT
45803007 CCACACGGGCGTAT-GCCCCT
1 CCACACGGGCGTATCGCCCCT
45803027 ATTTCAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.12, C:0.45, G:0.26, T:0.17
Consensus pattern (22 bp):
CCACACGGGCGTATCGCCCCTT
Found at i:45804757 original size:43 final size:42
Alignment explanation
Indices: 45804709--45804866 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 42
45804699 AGCTTGTACA
* * * *
45804709 ATGCCAATGTCCCAAATATGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
* * * *
45804752 ATGCCACTGTCCTAGACAGGGTCTTGCACGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
* * **
45804794 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCATAAGCCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-GAAATCA-AATACG
* *
45804838 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
45804867 AAAAACACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
42 26 0.27
43 38 0.40
44 32 0.33
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:45839431 original size:122 final size:120
Alignment explanation
Indices: 45839216--45839438 Score: 356
Period size: 122 Copynumber: 1.8 Consensus size: 120
45839206 CAAAATAACA
* * *
45839216 ATGAGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAATCTCGATTTAACATGGAATGT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAATCTCGATTTAACACGAAATGT
*
45839281 ATGATAACTAACCTAGGAATGCAAATTAAATGATAGACATTGGCATGTTAATAGC
66 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGTTAATAGC
* * * *
45839336 ATGAGAATAAGCATAGTAATGTCATGGGTATGAGGTTTTCCTAATAACTCGATTTATCACGAAAT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAAT--CTCGATTTAACACGAAAT
45839401 GTATGATAACTAACCTAAGAATGCAAATTAAATGATAG
64 GTATGATAACTAACCTAAGAATGCAAATTAAATGATAG
45839439 TGTAACGCCC
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
120 41 0.44
122 52 0.56
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAATCTCGATTTAACACGAAATGT
ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGTTAATAGC
Found at i:45841995 original size:11 final size:10
Alignment explanation
Indices: 45841967--45842000 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
45841957 AGCCTGTAAG
45841967 TATTCTGAAT
1 TATTCTGAAT
*
45841977 TTTTCTGAAT
1 TATTCTGAAT
45841987 ATATTCTGAAT
1 -TATTCTGAAT
45841998 TAT
1 TAT
45842001 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:45848466 original size:28 final size:28
Alignment explanation
Indices: 45848426--45848489 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
45848416 TCTACTAGAG
*
45848426 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATGACCATTA
*
45848454 TACCCCTATGTATGCAAAATGACCTTTA
1 TACCCCTATGTATGCAAAATGACCATTA
45848482 TACCCCTA
1 TACCCCTA
45848490 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCATTA
Found at i:45857160 original size:25 final size:26
Alignment explanation
Indices: 45857125--45857182 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
45857115 CACTTTTATC
45857125 TTTA-TTTATCTT-CTTTAAGTACT-T
1 TTTATTTTATCTTCCTTTAA-TACTAT
45857149 TTTATTTTATCTTCCTTTAATACTAT
1 TTTATTTTATCTTCCTTTAATACTAT
*
45857175 TTCATTTT
1 TTTATTTT
45857183 TAGGTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 12 0.40
26 14 0.47
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTATTTTATCTTCCTTTAATACTAT
Found at i:45866485 original size:22 final size:22
Alignment explanation
Indices: 45866459--45866503 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
45866449 ATTATATGTA
45866459 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAAGTTAATT
* *
45866481 TTAATTTATATCTAAGTTAATT
1 TTAATTCATATATAAGTTAATT
45866503 T
1 T
45866504 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTCATATATAAGTTAATT
Found at i:45870878 original size:26 final size:26
Alignment explanation
Indices: 45870842--45870925 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
45870832 CATGAAATTC
45870842 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
45870868 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
45870894 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
45870920 CTATCA
1 TTATCA
45870926 ATTTGCATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:45884179 original size:5 final size:5
Alignment explanation
Indices: 45884169--45884237 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
45884159 TTGGCTATGG
* * *
45884169 AAGAA AAGAAA AAGAGA AAGTAG ATGAA GAGAA AAGAA AA-AA AAGAA
1 AAGAA AAG-AA AAGA-A AAG-AA AAGAA AAGAA AAGAA AAGAA AAGAA
*
45884216 AAG-A AGGAA AAGAAA AAGAA AA
1 AAGAA AAGAA AAG-AA AAGAA AA
45884238 AACTGAATCC
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
4 7 0.14
5 26 0.52
6 16 0.32
7 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (5 bp):
AAGAA
Found at i:45884217 original size:14 final size:14
Alignment explanation
Indices: 45884198--45884239 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
45884188 GTAGATGAAG
45884198 AGAAAAGAAAAAAA
1 AGAAAAGAAAAAAA
**
45884212 AGAAAAGAAGGAAA
1 AGAAAAGAAAAAAA
45884226 AGAAAAAGAAAAAA
1 AG-AAAAGAAAAAA
45884240 CTGAATCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AGAAAAGAAAAAAA
Found at i:45885157 original size:19 final size:18
Alignment explanation
Indices: 45885120--45885163 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
45885110 ATACATACAG
45885120 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
45885137 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
45885156 TACTAATT
1 TAATAATT
45885164 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:45889569 original size:19 final size:18
Alignment explanation
Indices: 45889532--45889575 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
45889522 ATACATACAG
45889532 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
45889549 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
45889568 TACTAATT
1 TAATAATT
45889576 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:45892827 original size:21 final size:21
Alignment explanation
Indices: 45892803--45892853 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
45892793 CTGGGTATTT
45892803 CGGCATTTTGAGAGTGTTTTG
1 CGGCATTTTGAGAGTGTTTTG
45892824 CGGCATTTTGAGAGTGTTTTG
1 CGGCATTTTGAGAGTGTTTTG
*
45892845 GGGCATTTT
1 CGGCATTTT
45892854 CTCTTTGTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.14, C:0.10, G:0.33, T:0.43
Consensus pattern (21 bp):
CGGCATTTTGAGAGTGTTTTG
Found at i:45905833 original size:9 final size:8
Alignment explanation
Indices: 45905814--45905849 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
45905804 ATTTGTTCTT
45905814 AAAAAATA
1 AAAAAATA
*
45905822 AAAAATTA
1 AAAAAATA
45905830 AAAAAAT-
1 AAAAAATA
45905837 AAAAAATA
1 AAAAAATA
45905845 AAAAA
1 AAAAA
45905850 CATGTATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAAATA
Found at i:45905835 original size:16 final size:15
Alignment explanation
Indices: 45905814--45905849 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
45905804 ATTTGTTCTT
45905814 AAAAAATAAAAAATTA
1 AAAAAATAAAAAA-TA
45905830 AAAAAATAAAAAATA
1 AAAAAATAAAAAATA
45905845 AAAAA
1 AAAAA
45905850 CATGTATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAATAAAAAATA
Found at i:45905840 original size:6 final size:7
Alignment explanation
Indices: 45905813--45905849 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
45905803 AATTTGTTCT
45905813 TAAAAAA
1 TAAAAAA
45905820 TAAAAAA
1 TAAAAAA
45905827 TTAAAAAAA
1 -T-AAAAAA
45905836 TAAAAAA
1 TAAAAAA
45905843 TAAAAAA
1 TAAAAAA
45905850 CATGTATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 20 0.71
8 2 0.07
9 6 0.21
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:45907113 original size:14 final size:13
Alignment explanation
Indices: 45907093--45907124 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
45907083 AATATTTGAC
45907093 TTGTTCTTAATTA
1 TTGTTCTTAATTA
45907106 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
45907120 TTGTT
1 TTGTT
45907125 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:45910858 original size:25 final size:25
Alignment explanation
Indices: 45910799--45910859 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
45910789 AAATGCTATG
* *
45910799 ATATTCTGAAACTACTATAGGTAGT
1 ATATACTGAAAATACTATAGGTAGT
* * *
45910824 A-AAATGTGAAAATACTATAGTTAGT
1 ATATA-CTGAAAATACTATAGGTAGT
45910849 ATATACTGAAA
1 ATATACTGAAA
45910860 CTGTAGTTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
24 1 0.04
25 24 0.89
26 2 0.07
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (25 bp):
ATATACTGAAAATACTATAGGTAGT
Found at i:45914426 original size:45 final size:45
Alignment explanation
Indices: 45914362--45914491 Score: 192
Period size: 45 Copynumber: 2.9 Consensus size: 45
45914352 GTTGTACAGT
* *
45914362 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
45914407 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
45914452 ATTTTTCGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
45914492 ATAAATTCGG
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 12 0.15
44 14 0.18
45 53 0.67
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:45920153 original size:34 final size:34
Alignment explanation
Indices: 45920110--45920176 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
45920100 ACAGCCCTAA
45920110 TTTGACCCTAGTCGAAAAGTGGTTTCGAGACCAT
1 TTTGACCCTAGTCGAAAAGTGGTTTCGAGACCAT
*
45920144 TTTGACCCTAGTCGAAAAGTGGTTTCGGGACCA
1 TTTGACCCTAGTCGAAAAGTGGTTTCGAGACCA
45920177 CAAAACCGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (34 bp):
TTTGACCCTAGTCGAAAAGTGGTTTCGAGACCAT
Found at i:45922478 original size:45 final size:45
Alignment explanation
Indices: 45922414--45922543 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
45922404 GTTGTACAGT
* *
45922414 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* * *
45922459 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
45922504 ATTTTTCGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
45922544 ATAAATTCAG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 11 0.14
44 14 0.18
45 52 0.68
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:45926136 original size:18 final size:18
Alignment explanation
Indices: 45926096--45926142 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
45926086 AATCTAGGCG
*
45926096 TGTGGG-CCACACGAGCG
1 TGTGGGTCCACACGAGCA
*
45926113 TATGGGTCCACACGAGCA
1 TGTGGGTCCACACGAGCA
*
45926131 TGTGGGTTCACA
1 TGTGGGTCCACA
45926143 TGGGTAGGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.21, C:0.26, G:0.34, T:0.19
Consensus pattern (18 bp):
TGTGGGTCCACACGAGCA
Found at i:45931752 original size:38 final size:38
Alignment explanation
Indices: 45931707--45931784 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
45931697 ACTAATAATG
45931707 TCAATATAAATTGTGACAATTGATAATTTTATTGTCAT
1 TCAATATAAATTGTGACAATTGATAATTTTATTGTCAT
45931745 TCAATATAAATTGTGACAATTGATAATTTTATTGTCAT
1 TCAATATAAATTGTGACAATTGATAATTTTATTGTCAT
45931783 TC
1 TC
45931785 TTTTTACTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (38 bp):
TCAATATAAATTGTGACAATTGATAATTTTATTGTCAT
Found at i:45935039 original size:20 final size:19
Alignment explanation
Indices: 45935003--45935048 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
45934993 AAAGTGATTC
*
45935003 AAAAGGAAAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAAAG
45935022 AAAAAGAAAACAACAAAAAAG
1 AAAAAGAAAA-AA-AAAAAAG
45935043 ACAAAA
1 A-AAAA
45935049 ATAATCGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 2 0.09
21 8 0.35
22 4 0.17
ACGTcount: A:0.83, C:0.07, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAAAAAAAG
Found at i:45936049 original size:25 final size:25
Alignment explanation
Indices: 45936013--45936065 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
45936003 TTTTATTTTA
*
45936013 TTTTTTAATTTTAA-GTATAATAAT
1 TTTTTTAATTTTAACGTATAAAAAT
* *
45936037 TTTTTTACCTTTTAACTTATAAAAAT
1 TTTTTTA-ATTTTAACGTATAAAAAT
45936063 TTT
1 TTT
45936066 ATTTTAGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.29
25 6 0.25
26 11 0.46
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTTTAATTTTAACGTATAAAAAT
Found at i:45936241 original size:28 final size:27
Alignment explanation
Indices: 45936210--45936325 Score: 74
Period size: 28 Copynumber: 4.2 Consensus size: 27
45936200 AAAGAATTTA
45936210 ATTAATTTTAAAATTTTAAAAAATATAT
1 ATTAATTTTAAAATTTTAAAAAAT-TAT
*** * * *
45936238 ATTAAAAATAATATTTTAAATAATTTT
1 ATTAATTTTAAAATTTTAAAAAATTAT
* * * *
45936265 AATGATTTT-TAATTTTAAAAATATTTTT
1 ATTAATTTTAAAATTTTAAAAA-A-TTAT
*
45936293 ATATAATTTTTAAATTTTTAAAAAATTA-
1 AT-TAA-TTTTAAAATTTTAAAAAATTAT
45936321 ATTAA
1 ATTAA
45936326 ATATTGATAT
Statistics
Matches: 64, Mismatches: 19, Indels: 11
0.68 0.20 0.12
Matches are distributed among these distances:
26 9 0.14
27 10 0.16
28 26 0.41
29 4 0.06
30 5 0.08
31 10 0.16
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (27 bp):
ATTAATTTTAAAATTTTAAAAAATTAT
Found at i:45936310 original size:37 final size:39
Alignment explanation
Indices: 45936239--45936313 Score: 102
Period size: 38 Copynumber: 1.9 Consensus size: 39
45936229 AAAATATATA
45936239 TTAAAAATAATATTTTAAATAATTTTAATGATTTTTAATT
1 TTAAAAATAATATTTTAAATAATTTTAA-GATTTTTAATT
*
45936279 TTAAAAAT-AT-TTTTATATAATTTTTAA-ATTTTTAA
1 TTAAAAATAATATTTTAAATAA-TTTTAAGATTTTTAA
45936314 AAAATTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
37 8 0.24
38 9 0.27
39 8 0.24
40 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (39 bp):
TTAAAAATAATATTTTAAATAATTTTAAGATTTTTAATT
Found at i:45936586 original size:2 final size:2
Alignment explanation
Indices: 45936579--45936607 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45936569 ACCGTCCAAG
45936579 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45936608 TATTTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45941525 original size:18 final size:18
Alignment explanation
Indices: 45941502--45941584 Score: 79
Period size: 18 Copynumber: 4.8 Consensus size: 18
45941492 TATTTTAATG
45941502 AATTATATAATCAATTTA
1 AATTATATAATCAATTTA
*
45941520 AATTAT-TAATTAGA--TA
1 AATTATATAATCA-ATTTA
*
45941536 AA--ATGATAAT-AATTTTT
1 AATTAT-ATAATCAA-TTTA
45941553 AATTATATAATCAATTTA
1 AATTATATAATCAATTTA
45941571 AATTATATAATCAA
1 AATTATATAATCAA
45941585 CAGGCCAGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
14 3 0.06
15 1 0.02
16 8 0.15
17 8 0.15
18 29 0.55
19 4 0.08
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
AATTATATAATCAATTTA
Found at i:45945346 original size:27 final size:27
Alignment explanation
Indices: 45945316--45945369 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
45945306 GTCATTATAT
45945316 AACCTTATGAGCTCAAAAATTTTCCTA
1 AACCTTATGAGCTCAAAAATTTTCCTA
45945343 AACCTTATGAGCTCAAAAATTTTCCTA
1 AACCTTATGAGCTCAAAAATTTTCCTA
45945370 TCATATCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
AACCTTATGAGCTCAAAAATTTTCCTA
Found at i:45949283 original size:19 final size:19
Alignment explanation
Indices: 45949259--45949297 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
45949249 TGTGAAATAG
45949259 GGACTAAATTATAAAAAAT
1 GGACTAAATTATAAAAAAT
*
45949278 GGACTAAATTATGAAAAAT
1 GGACTAAATTATAAAAAAT
45949297 G
1 G
45949298 TGAAATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (19 bp):
GGACTAAATTATAAAAAAT
Found at i:45953334 original size:17 final size:17
Alignment explanation
Indices: 45953312--45953345 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45953302 GCCAAAATTT
45953312 GAATTTATTTGTTTCAA
1 GAATTTATTTGTTTCAA
*
45953329 GAATTTATTTTTTTCAA
1 GAATTTATTTGTTTCAA
45953346 AATATTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.56
Consensus pattern (17 bp):
GAATTTATTTGTTTCAA
Found at i:45953953 original size:7 final size:7
Alignment explanation
Indices: 45953941--45953977 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
45953931 TCCAGCGCCT
45953941 CCGTACA
1 CCGTACA
*
45953948 CTGTACA
1 CCGTACA
45953955 CCGTACA
1 CCGTACA
*
45953962 CCGTACG
1 CCGTACA
45953969 CCGTACA
1 CCGTACA
45953976 CC
1 CC
45953978 TCCACGCCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.24, C:0.43, G:0.16, T:0.16
Consensus pattern (7 bp):
CCGTACA
Found at i:45956467 original size:131 final size:132
Alignment explanation
Indices: 45956215--45956480 Score: 374
Period size: 131 Copynumber: 2.0 Consensus size: 132
45956205 ATTATTCATT
** *
45956215 TAAAAACCCTTTAAAACGAAGGTGATGTTCGATATTTGGCAATTCGAGGAGTCGTGCCCTATCGT
1 TAAAAACCCTTTAAAACGAAGGAAATGTTCGATATTTGGCAATTCGAGGAATCGTGCCCTATCGT
* * * * *
45956280 GCTGGGTTGCAACTTCTCGTTTGCTCCAAATAATCGAATGTCCTTTTAGAATTTCACTCATGTTT
66 GCTGGGTTGCAACTTCTCATTTGCTCAAAACAATCGAATATCCCTTTAGAATTTCACTCATGTTT
45956345 TC
131 TC
* * *
45956347 TAAAAACTCTTTGAAACGAAGGAAATGTTCGATGTTTGGCAATTCG-GGAATCGTGCCCTATCGT
1 TAAAAACCCTTTAAAACGAAGGAAATGTTCGATATTTGGCAATTCGAGGAATCGTGCCCTATCGT
* * * *
45956411 GCTGGGTTGCAATTTC-CTATTTGCTCAAAACAATTGAATATCCCTTTGGAATTTCACTCGTGTT
66 GCTGGGTTGCAACTTCTC-ATTTGCTCAAAACAATCGAATATCCCTTTAGAATTTCACTCATGTT
45956475 TTC
130 TTC
45956478 TAA
1 TAA
45956481 GGCGAGGCAA
Statistics
Matches: 118, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
130 1 0.01
131 76 0.64
132 41 0.35
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (132 bp):
TAAAAACCCTTTAAAACGAAGGAAATGTTCGATATTTGGCAATTCGAGGAATCGTGCCCTATCGT
GCTGGGTTGCAACTTCTCATTTGCTCAAAACAATCGAATATCCCTTTAGAATTTCACTCATGTTT
TC
Found at i:45961525 original size:29 final size:30
Alignment explanation
Indices: 45961458--45961525 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
45961448 ATTTCATAAT
*
45961458 TAATTAATTAAAAAATATAAAAAATTAAAA
1 TAATTAATTAAAAAATATAAAAAAGTAAAA
* * *
45961488 T-ATTTATTAAAAAATA-AAACAAGTACAA
1 TAATTAATTAAAAAATATAAAAAAGTAAAA
*
45961516 TAATTGATTA
1 TAATTAATTA
45961526 TTTATCTCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 10 0.31
29 21 0.66
30 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (30 bp):
TAATTAATTAAAAAATATAAAAAAGTAAAA
Found at i:45963514 original size:31 final size:31
Alignment explanation
Indices: 45963459--45963610 Score: 127
Period size: 31 Copynumber: 5.0 Consensus size: 31
45963449 GAGTATCATG
* *
45963459 AATTTAAATTAAAA-TTT-AAATAATTTAGT
1 AATTTAAATAAAAATTTTAAAATAATTTAAT
*
45963488 AATTTAAATAAAAATTTTAAAATAATTGAAT
1 AATTTAAATAAAAATTTTAAAATAATTTAAT
* * *
45963519 GATTTAAATAAAATTTTTTAAATAATTTAAT
1 AATTTAAATAAAAATTTTAAAATAATTTAAT
* **
45963550 AAATTATTTAATAATATTTTAAAATAA---AAT
1 AATTTAAATAA-AA-ATTTTAAAATAATTTAAT
* * *
45963580 AATTAAAATATAAA-TTTACTAATAATTTAAT
1 AATTTAAATAAAAATTTTA-AAATAATTTAAT
45963611 TAACTTTTCA
Statistics
Matches: 96, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
27 4 0.04
28 6 0.06
29 15 0.16
30 12 0.12
31 47 0.49
32 2 0.02
33 10 0.10
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (31 bp):
AATTTAAATAAAAATTTTAAAATAATTTAAT
Found at i:45963548 original size:23 final size:25
Alignment explanation
Indices: 45963520--45963579 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 25
45963510 TAATTGAATG
*
45963520 ATTTAAATAAAATT-TTTTA-AATA
1 ATTTAAATAAAATTATTTAATAATA
45963543 ATTT-AAT-AAATTATTTAATAATA
1 ATTTAAATAAAATTATTTAATAATA
*
45963566 TTTTAAAATAAAAT
1 ATTT-AAATAAAAT
45963580 AATTAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 5 0.17
22 7 0.23
23 11 0.37
25 3 0.10
26 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTTAAATAAAATTATTTAATAATA
Found at i:45963595 original size:62 final size:60
Alignment explanation
Indices: 45963473--45963610 Score: 145
Period size: 62 Copynumber: 2.2 Consensus size: 60
45963463 TAAATTAAAA
* * * *
45963473 TTTAAATAATTTAGTAATTTAAATAAAAATTTTAAAATAATTGAATGATTTAAATAAAATTT
1 TTTAAATAATTTAATAAATTAAATAAAAATTTTAAAATAA-T-AATAATTAAAATAAAATTT
**
45963535 TTTAAATAATTTAATAAATTATTTAATAATATTTTAAAATAA-AATAATTAAAATATAAATTT
1 TTTAAATAATTTAATAAATTAAATAA-AA-ATTTTAAAATAATAATAATTAAAATA-AAATTT
**
45963597 ACT-AATAATTTAAT
1 TTTAAATAATTTAAT
45963611 TAACTTTTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
61 22 0.34
62 29 0.45
63 2 0.03
64 12 0.18
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (60 bp):
TTTAAATAATTTAATAAATTAAATAAAAATTTTAAAATAATAATAATTAAAATAAAATTT
Found at i:45965732 original size:15 final size:15
Alignment explanation
Indices: 45965712--45965757 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
45965702 AAAAGTCAAC
45965712 TTCTACTTTAAAGAG
1 TTCTACTTTAAAGAG
*
45965727 TTCTAC-TTAAAAAG
1 TTCTACTTTAAAGAG
*
45965741 ATTCAACTTTAAAGAG
1 -TTCTACTTTAAAGAG
45965757 T
1 T
45965758 ATTTGATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 7 0.27
15 12 0.46
16 7 0.27
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (15 bp):
TTCTACTTTAAAGAG
Found at i:45967886 original size:49 final size:49
Alignment explanation
Indices: 45967748--45967908 Score: 152
Period size: 48 Copynumber: 3.3 Consensus size: 49
45967738 GTGGTATGTG
* * * *
45967748 AGCCAGTGTAAGACATGTGTGGGACAT-GCATTGGCCTC-A-AGATATACA
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATAGAT-GA-A
** * * *
45967796 AGATAGTGTACGACCTGTCT-GGACATGGCATCGACAC-CGATAGATGAG
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATAGATGAA
* *
45967844 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAA
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATAGATGAA
*
45967893 AGCCAATGTAAGACCT
1 AGCCAGTGTAAGACCT
45967909 ATTAGACATG
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
47 6 0.07
48 41 0.45
49 40 0.44
50 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (49 bp):
AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATAGATGAA
Found at i:45967917 original size:96 final size:96
Alignment explanation
Indices: 45967747--45967920 Score: 208
Period size: 96 Copynumber: 1.8 Consensus size: 96
45967737 GGTGGTATGT
* * * * *
45967747 GAGCCAGTGTAAGACATGTGTGGGACATGCATTGGCCTCAAGATATACAAGATAGTGTACGACCT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGACAATGTAAGACCT
* *
45967812 GTCTGGACATGGCATCGACACCGATAGATGA
66 ATCTAGACATGGCATCGACACCGATAGATGA
* * * * *
45967843 GAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AAGCCAATGTAAGAC
1 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAGATAT-ACAAGACAATGTAAGAC
45967907 CTAT-TAGACATGGC
64 CTATCTAGACATGGC
45967921 GTTGGCATCT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
96 34 0.53
97 29 0.45
98 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (96 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGACAATGTAAGACCT
ATCTAGACATGGCATCGACACCGATAGATGA
Found at i:45971302 original size:16 final size:16
Alignment explanation
Indices: 45971281--45971315 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
45971271 TACTCCCTAT
45971281 AGACCTTGAGATTGAA
1 AGACCTTGAGATTGAA
45971297 AGACCTTGAGATTGAA
1 AGACCTTGAGATTGAA
45971313 AGA
1 AGA
45971316 ACTTTTCGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (16 bp):
AGACCTTGAGATTGAA
Found at i:45984425 original size:39 final size:39
Alignment explanation
Indices: 45984371--45984447 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
45984361 TTGGAGTTAG
*
45984371 AGCACAAAGCTTACTGGGCTCTTCAACAATTCAACTTGA
1 AGCACAAAGCTTACTGGGCTCTTCAACAACTCAACTTGA
45984410 AGCACAAAGCTTACTGGGCTCTTCAACAACTCAACTTG
1 AGCACAAAGCTTACTGGGCTCTTCAACAACTCAACTTG
45984448 GATCTTAAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (39 bp):
AGCACAAAGCTTACTGGGCTCTTCAACAACTCAACTTGA
Found at i:45985969 original size:24 final size:24
Alignment explanation
Indices: 45985925--45985971 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
45985915 TTTTCTCTTA
**
45985925 AATTTTAATTTTATTTTATTATTC
1 AATTTTAATTTTATTGAATTATTC
45985949 AATTTTCAA-TTTATTGAATTATT
1 AATTTT-AATTTTATTGAATTATT
45985972 AATAGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (24 bp):
AATTTTAATTTTATTGAATTATTC
Found at i:45988887 original size:10 final size:10
Alignment explanation
Indices: 45988857--45988890 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
45988847 AACTAACTAA
45988857 TTTAATTAAT
1 TTTAATTAAT
45988867 TTATAATTAAT
1 TT-TAATTAAT
*
45988878 TTTTATTAAT
1 TTTAATTAAT
45988888 TTT
1 TTT
45988891 GGTTATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTAATTAAT
Found at i:45991190 original size:642 final size:642
Alignment explanation
Indices: 45989963--45991243 Score: 1990
Period size: 642 Copynumber: 2.0 Consensus size: 642
45989953 AATTAGCAAC
* * * * *
45989963 GGTATCTAGCGATACATTTGCCTTGCATAACTTGCAAGATTATTGTGATAAAATTTTTTCAAGGT
1 GGTATCTAACAATACATTAGCCTTGCATAACTTGCAAGATTATTGTGATAAAACTGTTTCAAGGT
** * * *
45990028 AGAAATACATTGTTACCTCATGTAATCTTTTATGTGCTTATGAGATTAAATTAATTTTTTGAATT
66 AGAAATACATTGTTACCTCACATAAGCTTTTATGTGCTTATGAGATTAAATTAATTGTTTGAATC
* *
45990093 GGCATAAAGATATGTACAAGAGATTATTTTAGTTTCATAAGTATGCATGTGCAATAACACATTTT
131 GGCATAAAGATATGTACAAGAGATTATTTTAATTTCATAAGTATGCATGTGCAATAACACATTTG
* **
45990158 CTTATAAAAATCTGTTTAATCGGTTGAATTGACATAGAAATATAGTCAAGAGATAAATGGGTTTT
196 CTTATAAAAATCTGTTTAATCGGTTGAATTGACATAGAAATATAATCAAGAGATAAATGAATTTT
*
45990223 CGTAGGTGAGTATATTCATAAGTTAGCAAATTACCGAGTTGCTATAAATTTATTCGTAACAACAT
261 CGTAGGTAAGTATATTCATAAGTTAGCAAATTACCGAGTTGCTATAAATTTATTCGTAACAACAT
* *
45990288 AATCATGAGTTTAATAATTCTAAGTTAAGAAATGTAATTGATCTAACACAATTATGTCATATTGA
326 AAACATGAGTTTAATAATTCTAAGTTAAGAAATGTAATTAATCTAACACAATTATGTCATATTGA
* * * *
45990353 TTAAAATCTTCTTTTGAAATCGTGCATTGGAACTTTTATTTTCTCTTTATTAATTTTACTTAGTT
391 TTAAAATCATATTTTGAAATCATGCATTGGAACTTCTATTTTCTCTTTATTAATTTTACTTAGTT
*
45990418 AAAAATCTTAGTTTTTAATCACCTCCTCAAATCAAATATTTTTCCTCACCAAACTATTTTAAAAT
456 AAAAATCTTAGTATTTAATCACCTCCTCAAATCAAATATTTTTCCTCACCAAACTATTTTAAAAT
* * *
45990483 TGCATTCATAAATAATTGTTTTCACAGTCCTTATGGGTACGATAACTCGATATTTACTTTCACTT
521 TACATTCATAAATAATTCTTTTCACAGTCCCTATGGGTACGATAACTCGATATTTACTTTCACTT
* *
45990548 TATTACTTGCTGCGATTGTGTACACTTGCACATTTCTGTCATTCTAAGTTTTTGTTT
586 TATTACTTGCTGCGATTGTGTACACTTGCACATTTCTGCCATTCCAAGTTTTTGTTT
* *
45990605 GGTATCTAACAATATATTAGCCTTGCATAACTTGCAAGATTATTGTGATTAAACTGTTTCAAGGT
1 GGTATCTAACAATACATTAGCCTTGCATAACTTGCAAGATTATTGTGATAAAACTGTTTCAAGGT
* *
45990670 AGAAATACATTGTTACCTCACATAAGCTTTTATGTGCTTATGAGATTGAATTCATTGTTTGAATC
66 AGAAATACATTGTTACCTCACATAAGCTTTTATGTGCTTATGAGATTAAATTAATTGTTTGAATC
* * * *
45990735 GGCATAGAGGTATGTACAAGAGATTATTTTAATTTCATAAGTATGTATGTGCATTAACACATTTG
131 GGCATAAAGATATGTACAAGAGATTATTTTAATTTCATAAGTATGCATGTGCAATAACACATTTG
* * * * *
45990800 GTTATTAAAATTTGTTTAATCGGTTGAATTGACGTAGAGATATAATCAAGAGATAAATGAATTTT
196 CTTATAAAAATCTGTTTAATCGGTTGAATTGACATAGAAATATAATCAAGAGATAAATGAATTTT
* * * * *
45990865 GGTAGGTAAGTATGTTCATAAGTTAGCAAATTATCGAGTTGCTGTGAATTTATTCGTAACAACAT
261 CGTAGGTAAGTATATTCATAAGTTAGCAAATTACCGAGTTGCTATAAATTTATTCGTAACAACAT
* * *
45990930 AAACATGAGTTTAATAATTGTAAGTTAAGAAATGTAATTAATCTAGCACAATTATGTCATCTTGA
326 AAACATGAGTTTAATAATTCTAAGTTAAGAAATGTAATTAATCTAACACAATTATGTCATATTGA
* *
45990995 TTAAAATCATATTTTGAAATCATGCATTGGAACTTCTATTTTCTTTTTATTTATTTTACTTAGTT
391 TTAAAATCATATTTTGAAATCATGCATTGGAACTTCTATTTTCTCTTTATTAATTTTACTTAGTT
* * * * *
45991060 AAAAATCTTA-TATTTAATTACCTCCTCAAATCAAAATATTTTTCTTCACCAAAGTGTTTT-TAA
456 AAAAATCTTAGTATTTAATCACCTCCTCAAATC-AAATATTTTTCCTCACCAAACTATTTTAAAA
* *
45991123 TTACATTCATAAATAATTCTTTTCATAGTCCCTATGGGTACGATAACTTGATATTTACTTGTCAC
520 TTACATTCATAAATAATTCTTTTCACAGTCCCTATGGGTACGATAACTCGATATTTACTT-TCAC
* *
45991188 TTTATTACTTGCTGTGATTGTGTACACTTGCACATTTTTGCCATTCCAAGTTTTTG
584 TTTATTACTTGCTGCGATTGTGTACACTTGCACATTTCTGCCATTCCAAGTTTTTG
45991244 GCACCGTTGC
Statistics
Matches: 577, Mismatches: 60, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
641 77 0.13
642 500 0.87
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (642 bp):
GGTATCTAACAATACATTAGCCTTGCATAACTTGCAAGATTATTGTGATAAAACTGTTTCAAGGT
AGAAATACATTGTTACCTCACATAAGCTTTTATGTGCTTATGAGATTAAATTAATTGTTTGAATC
GGCATAAAGATATGTACAAGAGATTATTTTAATTTCATAAGTATGCATGTGCAATAACACATTTG
CTTATAAAAATCTGTTTAATCGGTTGAATTGACATAGAAATATAATCAAGAGATAAATGAATTTT
CGTAGGTAAGTATATTCATAAGTTAGCAAATTACCGAGTTGCTATAAATTTATTCGTAACAACAT
AAACATGAGTTTAATAATTCTAAGTTAAGAAATGTAATTAATCTAACACAATTATGTCATATTGA
TTAAAATCATATTTTGAAATCATGCATTGGAACTTCTATTTTCTCTTTATTAATTTTACTTAGTT
AAAAATCTTAGTATTTAATCACCTCCTCAAATCAAATATTTTTCCTCACCAAACTATTTTAAAAT
TACATTCATAAATAATTCTTTTCACAGTCCCTATGGGTACGATAACTCGATATTTACTTTCACTT
TATTACTTGCTGCGATTGTGTACACTTGCACATTTCTGCCATTCCAAGTTTTTGTTT
Found at i:46000225 original size:14 final size:15
Alignment explanation
Indices: 46000198--46000227 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
46000188 TGACTTAGCC
46000198 AATGGATGGCTTGTA
1 AATGGATGGCTTGTA
46000213 AATGGAT-GCTTGTA
1 AATGGATGGCTTGTA
46000227 A
1 A
46000228 TCTAGCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (15 bp):
AATGGATGGCTTGTA
Found at i:46010886 original size:42 final size:42
Alignment explanation
Indices: 46010827--46010911 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
46010817 TGCTACACAG
*
46010827 CCTAAGACATGGGATGTCACTTGGTTGTGTGAGCCACATGGT
1 CCTAAGACATGGGATGTCACTTGGTTGTGTGAGCCACACGGT
*
46010869 CCTAAGACATGGGATGTCACTTGGTTGTGTGAGTCACACGGT
1 CCTAAGACATGGGATGTCACTTGGTTGTGTGAGCCACACGGT
46010911 C
1 C
46010912 TACTCACAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (42 bp):
CCTAAGACATGGGATGTCACTTGGTTGTGTGAGCCACACGGT
Found at i:46014498 original size:19 final size:18
Alignment explanation
Indices: 46014467--46014557 Score: 71
Period size: 19 Copynumber: 4.8 Consensus size: 18
46014457 GATGTAATTC
*
46014467 AAAATATTAT-AAATAATT
1 AAAA-ATTATAAAATTATT
46014485 ATAAAATTATTAAAATT-TGT
1 A-AAAATTA-TAAAATTAT-T
46014505 AACAAATTATAAAATTATT
1 AA-AAATTATAAAATTATT
* *
46014524 AAAAATTGTAAAACTCTA-A
1 AAAAATTATAAAA-T-TATT
46014543 AAAAATTATAAAATT
1 AAAAATTATAAAATT
46014558 TTTTCAAGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
17 1 0.02
18 16 0.26
19 29 0.48
20 15 0.25
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAAATTATAAAATTATT
Found at i:46014513 original size:28 final size:28
Alignment explanation
Indices: 46014481--46014534 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
46014471 TATTATAAAT
*
46014481 AATTATAAAATTATTAAAATTTGTAACA
1 AATTATAAAATTATTAAAAATTGTAACA
46014509 AATTATAAAATTATTAAAAATTGTAA
1 AATTATAAAATTATTAAAAATTGTAA
46014535 AACTCTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (28 bp):
AATTATAAAATTATTAAAAATTGTAACA
Found at i:46014546 original size:28 final size:29
Alignment explanation
Indices: 46014487--46014555 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
46014477 AAATAATTAT
* *
46014487 AAAATTATTAAAATTTGTAACAAATT-AT
1 AAAATTATTAAAAATTGTAACAAATTAAA
*
46014515 AAAATTATTAAAAATTGTAA-AACTCTAAA
1 AAAATTATTAAAAATTGTAACAAAT-TAAA
46014544 AAAATTA-TAAAA
1 AAAATTATTAAAA
46014556 TTTTTTCAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 3 0.08
28 25 0.69
29 8 0.22
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTATTAAAAATTGTAACAAATTAAA
Found at i:46030998 original size:11 final size:11
Alignment explanation
Indices: 46030971--46031072 Score: 59
Period size: 11 Copynumber: 9.5 Consensus size: 11
46030961 TACAATATTC
46030971 AAATAA-AA-A
1 AAATAATAATA
*
46030980 AAATAATAGTA
1 AAATAATAATA
*
46030991 ACATAATAATA
1 AAATAATAATA
*
46031002 AAATAATAACA
1 AAATAATAATA
*
46031013 AAA-AAGTAGTA
1 AAATAA-TAATA
**
46031024 ACTTAATAATA
1 AAATAATAATA
** *
46031035 AAAGGATAACA
1 AAATAATAATA
*
46031046 AAATAGTAA-A
1 AAATAATAATA
*
46031056 AATATAATAAGA
1 AA-ATAATAATA
46031068 AAATA
1 AAATA
46031073 GTAGCAAAAC
Statistics
Matches: 68, Mismatches: 19, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
9 6 0.09
10 6 0.09
11 51 0.75
12 5 0.07
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.22
Consensus pattern (11 bp):
AAATAATAATA
Found at i:46031031 original size:33 final size:33
Alignment explanation
Indices: 46030972--46031053 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
46030962 ACAATATTCA
* * *
46030972 AATAAAAAAAATAATAGTAACATAATAATAAAAT
1 AATAACAAAAA-AGTAGTAACATAATAATAAAAG
*
46031006 AATAACAAAAAAGTAGTAACTTAATAATAAAAG
1 AATAACAAAAAAGTAGTAACATAATAATAAAAG
* *
46031039 GATAACAAAATAGTA
1 AATAACAAAAAAGTA
46031054 AAAATATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 32 0.76
34 10 0.24
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (33 bp):
AATAACAAAAAAGTAGTAACATAATAATAAAAG
Found at i:46031064 original size:33 final size:34
Alignment explanation
Indices: 46030993--46031070 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 34
46030983 TAATAGTAAC
* * *
46030993 ATAATAATAAAATAATAACAAAAAAGTAGTAACT
1 ATAATAATAAAAGAATAACAAAAAAGTAGAAAAT
* *
46031027 -TAATAATAAAAGGATAACAAAATAGTA-AAAAT
1 ATAATAATAAAAGAATAACAAAAAAGTAGAAAAT
*
46031059 ATAATAAGAAAA
1 ATAATAATAAAA
46031071 TAGTAGCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 3 0.08
33 34 0.92
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.22
Consensus pattern (34 bp):
ATAATAATAAAAGAATAACAAAAAAGTAGAAAAT
Found at i:46034332 original size:17 final size:18
Alignment explanation
Indices: 46034312--46034349 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
46034302 GTAAAACTCA
46034312 TTTCT-TAATAAATATAG
1 TTTCTATAATAAATATAG
* *
46034329 TTTCTATAGTAAATGTAG
1 TTTCTATAATAAATATAG
46034347 TTT
1 TTT
46034350 ATTTATCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (18 bp):
TTTCTATAATAAATATAG
Found at i:46037516 original size:20 final size:19
Alignment explanation
Indices: 46037472--46037509 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
46037462 ATCGAATGGT
*
46037472 TAATTAGAGTTTAATTAAG
1 TAATTAGAGTTAAATTAAG
46037491 TGAATTAGA-TTAAATTAAG
1 T-AATTAGAGTTAAATTAAG
46037510 GATAATTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (19 bp):
TAATTAGAGTTAAATTAAG
Found at i:46038073 original size:13 final size:15
Alignment explanation
Indices: 46038053--46038089 Score: 60
Period size: 13 Copynumber: 2.6 Consensus size: 15
46038043 ATATAACAAA
46038053 AGAAAGAAAAAGAA-
1 AGAAAGAAAAAGAAT
46038067 A-AAAGAAAAAGAAT
1 AGAAAGAAAAAGAAT
46038081 AGAAAGAAA
1 AGAAAGAAA
46038090 CAGAGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.57
14 2 0.10
15 7 0.33
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AGAAAGAAAAAGAAT
Found at i:46038099 original size:15 final size:15
Alignment explanation
Indices: 46038052--46038107 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
46038042 TATATAACAA
46038052 AAGAAAGAAA-A-AG
1 AAGAAAGAAACAGAG
* *
46038065 AAAAAAGAAAAAGA-
1 AAGAAAGAAACAGAG
46038079 ATAGAAAGAAACAGAG
1 A-AGAAAGAAACAGAG
46038095 AAGAAACGAAACA
1 AAGAAA-GAAACA
46038108 AGGGAGAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 17 0.49
16 7 0.20
ACGTcount: A:0.73, C:0.05, G:0.20, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAACAGAG
Found at i:46038987 original size:17 final size:18
Alignment explanation
Indices: 46038967--46039004 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
46038957 GTAAAACTCA
46038967 TTTCT-TAATAAATATAG
1 TTTCTATAATAAATATAG
* *
46038984 TTTCTATAGTAAATGTAG
1 TTTCTATAATAAATATAG
46039002 TTT
1 TTT
46039005 ATTTATCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (18 bp):
TTTCTATAATAAATATAG
Found at i:46042171 original size:20 final size:19
Alignment explanation
Indices: 46042127--46042164 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
46042117 ATCGAATGGT
*
46042127 TAATTAGAGTTTAATTAAG
1 TAATTAGAGTTAAATTAAG
46042146 TGAATTAGA-TTAAATTAAG
1 T-AATTAGAGTTAAATTAAG
46042165 GATAATTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (19 bp):
TAATTAGAGTTAAATTAAG
Found at i:46042728 original size:13 final size:15
Alignment explanation
Indices: 46042708--46042744 Score: 60
Period size: 13 Copynumber: 2.6 Consensus size: 15
46042698 ATATAACAAA
46042708 AGAAAGAAAAAGAA-
1 AGAAAGAAAAAGAAT
46042722 A-AAAGAAAAAGAAT
1 AGAAAGAAAAAGAAT
46042736 AGAAAGAAA
1 AGAAAGAAA
46042745 CAGAGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.57
14 2 0.10
15 7 0.33
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AGAAAGAAAAAGAAT
Found at i:46042754 original size:15 final size:15
Alignment explanation
Indices: 46042707--46042762 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
46042697 TATATAACAA
46042707 AAGAAAGAAA-A-AG
1 AAGAAAGAAACAGAG
* *
46042720 AAAAAAGAAAAAGA-
1 AAGAAAGAAACAGAG
46042734 ATAGAAAGAAACAGAG
1 A-AGAAAGAAACAGAG
46042750 AAGAAACGAAACA
1 AAGAAA-GAAACA
46042763 AGGGAGAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 17 0.49
16 7 0.20
ACGTcount: A:0.73, C:0.05, G:0.20, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAACAGAG
Found at i:46043948 original size:18 final size:18
Alignment explanation
Indices: 46043927--46043961 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46043917 GACTACTACG
*
46043927 GAATAATTGACTGTTATT
1 GAATAAATGACTGTTATT
46043945 GAATAAATGACTGTTAT
1 GAATAAATGACTGTTAT
46043962 AGAGTGCCTG
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:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (18 bp):
GAATAAATGACTGTTATT
Found at i:46048903 original size:24 final size:24
Alignment explanation
Indices: 46048845--46048903 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
46048835 CTAGATCAGC
*
46048845 AAATCCTGAAATGCCAAAATGCCA
1 AAATGCTGAAATGCCAAAATGCCA
* *
46048869 AAATG-TCGAAATGTCAAAATGCTGA
1 AAATGCT-GAAATGCCAAAATGC-CA
46048894 AAA-GCTGAAA
1 AAATGCTGAAA
46048904 GAATGGCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.03
24 23 0.79
25 5 0.17
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (24 bp):
AAATGCTGAAATGCCAAAATGCCA
Found at i:46053748 original size:24 final size:24
Alignment explanation
Indices: 46053690--46053748 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
46053680 CTAGATCAGC
*
46053690 AAATCCTGAAATGCCAAAATGCCA
1 AAATGCTGAAATGCCAAAATGCCA
* *
46053714 AAATG-TCGAAATGTCAAAATGCTGA
1 AAATGCT-GAAATGCCAAAATGC-CA
46053739 AAA-GCTGAAA
1 AAATGCTGAAA
46053749 GAATGGCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.03
24 23 0.79
25 5 0.17
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (24 bp):
AAATGCTGAAATGCCAAAATGCCA
Found at i:46056234 original size:48 final size:48
Alignment explanation
Indices: 46056033--46056264 Score: 170
Period size: 48 Copynumber: 4.9 Consensus size: 48
46056023 GACCACTTAT
* * *
46056033 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA-CA
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATCGCATAA
* * ** * * *
46056080 -TATG--AAAGCCGATAG-CCCAG-CTATGGTCTTACACGATGTTCTCATAT
1 CGATGCCAATGCC-AT-GTCCCAGAC-ATGGTCTTACA-GGGGATCGCATAA
* * * *
46056127 TGATGCCAATGGCATGTCCCAGACATGGTTTTACATGGGATCGCATAA
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATCGCATAA
* * * *
46056175 CAATACTAATGCCATGTCCCAGACATTGTCTTACAGGGGATCGCATAA
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATCGCATAA
* * * * * *
46056223 CGATGCCAATGCTATATCCTAGATATGGTCTTATACGGGATC
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATC
46056265 TTATCAATCT
Statistics
Matches: 138, Mismatches: 37, Indels: 19
0.71 0.19 0.10
Matches are distributed among these distances:
44 6 0.04
45 18 0.13
46 9 0.07
48 83 0.60
49 17 0.12
50 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (48 bp):
CGATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATCGCATAA
Found at i:46067682 original size:21 final size:21
Alignment explanation
Indices: 46067649--46067690 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
46067639 TAACCCTAAA
46067649 TTTTTAAATTAAATT-AATTT
1 TTTTTAAATTAAATTCAATTT
*
46067669 TTTTTATATATAAATTCAATTT
1 TTTTTAAAT-TAAATTCAATTT
46067691 ATCCTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTAAATTAAATTCAATTT
Found at i:46067775 original size:12 final size:11
Alignment explanation
Indices: 46067758--46067855 Score: 62
Period size: 12 Copynumber: 8.7 Consensus size: 11
46067748 TTTTTCTTTG
46067758 TATATTATTTA
1 TATATTATTTA
46067769 TTATATTA-TTA
1 -TATATTATTTA
46067780 TATATTATGTTA
1 TATATTAT-TTA
46067792 CCTATA-T-TTTA
1 --TATATTATTTA
**
46067803 T-TA-TAAATA
1 TATATTATTTA
46067812 TATATTATTTTA
1 TATATTA-TTTA
*
46067824 TATATTACTTA
1 TATATTATTTA
*
46067835 TCATATTGTTTA
1 T-ATATTATTTA
46067847 TATTATTAT
1 TA-TATTAT
46067856 ATATTTCGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 9 0.13
11 13 0.19
12 34 0.50
13 1 0.01
14 4 0.06
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (11 bp):
TATATTATTTA
Found at i:46067828 original size:16 final size:16
Alignment explanation
Indices: 46067767--46067828 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
46067757 GTATATTATT
*
46067767 TATTATATTAT-TATA
1 TATTATTTTATATATA
* **
46067782 TATTATGTTACCTATA
1 TATTATTTTATATATA
* * *
46067798 TTTTATTATAAATATA
1 TATTATTTTATATATA
46067814 TATTATTTTATATAT
1 TATTATTTTATATAT
46067829 TACTTATCAT
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
15 9 0.25
16 27 0.75
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (16 bp):
TATTATTTTATATATA
Found at i:46067866 original size:21 final size:21
Alignment explanation
Indices: 46067824--46067869 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
46067814 TATTATTTTA
46067824 TATATTACTTATCATATTGTT
1 TATATTACTTATCATATTGTT
46067845 TATATTA-TTAT-ATATTTCGTT
1 TATATTACTTATCATA-TT-GTT
46067866 TATA
1 TATA
46067870 AATTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.13
20 6 0.26
21 14 0.61
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (21 bp):
TATATTACTTATCATATTGTT
Found at i:46067994 original size:27 final size:28
Alignment explanation
Indices: 46067917--46067996 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 28
46067907 CTTACATCTC
* *
46067917 TTTTATTTTATTATAAAATATATAT-TA
1 TTTTATTTTATTATTAAATAAATATGTA
* * * *
46067944 TTTTA--TCACTTCTTAATTACATATGT-
1 TTTTATTTTA-TTATTAAATAAATATGTA
46067970 TTTTATTTTATTATTAAATAAATATGT
1 TTTTATTTTATTATTAAATAAATATGT
46067997 GTAATATTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
25 2 0.05
26 16 0.40
27 20 0.50
28 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTTATTTTATTATTAAATAAATATGTA
Found at i:46068144 original size:16 final size:15
Alignment explanation
Indices: 46068124--46068159 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
46068114 TAAACATCTT
46068124 TATTTTTATTTTATA
1 TATTTTTATTTTATA
46068139 TGATTTTTATTTTATA
1 T-ATTTTTATTTTATA
46068155 TATTT
1 TATTT
46068160 ATAATTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TATTTTTATTTTATA
Found at i:46068166 original size:16 final size:16
Alignment explanation
Indices: 46068125--46068166 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
46068115 AAACATCTTT
*
46068125 ATTTTTATTTTATATG
1 ATTTTAATTTTATATG
*
46068141 ATTTTTATTTTATAT-
1 ATTTTAATTTTATATG
46068156 ATTTATAATTT
1 ATTT-TAATTT
46068167 GCTTATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
ATTTTAATTTTATATG
Found at i:46068166 original size:22 final size:22
Alignment explanation
Indices: 46068122--46068166 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
46068112 TCTAAACATC
* *
46068122 TTTATTTTTATTTTATATGATT
1 TTTATTTTTATATTATATAATT
46068144 TTTATTTTATATATT-TATAATT
1 TTTATTTT-TATATTATATAATT
46068166 T
1 T
46068167 GCTTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTATTTTTATATTATATAATT
Found at i:46074389 original size:49 final size:49
Alignment explanation
Indices: 46074317--46074460 Score: 200
Period size: 49 Copynumber: 2.9 Consensus size: 49
46074307 GCCGAAGCTA
46074317 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * * *
46074366 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T
*
46074417 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
46074461 TCACAATAGA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
48 4 0.05
49 39 0.48
51 38 0.47
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:46074445 original size:51 final size:49
Alignment explanation
Indices: 46074320--46074460 Score: 185
Period size: 51 Copynumber: 2.8 Consensus size: 49
46074310 GAAGCTATCT
* *
46074320 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCG
* * * *
46074369 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCG
*
46074420 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
46074461 TCACAATAGA
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
48 4 0.05
49 36 0.46
51 38 0.49
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCG
Found at i:46074794 original size:14 final size:16
Alignment explanation
Indices: 46074762--46074799 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
46074752 ATTTACATAA
*
46074762 CATATATCACATATTT
1 CATATATCACATATGT
46074778 CATATATCAC-T-TGT
1 CATATATCACATATGT
46074792 CATATATC
1 CATATATC
46074800 TTCATTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:46082831 original size:133 final size:132
Alignment explanation
Indices: 46082595--46082920 Score: 550
Period size: 133 Copynumber: 2.5 Consensus size: 132
46082585 CAGGCTTAAG
* *
46082595 CATAGCAGATCTAACCTTTACG-TGTTTACGC-T-GAAGCAGATCTAAGATGATTTGGCATCTCT
1 CATAGCAGATCTAACC-TT-CGATGTTTTCGCATCGAAGCAGATCCAAGATGATTTGGCATCTCT
46082657 GTATTGTCAGAGAATAAATCAAAGAAGTAGATTTGGCATCTCCATATTCGACAGAGAGTAGATCG
64 GTATTGTCAGAGAATAAATCAAAGAAGTAGATTTGGCATCTCCATATTCGACAGAGAGTAGATCG
46082722 AAGA
129 AAGA
* *
46082726 CATAGCAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCTCTG
1 CATAGCAGATCTAACCTTCG-ATGTTTTCGCATCGAAGCAGATCCAAGATGATTTGGCATCTCTG
46082791 TATTGTCAGAGAATAAATCAAAGAAGTAGATTTGGCATCTCCATATTCGACAGAGAGTAGATCGA
65 TATTGTCAGAGAATAAATCAAAGAAGTAGATTTGGCATCTCCATATTCGACAGAGAGTAGATCGA
46082856 AGA
130 AGA
*
46082859 CATAGCAGATCTAACCTTCGGATGTTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCT
1 CATAGCAGATCTAACCTTC-GATGTTTTCGCATCGAAGCAGATCCAAGATGATTTGGCATCT
46082921 TTGTGTTTAC
Statistics
Matches: 183, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
129 2 0.01
130 2 0.01
131 23 0.13
132 1 0.01
133 154 0.84
134 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (132 bp):
CATAGCAGATCTAACCTTCGATGTTTTCGCATCGAAGCAGATCCAAGATGATTTGGCATCTCTGT
ATTGTCAGAGAATAAATCAAAGAAGTAGATTTGGCATCTCCATATTCGACAGAGAGTAGATCGAA
GA
Found at i:46084867 original size:12 final size:11
Alignment explanation
Indices: 46084850--46084947 Score: 53
Period size: 12 Copynumber: 8.7 Consensus size: 11
46084840 TTTTTCTTTG
46084850 TATATTATTTA
1 TATATTATTTA
46084861 TTATATTA-TTA
1 -TATATTATTTA
46084872 TATATTATGTTA
1 TATATTAT-TTA
46084884 CCTATA-T-TTTA
1 --TATATTATTTA
**
46084895 T-TA-TAAATA
1 TATATTATTTA
46084904 TATATTATTTTA
1 TATATTA-TTTA
* *
46084916 TATAGTACTTA
1 TATATTATTTA
*
46084927 TCATATTGTTTA
1 T-ATATTATTTA
46084939 TATTATTAT
1 TA-TATTAT
46084948 ATATTTCGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
8 3 0.05
9 4 0.06
10 9 0.14
11 13 0.20
12 32 0.48
13 1 0.02
14 4 0.06
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (11 bp):
TATATTATTTA
Found at i:46085041 original size:27 final size:27
Alignment explanation
Indices: 46085009--46085087 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
46084999 CTTACATCAC
* *
46085009 TTTTATTTTATTATAAAATATATAT-T
1 TTTTATTTTATTATTAAATAAATATGT
** * *
46085035 ATTTTA-TTGCTTATTAATTACATATGT
1 -TTTTATTTTATTATTAAATAAATATGT
46085062 TTTTATTTTATTATTAAATAAATATG
1 TTTTATTTTATTATTAAATAAATATG
46085088 CGTAATATTA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTATTTTATTATTAAATAAATATGT
Found at i:46085229 original size:11 final size:12
Alignment explanation
Indices: 46085213--46085252 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
46085203 TCTAAACATC
46085213 TTTATTTT-TAT
1 TTTATTTTATAT
46085224 TTTATTTTAT-T
1 TTTATTTTATAT
46085235 TTTATTTTATAT
1 TTTATTTTATAT
46085247 GTTTAT
1 -TTTAT
46085253 AATTTGCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 19 0.73
12 2 0.08
13 5 0.19
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTATTTTATAT
Found at i:46085232 original size:16 final size:16
Alignment explanation
Indices: 46085213--46085244 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
46085203 TCTAAACATC
46085213 TTTATTTTTATTTTAT
1 TTTATTTTTATTTTAT
46085229 TTTATTTTTATTTTAT
1 TTTATTTTTATTTTAT
46085245 ATGTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTTATTTTAT
Found at i:46090452 original size:86 final size:86
Alignment explanation
Indices: 46090301--46090465 Score: 260
Period size: 86 Copynumber: 1.9 Consensus size: 86
46090291 TTGAGTTTCA
* * *
46090301 AAGCTCGAAAACCAATTTCGTAAATTTTTCCTGAAACTAGACTCATATATCCATCTAAAATTTTT
1 AAGCTCGAAAACCAATTCCGTAAATTTTCCCTGAAACTAGACTCACATATCCATCTAAAATTTTT
46090366 TTTCTAGAATTTTTAATTGGG
66 TTTCTAGAATTTTTAATTGGG
** *
46090387 AAGCTCGAAAACTTATTCCGTAAATTTTCCCTGAAACTAGACTCACATATCCATTTACAAA-TTT
1 AAGCTCGAAAACCAATTCCGTAAATTTTCCCTGAAACTAGACTCACATATCCATCTA-AAATTTT
46090451 TTTTCTAGAATTTTT
65 TTTTCTAGAATTTTT
46090466 TGATCGGACC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
86 69 0.96
87 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.39
Consensus pattern (86 bp):
AAGCTCGAAAACCAATTCCGTAAATTTTCCCTGAAACTAGACTCACATATCCATCTAAAATTTTT
TTTCTAGAATTTTTAATTGGG
Found at i:46091652 original size:40 final size:40
Alignment explanation
Indices: 46091590--46091807 Score: 327
Period size: 40 Copynumber: 5.5 Consensus size: 40
46091580 AAACCAAGTA
* * *
46091590 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
46091629 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
46091669 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
46091709 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
46091749 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
46091789 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46091808 TTATCATCCG
Statistics
Matches: 169, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 14 0.08
40 155 0.92
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46099304 original size:40 final size:40
Alignment explanation
Indices: 46099249--46099343 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
46099239 NNNNNNNNNN
* *
46099249 GCACAAATGCCTTCGGGACTTAGCCCGGAAATAGT-AGTTG
1 GCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTCA-CTA
*
46099289 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTCACTA
46099329 GCACAAATGCCTTCG
1 GCACAAATGCCTTCG
46099344 TTATCATCTG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 50 0.98
41 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.22
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTCACTA
Found at i:46104696 original size:40 final size:40
Alignment explanation
Indices: 46104627--46104846 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
46104617 TATTCGAATG
* * *
46104627 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGTTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
46104667 ATAACCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
*
46104707 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
46104747 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * *
46104787 ACATCTGGGCTAAGACCCGAAGGTA-TTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
46104826 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
46104847 ATACTTAGGT
Statistics
Matches: 153, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
38 13 0.08
39 14 0.09
40 125 0.82
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:46104760 original size:80 final size:81
Alignment explanation
Indices: 46104627--46104846 Score: 290
Period size: 80 Copynumber: 2.8 Consensus size: 81
46104617 TATTCGAATG
* * * *
46104627 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGTTAGTGACTATAACCGGACTAAGAT-CCGAAGGC
1 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGATCCCGAAGGC
* *
46104691 ATTTGTGCGAGTTACT
66 ATTTATGCGAGTGACT
46104707 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGATCCCGAAGGC
*
46104771 ATTTATGCTAGTGACT
66 ATTTATGCGAGTGACT
* * * *
46104787 ACATCTGGGCTAAGACCCGAAGGTA-TTGTGCGAGTTG-CTATATCC-GGCTAA-ATCCCGAAG
1 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGATCCCGAAG
46104847 ATACTTAGGT
Statistics
Matches: 126, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
78 14 0.11
79 17 0.13
80 95 0.75
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (81 bp):
ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGATCCCGAAGGC
ATTTATGCGAGTGACT
Found at i:46107592 original size:48 final size:48
Alignment explanation
Indices: 46107536--46107806 Score: 305
Period size: 48 Copynumber: 5.6 Consensus size: 48
46107526 AGGGTGAATT
* * * ** *
46107536 GCCGATGCCATGTTCTAAACATGGTCTTACATTGGCTCACACGTCGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAAATCGTG
* *
46107584 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-AATCGTG
* * * * * *
46107632 GCCGATGCCATGTACCAGACATGGTCTTACACTGGCTCT-TATTACATT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAAAT-CGTG
* * * * *
46107680 GTCAATGTCATGTTCCAAACATGGTCTTACACTGGCTTTCATATCGTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAAATCGTG
46107728 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-AATCGTG
* *
46107776 GCCGATGCCATGTCCCATACATGGTCTTACA
1 GCCGATGCCATGTTCCAAACATGGTCTTACA
46107807 TTAGCGTACA
Statistics
Matches: 187, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
46 2 0.01
48 181 0.97
49 4 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAAATCGTG
Found at i:46107804 original size:144 final size:144
Alignment explanation
Indices: 46107544--46107806 Score: 427
Period size: 144 Copynumber: 1.8 Consensus size: 144
46107534 TTGCCGATGC
* * * *
46107544 CATGTTCTAAACATGGTCTTACATTGGCTCACACGTCGAGGCCGATGCCATGTCCCAGACATGGT
1 CATGTTCCAAACATGGTCTTACACTGGCTCACACATCGAGGCCGATGCCATGTCCCAAACATGGT
46107609 CTTACACTGGCTCTCATAATGTGGCCGATGCCATGTACCAGACATGGTCTTACACTGGCTCTTAT
66 CTTACACTGGCTCTCATAATGTGGCCGATGCCATGTACCAGACATGGTCTTACACTGGCTCTTAT
46107674 TACATTGTCAATGT
131 TACATTGTCAATGT
** * * *
46107688 CATGTTCCAAACATGGTCTTACACTGGCTTTCATATCGTGGCCGATGCCATGTTCCAAACATGGT
1 CATGTTCCAAACATGGTCTTACACTGGCTCACACATCGAGGCCGATGCCATGTCCCAAACATGGT
* *
46107753 CTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCATACATGGTCTTACA
66 CTTACACTGGCTCTCATAATGTGGCCGATGCCATGTACCAGACATGGTCTTACA
46107807 TTAGCGTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 108 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (144 bp):
CATGTTCCAAACATGGTCTTACACTGGCTCACACATCGAGGCCGATGCCATGTCCCAAACATGGT
CTTACACTGGCTCTCATAATGTGGCCGATGCCATGTACCAGACATGGTCTTACACTGGCTCTTAT
TACATTGTCAATGT
Found at i:46111159 original size:48 final size:48
Alignment explanation
Indices: 46111093--46111241 Score: 235
Period size: 48 Copynumber: 3.1 Consensus size: 48
46111083 ATGATGTTCT
* * *
46111093 CATATCAATACCAATGCCATGTCCCAGACATGGTTTTACATGGGATCG
1 CATAACAATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCG
* *
46111141 CATAACGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTG
1 CATAACAATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCG
*
46111189 CATAACAATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCG
1 CATAACAATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCG
*
46111237 TATAA
1 CATAA
46111242 TGATACCGAT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (48 bp):
CATAACAATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCG
Done.