Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 72 of 290
Found at i:23733947 original size:13 final size:13
Alignment explanation
Indices: 23733929--23733963 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
23733919 ACGAATGATA
23733929 AAATTTTCACACG
1 AAATTTTCACACG
23733942 AAATTTTCACACG
1 AAATTTTCACACG
23733955 AAATTTTCA
1 AAATTTTCA
23733964 AACATGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:23737018 original size:51 final size:51
Alignment explanation
Indices: 23736942--23737361 Score: 367
Period size: 51 Copynumber: 8.6 Consensus size: 51
23736932 ATTAAAGCTG
* * *
23736942 TAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGTTACAAGTTA
1 TAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * *
23736993 TAAATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTGAAGATAGC--G---
1 TAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAGCTA-CAAGTTA
* * * *
23737040 --AATCTTATTTCCCTAAAGTTACAGTGGAACAGATTAGAGCTACAAGTTA
1 TAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * * * * *
23737089 TAAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATT-GAG-GA-TAG---
1 TAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * *
23737134 CAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGTTA
1 TAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * * * *
23737185 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG---
1 TAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * *
23737230 TGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
1 TAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
** * * * **
23737281 TAAATCTTATCTCTTTGAGGTTGTAGTGGAACAAATTAAAGCTATGAGTTA
1 TAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
*
23737332 TGAATCTTATCTCCCTGAAGTTGCAGTGGA
1 TAAATCTTATCTCCCTGAAGTTGCAGTGGA
23737362 GAAGATTGAA
Statistics
Matches: 289, Mismatches: 58, Indels: 44
0.74 0.15 0.11
Matches are distributed among these distances:
44 1 0.00
45 96 0.33
46 6 0.02
47 2 0.01
48 8 0.03
49 2 0.01
50 7 0.02
51 166 0.57
52 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (51 bp):
TAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
Found at i:23737059 original size:45 final size:45
Alignment explanation
Indices: 23736900--23737549 Score: 242
Period size: 51 Copynumber: 13.8 Consensus size: 45
23736890 CATCATGACC
* * * * *
23736900 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-GTA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGATAGCA
* * * * * *
23736944 AATCTTATTTCCCTAAAGTTGCAGTGGAA-CAGATTAAAGTTACAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTGAAG--A-TAG---CA
*
23736995 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGATAGCA
* * * ** * *
23737040 AATCTTATTTCCCTAAAGTTACAGTGGAACAGATTAGAGCTACAAGTTA-TA
1 AATCTTATCTCCCTGAAGTTGCAGT-G-A-AG--TAGA--TTGAAGATAGCA
* * *
23737091 AATCTTATCTCCTTGAAGTTGCAGT-AGAGCAGATTGAGGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGA-AGTAGATTGAAGATAGCA
* * *
23737136 AATCTTATTTCCCTGAAGTTGCAGTGGAA-TAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTGAAG--A-TAG---CA
* * * **
23737187 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGATAGCA
* * * * * *
23737232 AATCTTATTTCCCTAAAGTTGCAGTGGAA-CAGATTAAAGCTACAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTGAAG--A-TAG---CA
** * * * * * *
23737283 AATCTTATCTCTTTGAGGTTGTAGTGGAA-CAAATTAAAGCTATGAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTGAAG--AT-AG-CA
* *
23737332 TGAATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATAGCA
1 --AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGATAGCA
*** * * * **
23737379 AATCTTATCTTTTTGAAGCTGCAGT-AGAGCAGATTAAAG-CCGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGA-AGTAGATTGAAGATAGCA
* * * *
23737423 AATCTTATCTTCTTGAAGTTGCAGTTG-AGCAGATTGAAAATAGCA
1 AATCTTATCTCCCTGAAGTTGCAG-TGAAGTAGATTGAAGATAGCA
* * * * * **
23737468 ACTTTTATCTCTCTGAAGTTGCAGTAAAGTAGATTAAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGATAGCA
* * * * * *
23737512 AACCTTATCTCTCTAAAGTTGCAATGGAGCAGATTGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAA
23737550 TATACGAGTC
Statistics
Matches: 459, Mismatches: 105, Indels: 84
0.71 0.16 0.13
Matches are distributed among these distances:
44 105 0.23
45 150 0.33
46 7 0.02
47 5 0.01
48 16 0.03
49 6 0.01
50 11 0.02
51 153 0.33
52 6 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGATAGCA
Found at i:23737309 original size:96 final size:96
Alignment explanation
Indices: 23736900--23737361 Score: 620
Period size: 96 Copynumber: 4.8 Consensus size: 96
23736890 CATCATGACC
* * *
23736900 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-GTAAATCTTATTTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATCTTATTTCCCTAAAGTT
*
23736964 GCAGTGGAACAGATTAAAGTTACAAGTTATA
66 GCAGTGGAACAGATTAAAGCTACAAGTTATA
* * *
23736995 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGATAGCGAATCTTATTTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATCTTATTTCCCTAAAGTT
* *
23737060 ACAGTGGAACAGATTAGAGCTACAAGTTATA
66 GCAGTGGAACAGATTAAAGCTACAAGTTATA
* * * ** *
23737091 AATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTGAGGATAGCAAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATCTTATTTCCCTAAAGTT
* *
23737156 GCAGTGGAATAGATTAAAGCTACAAGTTACA
66 GCAGTGGAACAGATTAAAGCTACAAGTTATA
*
23737187 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATCTTATTTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATCTTATTTCCCTAAAGTT
23737252 GCAGTGGAACAGATTAAAGCTACAAGTTATA
66 GCAGTGGAACAGATTAAAGCTACAAGTTATA
** * * * * * *
23737283 AATCTTATCTCTTTGAGGTTGTAGTGGAACAAATTAAAGCTATGAGTTATGAATCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-AG---TGAATCTTATTTCCCT
*
23737348 GAAGTTGCAGTGGA
60 AAAGTTGCAGTGGA
23737362 GAAGATTGAA
Statistics
Matches: 321, Mismatches: 39, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
95 37 0.12
96 252 0.79
98 2 0.01
99 2 0.01
102 28 0.09
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (96 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATCTTATTTCCCTAAAGTT
GCAGTGGAACAGATTAAAGCTACAAGTTATA
Found at i:23737388 original size:192 final size:189
Alignment explanation
Indices: 23736900--23737413 Score: 561
Period size: 192 Copynumber: 2.7 Consensus size: 189
23736890 CATCATGACC
* * * * * * * * *
23736900 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-GTAAATCTTATTTCCCTAAAGTT
1 AATCTTATCTCCTTGAAGTTGCAGTAGAACAAATTAAGGATAGCAAATCTTATCTCCCTGAAGTT
* * * * *
23736964 GCAGTGGAACAGATTAAAGTTACAAGTTATAAATCTTATCTCCCTGAAGTTGCAGTGAAGTAGAT
66 GCAGTGGAATAGATTAAAG-CACAAG-T-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
*
23737029 TGAAGATAGCGAATCTTATTTCCCTAAAGTTACAGTGGAACAGATTAGAGCTACAAGTTATA
128 TGAAGATAGCGAATCTTATTTCCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGTTATA
* * * *
23737091 AATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTGAGGATAGCAAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCTTGAAGTTGCAGTAGAACAAATTAAGGATAGCAAATCTTATCTCCCTGAAGTT
*
23737156 GCAGTGGAATAGATTAAAGCTACAAGTTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
66 GCAGTGGAATAGATTAAAGC-ACAAG-T-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* *
23737221 TGAAGATAGTGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATA
128 TGAAGATAGCGAATCTTATTTCCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGTTATA
* * * * * *
23737283 AATCTTATCTCTTTGAGGTTGTAGTGGAACAAATTAAAGCTATGAGTTATGAATCTTATCTCCCT
1 AATCTTATCTCCTTGAAGTTGCAGTAGAACAAATT-AAG-GAT-AG-CA--AATCTTATCTCCCT
* * *** * *
23737348 GAAGTTGCAGTGGAGA-AGATTGAAG-A-TAG-CAAATCTTATCTTTTTGAAGCTGCAGTAGAGC
60 GAAGTTGCAGTGGA-ATAGATTAAAGCACAAGTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
23737409 AGATT
124 AGATT
23737414 AAAGCCGCAA
Statistics
Matches: 280, Mismatches: 34, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
191 36 0.13
192 198 0.71
193 2 0.01
194 2 0.01
195 4 0.01
196 2 0.01
198 35 0.12
199 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (189 bp):
AATCTTATCTCCTTGAAGTTGCAGTAGAACAAATTAAGGATAGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAATAGATTAAAGCACAAGTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
AGATAGCGAATCTTATTTCCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGTTATA
Found at i:23737402 original size:147 final size:147
Alignment explanation
Indices: 23736903--23737418 Score: 391
Period size: 147 Copynumber: 3.6 Consensus size: 147
23736893 CATGACCAAT
* * * * *
23736903 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-GTAAATCTTATTTCCCTAAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATAGCAAATCTTATTTCCCTAAAGCTGCA
* * * * *
23736967 GTGGAACAGATTAAAGTTACAAGTTATAAATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTG
66 GTAGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAAATTA
* * *
23737031 AAG--A-TAG---CGAAT
130 AAGCTACAAGTTACAAAC
* * * * * * * *
23737043 CTTATTTCCCTAAAGTTACAGTGGA-ACAGATT-AGAGCTACAAGTTATAAATCTTATCTCCTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGA-AGATTGA-AG--A-TAG---CAAATCTTATTTCCCTA
* * * * * * *
23737106 AAGTTGCAGTAGAGCAGATT-GAG-GA-TAG---CAAATCTTATTTCCCTGAAGTTGCAGTGGAA
58 AAGCTGCAGTAGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGTTGCAGTGGAA
* *
23737165 TAGATTAAAGCTACAAGTTACAAAC
123 CAAATTAAAGCTACAAGTTACAAAC
* ** *
23737190 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATCTTATTTCCCTAAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATAGCAAATCTTATTTCCCTAAAGCTGCA
* ** * *
23737255 GTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCTTTGAGGTTGTAGTGGAACAAATTAA
66 GTAGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAA
** ** *
23737320 AGCTATGAGTTATGAAT
131 AGCTACAAGTTACAAAC
** *
23737337 CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATAGCAAATCTTATCTT-TTTGAAGCTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATAGCAAATCTTAT-TTCCCTAAAGCTGC
*
23737401 AGTAGAGCAGATTAAAGC
65 AGTAGAACAGATTAAAGC
23737419 CGCAAATCTT
Statistics
Matches: 295, Mismatches: 56, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
139 1 0.00
140 29 0.10
141 65 0.22
142 5 0.02
143 2 0.01
144 9 0.03
145 2 0.01
146 2 0.01
147 177 0.60
148 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (147 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATAGCAAATCTTATTTCCCTAAAGCTGCA
GTAGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAA
AGCTACAAGTTACAAAC
Found at i:23737439 original size:44 final size:44
Alignment explanation
Indices: 23737334--23737546 Score: 180
Period size: 44 Copynumber: 4.8 Consensus size: 44
23737324 ATGAGTTATG
* * * * * *
23737334 AATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATAGCA
1 AATCTTATCTTCTTGAAGTTGCAGTAGAGCAGATTAAAG-CAGCA
* * *
23737379 AATCTTATCTTTTTGAAGCTGCAGTAGAGCAGATTAAAGCCGCA
1 AATCTTATCTTCTTGAAGTTGCAGTAGAGCAGATTAAAGCAGCA
* **
23737423 AATCTTATCTTCTTGAAGTTGCAGTTGAGCAGATTGAAAATAGCA
1 AATCTTATCTTCTTGAAGTTGCAGTAGAGCAGATT-AAAGCAGCA
* * * *
23737468 ACTTTTATC-TCTCTGAAGTTGCAGTAAAGTAGATTAAAGCCA-CA
1 AATCTTATCTTCT-TGAAGTTGCAGTAGAGCAGATTAAAG-CAGCA
* * * *
23737512 AACCTTATC-TCTCTAAAGTTGCAATGGAGCAGATT
1 AATCTTATCTTCT-TGAAGTTGCAGTAGAGCAGATT
23737547 GAATATACGA
Statistics
Matches: 135, Mismatches: 30, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
44 70 0.52
45 65 0.48
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTTATCTTCTTGAAGTTGCAGTAGAGCAGATTAAAGCAGCA
Found at i:23737457 original size:89 final size:89
Alignment explanation
Indices: 23737334--23737549 Score: 272
Period size: 89 Copynumber: 2.4 Consensus size: 89
23737324 ATGAGTTATG
* * * * * *
23737334 AATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATAGCAAATCTTATCTTTTTGAAGCT
1 AATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAAATAGCAAATCTTATCTCTCTGAAGCT
* *
23737399 GCAGTAGAGCAGATTAAAGCCGCA
66 GCAGTAAAGCAGATTAAAGCCACA
* * * *
23737423 AATCTTATCTTCTTGAAGTTGCAGTTGAGCAGATTGAAAATAGCAACTTTTATCTCTCTGAAGTT
1 AATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAAATAGCAAATCTTATCTCTCTGAAGCT
*
23737488 GCAGTAAAGTAGATTAAAGCCACA
66 GCAGTAAAGCAGATTAAAGCCACA
* * *
23737512 AACCTTATC-TCTCTAAAGTTGCAATGGAGCAGATTGAA
1 AATCTTATCTTCT-TGAAGTTGCAGTGGAGCAGATTGAA
23737550 TATACGAGTC
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 3 0.03
89 106 0.97
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (89 bp):
AATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAAATAGCAAATCTTATCTCTCTGAAGCT
GCAGTAAAGCAGATTAAAGCCACA
Found at i:23740428 original size:8 final size:7
Alignment explanation
Indices: 23740398--23740442 Score: 58
Period size: 8 Copynumber: 6.4 Consensus size: 7
23740388 CTTTCATGAA
23740398 ATTTATT
1 ATTTATT
23740405 A-TTATT
1 ATTTATT
23740411 A-TTATT
1 ATTTATT
23740417 ATTTACTT
1 ATTTA-TT
23740425 ATTTATTT
1 ATTTA-TT
23740433 ATTTATT
1 ATTTATT
23740440 ATT
1 ATT
23740443 GCAATTTCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
6 12 0.34
7 9 0.26
8 14 0.40
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTTATT
Found at i:23740499 original size:18 final size:18
Alignment explanation
Indices: 23740472--23740514 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23740462 CATTTTTTTA
*
23740472 TTTTACTATTAT-TTACT
1 TTTTATTATTATCTTACT
*
23740489 TATTTATTATTGTCTTACT
1 T-TTTATTATTATCTTACT
23740508 TTTTATT
1 TTTTATT
23740515 TTAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTATTATCTTACT
Found at i:23743857 original size:79 final size:79
Alignment explanation
Indices: 23743767--23743914 Score: 208
Period size: 79 Copynumber: 1.9 Consensus size: 79
23743757 AATCTAATCA
* *
23743767 AATCAATTATCCTTAATATAAGAATACAAAAGA-CTGTAAAATCAACTCATATCTTCATGGATTG
1 AATCAATTATCCTTAATATAAGAATACAAAAGAGC-ATAAAATCAACTCATATATTCATGGATTG
23743831 CATATATCAATATAT
65 CATATATCAATATAT
* ** * * *
23743846 AATCAATTATCCTTAATGTAAGGTTACAAAAGAGCATAAAGTCAGCTTATATATTCATGGATTGC
1 AATCAATTATCCTTAATATAAGAATACAAAAGAGCATAAAATCAACTCATATATTCATGGATTGC
23743911 ATAT
66 ATAT
23743915 CTTAATACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 59 0.98
80 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (79 bp):
AATCAATTATCCTTAATATAAGAATACAAAAGAGCATAAAATCAACTCATATATTCATGGATTGC
ATATATCAATATAT
Found at i:23753344 original size:3 final size:3
Alignment explanation
Indices: 23753236--23753324 Score: 65
Period size: 3 Copynumber: 28.7 Consensus size: 3
23753226 ATATGTTTAA
* * *
23753236 AAT AAT AAT AAT AAT AAT AAT AAT AAT GAA- AAT GAAG GAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT
* **
23753282 AAT ACGT GAAT AAT AAT AA- AAT CAGG AAT AAT AAT AAT AAT AA
1 AAT A-AT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
23753325 CAACAATGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
2 4 0.06
3 57 0.83
4 7 0.10
5 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:23761136 original size:47 final size:48
Alignment explanation
Indices: 23761048--23761173 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 48
23761038 TCGAGACGTA
* * *
23761048 AGCCAGTGTAAGA-CATGTCTAGCACAT-GCATTGGCTATGAGATGAT-
1 AGCCAATGTAAGACCATGTCTAGGACATGGCATTGACTATGAGATG-TG
* *
23761094 AGTCAATGTAAGACCATGTCTGGGACATGGCATTGACT-TGAGATGTG
1 AGCCAATGTAAGACCATGTCTAGGACATGGCATTGACTATGAGATGTG
* * * *
23761141 AGCCAGTTTAAGACCGTGTCTAGGACAAGGCAT
1 AGCCAATGTAAGACCATGTCTAGGACATGGCAT
23761174 CGGCACCTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
46 12 0.18
47 46 0.70
48 8 0.12
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (48 bp):
AGCCAATGTAAGACCATGTCTAGGACATGGCATTGACTATGAGATGTG
Found at i:23764362 original size:89 final size:89
Alignment explanation
Indices: 23764211--23764384 Score: 312
Period size: 89 Copynumber: 2.0 Consensus size: 89
23764201 TCAACTAAAG
*
23764211 TTTGTGTTGATATTGAAATCGTTATATTAATGATACATCGTTGCCTATAAGACTAGTTAATCCTA
1 TTTGTGTTGATATTGAAATCATTATATTAATGATACATCGTTGCCTATAAGACTAGTTAATCCTA
23764276 GATTCATTTACTTTCCATTAATAA
66 GATTCATTTACTTTCCATTAATAA
* * *
23764300 TTTGTGTTGATATTGAAATCATTATATTAATGATACATCGTTGCTTATAAGACTGGTTAATCCTC
1 TTTGTGTTGATATTGAAATCATTATATTAATGATACATCGTTGCCTATAAGACTAGTTAATCCTA
23764365 GATTCATTTACTTTCCATTA
66 GATTCATTTACTTTCCATTA
23764385 GTAAACTTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.44
Consensus pattern (89 bp):
TTTGTGTTGATATTGAAATCATTATATTAATGATACATCGTTGCCTATAAGACTAGTTAATCCTA
GATTCATTTACTTTCCATTAATAA
Found at i:23767619 original size:47 final size:48
Alignment explanation
Indices: 23767531--23767656 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 48
23767521 TCGAGACGTA
* * *
23767531 AGCCAGTGTAAGA-CATGTCTAGCACAT-GCATTGGCTATGAGATGAT-
1 AGCCAATGTAAGACCATGTCTAGGACATGGCATTGACTATGAGATG-TG
* *
23767577 AGTCAATGTAAGACCATGTCTGGGACATGGCATTGACT-TGAGATGTG
1 AGCCAATGTAAGACCATGTCTAGGACATGGCATTGACTATGAGATGTG
* * * *
23767624 AGCCAGTTTAAGACCGTGTCTAGGACAAGGCAT
1 AGCCAATGTAAGACCATGTCTAGGACATGGCAT
23767657 CGGCACCTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
46 12 0.18
47 46 0.70
48 8 0.12
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (48 bp):
AGCCAATGTAAGACCATGTCTAGGACATGGCATTGACTATGAGATGTG
Found at i:23770845 original size:89 final size:89
Alignment explanation
Indices: 23770694--23770867 Score: 312
Period size: 89 Copynumber: 2.0 Consensus size: 89
23770684 TCAACTAAAG
*
23770694 TTTGTGTTGATATTGAAATCGTTATATTAATGATACATCGTTGCCTATAAGACTAGTTAATCCTA
1 TTTGTGTTGATATTGAAATCATTATATTAATGATACATCGTTGCCTATAAGACTAGTTAATCCTA
23770759 GATTCATTTACTTTCCATTAATAA
66 GATTCATTTACTTTCCATTAATAA
* * *
23770783 TTTGTGTTGATATTGAAATCATTATATTAATGATACATCGTTGCTTATAAGACTGGTTAATCCTC
1 TTTGTGTTGATATTGAAATCATTATATTAATGATACATCGTTGCCTATAAGACTAGTTAATCCTA
23770848 GATTCATTTACTTTCCATTA
66 GATTCATTTACTTTCCATTA
23770868 GTAAACTTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.44
Consensus pattern (89 bp):
TTTGTGTTGATATTGAAATCATTATATTAATGATACATCGTTGCCTATAAGACTAGTTAATCCTA
GATTCATTTACTTTCCATTAATAA
Found at i:23773390 original size:30 final size:30
Alignment explanation
Indices: 23773327--23773389 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
23773317 AGTTTATATA
*
23773327 TTTATAATTTTTAAAGGATTAAATTAAATT
1 TTTATAATTTTTAAAGGATTAAAGTAAATT
*
23773357 TTTATAATTTTTAGAGG-TTCAAAGTACAATT
1 TTTATAATTTTTAAAGGATT-AAAGTA-AATT
23773388 TT
1 TT
23773390 ACCTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 21 0.72
31 6 0.21
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGATTAAAGTAAATT
Found at i:23774383 original size:35 final size:35
Alignment explanation
Indices: 23774337--23774406 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
23774327 TCCAAGTCTT
*
23774337 ATGGGGGCACGTGGTTGGCTAACACAGTGTCAAAG
1 ATGGGGGCACGTGGTCGGCTAACACAGTGTCAAAG
23774372 ATGGGGGCACGTGGTCGGCTAACACAGTGTCAAAG
1 ATGGGGGCACGTGGTCGGCTAACACAGTGTCAAAG
23774407 TTCTCTCCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.37, T:0.19
Consensus pattern (35 bp):
ATGGGGGCACGTGGTCGGCTAACACAGTGTCAAAG
Found at i:23784321 original size:16 final size:15
Alignment explanation
Indices: 23784294--23784323 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23784284 ATTAATAGGC
23784294 TATTTTTTTATTTTT
1 TATTTTTTTATTTTT
23784309 TATTTTATTTATTTT
1 TATTTT-TTTATTTT
23784324 GTTTTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TATTTTTTTATTTTT
Found at i:23805494 original size:18 final size:19
Alignment explanation
Indices: 23805424--23805487 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
23805414 AAAAGAATTT
* *
23805424 ATAAAATAACACATAATAT
1 ATAAAATAATACATAATAA
**
23805443 A-AAAAT-AT-CATTTTAAA
1 ATAAAATAATACATAAT-AA
23805460 ATAAAATAATACATAATAA
1 ATAAAATAATACATAATAA
23805479 AT-AAATAAT
1 ATAAAATAAT
23805488 TGATAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 4 0.11
17 3 0.09
18 17 0.49
19 7 0.20
20 4 0.11
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAATAATACATAATAA
Found at i:23805575 original size:19 final size:19
Alignment explanation
Indices: 23805553--23805649 Score: 84
Period size: 19 Copynumber: 5.5 Consensus size: 19
23805543 TTTAAAATTT
23805553 TAAATAATATAATGAATAA
1 TAAATAATATAATGAATAA
*
23805572 TAAATAATATAATGGATAA
1 TAAATAATATAATGAATAA
* *
23805591 TATATAATATACAT-AA-CA
1 TAAATAATATA-ATGAATAA
*
23805609 TATATAA-A-AAT-AATAA
1 TAAATAATATAATGAATAA
*
23805625 TAAGTAATAT-A-GAATAA
1 TAAATAATATAATGAATAA
23805642 -AAATAATA
1 TAAATAATA
23805650 AATTTTATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
15 4 0.06
16 14 0.22
17 8 0.12
18 8 0.12
19 29 0.45
20 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAATAATATAATGAATAA
Found at i:23805853 original size:17 final size:18
Alignment explanation
Indices: 23805828--23805870 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
23805818 TAATTTGTGA
*
23805828 AAAAAAATAATATACGAT
1 AAAATAATAATATACGAT
*
23805846 -AAATAATAATATATGAT
1 AAAATAATAATATACGAT
23805863 AAAATAAT
1 AAAATAAT
23805871 CTTATAGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAATAATAATATACGAT
Found at i:23807963 original size:210 final size:210
Alignment explanation
Indices: 23807675--23808289 Score: 973
Period size: 210 Copynumber: 2.9 Consensus size: 210
23807665 AGTCTAATCG
* * * ** *
23807675 TCTGAAGGTCAGATCTGCTGTGTATCTG-CTCTCCATTGAAGTGGAAATGCCAGACTTTGATTTG
1 TCTGAAGGTGAGATCTGCTATGTGTCTGCCT-TCCATCAAAGTGGAAATGCCAGACTTCGATTTG
* *
23807739 TTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCTA
65 TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCTA
* *
23807804 AATTAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTAGATC
130 AATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATC
*
23807869 TTCTTCAGCGCAAACA
195 TACTTCAGCGCAAACA
*
23807885 TCTGAAGGTGAGATCTGCTACGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGT
1 TCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGT
* * *
23807950 TCTCTGACAATACAGAGACGACAAATCATCTTAGATTTACTTTATTGTAAACACGTG-AAGGTCA
66 TCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCT-A
* * * * *
23808014 AATCAGCCATGTCTTTGATCTGCTCCTCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATC
130 AATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATC
* *
23808079 TACTTCAGTGTAAACA
195 TACTTCAGCGCAAACA
23808095 TCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGT
1 TCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGT
* * *
23808160 TCTCTGACAATACAGAGGCGACAAATAATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCCAA
66 TCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCTAA
23808225 ATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCT
131 ATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCT
23808290 GCCTCAATGA
Statistics
Matches: 368, Mismatches: 34, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
209 4 0.01
210 359 0.98
211 5 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (210 bp):
TCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGT
TCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCTAA
ATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCT
ACTTCAGCGCAAACA
Found at i:23811947 original size:124 final size:124
Alignment explanation
Indices: 23811727--23811977 Score: 475
Period size: 124 Copynumber: 2.0 Consensus size: 124
23811717 TCAAAACCTC
23811727 AATATGTTCTTTTTCTATACGTGACTTGGCAATCATATCATCAACATATACCTCAATATCCTTAT
1 AATATGTTCTTTTTCTATACGTGACTTGGCAATCATATCATCAACATATACCTCAATATCCTTAT
* *
23811792 GCATCATATCGTGGAACAAGTTCACCATGGCCCTTTGGTACGTTGCCCCTGTGTTCTTT
66 GCATCATATCGTGGAACAAGTTCACCATGGCCCTTTGGTACATTGCCCCTGCGTTCTTT
*
23811851 AATATGTTCTTTTTCTGTACGTGACTTGGCAATCATATCATCAACATATACCTCAATATCCTTAT
1 AATATGTTCTTTTTCTATACGTGACTTGGCAATCATATCATCAACATATACCTCAATATCCTTAT
23811916 GCATCATATCGTGGAACAAGTTCACCATGGCCCTTTGGTACATTGCCCCTGCGTTCTTT
66 GCATCATATCGTGGAACAAGTTCACCATGGCCCTTTGGTACATTGCCCCTGCGTTCTTT
23811975 AAT
1 AAT
23811978 CCAAACGGCA
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (124 bp):
AATATGTTCTTTTTCTATACGTGACTTGGCAATCATATCATCAACATATACCTCAATATCCTTAT
GCATCATATCGTGGAACAAGTTCACCATGGCCCTTTGGTACATTGCCCCTGCGTTCTTT
Found at i:23820370 original size:81 final size:81
Alignment explanation
Indices: 23820235--23820393 Score: 300
Period size: 81 Copynumber: 2.0 Consensus size: 81
23820225 ACAAAAGAAA
23820235 AGAAATAGTTAGTATCACATGATATCAATAAATCTCAACGATAATTTATAAGGGTAATATCTAAA
1 AGAAATAGTTAGTATCACATGATATCAATAAATCTCAACGATAATTTATAAGGGTAATATCTAAA
*
23820300 GTATAATTCTAACTAG
66 GTATAACTCTAACTAG
23820316 AGAAATAGTTAGTATCACATGATATCAATAAATCTCAACGATAATTTATAAGGGTAATATCTAAA
1 AGAAATAGTTAGTATCACATGATATCAATAAATCTCAACGATAATTTATAAGGGTAATATCTAAA
*
23820381 GTTTAACTCTAAC
66 GTATAACTCTAAC
23820394 CAAGTTGGGC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (81 bp):
AGAAATAGTTAGTATCACATGATATCAATAAATCTCAACGATAATTTATAAGGGTAATATCTAAA
GTATAACTCTAACTAG
Found at i:23822007 original size:18 final size:19
Alignment explanation
Indices: 23821937--23822000 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
23821927 AAAAGAATTT
* *
23821937 ATAAAATAACACATAATAT
1 ATAAAATAATACATAATAA
**
23821956 A-AAAAT-AT-CATTTTAAA
1 ATAAAATAATACATAAT-AA
23821973 ATAAAATAATACATAATAA
1 ATAAAATAATACATAATAA
23821992 AT-AAATAAT
1 ATAAAATAAT
23822001 TGATAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 4 0.11
17 3 0.09
18 17 0.49
19 7 0.20
20 4 0.11
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAATAATACATAATAA
Found at i:23822088 original size:19 final size:19
Alignment explanation
Indices: 23822066--23822162 Score: 84
Period size: 19 Copynumber: 5.5 Consensus size: 19
23822056 TTTAAAATTT
23822066 TAAATAATATAATGAATAA
1 TAAATAATATAATGAATAA
*
23822085 TAAATAATATAATGGATAA
1 TAAATAATATAATGAATAA
* *
23822104 TATATAATATACAT-AA-CA
1 TAAATAATATA-ATGAATAA
*
23822122 TATATAA-A-AAT-AATAA
1 TAAATAATATAATGAATAA
*
23822138 TAAGTAATAT-A-GAATAA
1 TAAATAATATAATGAATAA
23822155 -AAATAATA
1 TAAATAATA
23822163 AATTTTATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
15 4 0.06
16 14 0.22
17 8 0.12
18 8 0.12
19 29 0.45
20 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAATAATATAATGAATAA
Found at i:23822366 original size:17 final size:18
Alignment explanation
Indices: 23822341--23822383 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
23822331 TAATTTGTGA
*
23822341 AAAAAAATAATATACGAT
1 AAAATAATAATATACGAT
*
23822359 -AAATAATAATATATGAT
1 AAAATAATAATATACGAT
23822376 AAAATAAT
1 AAAATAAT
23822384 CTTATAGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAATAATAATATACGAT
Found at i:23826665 original size:18 final size:19
Alignment explanation
Indices: 23826595--23826658 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
23826585 AAAAGAATTT
* *
23826595 ATAAAATAACACATAATAT
1 ATAAAATAATACATAATAA
**
23826614 A-AAAAT-AT-CATTTTAAA
1 ATAAAATAATACATAAT-AA
23826631 ATAAAATAATACATAATAA
1 ATAAAATAATACATAATAA
23826650 AT-AAATAAT
1 ATAAAATAAT
23826659 TGATAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 4 0.11
17 3 0.09
18 17 0.49
19 7 0.20
20 4 0.11
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAATAATACATAATAA
Found at i:23826746 original size:19 final size:19
Alignment explanation
Indices: 23826724--23826820 Score: 84
Period size: 19 Copynumber: 5.5 Consensus size: 19
23826714 TTTAAAATTT
23826724 TAAATAATATAATGAATAA
1 TAAATAATATAATGAATAA
*
23826743 TAAATAATATAATGGATAA
1 TAAATAATATAATGAATAA
* *
23826762 TATATAATATACAT-AA-CA
1 TAAATAATATA-ATGAATAA
*
23826780 TATATAA-A-AAT-AATAA
1 TAAATAATATAATGAATAA
*
23826796 TAAGTAATAT-A-GAATAA
1 TAAATAATATAATGAATAA
23826813 -AAATAATA
1 TAAATAATA
23826821 AATTTTATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
15 4 0.06
16 14 0.22
17 8 0.12
18 8 0.12
19 29 0.45
20 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAATAATATAATGAATAA
Found at i:23827024 original size:17 final size:18
Alignment explanation
Indices: 23826999--23827041 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
23826989 TAATTTGTGA
*
23826999 AAAAAAATAATATACGAT
1 AAAATAATAATATACGAT
*
23827017 -AAATAATAATATATGAT
1 AAAATAATAATATACGAT
23827034 AAAATAAT
1 AAAATAAT
23827042 CTTATAGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAATAATAATATACGAT
Found at i:23833375 original size:11 final size:11
Alignment explanation
Indices: 23833356--23833400 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
23833346 GCTAAATATT
23833356 TATTATTAAAA
1 TATTATTAAAA
*
23833367 TATTTTTAAAA
1 TATTATTAAAA
* *
23833378 AAGTATTAAAA
1 TATTATTAAAA
*
23833389 TATTATTTAAA
1 TATTATTAAAA
23833400 T
1 T
23833401 TTTAAAATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (11 bp):
TATTATTAAAA
Found at i:23833907 original size:12 final size:12
Alignment explanation
Indices: 23833890--23833914 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23833880 ATATCAAATC
23833890 CATTCTCCAAAG
1 CATTCTCCAAAG
23833902 CATTCTCCAAAG
1 CATTCTCCAAAG
23833914 C
1 C
23833915 CACAAAACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (12 bp):
CATTCTCCAAAG
Found at i:23835967 original size:167 final size:166
Alignment explanation
Indices: 23835686--23836514 Score: 758
Period size: 167 Copynumber: 5.0 Consensus size: 166
23835676 CAGAATTGAC
* * * * *
23835686 CAGATCAACACATAAAAA-AACCCAAGTCCAATCTGTAACAAACATAAATTCATTTCGAGATATA
1 CAGATCAACACATAAAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAATA
* * * * * *
23835750 CAAATCTGAGCAAACCAACGAGCTCAAGTCGCTTCTGAG-ATTCTGATCAGATAAGACTACGTAA
66 CAAATCTGAGCAAACCAACGAACTC-CGACGCTTCCGAGAATT-AGATCAGATAACACTACGTAA
*
23835814 ATTGTCCAAAATTCAAAATATTTG-ACACAATTTCTGAG
129 ATTGT-CAAAATTCAAAAGATTTGAACACAATTTCTGAG
* * * *
23835852 CAGATCAACACATAAAAAGAAGCTAAATCCAATCCGTAACAAACATAAATTCAAATAGAGAAATA
1 CAGATCAACACATAAAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAATA
* * * * *
23835917 CAAATCCGAGCAAACCAAGGAACTCGCGACGCTTCTGAGAATTAGATCAGATGACACTACGCGAA
66 CAAATCTGAGCAAACCAACGAACTC-CGACGCTTCCGAGAATTAGATCAGATAACACTACG-TAA
*
23835982 TAAT-TCAAAATTCAAAAGATTTGACACGACAATTTCTGAG
129 -ATTGTCAAAATTCAAAAGATTTGA-AC-ACAATTTCTGAG
*
23836022 CAGATCAAC-CA-AAAGAAGATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAAAA
1 CAGATCAACACATAAA-AAG--AATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAA
* * * *
23836085 ATACAAATCTGAGCAAACCAACGAGCT-C-A--CTTCCGAGATTTAGATCAGGTGACACTAC---
63 ATACAAATCTGAGCAAACCAACGAACTCCGACGCTTCCGAGAATTAGATCAGATAACACTACGTA
*
23836143 --TCG--AATAATTCAAAATGATTTGACACAACAATTTCTGAG
128 AATTGTCAA-AATTCAAAA-GATTTGA-AC-ACAATTTCTGAG
** * *
23836182 CAGAGT-AACATGTAGAAAATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAT
1 CAGA-TCAACACATA-AAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAA
* * * * * * *
23836246 TAAAAATCTAAGCAAACCAATGAACT-C-AAG-ATCAGAG-ATTCAGATCAGATACCACTACGCG
64 TACAAATCTGAGCAAACCAACGAACTCCGACGCTTCCGAGAATT-AGATCAGATAACACTA--CG
* * *
23836307 AAAAAT-TCAGAATTCAAAAGATTTGACACACCAATTTCTGAG
126 TAAATTGTCAAAATTCAAAAGATTTGA-ACA-CAATTTCTGAG
* * *
23836349 CAGATCAACACTTAAAGGAGAAATCTAAATCCAATCTATAACAAACATAAATTCAATTCGAGAAA
1 CAGATCAACACATAAA-AAG-AATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAA
* * * *
23836414 TACAAATCTGAGCAAACGAACGAACTCAGACGCTTCCCAGATTTAGATCAGATTAA-ACTGCACG
64 TACAAATCTGAGCAAACCAACGAACTCCGACGCTTCCGAGAATTAGATCAGA-TAACACT--ACG
23836478 -AAGATTG--AAAATTCAAAAGATTTGACACAACAATTTC
126 TAA-ATTGTCAAAATTCAAAAGATTTGA-AC-ACAATTTC
23836515 GAAACAAAAT
Statistics
Matches: 549, Mismatches: 71, Indels: 82
0.78 0.10 0.12
Matches are distributed among these distances:
158 2 0.00
159 9 0.02
160 97 0.18
161 19 0.03
162 3 0.01
163 3 0.01
166 48 0.09
167 135 0.25
168 83 0.15
169 11 0.02
170 52 0.09
171 82 0.15
172 4 0.01
173 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.22
Consensus pattern (166 bp):
CAGATCAACACATAAAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAATA
CAAATCTGAGCAAACCAACGAACTCCGACGCTTCCGAGAATTAGATCAGATAACACTACGTAAAT
TGTCAAAATTCAAAAGATTTGAACACAATTTCTGAG
Found at i:23836344 original size:327 final size:332
Alignment explanation
Indices: 23835712--23836466 Score: 932
Period size: 327 Copynumber: 2.3 Consensus size: 332
23835702 AAAACCCAAG
* *
23835712 TCCAATCTGTAACAAACATAAATTCATTTCGAGATATACAAATCTGAGCAAACCAACGAGCTCAA
1 TCCAATCTGTAACAAACATAAATTCAATTCGAGAAATACAAATCTGAGCAAACCAACGAGCTCAA
* *
23835777 GTCGCTTCTGAGATTCT-GATCAGATAAGACTACGTAAATTGTCCAAAATTCAAAATATTTGACA
66 ---GCTTCCGAGATT-TAGATCAGAT-AGACTACGT-AA-TCTCCAAAATTCAAAATATTTGACA
23835841 CAATTTCTGAGCAGATCAACACATAAAAAGAAGCTAAATCCAATCCGTAACAAACATAAATTCAA
124 CAATTTCTGAGCAGATCAACACATAAAAAGAAGCTAAATCCAATCCGTAACAAACATAAATTCAA
* * * * *
23835906 ATAGAGAAATACAAATCCGAGCAAACCAAGGAACTCGCGACGCTTCTGAGAATTAGATCAGATGA
189 ATAGAGAAATAAAAATCCAAGCAAACCAAGGAACTC-CGAAGCATCAGAGAATTAGATCAGATGA
*
23835971 CACTACGCGAATAATTCAAAATTCAAAAGATTTGACACGACAATTTCTGAGCAGATCAAC-C-AA
253 CACTACGCGAAAAATTCAAAATTCAAAAGATTTGACACGACAATTTCTGAGCAGATCAACACTAA
23836034 AAGAAGATAATCTAAA
318 AAGAAGA-AATCTAAA
*
23836050 TCCAATCTGTAACAAACATAAATTCAATTCGAAAAATACAAATCTGAGCAAACCAACGAGCTC-A
1 TCCAATCTGTAACAAACATAAATTCAATTCGAGAAATACAAATCTGAGCAAACCAACGAGCTCAA
* *
23836114 -CTTCCGAGATTTAGATCAGGT-GAC-AC-T-A-CTCGAATAATTCAAAATGATTTGACACAACA
66 GCTTCCGAGATTTAGATCAGATAGACTACGTAATCTCCAA-AATTCAAAAT-ATTTG--AC-ACA
** * * *
23836173 ATTTCTGAGCAGAGT-AACATGTAGAAAATAATCTAAATCCAATCTGTAACAAACATAAATTCAA
126 ATTTCTGAGCAGA-TCAACACATA-AAAAGAAGCTAAATCCAATCCGTAACAAACATAAATTCAA
* * * * *
23836237 TTCGAGAATTAAAAATCTAAGCAAACCAATGAACT-C-AAG-ATCAGAG-ATTCAGATCAGAT-A
189 ATAGAGAAATAAAAATCCAAGCAAACCAAGGAACTCCGAAGCATCAGAGAATT-AGATCAGATGA
*
23836297 CCACTACGCGAAAAATTCAGAATTCAAAAGATTTGACAC-ACCAATTTCTGAGCAGATCAACACT
253 -CACTACGCGAAAAATTCAAAATTCAAAAGATTTGACACGA-CAATTTCTGAGCAGATCAACACT
* *
23836361 TAAAGGAGAAATCTAAA
316 AAAAGAAGAAATCTAAA
* * *
23836378 TCCAATCTATAACAAACATAAATTCAATTCGAGAAATACAAATCTGAGCAAACGAACGAACTCAG
1 TCCAATCTGTAACAAACATAAATTCAATTCGAGAAATACAAATCTGAGCAAACCAACGAGCTCA-
*
23836443 ACGCTTCCCAGATTTAGATCAGAT
65 A-GCTTCCGAGATTTAGATCAGAT
23836467 TAAACTGCAC
Statistics
Matches: 368, Mismatches: 32, Indels: 40
0.84 0.07 0.09
Matches are distributed among these distances:
325 4 0.01
326 15 0.04
327 76 0.21
328 70 0.19
329 11 0.03
330 25 0.07
331 69 0.19
332 20 0.05
333 17 0.05
337 1 0.00
338 60 0.16
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (332 bp):
TCCAATCTGTAACAAACATAAATTCAATTCGAGAAATACAAATCTGAGCAAACCAACGAGCTCAA
GCTTCCGAGATTTAGATCAGATAGACTACGTAATCTCCAAAATTCAAAATATTTGACACAATTTC
TGAGCAGATCAACACATAAAAAGAAGCTAAATCCAATCCGTAACAAACATAAATTCAAATAGAGA
AATAAAAATCCAAGCAAACCAAGGAACTCCGAAGCATCAGAGAATTAGATCAGATGACACTACGC
GAAAAATTCAAAATTCAAAAGATTTGACACGACAATTTCTGAGCAGATCAACACTAAAAGAAGAA
ATCTAAA
Found at i:23842417 original size:22 final size:22
Alignment explanation
Indices: 23842389--23842434 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
23842379 GAACCGACCC
23842389 ATCAACACTCTAATTCAAACTA
1 ATCAACACTCTAATTCAAACTA
23842411 ATCAACACTCTAATTCAAACTA
1 ATCAACACTCTAATTCAAACTA
23842433 AT
1 AT
23842435 ATCCTTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (22 bp):
ATCAACACTCTAATTCAAACTA
Found at i:23846848 original size:8 final size:8
Alignment explanation
Indices: 23846837--23846861 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23846827 TTAAAGTGTT
23846837 AAAATGTG
1 AAAATGTG
23846845 AAAATGTG
1 AAAATGTG
23846853 AAAATGTG
1 AAAATGTG
23846861 A
1 A
23846862 GGGATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:23847240 original size:40 final size:40
Alignment explanation
Indices: 23847148--23847224 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
23847138 GATTAAGTTC
23847148 GGCACCAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAAT
1 GGCACCAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAAT
*
23847188 GGCACCAAGTGTGCGAG-TTGGAATAGCTTCGGCTACA
1 GGCACCAAGTGTGCG-GTTTGAAATAGCTTCGGCTACA
23847225 TGAGGCACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (40 bp):
GGCACCAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAAT
Found at i:23853577 original size:12 final size:12
Alignment explanation
Indices: 23853560--23853584 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23853550 TTGTGTTTAC
23853560 AGTATGTGTGAA
1 AGTATGTGTGAA
23853572 AGTATGTGTGAA
1 AGTATGTGTGAA
23853584 A
1 A
23853585 ATTTAATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (12 bp):
AGTATGTGTGAA
Found at i:23854680 original size:40 final size:40
Alignment explanation
Indices: 23854595--23854687 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
23854585 TGATTAAGTT
23854595 TGGCACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAA
1 TGGCACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAA
* * *
23854635 TGGCACCAAGTGTGCGAG-TTGGAATAGCTTCGGCTACATGA
1 TGGCACTAAGTGTGCG-GTTTGAAATAGCTTCGGCTACA-AA
23854676 -GGCACTAAGTGT
1 TGGCACTAAGTGT
23854688 ATGATATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 45 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAA
Found at i:23856341 original size:14 final size:14
Alignment explanation
Indices: 23856324--23856359 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
23856314 ATTGTTTCCA
23856324 TAAGGAGGTTTGTG
1 TAAGGAGGTTTGTG
23856338 TAAGGAGGTTTGTG
1 TAAGGAGGTTTGTG
*
23856352 TGAGGAGG
1 TAAGGAGG
23856360 CCTGTTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.47, T:0.31
Consensus pattern (14 bp):
TAAGGAGGTTTGTG
Found at i:23856945 original size:5 final size:5
Alignment explanation
Indices: 23856935--23856966 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
23856925 TGGGTGAACA
23856935 TGATG TGATG TGATG TGATG TGATG TGATG TG
1 TGATG TGATG TGATG TGATG TGATG TGATG TG
23856967 TATAGATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.41
Consensus pattern (5 bp):
TGATG
Found at i:23859621 original size:47 final size:46
Alignment explanation
Indices: 23859570--23859734 Score: 181
Period size: 47 Copynumber: 3.5 Consensus size: 46
23859560 ATAAAAGCTG
* * *
23859570 CTAAAATACGTTGTGGATATACCACTGGTCCAGCAGGTAATTGAT-GA
1 CTAAAATACGTTATGGATAAACCACTGGTCAAGCAGGTAA-TG-TCGA
* * *
23859617 CTAAAATACGTTATGGATAAACCACTAGTCAAGCAGATGACTGTCGA
1 CTAAAATACGTTATGGATAAACCACTGGTCAAGCAGGT-AATGTCGA
* * * *
23859664 CTAAGATATGTTGTGGACAAACCACTGGTCGAA-CAGGTGAATGTCGA
1 CTAAAATACGTTATGGATAAACCACTGGTC-AAGCAGGT-AATGTCGA
23859711 CTAAAATACGTTATGGATAAACCA
1 CTAAAATACGTTATGGATAAACCA
23859735 TCGGTAGAGT
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 1 0.01
47 94 0.96
48 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (46 bp):
CTAAAATACGTTATGGATAAACCACTGGTCAAGCAGGTAATGTCGA
Found at i:23860295 original size:19 final size:20
Alignment explanation
Indices: 23860268--23860305 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
23860258 ATGGACTACC
*
23860268 TTGACCAAATC-ATAAAATT
1 TTGACCAAAACAATAAAATT
*
23860287 TTGAGCAAAACAATAAAAT
1 TTGACCAAAACAATAAAAT
23860306 CTGAAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (20 bp):
TTGACCAAAACAATAAAATT
Found at i:23868946 original size:14 final size:14
Alignment explanation
Indices: 23868927--23868954 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23868917 ATTTGAATTG
23868927 TTACAAGAGGAATA
1 TTACAAGAGGAATA
23868941 TTACAAGAGGAATA
1 TTACAAGAGGAATA
23868955 GACTATGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
TTACAAGAGGAATA
Found at i:23873827 original size:24 final size:24
Alignment explanation
Indices: 23873800--23873848 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
23873790 GATTTTGCAT
23873800 TATTTTCACCAATACGTCTTTTCC
1 TATTTTCACCAATACGTCTTTTCC
* *
23873824 TATTTTCACCGATCCGTCTTTTCC
1 TATTTTCACCAATACGTCTTTTCC
23873848 T
1 T
23873849 TGTCAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.31, G:0.06, T:0.47
Consensus pattern (24 bp):
TATTTTCACCAATACGTCTTTTCC
Found at i:23874088 original size:90 final size:90
Alignment explanation
Indices: 23873979--23874176 Score: 303
Period size: 90 Copynumber: 2.2 Consensus size: 90
23873969 TTAAAGGTGT
* * *
23873979 AAAAA-ACCCTCAAAATTTTTCCAAAAAAAAGCAATTAAGCCTCTAC-TTTTTTTGCACTCAATT
1 AAAAAGACCCTCAAACTTTTT-CAAAAAAAAGCAATTAAGCCCCTACTTTTTTTTACACTCAATT
* * *
23874042 GGTTA-CTGGAATTTTCAAAATGGATC
65 GGGTACCT-GAACTTTCAAAATGCATC
23874068 AAAAAGACCCTCAAACTTTTTCAAAAAAAAGCAATTAAGCCCCTACTTTTTTTTACACTCAATTG
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAAGCAATTAAGCCCCTACTTTTTTTTACACTCAATTG
23874133 GGTACCTGAACTTTCAAAATGCATC
66 GGTACCTGAACTTTCAAAATGCATC
23874158 AAAAAGACCCTCAAACTTT
1 AAAAAGACCCTCAAACTTT
23874177 AGAAAGAAAA
Statistics
Matches: 100, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
89 29 0.29
90 69 0.69
91 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (90 bp):
AAAAAGACCCTCAAACTTTTTCAAAAAAAAGCAATTAAGCCCCTACTTTTTTTTACACTCAATTG
GGTACCTGAACTTTCAAAATGCATC
Found at i:23874212 original size:90 final size:85
Alignment explanation
Indices: 23874001--23874205 Score: 205
Period size: 90 Copynumber: 2.3 Consensus size: 85
23873991 AAATTTTTCC
* * * * *
23874001 AAAAAAAAGCAATTAAGCCTCTACTTTTTTTGCACTCAATTGGTTACTGGAATTTTCAAAATGGA
1 AAAAAAAAGCAATTAAG--ACT--TTTTTTTACACTCAATTGGGTACTGGAACTTTCAAAATGCA
***
23874066 TCAAAAAGACCCTCAAACTTTTTC
62 TCAAAAAGACCCTCAAACTTTAGA
23874090 AAAAAAAAGCAATTAAGCCCCTACTTTTTTTTACACTCAATTGGGTACCT-GAACTTTCAAAATG
1 AAAAAAAAGCAATTAAG-----ACTTTTTTTTACACTCAATTGGGTA-CTGGAACTTTCAAAATG
23874154 CATCAAAAAGACCCTCAAACTTTAGAAAGA
60 CATCAAAAAGACCCTCAAACTTT----AGA
23874184 AAAAAAAAGCAATTAAGACTTT
1 AAAAAAAAGCAATTAAGACTTT
23874206 GCTTTTATTA
Statistics
Matches: 99, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
89 22 0.22
90 55 0.56
91 2 0.02
92 3 0.03
94 17 0.17
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (85 bp):
AAAAAAAAGCAATTAAGACTTTTTTTTACACTCAATTGGGTACTGGAACTTTCAAAATGCATCAA
AAAGACCCTCAAACTTTAGA
Found at i:23874309 original size:12 final size:12
Alignment explanation
Indices: 23874273--23874316 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
23874263 AAATAGTATT
23874273 AAATTTTAATAA
1 AAATTTTAATAA
*
23874285 AAATTCAAATAATAA
1 AAATT---TTAATAA
23874300 AAATTTTAATAA
1 AAATTTTAATAA
23874312 AAATT
1 AAATT
23874317 AGAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 16 0.59
15 11 0.41
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
AAATTTTAATAA
Found at i:23874328 original size:27 final size:27
Alignment explanation
Indices: 23874273--23874329 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
23874263 AAATAGTATT
* *
23874273 AAATTTTAATAAAAATTCAAATAATAA
1 AAATTTTAATAAAAATTCAAAAAAAAA
*
23874300 AAATTTTAATAAAAATT-AGAAAAAAA
1 AAATTTTAATAAAAATTCAAAAAAAAA
23874326 AAAT
1 AAAT
23874330 ATAAAAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (27 bp):
AAATTTTAATAAAAATTCAAAAAAAAA
Found at i:23874335 original size:34 final size:34
Alignment explanation
Indices: 23874291--23874357 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
23874281 ATAAAAATTC
*
23874291 AAATAATAAAAATTTTAATAAAA-ATTAGAAAAAAA
1 AAATAATAAAAATTGTAA-AAAATATTA-AAAAAAA
23874326 AAAT-ATAAAAATTGTAAAAAATATTAAAAAAA
1 AAATAATAAAAATTGTAAAAAATATTAAAAAAA
23874358 TTGAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 10 0.33
34 16 0.53
35 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (34 bp):
AAATAATAAAAATTGTAAAAAATATTAAAAAAAA
Found at i:23874346 original size:19 final size:19
Alignment explanation
Indices: 23874322--23874394 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
23874312 AAATTAGAAA
23874322 AAAAAAATATAAAAATTGT
1 AAAAAAATATAAAAATTGT
*
23874341 AAAAAATATTAAAAAAATTG-
1 AAAAAA-A-TATAAAAATTGT
*** *
23874361 AAAATTTTTATAAAAATCGT
1 AAAA-AAATATAAAAATTGT
*
23874381 AAAAAATTATAAAA
1 AAAAAAATATAAAA
23874395 TATATAATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 23 0.55
20 9 0.21
21 10 0.24
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAAAATATAAAAATTGT
Found at i:23874424 original size:24 final size:27
Alignment explanation
Indices: 23874380--23874443 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 27
23874370 ATAAAAATCG
23874380 TAAAAAATTATAAAATATAT-AA-T-A
1 TAAAAAATTATAAAATATATAAAGTCA
* *
23874404 TAAAAAATTATAAATTTTATAAAGTCA
1 TAAAAAATTATAAAATATATAAAGTCA
23874431 TAAGAAAATTATA
1 TAA-AAAATTATA
23874444 CAAAATGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 18 0.53
25 2 0.06
26 1 0.03
27 4 0.12
28 9 0.26
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (27 bp):
TAAAAAATTATAAAATATATAAAGTCA
Found at i:23874703 original size:10 final size:10
Alignment explanation
Indices: 23874688--23874733 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
23874678 AAAAAAATTC
23874688 TAATTTTTAA
1 TAATTTTTAA
23874698 TAATTTTT-A
1 TAATTTTTAA
*
23874707 -AATTTTTAT
1 TAATTTTTAA
**
23874716 TAAAGTTTAA
1 TAATTTTTAA
23874726 TAATTTTT
1 TAATTTTT
23874734 CTAAAAGTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
8 7 0.25
9 1 0.04
10 20 0.71
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:23874732 original size:20 final size:19
Alignment explanation
Indices: 23874707--23874755 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
23874697 ATAATTTTTA
23874707 AATTTTTATTAAAGTTTAAT
1 AATTTTTATTAAAG-TTAAT
* * *
23874727 AATTTTTCTAAAAGTTATT
1 AATTTTTATTAAAGTTAAT
*
23874746 ATTTTTTATT
1 AATTTTTATT
23874756 TTTCTATATT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
AATTTTTATTAAAGTTAAT
Found at i:23877365 original size:10 final size:9
Alignment explanation
Indices: 23877350--23877429 Score: 65
Period size: 9 Copynumber: 8.7 Consensus size: 9
23877340 TAAAAAATCA
*
23877350 ATAAAAGTT
1 ATAAAAATT
23877359 ATAAAAATT
1 ATAAAAATT
***
23877368 ATTAATTTTT
1 A-TAAAAATT
*
23877378 AATAAAAACT
1 -ATAAAAATT
23877388 AT-AAAA-T
1 ATAAAAATT
23877395 ATTAAAAATT
1 A-TAAAAATT
23877405 ATAAAAATT
1 ATAAAAATT
23877414 ATTAAAAATT
1 A-TAAAAATT
23877424 ATAAAA
1 ATAAAA
23877430 TAAATAGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
7 2 0.04
8 5 0.09
9 29 0.51
10 20 0.35
11 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (9 bp):
ATAAAAATT
Found at i:23877418 original size:19 final size:18
Alignment explanation
Indices: 23877380--23877429 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 18
23877370 TAATTTTTAA
*
23877380 TAAAAACTAT-AAAATAT
1 TAAAAATTATAAAAATAT
23877397 TAAAAATTATAAAAATTAT
1 TAAAAATTATAAAAA-TAT
23877416 TAAAAATTATAAAA
1 TAAAAATTATAAAA
23877430 TAAATAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 9 0.30
18 4 0.13
19 17 0.57
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAATTATAAAAATAT
Found at i:23877441 original size:46 final size:46
Alignment explanation
Indices: 23877351--23877442 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 46
23877341 AAAAAATCAA
* *** *
23877351 TAAAAGTTATAAAAATTATTAATTTTTAATAAAAACTATAAAATAT
1 TAAAAATTATAAAAATTATTAAAAATTAATAAAAACAATAAAATAT
23877397 TAAAAATTATAAAAATTATTAAAAATT-ATAAAATA-AATAGAAATAT
1 TAAAAATTATAAAAATTATTAAAAATTAATAAAA-ACAATA-AAATAT
23877443 AGAAAAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
45 9 0.23
46 30 0.77
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (46 bp):
TAAAAATTATAAAAATTATTAAAAATTAATAAAAACAATAAAATAT
Found at i:23877495 original size:19 final size:19
Alignment explanation
Indices: 23877463--23877517 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
23877453 TTATAAAGTT
23877463 GTAAGAAAATTATAAAAAAT-
1 GTAA-AAAA-TATAAAAAATC
*
23877483 GTAAAGAAATAT-AAAATTC
1 GTAAA-AAATATAAAAAATC
23877502 GTAAAAAATATAAAAA
1 GTAAAAAATATAAAAA
23877518 CTATCGTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 11 0.35
19 13 0.42
20 7 0.23
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
GTAAAAAATATAAAAAATC
Found at i:23877769 original size:18 final size:18
Alignment explanation
Indices: 23877717--23877778 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
23877707 TATTTTATAA
*
23877717 TATTTTTTATGACTTTTTT
1 TATTTTTTACGA-TTTTTT
* ** *
23877736 AAAATTTTAC-AATTTTT
1 TATTTTTTACGATTTTTT
*
23877753 TATTTTTTACGATTTTTA
1 TATTTTTTACGATTTTTT
23877771 TATTTTTT
1 TATTTTTT
23877779 TCTAATTTTT
Statistics
Matches: 32, Mismatches: 10, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
17 12 0.38
18 14 0.44
19 6 0.19
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTTTTTACGATTTTTT
Found at i:23877786 original size:19 final size:18
Alignment explanation
Indices: 23877740--23877789 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
23877730 TTTTTTAAAA
23877740 TTTTACAATTTTT-TATT
1 TTTTACAATTTTTATATT
*
23877757 TTTTACGATTTTTATATT
1 TTTTACAATTTTTATATT
*
23877775 TTTTTCTAATTTTTA
1 TTTTAC-AATTTTTA
23877790 ATAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 12 0.43
18 9 0.32
19 7 0.25
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTACAATTTTTATATT
Found at i:23878059 original size:31 final size:32
Alignment explanation
Indices: 23877991--23878067 Score: 145
Period size: 32 Copynumber: 2.4 Consensus size: 32
23877981 AATTAAGTGC
*
23877991 AAAAAAAATTAAGGGTTTAATTGCTTCTTTTT
1 AAAAAAAATTAAGGGTCTAATTGCTTCTTTTT
23878023 AAAAAAAATTAAGGGTCTAATTGCTTCTTTTT
1 AAAAAAAATTAAGGGTCTAATTGCTTCTTTTT
23878055 AAAAAAAATTAAG
1 AAAAAAAATTAAG
23878068 ATTCAATGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (32 bp):
AAAAAAAATTAAGGGTCTAATTGCTTCTTTTT
Found at i:23878515 original size:21 final size:22
Alignment explanation
Indices: 23878465--23878515 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
23878455 ATTGCAAGCA
** *
23878465 TAAATATAAATATATGTTCAAT
1 TAAATATAAATATAAATTCAAC
*
23878487 TAATTATAAA-ATAAATTCAAC
1 TAAATATAAATATAAATTCAAC
23878508 TAAATATA
1 TAAATATA
23878516 CACGTAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAATATAAATATAAATTCAAC
Found at i:23879090 original size:31 final size:31
Alignment explanation
Indices: 23879055--23879114 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
23879045 TTTGTACTCG
*
23879055 TAAAATTTTGATTGTGATTTAAATATATACT
1 TAAAATTTTAATTGTGATTTAAATATATACT
* *
23879086 TAAAATTTTAATTTTGATTTAATTATATA
1 TAAAATTTTAATTGTGATTTAAATATATA
23879115 TATTTAAAGA
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:0.40, C:0.02, G:0.07, T:0.52
Consensus pattern (31 bp):
TAAAATTTTAATTGTGATTTAAATATATACT
Found at i:23881436 original size:29 final size:29
Alignment explanation
Indices: 23881361--23881436 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 29
23881351 AAAATCAAGG
* *
23881361 GTTCATGTATACATATGAACCAACATTCAA
1 GTTCATGTATAAAT-TGAACCAACATTAAA
* *
23881391 GTTTCATGTGTATAATTGCACCAA-ATTAAA
1 G-TTCATGTATA-AATTGAACCAACATTAAA
23881421 GTTCATGTATCAAATT
1 GTTCATGTAT-AAATT
23881437 AGATATTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 12 0.32
30 8 0.21
31 16 0.42
32 2 0.05
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (29 bp):
GTTCATGTATAAATTGAACCAACATTAAA
Found at i:23881930 original size:14 final size:14
Alignment explanation
Indices: 23881911--23881941 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23881901 AGCTAAGTTC
*
23881911 ATATATATATACAT
1 ATATATACATACAT
23881925 ATATATACATACAT
1 ATATATACATACAT
23881939 ATA
1 ATA
23881942 GATAACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATATACATACAT
Found at i:23893794 original size:21 final size:21
Alignment explanation
Indices: 23893762--23893802 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
23893752 GAACATTTGG
23893762 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
23893783 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
23893803 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:23898352 original size:22 final size:21
Alignment explanation
Indices: 23898308--23898354 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
23898298 TTTCATTTTA
*
23898308 TATATTTTTATATTATGAAAT
1 TATATTTTTATACTATGAAAT
* *
23898329 TATATTTTTACTACTATTATAT
1 TATATTTTTA-TACTATGAAAT
23898351 TATA
1 TATA
23898355 AAAAGAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATTTTTATACTATGAAAT
Found at i:23898920 original size:25 final size:26
Alignment explanation
Indices: 23898870--23898919 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
23898860 AATCGAACTT
23898870 TTTTCGTGAATATTTTGATTTTAAAA
1 TTTTCGTGAATATTTTGATTTTAAAA
23898896 TTTTC-TGAA-ATTTT-ATTTATAAAA
1 TTTTCGTGAATATTTTGATTT-TAAAA
23898920 AAGATTACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 4 0.17
26 5 0.22
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (26 bp):
TTTTCGTGAATATTTTGATTTTAAAA
Found at i:23902323 original size:12 final size:12
Alignment explanation
Indices: 23902306--23902330 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23902296 ACCCAAAATC
23902306 CTTAGCCCAAAA
1 CTTAGCCCAAAA
23902318 CTTAGCCCAAAA
1 CTTAGCCCAAAA
23902330 C
1 C
23902331 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:23903274 original size:12 final size:12
Alignment explanation
Indices: 23903259--23903306 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
23903249 TATTTCTCTC
23903259 TTTATATTTATG
1 TTTATATTTATG
23903271 TTTATATTTTATG
1 TTTATA-TTTATG
** *
23903284 TATTATACCTATC
1 T-TTATATTTATG
23903297 TTTATATTTA
1 TTTATATTTA
23903307 CGCATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:23903502 original size:22 final size:22
Alignment explanation
Indices: 23903477--23903518 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23903467 TAACGTGCTA
* *
23903477 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
23903499 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
23903519 GTAATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:23904288 original size:125 final size:125
Alignment explanation
Indices: 23904154--23904419 Score: 514
Period size: 125 Copynumber: 2.1 Consensus size: 125
23904144 TCGAGAAAAC
23904154 GTGTCCTAACTTACTGGGTTTCAACTTTTCTTGTTTATCCTAAATAACCGAACAAGCTTTAAAAT
1 GTGTCCTAACTTACTGGGTTTCAACTTTTCTTGTTTATCCTAAATAACCGAACAAGCTTTAAAAT
23904219 TTTTTTTAGAATATATGAATTTTAAATAAAGGCAAGCTCATTCTCGAAGTTTGAGATATA
66 TTTTTTTAGAATATATGAATTTTAAATAAAGGCAAGCTCATTCTCGAAGTTTGAGATATA
* *
23904279 GTGTCCTAACTTACTTGGTTTCGACTTTTCTTGTTTATCCTAAATAACCGAACAAGCTTTAAAAT
1 GTGTCCTAACTTACTGGGTTTCAACTTTTCTTGTTTATCCTAAATAACCGAACAAGCTTTAAAAT
23904344 TTTTTTTAGAATATATGAATTTTAAATAAAGGCAAGCTCATTCTCGAAGTTTGAGATATA
66 TTTTTTTAGAATATATGAATTTTAAATAAAGGCAAGCTCATTCTCGAAGTTTGAGATATA
23904404 GTGTCCTAACTTACTG
1 GTGTCCTAACTTACTG
23904420 TGTGTGACAT
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 138 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (125 bp):
GTGTCCTAACTTACTGGGTTTCAACTTTTCTTGTTTATCCTAAATAACCGAACAAGCTTTAAAAT
TTTTTTTAGAATATATGAATTTTAAATAAAGGCAAGCTCATTCTCGAAGTTTGAGATATA
Found at i:23905521 original size:115 final size:117
Alignment explanation
Indices: 23905301--23905530 Score: 392
Period size: 115 Copynumber: 2.0 Consensus size: 117
23905291 CTTAAGAACC
* *
23905301 CACCCTAGGTAGAGCCACTCCGAAACCCTAGTGGTTACCTGAGCAAGTGCTATATTTATTATTCT
1 CACCCTAGGTAGAGCCACTCCGAAACCCTAGTGGGTACCCGAGCAAGTGC-ATA-TTATTATTCT
23905366 TTGTTTGCTTTAAACTGTGCATAAATTACTGACTTGCTTTGTTTTACTTTGATT
64 TTGTTTGCTTTAAACTGTGCATAAATTACTGACTTGCTTTGTTTTACTTTGATT
*
23905420 CACCCTAGGTAGAGCCACTCCGAAACCCTAGTGGGTACCCGAGCAGGTGC-TA-TATTATTCTTT
1 CACCCTAGGTAGAGCCACTCCGAAACCCTAGTGGGTACCCGAGCAAGTGCATATTATTATTCTTT
*
23905483 GTTTGCTTTAAACTGTGTATAAATTACTGACTTGCTTTGTTTTACTTT
66 GTTTGCTTTAAACTGTGCATAAATTACTGACTTGCTTTGTTTTACTTT
23905531 TATTGTATTT
Statistics
Matches: 107, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
115 58 0.54
117 2 0.02
119 47 0.44
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (117 bp):
CACCCTAGGTAGAGCCACTCCGAAACCCTAGTGGGTACCCGAGCAAGTGCATATTATTATTCTTT
GTTTGCTTTAAACTGTGCATAAATTACTGACTTGCTTTGTTTTACTTTGATT
Found at i:23907770 original size:47 final size:47
Alignment explanation
Indices: 23907704--23907826 Score: 237
Period size: 47 Copynumber: 2.6 Consensus size: 47
23907694 GATGCGAATG
23907704 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
23907751 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
*
23907798 TCCGAACTCGTTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
23907827 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
Found at i:23908092 original size:19 final size:20
Alignment explanation
Indices: 23908055--23908092 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23908045 ATAAGGTGGT
23908055 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
23908075 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
23908093 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:23914814 original size:56 final size:56
Alignment explanation
Indices: 23914728--23914839 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
23914718 CGGTATTTGA
* *
23914728 AAATTCTATGGGATGCGTGCTTGGCCAACACGATGAATCGGGAAGGAAAGAAAGGG
1 AAATTCTATGAGATGCGTGCTTGGCCAACACGATGAATCAGGAAGGAAAGAAAGGG
23914784 AAATTCTATGAGATGCGTGCTTGGCCAACACGATGAATCAGGAAGGAAAGAAAGGG
1 AAATTCTATGAGATGCGTGCTTGGCCAACACGATGAATCAGGAAGGAAAGAAAGGG
23914840 TGATATATTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (56 bp):
AAATTCTATGAGATGCGTGCTTGGCCAACACGATGAATCAGGAAGGAAAGAAAGGG
Found at i:23917469 original size:44 final size:44
Alignment explanation
Indices: 23917406--23917745 Score: 209
Period size: 44 Copynumber: 7.8 Consensus size: 44
23917396 AATTTACAGA
* *
23917406 TCTTAACCCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGAG
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGATGATGAG
* ** * *
23917450 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AA-AT-TTACAG
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGATGAT-GAG
* * * *
23917492 ATC-TCAACCCCTTAAGCAGTAGGGAAACAGATCGAA-AGCGATGAA
1 -TCTTAAACCCC-TAAGCAGTAGGGAAACAGATTGAAGA-TGATGAG
* * * * *
23917537 CCTCAAACCCCTAAGCAGTA-GGATAACAGGTTG--GAT-TTACAG
1 TCTTAAACCCCTAAGCAGTAGGGA-AACAGATTGAAGATGAT-GAG
* * *
23917579 ATCTTAACCCCCTAAGAAGTAGGGAAACAGATTGAAGATGATGGG
1 -TCTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGATGATGAG
* * ** * ** *
23917624 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTACAAA
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGA-TGATGAG
* * * *
23917667 TCTT-AACCCCTTAAGCAGTAGGGAAATAGATCGAAGGTGATGGG
1 TCTTAAACCCC-TAAGCAGTAGGGAAACAGATTGAAGATGATGAG
* * *
23917711 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGATTGAA
23917746 AATCAAATAT
Statistics
Matches: 215, Mismatches: 61, Indels: 40
0.68 0.19 0.13
Matches are distributed among these distances:
41 2 0.01
42 19 0.09
43 72 0.33
44 103 0.48
45 17 0.08
46 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (44 bp):
TCTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGATGATGAG
Found at i:23917501 original size:87 final size:87
Alignment explanation
Indices: 23917389--23917740 Score: 508
Period size: 87 Copynumber: 4.0 Consensus size: 87
23917379 CGCAATGGAG
* * *
23917389 CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGAGTCTT
1 CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCCTT
23917454 AAACCCCTAAGCAGTAGGGTAA
66 AAACCCCTAAGCAGTAGGGTAA
* * * *
23917476 CAGGCTAAATTTACAGATCTCAACCCCTTAAGCAGTAGGGAAACAGATCGAA-AGCGATGAACCT
1 CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGATGAGCCT
* *
23917540 CAAACCCCTAAGCAGTAGGATAA
65 TAAACCCCTAAGCAGTAGGGTAA
* ** * * *
23917563 CAGGTTGGATTTACAGATCTTAACCCCCTAAGAAGTAGGGAAACAGATTGAAGATGATGGGCCTT
1 CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCCTT
23917628 AAACCCCTAAGCAGTAGGGTAA
66 AAACCCCTAAGCAGTAGGGTAA
* * * * *
23917650 CAGGCTAAATTTACAAATCTTAACCCCTTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTT
1 CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCCTT
23917715 AAACCCCTAAGCAGTAGGGTAA
66 AAACCCCTAAGCAGTAGGGTAA
23917737 CAGG
1 CAGG
23917741 TTGAAAATCA
Statistics
Matches: 233, Mismatches: 30, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
86 1 0.00
87 231 0.99
88 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (87 bp):
CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCCTT
AAACCCCTAAGCAGTAGGGTAA
Found at i:23917602 original size:174 final size:174
Alignment explanation
Indices: 23917397--23917743 Score: 577
Period size: 174 Copynumber: 2.0 Consensus size: 174
23917387 AGCAGGCTAA
* * *
23917397 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGAGTCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGAAGTAGGGAAACAGATTGAAGATGATGAGCCTTAAACCCCT
*
23917462 AAGCAGTAGGGTAACAGGCTAAATTTACAGATCTCAACCCCTTAAGCAGTAGGGAAACAGATCGA
66 AAGCAGTAGGGTAACAGGCTAAATTTACAAATCTCAACCCCTTAAGCAGTAGGGAAACAGATCGA
23917527 AAGCGATGAACCTCAAACCCCTAAGCAGTAGGATAACAGGTTGG
131 AAGCGATGAACCTCAAACCCCTAAGCAGTAGGATAACAGGTTGG
*
23917571 ATTTACAGATCTTAACCCCCTAAGAAGTAGGGAAACAGATTGAAGATGATGGGCCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGAAGTAGGGAAACAGATTGAAGATGATGAGCCTTAAACCCCT
* *
23917636 AAGCAGTAGGGTAACAGGCTAAATTTACAAATCTTAACCCCTTAAGCAGTAGGGAAATAGATCGA
66 AAGCAGTAGGGTAACAGGCTAAATTTACAAATCTCAACCCCTTAAGCAGTAGGGAAACAGATCGA
* * ** * *
23917701 AGGTGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGTTG
131 AAGCGATGAACCTCAAACCCCTAAGCAGTAGGATAACAGGTTG
23917744 AAAATCAAAT
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
174 160 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (174 bp):
ATTTACAGATCTTAACCCCCTAAGAAGTAGGGAAACAGATTGAAGATGATGAGCCTTAAACCCCT
AAGCAGTAGGGTAACAGGCTAAATTTACAAATCTCAACCCCTTAAGCAGTAGGGAAACAGATCGA
AAGCGATGAACCTCAAACCCCTAAGCAGTAGGATAACAGGTTGG
Found at i:23917838 original size:68 final size:69
Alignment explanation
Indices: 23917755--23917889 Score: 177
Period size: 69 Copynumber: 2.0 Consensus size: 69
23917745 AAATCAAATA
* * *
23917755 TCTTCTCCTTGAAATGGCGTTGGAGC-AGCT-AAAAGCCATAGCAGATCTCCTTGAAGTTTCAGC
1 TCTTCTCCTTGAAATGGCATTGGAACGA-CTAAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
23917818 GGATC
65 GGATC
* * *
23917823 TCTTCTTCC-TGAAATGGCATTGGAACGACTAAAAAGTCACAGCAGGTTTCCTTGAAGTTTCAGC
1 TCTTC-TCCTTGAAATGGCATTGGAACGACTAAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
23917887 GGA
65 GGA
23917890 AGAAGATCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
68 22 0.38
69 36 0.62
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (69 bp):
TCTTCTCCTTGAAATGGCATTGGAACGACTAAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCG
GATC
Found at i:23919894 original size:3 final size:3
Alignment explanation
Indices: 23919886--23919919 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
23919876 ATCTATATAG
23919886 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23919920 CCTAATATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23920411 original size:18 final size:19
Alignment explanation
Indices: 23920388--23920430 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
23920378 ATATATTCTC
23920388 ATTATTATCATT-ACTTTT
1 ATTATTATCATTAACTTTT
* *
23920406 ATTATTATTATTAATTTTT
1 ATTATTATCATTAACTTTT
23920425 ATTATT
1 ATTATT
23920431 TGACGTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTATTATCATTAACTTTT
Found at i:23922305 original size:31 final size:32
Alignment explanation
Indices: 23922267--23922332 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
23922257 ATAAAAAATT
*
23922267 ATAAAAATATTTAATTAA-A-TTAAAAAATGAA
1 ATAAAAATA-TTAAATAATATTTAAAAAATGAA
23922298 ATAAAAATATTAAATAATATTTTAAAAAATGAA
1 ATAAAAATATTAAATAATA-TTTAAAAAATGAA
23922331 AT
1 AT
23922333 TAACCCTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 7 0.23
31 10 0.32
33 14 0.45
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (32 bp):
ATAAAAATATTAAATAATATTTAAAAAATGAA
Found at i:23923091 original size:24 final size:24
Alignment explanation
Indices: 23923064--23923110 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
23923054 TTTTGAAATA
23923064 TTTAAAAT-ATATATTTATATTATT
1 TTTAAAATAATAT-TTTATATTATT
**
23923088 TTTAATTTAATATTTTATATTAT
1 TTTAAAATAATATTTTATATTAT
23923111 ATATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTAAAATAATATTTTATATTATT
Found at i:23923117 original size:27 final size:29
Alignment explanation
Indices: 23923065--23923134 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 29
23923055 TTTGAAATAT
*
23923065 TTAAAA-TATATATTTATATTATTTTTA-A
1 TTAAAATTTTATA-TTATATTATTTTTATA
*
23923093 TTTAATATTTTATATTATA-TATTTTT-TA
1 -TTAAAATTTTATATTATATTATTTTTATA
23923121 TTAAAATTTTATAT
1 TTAAAATTTTATAT
23923135 ATAGGCACCT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 13 0.36
28 8 0.22
29 10 0.28
30 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TTAAAATTTTATATTATATTATTTTTATA
Found at i:23923135 original size:29 final size:30
Alignment explanation
Indices: 23923071--23923136 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 30
23923061 ATATTTAAAA
*
23923071 TATATATTTATATTATTTTTAATTTAATATT
1 TATATA-TTATATTATTTTTAATTAAATATT
*
23923102 T-TATATTATA-TATTTTTTATTAAA-ATTT
1 TATATATTATATTATTTTTAATTAAATA-TT
23923130 TATATAT
1 TATATAT
23923137 AGGCACCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 1 0.03
28 15 0.48
29 10 0.32
30 4 0.13
31 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TATATATTATATTATTTTTAATTAAATATT
Found at i:23925746 original size:68 final size:67
Alignment explanation
Indices: 23925674--23925823 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
23925664 CATCATGTGT
* * * *
23925674 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
23925736 ATGTAG
62 ATGTAG
** * *
23925742 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
23925807 AG
66 AG
23925809 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
23925824 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:23925779 original size:64 final size:64
Alignment explanation
Indices: 23925698--23925881 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
23925688 AGACATTATG
* *
23925698 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
23925762 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
23925827 AA
63 AA
* * * *
23925829 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
23925882 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:23926530 original size:57 final size:57
Alignment explanation
Indices: 23926456--23926569 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
23926446 GAAAATTAAT
*
23926456 TAGAGGCTTAAAATTATATTTTTAAAATAC-CTAATGAGTCTATTTTCAAGATAAATC
1 TAGAGGCTCAAAATTATATTTTTAAAAT-CTCTAATGAGTCTATTTTCAAGATAAATC
* *
23926513 TAGAGGCTCAAACTTATATTTTTAAAATCTTTAATGAGTCTATTTTCAAGATAAATC
1 TAGAGGCTCAAAATTATATTTTTAAAATCTCTAATGAGTCTATTTTCAAGATAAATC
23926570 AACAAGAACA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
56 1 0.02
57 52 0.98
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (57 bp):
TAGAGGCTCAAAATTATATTTTTAAAATCTCTAATGAGTCTATTTTCAAGATAAATC
Found at i:23927770 original size:26 final size:25
Alignment explanation
Indices: 23927741--23927813 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
23927731 AATAAAATTT
23927741 TAATATCTATAAATATAATTAAGAAA
1 TAATATCTATAAATATAATTAA-AAA
*
23927767 TAATATCTATAATTATAA-TAAAAA
1 TAATATCTATAAATATAATTAAAAA
*
23927791 TAATAT-TTTAAATACATAATTAA
1 TAATATCTATAAAT--ATAATTAA
23927814 CAAAACAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 5 0.12
24 9 0.22
25 7 0.17
26 20 0.49
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (25 bp):
TAATATCTATAAATATAATTAAAAA
Found at i:23930762 original size:18 final size:20
Alignment explanation
Indices: 23930739--23930782 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
23930729 TGTGGGTAGG
23930739 CCGTGT-GATTA-CACATGC
1 CCGTGTGGATTAGCACATGC
* *
23930757 CCGTGTGGCTTAGGACATGC
1 CCGTGTGGATTAGCACATGC
23930777 CCGTGT
1 CCGTGT
23930783 CCTCAGCCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 4 0.18
20 12 0.55
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (20 bp):
CCGTGTGGATTAGCACATGC
Found at i:23931799 original size:2 final size:2
Alignment explanation
Indices: 23931792--23931838 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
23931782 ATAATCATAG
23931792 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
23931834 AC AC A
1 AC AC A
23931839 TATATATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:23941518 original size:59 final size:57
Alignment explanation
Indices: 23941426--23941594 Score: 216
Period size: 59 Copynumber: 2.9 Consensus size: 57
23941416 TATTTTTGAA
** *
23941426 ATTTTTGTTTAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTAAAT
1 ATTTTTGTACAAATTA-TTTTATATTGTTTCATTTAATAAAATAG-AGTTATTTTAAAT
* * *
23941485 ATTTTTGTACAAATTATATTTATATTGTTTCATTCAATAAAAT--AGTTGTTTTGAAT
1 ATTTTTGTACAAATTAT-TTTATATTGTTTCATTTAATAAAATAGAGTTATTTTAAAT
* *
23941541 ATATTTGTACAAATTATTTTATATTGTTTCATTTAATAAATTAGGAGTTATTTT
1 ATTTTTGTACAAATTATTTTATATTGTTTCATTTAATAAAATA-GAGTTATTTT
23941595 GATGTAGATA
Statistics
Matches: 97, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
55 23 0.24
56 27 0.28
58 9 0.09
59 38 0.39
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (57 bp):
ATTTTTGTACAAATTATTTTATATTGTTTCATTTAATAAAATAGAGTTATTTTAAAT
Found at i:23944235 original size:40 final size:40
Alignment explanation
Indices: 23944188--23944323 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 40
23944178 AGGCGTTCGA
*
23944188 GTCTTAGCCCGGATATGGTCACTAGCATAAATGCCTTCCG
1 GTCTTAGCCCGGATATAGTCACTAGCATAAATGCCTTCCG
* * * *
23944228 GTCTTAGCCTGGATATAG-CAACTCGTACAAATGCCTT-CG
1 GTCTTAGCCCGGATATAGTC-ACTAGCATAAATGCCTTCCG
* * * * *
23944267 AATCTTAGTCTGGATATAGTCACTAGCATAAAAGCCTTCGG
1 -GTCTTAGCCCGGATATAGTCACTAGCATAAATGCCTTCCG
*
23944308 GGCTTAGCCCGGATAT
1 GTCTTAGCCCGGATAT
23944324 CATTCGAATA
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
39 3 0.04
40 71 0.93
41 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (40 bp):
GTCTTAGCCCGGATATAGTCACTAGCATAAATGCCTTCCG
Found at i:23944291 original size:80 final size:78
Alignment explanation
Indices: 23944153--23944323 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 78
23944143 TCTTCGGGAT
* * * *
23944153 TTAGCCGGATATAACCACTCGCACAAGGCGTTCGAGTCTTAGCCCGGATATGGTCACTAGCATAA
1 TTAGCCGGATATAACAACTCGCACAAGGCCTTCGAATCTTAGCCCGGATATAGTCACTAGCATAA
* *
23944218 ATGCCTTCCGGTC
66 AAGCCTTCCGGGC
* * * * *
23944231 TTAGCCTGGATATAGCAACTCGTACAAATGCCTTCGAATCTTAGTCTGGATATAGTCACTAGCAT
1 TTAGCC-GGATATAACAACTCGCAC-AAGGCCTTCGAATCTTAGCCCGGATATAGTCACTAGCAT
*
23944296 AAAAGCCTTCGGGGC
64 AAAAGCCTTCCGGGC
23944311 TTAGCCCGGATAT
1 TTAG-CCGGATAT
23944324 CATTCGAATA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 6 0.08
79 15 0.19
80 55 0.71
81 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (78 bp):
TTAGCCGGATATAACAACTCGCACAAGGCCTTCGAATCTTAGCCCGGATATAGTCACTAGCATAA
AAGCCTTCCGGGC
Found at i:23953105 original size:80 final size:79
Alignment explanation
Indices: 23952981--23953128 Score: 210
Period size: 80 Copynumber: 1.9 Consensus size: 79
23952971 CAATATAACC
* * *
23952981 ACTCGCACAAGGCCTTCGAGTCTTAGCTCGGATATGGTCACTAGCATAAATGCCTTCCGGTCTTA
1 ACTCGCACAAGGCCTTCGAGTCTTAGCTCGGATATAGTCACTAGCATAAAAGCCTTCCGGGCTTA
23953046 GCCCGGATATAGCA
66 GCCCGGATATAGCA
* *
23953060 ACTCGCACAAATGCCTTCG-GATCTTAG-TCCGGATATAGTCACTAGCATAAAAGCCTTCGGGGC
1 ACTCGCAC-AAGGCCTTCGAG-TCTTAGCT-CGGATATAGTCACTAGCATAAAAGCCTTCCGGGC
23953123 TTAGCC
63 TTAGCC
23953129 TGAATATCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
79 10 0.16
80 51 0.84
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
ACTCGCACAAGGCCTTCGAGTCTTAGCTCGGATATAGTCACTAGCATAAAAGCCTTCCGGGCTTA
GCCCGGATATAGCA
Found at i:23953126 original size:40 final size:39
Alignment explanation
Indices: 23952992--23953128 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 39
23952982 CTCGCACAAG
* *
23952992 GCCTTCGAGTCTTAGCTCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGC-CGGATATAGTCACTAGCATAAAT
* * *
23953032 GCCTTCCGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAG-CCGGATATAGTC-ACTAGCATAAAT
* *
23953072 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAG-CCGGATATAGTCACTAGCATAAAT
*
23953112 GCCTTCGGGGCTTAGCC
1 GCCTTCGGGTCTTAGCC
23953129 TGAATATCAT
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.04
40 76 0.94
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCGGATATAGTCACTAGCATAAAT
Found at i:23957075 original size:29 final size:27
Alignment explanation
Indices: 23957022--23957082 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
23957012 ACAGCCTAAC
*
23957022 CACACTCCCATATACCAGGCCGTGTGT
1 CACACACCCATATACCAGGCCGTGTGT
23957049 CACACACCCATATACCAGGCCGTGTGT
1 CACACACCCATATACCAGGCCGTGTGT
23957076 CACACAC
1 CACACAC
23957083 GGTCATGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.39, G:0.16, T:0.18
Consensus pattern (27 bp):
CACACACCCATATACCAGGCCGTGTGT
Found at i:23959100 original size:17 final size:17
Alignment explanation
Indices: 23959078--23959110 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23959068 CAATTATGCT
23959078 AAGAAAGCTTGTTTTCC
1 AAGAAAGCTTGTTTTCC
*
23959095 AAGAAAGTTTGTTTTC
1 AAGAAAGCTTGTTTTC
23959111 TCTTTCCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (17 bp):
AAGAAAGCTTGTTTTCC
Found at i:23962527 original size:20 final size:22
Alignment explanation
Indices: 23962502--23962541 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23962492 CTAAAACTTT
23962502 CATTT-ATTT-CACATTTCAAC
1 CATTTAATTTGCACATTTCAAC
*
23962522 CATTTAATTTGCATATTTCA
1 CATTTAATTTGCACATTTCA
23962542 CAAATTAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (22 bp):
CATTTAATTTGCACATTTCAAC
Found at i:23974729 original size:16 final size:16
Alignment explanation
Indices: 23974689--23974730 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
23974679 ACACTTAGTC
**
23974689 ATAATTCCAAGTTAAG
1 ATAATTCCCTGTTAAG
*
23974705 ATAATTCCCTGTTAGG
1 ATAATTCCCTGTTAAG
23974721 ATAATTCCCT
1 ATAATTCCCT
23974731 ATCACATGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (16 bp):
ATAATTCCCTGTTAAG
Found at i:23975514 original size:27 final size:27
Alignment explanation
Indices: 23975484--23975537 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
23975474 TCATACAACC
* *
23975484 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
23975511 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
23975538 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:23981246 original size:13 final size:14
Alignment explanation
Indices: 23981213--23981256 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
23981203 CAAAATCAAT
23981213 AAAATTTTCTTATC
1 AAAATTTTCTTATC
23981227 AAAATTTTCTTAT-
1 AAAATTTTCTTATC
*
23981240 GAAA-TTTC-TATC
1 AAAATTTTCTTATC
23981252 AAAAT
1 AAAAT
23981257 ACTAACCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 3 0.12
12 7 0.27
13 3 0.12
14 13 0.50
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (14 bp):
AAAATTTTCTTATC
Found at i:23988364 original size:15 final size:15
Alignment explanation
Indices: 23988340--23988382 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
23988330 TTAACTGTAA
* *
23988340 CATATGATATACTAT
1 CATATAATATAATAT
*
23988355 TATATAATATAATAT
1 CATATAATATAATAT
*
23988370 CATATTATATAAT
1 CATATAATATAAT
23988383 TATTACTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (15 bp):
CATATAATATAATAT
Found at i:24001252 original size:20 final size:21
Alignment explanation
Indices: 24001216--24001258 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
24001206 GCAACCAAAA
*
24001216 CATGCTATTTAATACACATTT
1 CATGCCATTTAATACACATTT
24001237 CATGCCATTT-ATACACATTT
1 CATGCCATTTAATACACATTT
24001257 CA
1 CA
24001259 CACGGGCGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (21 bp):
CATGCCATTTAATACACATTT
Found at i:24003419 original size:40 final size:40
Alignment explanation
Indices: 24003359--24003542 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
24003349 TATTCGAATG
*
24003359 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
24003399 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
24003439 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
24003479 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
24003519 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
24003543 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:24003492 original size:80 final size:80
Alignment explanation
Indices: 24003359--24003578 Score: 279
Period size: 80 Copynumber: 2.8 Consensus size: 80
24003349 TATTCGAATG
* * * *
24003359 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
* *
24003423 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
*
24003439 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
*
24003503 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
* * *
24003519 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
24003579 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
78 14 0.11
79 20 0.16
80 90 0.73
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:24004954 original size:14 final size:13
Alignment explanation
Indices: 24004934--24004970 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
24004924 AATATTTGAC
24004934 TTGTTCTTAATTA
1 TTGTTCTTAATTA
24004947 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
24004961 TTGTT-TTAAT
1 TTGTTCTTAAT
24004971 ATTCCAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:24009412 original size:6 final size:6
Alignment explanation
Indices: 24009403--24009486 Score: 62
Period size: 6 Copynumber: 13.5 Consensus size: 6
24009393 GATATGTCTT
** * *
24009403 TAAAAA T-AAAA TAATAAAA TTGAAA TGAAAA TAAAAA TCAAAA TAAAAA
1 TAAAAA TAAAAA T-A-AAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
* * *
24009452 TAAAAA GAAAAA GAAATAA AATAAAA TAAAAA TAA
1 TAAAAA TAAAAA TAAA-AA TA-AAAA TAAAAA TAA
24009487 GAATGAATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
5 5 0.08
6 45 0.71
7 6 0.10
8 7 0.11
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:24019938 original size:30 final size:30
Alignment explanation
Indices: 24019904--24019964 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24019894 TCCTTAACTC
24019904 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
24019934 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
24019964 A
1 A
24019965 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:24025927 original size:23 final size:23
Alignment explanation
Indices: 24025901--24025947 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
24025891 ATTTTCAAAA
24025901 TACCAAAATGAGGTTCGATAGTG
1 TACCAAAATGAGGTTCGATAGTG
*
24025924 TACCAAAATGAGGTTCGATGGTG
1 TACCAAAATGAGGTTCGATAGTG
24025947 T
1 T
24025948 GGTGACGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.28
Consensus pattern (23 bp):
TACCAAAATGAGGTTCGATAGTG
Found at i:24037813 original size:47 final size:47
Alignment explanation
Indices: 24037760--24038125 Score: 554
Period size: 47 Copynumber: 7.7 Consensus size: 47
24037750 TTAGGATTCT
24037760 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
24037807 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
24037854 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * *
24037903 ACGTGATGAATGTGAAAGTGTATATATATGATAGGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
24037950 ATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
24037997 ATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
24038044 ATGTGATGAATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCG
* * *
24038091 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
24038126 TCCCGAAGGG
Statistics
Matches: 301, Mismatches: 14, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
46 2 0.01
47 251 0.83
48 2 0.01
49 46 0.15
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:24037914 original size:143 final size:141
Alignment explanation
Indices: 24037762--24038125 Score: 559
Period size: 143 Copynumber: 2.6 Consensus size: 141
24037752 AGGATTCTAT
24037762 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
24037827 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
66 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATA--TGATAAGG
* *
24037892 CCTAATGGCCGAC
129 CCGAATGGCCAAC
* *
24037905 GTGATGAATGTGAAAGTGTATATATATGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
24037970 TATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGATAAGGCC
66 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGATAAGGCC
*
24038035 GAATGGCCAAT
131 GAATGGCCAAC
* * * * * *
24038046 GTGATGAATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGT
*
24038110 GTATAAATGTGATAAG
65 GTATATATGTGATAAG
24038126 TCCCGAAGGG
Statistics
Matches: 202, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
140 1 0.00
141 86 0.43
143 115 0.57
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (141 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGATAAGGCC
GAATGGCCAAC
Found at i:24038294 original size:37 final size:37
Alignment explanation
Indices: 24038244--24038400 Score: 278
Period size: 37 Copynumber: 4.2 Consensus size: 37
24038234 CCGAGCTCTA
24038244 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
24038281 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
24038318 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
* * *
24038355 AAGACCCGATGACTACGTGTGGAGATTTTGTCCAGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
*
24038392 AAGCCCCGA
1 AAGACCCGA
24038401 ACTAAAGGTT
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 116 1.00
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
Found at i:24047256 original size:28 final size:28
Alignment explanation
Indices: 24047203--24047288 Score: 111
Period size: 28 Copynumber: 3.0 Consensus size: 28
24047193 TACAGGGGTT
24047203 TTCATACGGCC-TGACACACGCCCGTGTCC
1 TTCATACGGCCATG--ACACGCCCGTGTCC
24047232 TTCATACGGCCATGACACGCCCGTGTCC
1 TTCATACGGCCATGACACGCCCGTGTCC
* ** *
24047260 TTCACACGATCATGACACACCCGTGTCC
1 TTCATACGGCCATGACACGCCCGTGTCC
24047288 T
1 T
24047289 AGCCTGTGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
28 39 0.75
29 11 0.21
30 2 0.04
ACGTcount: A:0.20, C:0.40, G:0.19, T:0.22
Consensus pattern (28 bp):
TTCATACGGCCATGACACGCCCGTGTCC
Found at i:24048336 original size:19 final size:20
Alignment explanation
Indices: 24048294--24048341 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
24048284 TAAAAACAAT
* * *
24048294 TAAAAATAATTAAAGCGTAT
1 TAAAAACAATTAAAGCATAC
24048314 TAAAAACAATTAAA-CATAC
1 TAAAAACAATTAAAGCATAC
24048333 TAAAAACAA
1 TAAAAACAA
24048342 CCATTAACGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.62, C:0.10, G:0.04, T:0.23
Consensus pattern (20 bp):
TAAAAACAATTAAAGCATAC
Found at i:24055794 original size:27 final size:26
Alignment explanation
Indices: 24055754--24055868 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 26
24055744 AGCATGGTTG
* *
24055754 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
24055780 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
*
24055807 CCAGAACAGATATTTGTGGC-GTAGCCA
1 CCAGAACAGATA-TTGTGACAG-AGCCA
* * *
24055834 CCAGAAATAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGACAGAGCCA
24055862 CCAGAAC
1 CCAGAAC
24055869 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 13 0.17
27 41 0.53
28 24 0.31
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:24055853 original size:28 final size:28
Alignment explanation
Indices: 24055778--24055867 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
24055768 GTGACAGAGT
*
24055778 CACCAGATACAGATA-TTGTGGCAG-AGC
1 CACCAGAAACAGATATTTGTGGC-GTAGC
24055805 CACCAG-AACAGATATTTGTGGCGTAGC
1 CACCAGAAACAGATATTTGTGGCGTAGC
* *
24055832 CACCAGAAATAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCGTAGC
24055860 CACCAGAA
1 CACCAGAA
24055868 CGCTTCCTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
26 8 0.14
27 22 0.39
28 27 0.47
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCGTAGC
Found at i:24062818 original size:44 final size:45
Alignment explanation
Indices: 24062770--24062862 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 45
24062760 TGTGGTCTAC
24062770 CCCTCTATAGGGCACTACTTGCCTTCGATTCTTAC-TTTTTCTCT
1 CCCTCTATAGGGCACTACTTGCCTTCGATTCTTACTTTTTTCTCT
* *
24062814 CCCTCTATGGGGCACTACTTGCCTTTGATTCTTACTTTTTTCTCT
1 CCCTCTATAGGGCACTACTTGCCTTCGATTCTTACTTTTTTCTCT
24062859 CCCT
1 CCCT
24062863 ATTCCATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 33 0.72
45 13 0.28
ACGTcount: A:0.12, C:0.32, G:0.12, T:0.44
Consensus pattern (45 bp):
CCCTCTATAGGGCACTACTTGCCTTCGATTCTTACTTTTTTCTCT
Done.