Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 35 of 185
Found at i:10358932 original size:23 final size:23
Alignment explanation
Indices: 10358881--10360295 Score: 413
Period size: 23 Copynumber: 62.3 Consensus size: 23
10358871 ACTAAACAAT
* * * *
10358881 TCAATTTCCAGCACTTAAACACT
1 TCAATTTACAACATTTAAACACC
* * * *
10358904 TTAATTTACATCATTTGAGCACC
1 TCAATTTACAACATTTAAACACC
* **
10358927 TCAATTTACAACAGTTAAACATT
1 TCAATTTACAACATTTAAACACC
10358950 TCAATTTACAACATTTAAACACC
1 TCAATTTACAACATTTAAACACC
*
10358973 TCAACTTACAACACTTT-AACATCC
1 TCAATTTACAACA-TTTAAACA-CC
* *
10358997 -CAATTAACAACATTTATACACC
1 TCAATTTACAACATTTAAACACC
* *
10359019 TTAA-TTACAACGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* * **
10359040 TCAATTTCCAACAATTAAACAAT
1 TCAATTTACAACATTTAAACACC
* ** *
10359063 TCAATTTGCAACGCTTAAACACT
1 TCAATTTACAACATTTAAACACC
* * *
10359086 TCAATTTACATCATTTGAGCACC
1 TCAATTTACAACATTTAAACACC
* * **
10359109 TCAATTTACAATAATTAAACAAT
1 TCAATTTACAACATTTAAACACC
*
10359132 TCAATTTACAGCATTTAAACACC
1 TCAATTTACAACATTTAAACACC
* *
10359155 TCAACTTACAACACTTT-CACATCC
1 TCAATTTACAACA-TTTAAACA-CC
* * * *
10359179 -AAATTAACAACATTTATACAAC
1 TCAATTTACAACATTTAAACACC
* * *
10359201 TTAA-TTACAGCGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* ** **
10359222 TCAATTT-CTAGCAACTAAACAAT
1 TCAATTTAC-AACATTTAAACACC
* * * *
10359245 TCAATTTGCAGCAATT--ACACT
1 TCAATTTACAACATTTAAACACC
* * * * *
10359266 TCAATGTACATC-GTTAGAGCACA
1 TCAATTTACAACATTTA-AACACC
* * **
10359289 TCAAATTACAACAATTAAACAAT
1 TCAATTTACAACATTTAAACACC
* *
10359312 TCAATTGACAGCATTTAAACACC
1 TCAATTTACAACATTTAAACACC
* * *
10359335 TCAACTTACAACCCTTT-CACACC
1 TCAATTTACAA-CATTTAAACACC
** * *
10359358 -CAAATCAACAACATTTATACAAC
1 TC-AATTTACAACATTTAAACACC
* * *
10359381 TTAA-TTACAGCGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* * ** **
10359402 TCAATTTCCAGCAACTAAACAAT
1 TCAATTTACAACATTTAAACACC
* * **
10359425 TCAATTTGCAACACTTAAACATT
1 TCAATTTACAACATTTAAACACC
** * *
10359448 TCAATTTACGTCATTTGAGCACC
1 TCAATTTACAACATTTAAACACC
* *
10359471 TCAATTTACAACAATTAAACACT
1 TCAATTTACAACATTTAAACACC
*
10359494 TCAATTTACAGCATTTAAACACC
1 TCAATTTACAACATTTAAACACC
* *
10359517 TCAACTTACAACACTTT-CACATCC
1 TCAATTTACAACA-TTTAAACA-CC
* *
10359541 -CAATTAACAACATTTATACACC
1 TCAATTTACAACATTTAAACACC
* * *
10359563 TTAA-TTACAGCGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* ** **
10359584 TCAATTT-CTAGCAACTAAACAAT
1 TCAATTTAC-AACATTTAAACACC
* * * * *
10359607 TCAATGTGCAGCACTT--ACACT
1 TCAATTTACAACATTTAAACACC
* * * *
10359628 TCAATTTACATCATTTGAGCACA
1 TCAATTTACAACATTTAAACACC
* **
10359651 TCAATTTACAACAATTAAACAAT
1 TCAATTTACAACATTTAAACACC
* *
10359674 TCAATTGACAGCATTTAAACACC
1 TCAATTTACAACATTTAAACACC
*
10359697 TCAACTTACAACACTTT-AACATCC
1 TCAATTTACAACA-TTTAAACA-CC
* * * ***
10359721 -CAGTTAACAATATTTATTGACC
1 TCAATTTACAACATTTAAACACC
* * *
10359743 TTAA-TTACAGCGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* * ** *
10359764 TCAATTTCCAGCAACTAAACACT
1 TCAATTTACAACATTTAAACACC
* * *
10359787 TCAATTTGA-AGCACTTAAACACT
1 TCAATTT-ACAACATTTAAACACC
* * *
10359810 TCAATTTACATCATTTGAGCACC
1 TCAATTTACAACATTTAAACACC
* * * *
10359833 TCAATTTATAGCAATTAAACACT
1 TCAATTTACAACATTTAAACACC
* * * * *
10359856 TCTATTTATAGCCTTTAACCACC
1 TCAATTTACAACATTTAAACACC
*
10359879 TCAACTTACAACACTTT-AACATCC
1 TCAATTTACAACA-TTTAAACA-CC
** *
10359903 -CAATAAACAACATTTATACACC
1 TCAATTTACAACATTTAAACACC
* * ** ***
10359925 TCAA-TTATAGCA-AGAAACTTG
1 TCAATTTACAACATTTAAACACC
** ** **
10359946 TCAATTT-CTGGCAACTAAACAAT
1 TCAATTTAC-AACATTTAAACACC
* * * *
10359969 TCAATTTGCAGCACTTAAACACT
1 TCAATTTACAACATTTAAACACC
*
10359992 TCAATTTACAGCATTTAAACACC
1 TCAATTTACAACATTTAAACACC
*
10360015 TCAACTTACAACACTTT-AACATCC
1 TCAATTTACAACA-TTTAAACA-CC
* * *
10360039 -CAATTAACAAAATTTATACACC
1 TCAATTTACAACATTTAAACACC
*
10360061 TCAA-TTACAACGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* * ** **
10360082 TCAATTTTCAGCAAGTAAACAAT
1 TCAATTTACAACATTTAAACACC
* * * *
10360105 TTAATTTGCAGTAC-TTAAAACACT
1 TCAATTTACA--ACATTTAAACACC
*
10360129 TCAATTTACAACATTTAAACACT
1 TCAATTTACAACATTTAAACACC
* ** *
10360152 TCAATTTGCTGCACTTT-AACACT
1 TCAATTTACAACA-TTTAAACACC
* * * *
10360175 TCAATTCACAACACTTAAATACT
1 TCAATTTACAACATTTAAACACC
** *
10360198 TCAATTTGTAACACTTT-AACACT
1 TCAATTTACAACA-TTTAAACACC
* * *
10360221 TCAATATACACCATTTAAACACT
1 TCAATTTACAACATTTAAACACC
* *
10360244 TCAATTTACAGCACTTT-AACATC
1 TCAATTTACAACA-TTTAAACACC
* * * *
10360267 TCTATTAACAATATTTATACACC
1 TCAATTTACAACATTTAAACACC
10360290 TCAATT
1 TCAATT
10360296 ACAGTAATAA
Statistics
Matches: 1019, Mismatches: 296, Indels: 154
0.69 0.20 0.10
Matches are distributed among these distances:
20 2 0.00
21 97 0.10
22 116 0.11
23 741 0.73
24 62 0.06
25 1 0.00
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (23 bp):
TCAATTTACAACATTTAAACACC
Found at i:10359156 original size:182 final size:182
Alignment explanation
Indices: 10358849--10360353 Score: 1808
Period size: 182 Copynumber: 8.3 Consensus size: 182
10358839 GGGGTGTTAC
* * * *
10358849 ATAAACATCTCAATTTCTAGAAACTAAACAATTCAATTTCCAGCACTTAAACACTTTAATTTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
* * *
10358914 TCATTTGAGCACCTCAATTTACAACAGTTAAACATTTCAATTTACAACATTTAAACACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
*
10358979 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAACG
131 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* * * *
10359031 ATAAACATCTCAATTTCCAACAATTAAACAATTCAATTTGCAACGCTTAAACACTTCAATTTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
*
10359096 TCATTTGAGCACCTCAATTTACAATAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
* * *
10359161 TACAACACTTTCACATCCAAATTAACAACATTTATACAACTTAATTACAGCG
131 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* * *
10359213 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCAATT--ACACTTCAATGTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
* * * * *
10359276 TCGTTAGAGCACATCAAATTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
* * * *
10359341 TACAACCCTTTCACA-CCCAAATCAACAACATTTATACAACTTAATTACAGCG
131 TACAACACTTTAACATCCC-AATTAACAACATTTATACACCTTAATTACAGCG
* * *
10359393 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAACACTTAAACATTTCAATTTACG
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
*
10359458 TCATTTGAGCACCTCAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
*
10359523 TACAACACTTTCACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
131 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* *
10359575 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATGTGCAGCACTT--ACACTTCAATTTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
* *
10359638 TCATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
* * **
10359703 TACAACACTTTAACATCCCAGTTAACAATATTTATTGACCTTAATTACAGCG
131 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* *
10359755 ATAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGAAGCACTTAAACACTTCAATTTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
* * * * * * *
10359820 TCATTTGAGCACCTCAATTTATAGCAATTAAACACTTCTATTTATAGCCTTTAACCACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
* * * *
10359885 TACAACACTTTAACATCCCAATAAACAACATTTATACACCTCAATTATAGCA
131 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* * * **
10359937 AGAAACTTGTCAATTTCTGGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
* * * * * * * * ** *
10360002 GCATTTAAACACCTCAACTTACAACACTTTAAC-ATCCCAATTAACAAAATTTATACACCTCAA-
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAAT-TCAATTTACAGCATTTAAACACCTCAAC
* * ** * ** * ** *
10360065 TTACAACGA--TAAACATCTCAATTTTCAGCAAGTAAACAATTTAATTTGCAGTAC-
130 TTACAAC-ACTTTAACATCCCAATTAACAACATTTATACACCTTAA-TTACAG--CG
* * * ** * * * *
10360119 TTAAAACA-CTTCAATTTACAACATTTAAACACTTCAATTTGCTGCACTTTAACACTTCAATTCA
1 AT-AAACATC-TCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTA
* * * ** * ** * * * * * *
10360183 CAACACTTAAATACTTCAATTTGTAACACTTTAACACTTCAATATACACCATTTAAACACTTCAA
64 CATCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAA
* * * * * * **
10360248 TTTACAGCACTTTAACATCTCTATTAACAATATTTATACACCTCAATTACAGTA
129 CTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* * * *
10360302 ATAAAACATCTCAATTTCCAGCAACTAAACACTTCAAATTACAGTACTTAAA
1 AT-AAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAA
10360354 TAGGGCTTTA
Statistics
Matches: 1130, Mismatches: 174, Indels: 37
0.84 0.13 0.03
Matches are distributed among these distances:
179 2 0.00
180 353 0.31
181 12 0.01
182 586 0.52
183 141 0.12
184 13 0.01
185 23 0.02
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (182 bp):
ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
Found at i:10359597 original size:362 final size:363
Alignment explanation
Indices: 10358849--10360352 Score: 1858
Period size: 362 Copynumber: 4.1 Consensus size: 363
10358839 GGGGTGTTAC
* * *
10358849 ATAAACATCTCAATTTCTAGAAACTAAACAATTCAATTTCCAGCACTTAAACACTTTAATTTACA
1 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTT-AACACTTCAATTTACA
* * * * *
10358914 TCATTTGAGCACCTCAATTTACAACAGTTAAACATTTCAATTTACAACATTTAAACACCTCAACT
65 TCATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACT
*
10358979 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAACGATAAACATCTCAA
130 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCGATAAACATCTCAA
* * *
10359044 TTTCCAACAATTAAACAATTCAATTTGCAACGCTTAAACACTTCAATTTACATCATTTGAGCACC
195 TTTCCAGCAACTAAACAATTCAATTTGCAACACTTAAACACTTCAATTTACATCATTTGAGCACC
* *
10359109 TCAATTTACAATAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTCA
260 TCAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTCA
* *
10359174 CATCCAAATTAACAACATTTATACAACTTAATTACAGCG
325 CATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* *
10359213 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCAATT-ACACTTCAATGTACAT
1 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTTAACACTTCAATTTACAT
* * *
10359277 CGTTAGAGCACATCAAATTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACTT
66 CATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACTT
* * * *
10359342 ACAACCCTTTCACA-CCCAAATCAACAACATTTATACAACTTAATTACAGCGATAAACATCTCAA
131 ACAACACTTTAACATCCC-AATTAACAACATTTATACACCTTAATTACAGCGATAAACATCTCAA
* *
10359406 TTTCCAGCAACTAAACAATTCAATTTGCAACACTTAAACATTTCAATTTACGTCATTTGAGCACC
195 TTTCCAGCAACTAAACAATTCAATTTGCAACACTTAAACACTTCAATTTACATCATTTGAGCACC
10359471 TCAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTCA
260 TCAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTCA
10359536 CATCCCAATTAACAACATTTATACACCTTAATTACAGCG
325 CATCCCAATTAACAACATTTATACACCTTAATTACAGCG
*
10359575 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATGTGCAGCACTT-ACACTTCAATTTACAT
1 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTTAACACTTCAATTTACAT
10359639 CATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACTT
66 CATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACTT
* * **
10359704 ACAACACTTTAACATCCCAGTTAACAATATTTATTGACCTTAATTACAGCGATAAACATCTCAAT
131 ACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCGATAAACATCTCAAT
*
10359769 TTCCAGCAACTAAACACTTCAATTTG-AAGCACTTAAACACTTCAATTTACATCATTTGAGCACC
196 TTCCAGCAACTAAACAATTCAATTTGCAA-CACTTAAACACTTCAATTTACATCATTTGAGCACC
* * * * * * *
10359833 TCAATTTATAGCAATTAAACACTTCTATTTATAGCCTTTAACCACCTCAACTTACAACACTTTAA
260 TCAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTCA
* * * *
10359898 CATCCCAATAAACAACATTTATACACCTCAATTATAGCA
325 CATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* * * *
10359937 AGAAACTTGTCAATTTCTGGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
1 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTT-AACACTTCAATTTACA
* * * * * * * * * ** *
10360002 GCATTTAAACACCTCAACTTACAACACTTTAAC-ATCCCAATTAACAAAATTTATACACCTCAA-
65 TCATTTGAGCACATCAATTTACAACAATTAAACAAT-TCAATTGACAGCATTTAAACACCTCAAC
* * ** * ** * ** * *
10360065 TTACAACGA--TAAACATCTCAATTTTCAGCAAGTAAACAATTTAATTTGCAGTAC-TTAAAACA
129 TTACAAC-ACTTTAACATCCCAATTAACAACATTTATACACCTTAA-TTACAG--CGAT-AAACA
* * ** * ** * * * *
10360127 -CTTCAATTTACAACATTTAAACACTTCAATTTGCTGCACTTTAACACTTCAATTCACAACACTT
189 TC-TCAATTTCCAGCAACTAAACAATTCAATTTGCAACACTTAAACACTTCAATTTACATCATTT
* ** * ** * * * * * * *
10360191 AAATACTTCAATTTGTAACACTTTAACACTTCAATATACACCATTTAAACACTTCAATTTACAGC
253 GAGCACCTCAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAAC
* * * * * **
10360256 ACTTTAACATCTCTATTAACAATATTTATACACCTCAATTACAGTA
318 ACTTTCACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* * * * *
10360302 ATAAAACATCTCAATTTCCAGCAACTAAACACTTCAAATTACAGTACTTAA
1 AT-AAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTTAA
10360353 ATAGGGCTTT
Statistics
Matches: 996, Mismatches: 130, Indels: 27
0.86 0.11 0.02
Matches are distributed among these distances:
361 5 0.01
362 677 0.68
363 17 0.02
364 111 0.11
365 148 0.15
366 38 0.04
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (363 bp):
ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTTAACACTTCAATTTACAT
CATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACTT
ACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCGATAAACATCTCAAT
TTCCAGCAACTAAACAATTCAATTTGCAACACTTAAACACTTCAATTTACATCATTTGAGCACCT
CAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTCAC
ATCCCAATTAACAACATTTATACACCTTAATTACAGCG
Found at i:10360009 original size:136 final size:136
Alignment explanation
Indices: 10359833--10360155 Score: 432
Period size: 136 Copynumber: 2.4 Consensus size: 136
10359823 TTTGAGCACC
** * * * * *
10359833 TCAATTTATAGCAATTAAACACTTCTATTTATAGCCTTTAACCACCTCAACTTACAACACTTTAA
1 TCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
* * * * * *
10359898 CATCCCAATAAACAACATTTATACACCTCAATTATAGCAAGAAACTTGTCAA-TTTCTGGCAACT
66 CATCCCAATAAACAAAATTTATACACCTCAATTACAACAAGAAACATCTCAATTTTC-AGCAACT
10359962 AAACAAT
130 AAACAAT
10359969 TCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
1 TCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
* * * *
10360034 CATCCCAATTAACAAAATTTATACACCTCAATTACAACGATAAACATCTCAATTTTCAGCAAGTA
66 CATCCCAATAAACAAAATTTATACACCTCAATTACAACAAGAAACATCTCAATTTTCAGCAACTA
10360099 AACAAT
131 AACAAT
* * * *
10360105 TTAATTTGCAGTACTTAAAACACTTCAATTTACAACATTTAAACACTTCAA
1 TCAATTTGCAGCACTT-AAACACTTCAATTTACAGCATTTAAACACCTCAA
10360156 TTTGCTGCAC
Statistics
Matches: 164, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
136 128 0.78
137 36 0.22
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.31
Consensus pattern (136 bp):
TCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
CATCCCAATAAACAAAATTTATACACCTCAATTACAACAAGAAACATCTCAATTTTCAGCAACTA
AACAAT
Found at i:10370068 original size:20 final size:20
Alignment explanation
Indices: 10370014--10370068 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
10370004 ACACCACACT
*
10370014 AGAGGCATCGAAGTGAAAAC
1 AGAGGCACCGAAGTGAAAAC
* * *
10370034 AGAGACACCAAAGTGTAAAC
1 AGAGGCACCGAAGTGAAAAC
*
10370054 AGAGGCACCGGAGTG
1 AGAGGCACCGAAGTG
10370069 CAAATCCCCT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.31, T:0.09
Consensus pattern (20 bp):
AGAGGCACCGAAGTGAAAAC
Found at i:10377092 original size:12 final size:14
Alignment explanation
Indices: 10377070--10377108 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
10377060 AGGAAAATTT
*
10377070 TAATAATAATATAAA
1 TAATAAT-ATATACA
*
10377085 TGATAATATATACA
1 TAATAATATATACA
10377099 TAATAATATA
1 TAATAATATA
10377109 CAAAAGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATAATATATACA
Found at i:10378557 original size:13 final size:12
Alignment explanation
Indices: 10378535--10378571 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
10378525 AAACTGGACG
10378535 TTTTTTGTTTTT
1 TTTTTTGTTTTT
10378547 TTTTGTTGTTTTT
1 TTTT-TTGTTTTT
10378560 TTGTTTTGTTTT
1 TT-TTTTGTTTT
10378572 AATTTGGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 17 0.74
14 2 0.09
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:10378558 original size:11 final size:10
Alignment explanation
Indices: 10378535--10378571 Score: 56
Period size: 11 Copynumber: 3.5 Consensus size: 10
10378525 AAACTGGACG
10378535 TTTTTTGTTT
1 TTTTTTGTTT
10378545 TTTTTTGTTGT
1 TTTTTTGTT-T
10378556 TTTTTTGTTT
1 TTTTTTGTTT
10378566 TGTTTT
1 T-TTTT
10378572 AATTTGGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 11 0.44
11 14 0.56
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:10378891 original size:50 final size:50
Alignment explanation
Indices: 10378847--10379234 Score: 305
Period size: 50 Copynumber: 7.8 Consensus size: 50
10378837 TTAACTGTGG
* * *
10378847 TGTCAAGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTAA
1 TGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAA
* * * * **
10378897 TGTC-AGGGAAGCAAGATTCACCGATGTGGCTTTAAT-TTGTTCCACTGC-A
1 TGTCGA-GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTT-TTTAACTGCAA
* * * * *
10378946 TCGCCTAGGAAGTAAGATTTGTTGTTGTAGCTTTAATCTTTTTAACTGCAA
1 T-GTCGAGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAA
* * * * ** *
10378997 TGTCGGGGAAGCATGATTCGCTGTTGTGGCTTTAATCTATTCCACTGCAC
1 TGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAA
* * * * * * * *
10379047 CGCCTAGGAAGTAAGATTCGTTATTGTAGCTTCAACCTTTTTAACTGCAA
1 TGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAA
* * * * ** *
10379097 TGTCGGGGAAGCATGATTCGCTGTTGTGGCTTTAATCTATTCCACTGCAC
1 TGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAA
* * * * * * * *
10379147 CGCCTAGGAAGTAAGATTCGTTATTGTAGCTTCAACCTTTTTAACTGCAA
1 TGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAA
* * *
10379197 TGTCGGGGAAGCATGATTCGCTGTTGTGGCTTTAATCT
1 TGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTTAATCT
10379235 GTTCCACTGC
Statistics
Matches: 246, Mismatches: 86, Indels: 12
0.72 0.25 0.03
Matches are distributed among these distances:
49 5 0.02
50 236 0.96
51 5 0.02
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (50 bp):
TGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAA
Found at i:10379006 original size:100 final size:100
Alignment explanation
Indices: 10378852--10379263 Score: 653
Period size: 100 Copynumber: 4.1 Consensus size: 100
10378842 TGTGGTGTCA
* * * * * * * *
10378852 AGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCAGGGAAGCAAGATTCA
1 AGGAAGTAAGATTCGTTATTGTAGCTTCAACCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
* * * * *
10378917 CCGATGTGGCTTTAATTTGTTCCACTGCATCGCCT
66 CTGTTGTGGCTTTAATCTATTCCACTGCACCGCCT
* * * *
10378952 AGGAAGTAAGATTTGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
1 AGGAAGTAAGATTCGTTATTGTAGCTTCAACCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
10379017 CTGTTGTGGCTTTAATCTATTCCACTGCACCGCCT
66 CTGTTGTGGCTTTAATCTATTCCACTGCACCGCCT
10379052 AGGAAGTAAGATTCGTTATTGTAGCTTCAACCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
1 AGGAAGTAAGATTCGTTATTGTAGCTTCAACCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
10379117 CTGTTGTGGCTTTAATCTATTCCACTGCACCGCCT
66 CTGTTGTGGCTTTAATCTATTCCACTGCACCGCCT
10379152 AGGAAGTAAGATTCGTTATTGTAGCTTCAACCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
1 AGGAAGTAAGATTCGTTATTGTAGCTTCAACCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
*
10379217 CTGTTGTGGCTTTAATCTGTTCCACTGCACCGCCT
66 CTGTTGTGGCTTTAATCTATTCCACTGCACCGCCT
*
10379252 AGAAAGTAAGAT
1 AGGAAGTAAGAT
10379264 CTGTAATTCT
Statistics
Matches: 295, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 295 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (100 bp):
AGGAAGTAAGATTCGTTATTGTAGCTTCAACCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
CTGTTGTGGCTTTAATCTATTCCACTGCACCGCCT
Found at i:10379641 original size:217 final size:217
Alignment explanation
Indices: 10379258--10379940 Score: 1132
Period size: 217 Copynumber: 3.1 Consensus size: 217
10379248 GCCTAGAAAG
*
10379258 TAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
1 TAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
* *
10379323 CTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
66 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
* * *
10379388 ATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCAATTTCAATTA
131 ATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
*
10379453 GCTTCACTACTGCTTAGGGAGA
196 GCTCCACTACTGCTTAGGGAGA
* * * *
10379475 TAAGATCTAAAATTCTTCGGTCTATTCCACTATAATCTCAGGGAGATAAGACCTGATGCGATCTA
1 TAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
*
10379540 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTTCACTGTAATCTTAGGGAA
66 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
* *
10379605 ATAGGATTACTAGCTTCAATCTACTCCGCGGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
131 ATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
10379670 GCTCCACTACTGCTTAGGGAGA
196 GCTCCACTACTGCTTAGGGAGA
* * *
10379692 TAAGGTCTGAAATTCATCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
1 TAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
* * * * *
10379757 CTCTACTGTAATCTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAAGCTCAGGGAG
66 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
* * *
10379822 ATAGTATTACTAGCTTCAATCTGCTCCGTTGTAAGCTCAGGGAGATAAGATTCCATTTTCGATTA
131 ATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
10379887 GCTCCACTACTGCTTAGGGAGA
196 GCTCCACTACTGCTTAGGGAGA
*
10379909 TAAGATCTGAAATTCTTCAATCTATTCCACTG
1 TAAGATCTGAAATTCTTCAGTCTATTCCACTG
10379941 CTGATCAGGG
Statistics
Matches: 432, Mismatches: 34, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 432 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (217 bp):
TAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
ATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
GCTCCACTACTGCTTAGGGAGA
Found at i:10379766 original size:41 final size:44
Alignment explanation
Indices: 10379712--10379824 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 44
10379702 AATTCATCGG
* *
10379712 TCTATTCCACTGTAATCTCAGGGAGATAAGA-CC-TGA-TGTGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTGATTGTAA
* * * *
10379753 TCTACTCTACTGTAATCTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTGATTGTAA
* *
10379797 TCTGCTCCACTGTAAGCTCAGGGAGATA
1 TCTACTCCACTGTAATCTCAGGGAGATA
10379825 GTATTACTAG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 28 0.47
42 2 0.03
43 2 0.03
44 27 0.46
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTGATTGTAA
Found at i:10380024 original size:129 final size:129
Alignment explanation
Indices: 10379879--10380313 Score: 653
Period size: 129 Copynumber: 3.4 Consensus size: 129
10379869 AGATTCCATT
* * *
10379879 TTCGAT-TAGCTCCACTACTGCTTAGGGAGATAAGATCTGAAA-TTCTTCAATCTATTCCACTGC
1 TTCGATCT-GCTCCACTACTGCTTAGGGAGACAAGATCTGAAATTTC-CCAACCTATTCCACTGC
*
10379942 TGATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGT
64 TGATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGT
10380007 C
129 C
*
10380008 TTCGATCTGCTCCACTATTGCTTAGGGAGACAAGATCT-ATAATTTCCCAACCTATTCCACTGCT
1 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA-AATTTCCCAACCTATTCCACTGCT
* *
10380072 GATCAGGGATATAGAACTTGTGGCTTAAATCTGCTTCCTTACACTTAAAGATAAGATTCGCCGTC
65 GATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTC
* ** * *
10380137 TTCGATTTGCTCCGTTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTG
1 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATTTCCCAACCTATTCCACTGCTG
* * *
10380202 ATCAGGGATATATGACTTGTGGCTTAAATTTGCTTTCTTACACTTGAAGATAAGATTCGCCGTC
66 ATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTC
* * *
10380266 TTCGATCTGCTCCGCTACTACTTA-GGAGACAAGATCTGTAATTTCCCA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATTTCCCA
10380314 GATCTGTTCT
Statistics
Matches: 282, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
128 25 0.09
129 253 0.90
130 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (129 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATTTCCCAACCTATTCCACTGCTG
ATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTC
Found at i:10381552 original size:7 final size:7
Alignment explanation
Indices: 10381533--10381577 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
10381523 TCAGCCTCTC
10381533 CATTTTT
1 CATTTTT
10381540 -ACTTTTT
1 CA-TTTTT
10381547 CATTTTTT
1 CA-TTTTT
10381555 CATTTTT
1 CATTTTT
10381562 CA-TTTT
1 CATTTTT
10381568 CATTTTT
1 CATTTTT
10381575 CAT
1 CAT
10381578 AATTTTTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
6 7 0.21
7 19 0.56
8 8 0.24
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:10381560 original size:15 final size:15
Alignment explanation
Indices: 10381533--10381577 Score: 60
Period size: 13 Copynumber: 3.2 Consensus size: 15
10381523 TCAGCCTCTC
*
10381533 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
10381547 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
10381562 CA--TTTTCATTTTT
1 CATTTTTTCATTTTT
10381575 CAT
1 CAT
10381578 AATTTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 13 0.46
14 8 0.29
15 7 0.25
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:10382469 original size:13 final size:13
Alignment explanation
Indices: 10382446--10382483 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
10382436 TTGGCCTCTC
10382446 CTTTTTA-TTTTT
1 CTTTTTATTTTTT
10382458 CTTTTTATTTTTT
1 CTTTTTATTTTTT
* *
10382471 ATTTTCATTTTTT
1 CTTTTTATTTTTT
10382484 GATTTTGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTTATTTTTT
Found at i:10382482 original size:14 final size:14
Alignment explanation
Indices: 10382459--10382507 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 14
10382449 TTTATTTTTC
*
10382459 TTTTTATTTTTT-A
1 TTTTCATTTTTTGA
10382472 TTTTCATTTTTTGA
1 TTTTCATTTTTTGA
*
10382486 TTTTGA--TTTTGA
1 TTTTCATTTTTTGA
*
10382498 TTTTGATTTT
1 TTTTCATTTT
10382508 GATTTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 12 0.39
13 11 0.35
14 8 0.26
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (14 bp):
TTTTCATTTTTTGA
Found at i:10382489 original size:6 final size:6
Alignment explanation
Indices: 10382480--10382523 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
10382470 TATTTTCATT
*
10382480 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTCGA TT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TT
10382524 GATTTTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.02, G:0.16, T:0.66
Consensus pattern (6 bp):
TTTTGA
Found at i:10382548 original size:40 final size:41
Alignment explanation
Indices: 10382504--10382589 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 41
10382494 TTGATTTTGA
*
10382504 TTTTGATTTTGA-TTTCGA-TTGATTTTTT-TCTTTTTCATTT
1 TTTTGACTTTGACTTT-GATTTGATTTTTTCT-TTTTTCATTT
*
10382544 TTTTGACTTTGACTTTGATTTTGATTTTTTCTTTTTTCTTTT
1 TTTTGACTTTGACTTTGA-TTTGATTTTTTCTTTTTTCATTT
10382586 TTTT
1 TTTT
10382590 TTTGAATTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
40 13 0.32
41 3 0.08
42 23 0.57
43 1 0.03
ACGTcount: A:0.10, C:0.08, G:0.09, T:0.72
Consensus pattern (41 bp):
TTTTGACTTTGACTTTGATTTGATTTTTTCTTTTTTCATTT
Found at i:10390417 original size:12 final size:14
Alignment explanation
Indices: 10390395--10390433 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
10390385 AGGAAAATTT
*
10390395 TAATAATAATATAAA
1 TAATAAT-ATATACA
*
10390410 TGATAATATATACA
1 TAATAATATATACA
10390424 TAATAATATA
1 TAATAATATA
10390434 CAAAAGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATAATATATACA
Found at i:10396033 original size:19 final size:20
Alignment explanation
Indices: 10396008--10396046 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10395998 TTTTCAAATT
10396008 TATATATTTTATAAAAAATGA
1 TATAT-TTTTATAAAAAATGA
*
10396029 TATATTTTTATTAAAAAT
1 TATATTTTTATAAAAAAT
10396047 ATTACATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATTTTTATAAAAAATGA
Found at i:10396345 original size:10 final size:9
Alignment explanation
Indices: 10396315--10396373 Score: 57
Period size: 10 Copynumber: 6.4 Consensus size: 9
10396305 TTTGCATCCT
10396315 TCTCTCAAC
1 TCTCTCAAC
*
10396324 TCTCT-AAT
1 TCTCTCAAC
10396332 TCTCTCAAAC
1 TCTCTC-AAC
10396342 TCTCTCAAAC
1 TCTCTC-AAC
* * *
10396352 CCTCTCGAG
1 TCTCTCAAC
10396361 TCTCTCAAC
1 TCTCTCAAC
10396370 TCTC
1 TCTC
10396374 GTTTTAATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 7 0.17
9 16 0.40
10 17 0.43
ACGTcount: A:0.22, C:0.41, G:0.03, T:0.34
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:10400994 original size:81 final size:81
Alignment explanation
Indices: 10400890--10401056 Score: 262
Period size: 81 Copynumber: 2.1 Consensus size: 81
10400880 ATCAATAATG
*
10400890 CCTTGGAAAAATGGTATCTACTTTATTGCACAGAAGAGTTCTAAAATGGCCTACCTCTAATGAAA
1 CCTTGGAAAAATGGTAACTACTTTATTGCACAGAAGAGTTCTAAAATGGCCTACCTCTAATGAAA
*
10400955 GCAAAACTGCAAGTTA
66 GCAAAACCGCAAGTTA
* * * ** *
10400971 CCTTGGCAAAATGGTAACTACTTTATTGTACAGAAGAGTTCTAAAATGGCCTACCTTTCGTGAGA
1 CCTTGGAAAAATGGTAACTACTTTATTGCACAGAAGAGTTCTAAAATGGCCTACCTCTAATGAAA
10401036 GCAAAACCGCAAGTTA
66 GCAAAACCGCAAGTTA
10401052 CCTTG
1 CCTTG
10401057 CCTGTTTCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (81 bp):
CCTTGGAAAAATGGTAACTACTTTATTGCACAGAAGAGTTCTAAAATGGCCTACCTCTAATGAAA
GCAAAACCGCAAGTTA
Found at i:10405813 original size:277 final size:278
Alignment explanation
Indices: 10405289--10405842 Score: 808
Period size: 277 Copynumber: 2.0 Consensus size: 278
10405279 ACACTAAGTT
* ** * * *
10405289 AAATAAAACTACTAAGTAAAATAACCAAACCAAATTTCACCAAATTGTTGATCATTGGTAACGGC
1 AAATAAAACTACAAAGTAAAATAACCAAACCAAATTTCAAAAAATTGTCGATCACTGGCAACGGC
* ** *
10405354 GCTAAAAACTTGTCGCATGTAAAATGATATGCGATTTGTGCAAGTATACACATCTGTTTAAGTGA
66 GCTAAAAACTTGTCACATGTAAAATGATATGCGATTTGTGCAAGTATACACATCTGTCAAAGTAA
*
10405419 TAAAGTGATGAATAAGTATAGTTCCCACGATGATCAAATTGAGGCACAAAATTGGTCAAGTTATT
131 TAAAGTGATGAATAAGTATAGTTCCCACGAGGATCAAATTGAGGCACAAAATTGGTCAAGTTATT
*
10405484 GTAATATGGTTAATGTTATAGCAAGACTAACAAATAAGATGCTATGGTAAACTAAGGTAAGTATG
196 GTAATATGGTTAATGTTATAGCAAGACGAACAAATAAGATGCTATGGTAAACTAAGGTAAGTATG
*
10405549 CAATGATAATTCAAAGGA
261 CAATGATAATTAAAAGGA
* *
10405567 AAATAAAACTACAAAGTAAAATAACCAAA-CAAATTTCAAAAAATTGTCGGTC-CTGGCAACGGT
1 AAATAAAACTACAAAGTAAAATAACCAAACCAAATTTCAAAAAATTGTCGATCACTGGCAACGGC
** * * *
10405630 GCTAAAAACTTGTCATGTGTAAAATGATGTGTGATTTTGTGCAAGTATACACGT-TGGTCAAAGT
66 GCTAAAAACTTGTCACATGTAAAATGATATGCGA-TTTGTGCAAGTATACACATCT-GTCAAAGT
* * * * * *
10405694 AATAAAGTGATGAGTGAGTATCGTTCCCATGAGGATCAGATTGAGGCACAAAATTGGTCAAGTTT
129 AATAAAGTGATGAATAAGTATAGTTCCCACGAGGATCAAATTGAGGCACAAAATTGGTCAAGTTA
* *
10405759 TTGTAATATGGTTAATGTTATGGCAAGACGAACGAATAAGATGCTATGGTAAACTAAGGTAAGTA
194 TTGTAATATGGTTAATGTTATAGCAAGACGAACAAATAAGATGCTATGGTAAACTAAGGTAAGTA
*
10405824 TGCAGTGATAATTAAAAGG
259 TGCAATGATAATTAAAAGG
10405843 GATGCTGATG
Statistics
Matches: 245, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
276 38 0.16
277 179 0.73
278 28 0.11
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (278 bp):
AAATAAAACTACAAAGTAAAATAACCAAACCAAATTTCAAAAAATTGTCGATCACTGGCAACGGC
GCTAAAAACTTGTCACATGTAAAATGATATGCGATTTGTGCAAGTATACACATCTGTCAAAGTAA
TAAAGTGATGAATAAGTATAGTTCCCACGAGGATCAAATTGAGGCACAAAATTGGTCAAGTTATT
GTAATATGGTTAATGTTATAGCAAGACGAACAAATAAGATGCTATGGTAAACTAAGGTAAGTATG
CAATGATAATTAAAAGGA
Found at i:10406683 original size:10 final size:9
Alignment explanation
Indices: 10406657--10406695 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
10406647 ATATATCTAA
10406657 TTCTCTTTTT
1 TTCT-TTTTT
*
10406667 TTCTTTTCT
1 TTCTTTTTT
10406676 TTCTTTTTT
1 TTCTTTTTT
10406685 TTCCTTTTTT
1 TT-CTTTTTT
10406695 T
1 T
10406696 AATGGAAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:10407490 original size:5 final size:6
Alignment explanation
Indices: 10407475--10407505 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10407465 TACATGAGAG
*
10407475 AAAAAC AAAAAC AAAAAC AAAAAT AAAAAC A
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC A
10407506 TAACTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:10429894 original size:51 final size:51
Alignment explanation
Indices: 10429839--10430032 Score: 175
Period size: 51 Copynumber: 3.8 Consensus size: 51
10429829 ATGTAAAAGT
* * *
10429839 GAAAGTGAT-GGTCACGTGTCTAGTACTATGTGTAGGCTACTACGTGTACTA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-TA
* * *
10429890 GAAA--GATAGGTCATATGTGTAGTACTATGTGCAGGCTACTATGCGTATCA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAT-A
** * * * * *
10429940 GATACCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACTTGTATTG
1 GA-AAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-TA
* *
10429991 GATAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
10430033 TGTGAACCGG
Statistics
Matches: 114, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
49 4 0.04
50 37 0.32
51 71 0.62
52 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (51 bp):
GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATA
Found at i:10430110 original size:46 final size:44
Alignment explanation
Indices: 10430038--10430126 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 44
10430028 TACTATGTGA
*
10430038 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCT-AATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCCC
* *
10430081 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
10430127 ACAGTGTATC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 5 0.13
44 11 0.28
45 2 0.05
46 16 0.41
47 5 0.13
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (44 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCCC
Found at i:10430308 original size:37 final size:38
Alignment explanation
Indices: 10430237--10430309 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
10430227 ATGTGCAGAA
* *
10430237 TTGAATTGAATAATGACTTCAAAATGACAAAGTGAATT
1 TTGAATTAAATAATGACTTCAAAATGAAAAAGTGAATT
* * *
10430275 TTGAATTAAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTAAATAATGACTTCAAAATGAAAAAGTGAA
10430310 ATTATGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 16 0.53
38 14 0.47
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (38 bp):
TTGAATTAAATAATGACTTCAAAATGAAAAAGTGAATT
Found at i:10431984 original size:24 final size:25
Alignment explanation
Indices: 10431957--10432023 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
10431947 ATTGTTGTTT
10431957 TATCTATTTAAAAA-AAGAGCCATA
1 TATCTATTTAAAAAGAAGAGCCATA
* *
10431981 TATC-ATTATTAAAAAGAGGAGTCATA
1 TATCTA-T-TTAAAAAGAAGAGCCATA
* *
10432007 TATATATTTTAAAAGAA
1 TATCTATTTAAAAAGAA
10432024 TTCAAATATG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
23 1 0.03
24 5 0.15
25 15 0.44
26 12 0.35
27 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.33
Consensus pattern (25 bp):
TATCTATTTAAAAAGAAGAGCCATA
Found at i:10437833 original size:24 final size:24
Alignment explanation
Indices: 10437807--10437851 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
10437797 ATAATTCATT
* *
10437807 TTTTATTTCATTAA-TAAATTGGG
1 TTTTAATTAATTAAGTAAATTGGG
10437830 TTTTAATTAATTAAGTAAATTG
1 TTTTAATTAATTAAGTAAATTG
10437852 ATTAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTTAATTAATTAAGTAAATTGGG
Found at i:10448350 original size:23 final size:24
Alignment explanation
Indices: 10448324--10448368 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
10448314 ATAGTTCATT
* *
10448324 TTTTATTTCATTAA-TAAATTGGG
1 TTTTAATTAATTAAGTAAATTGGG
10448347 TTTTAATTAATTAAGTAAATTG
1 TTTTAATTAATTAAGTAAATTG
10448369 ATTAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTTAATTAATTAAGTAAATTGGG
Found at i:10448806 original size:19 final size:19
Alignment explanation
Indices: 10448784--10448821 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10448774 TCAATCATTC
10448784 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
10448803 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
10448822 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:10459200 original size:21 final size:20
Alignment explanation
Indices: 10459160--10459200 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10459150 GCAAGTATGA
* *
10459160 TTTTTTATTTTATCTGAGTT
1 TTTTTTATGTTATCTAAGTT
10459180 TTTTTTATGTTATCATAAGTT
1 TTTTTTATGTTATC-TAAGTT
10459201 ATGGAATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTTTATGTTATCTAAGTT
Found at i:10462773 original size:22 final size:23
Alignment explanation
Indices: 10462724--10462782 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
10462714 TCTTCTATTT
* *
10462724 CTTGATTCTCTCTTGGTGGTTTTC
1 CTTGATTCTCTCTAGGTGG-TTTA
10462748 CTTGATTCTCTCTAGGTGG-TTA
1 CTTGATTCTCTCTAGGTGGTTTA
*
10462770 CTTGATTTTCTCT
1 CTTGATTCTCTCT
10462783 TCCTCCAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 14 0.44
24 18 0.56
ACGTcount: A:0.08, C:0.20, G:0.19, T:0.53
Consensus pattern (23 bp):
CTTGATTCTCTCTAGGTGGTTTA
Found at i:10463857 original size:23 final size:23
Alignment explanation
Indices: 10463814--10463857 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10463804 TTTGTTAACA
* * *
10463814 CACTTCGGTGTTGTCCTATTAAG
1 CACTTCGGTGCTATCCCATTAAG
10463837 CACTTCGGTGCTATCCCATTA
1 CACTTCGGTGCTATCCCATTA
10463858 CACGCTCCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (23 bp):
CACTTCGGTGCTATCCCATTAAG
Found at i:10468125 original size:51 final size:51
Alignment explanation
Indices: 10468065--10468167 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
10468055 GTTTTGGAAG
10468065 TTTGTGAGTTTATATATTTGCTTATGTTCATGAACTTTAATGATGACTTGA
1 TTTGTGAGTTTATATATTTGCTTATGTTCATGAACTTTAATGATGACTTGA
*
10468116 TTTGTGAGTTTATATATTTGCTTATGTTCATGAACTTTAATGATGGCTTGA
1 TTTGTGAGTTTATATATTTGCTTATGTTCATGAACTTTAATGATGACTTGA
10468167 T
1 T
10468168 GTATCTTGCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (51 bp):
TTTGTGAGTTTATATATTTGCTTATGTTCATGAACTTTAATGATGACTTGA
Found at i:10468164 original size:26 final size:27
Alignment explanation
Indices: 10468084--10468169 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 27
10468074 TTATATATTT
10468084 GCTT-ATGTTCATGAACTTTAATGATG
1 GCTTGATGTTCATGAACTTTAATGATG
* * * *
10468110 ACTTGAT-TT-GTG-AGTTTATAT-ATTT
1 GCTTGATGTTCATGAACTTTA-ATGA-TG
10468135 GCTT-ATGTTCATGAACTTTAATGATG
1 GCTTGATGTTCATGAACTTTAATGATG
10468161 GCTTGATGT
1 GCTTGATGT
10468170 ATCTTGCTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
24 8 0.18
25 10 0.23
26 14 0.32
27 12 0.27
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.47
Consensus pattern (27 bp):
GCTTGATGTTCATGAACTTTAATGATG
Found at i:10469953 original size:30 final size:32
Alignment explanation
Indices: 10469917--10469978 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
10469907 ACTCTTTTTT
* *
10469917 TCTCTCCTATTTT-TTT-TTTGAAACCAAAAA
1 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
10469947 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
1 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
10469979 AAATTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 12 0.43
31 3 0.11
32 13 0.46
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.44
Consensus pattern (32 bp):
TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
Found at i:10471816 original size:125 final size:124
Alignment explanation
Indices: 10471573--10472138 Score: 710
Period size: 125 Copynumber: 4.5 Consensus size: 124
10471563 GATAAAATCA
* * * * *
10471573 AAGCAGGATGAC-TTATCAGAAGGATTTTTGAAGTCGCGCCCTCGTGTACGCGCTTTTGCTACAA
1 AAGCAGGATG-CTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTAC-A
* * *
10471637 G-AGGTCTTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTC
64 GTAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTT-AAAAACACTTC
* * * *
10471698 AAGTAGGATGCTTTGTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * *
10471763 TGGTCCTGGAAGAAATAATTTTGAGTTGACATTTTTGAGCAAATAGCTTAAAAACACTTC
66 AGGTCCTGGAA-AAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTTAAAAACACTTC
* * *
10471823 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * * *
10471888 AGGTCCT-GAAAAAGTAATTTTGAGTTGACGTTTCCGAGAAAATAG-TATAAAAAAATGCTGC
66 AGGTCCTGGAAAAA-TAATTTTGACTTGACGTTTCTGAGCAAATAGCT-TAAAAACA--CTTC
* * *
10471949 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * *
10472013 TTGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCATAAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTTAAAAACACTTC
* * *
10472073 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
10472138 A
66 A
10472139 ACATGTTTGG
Statistics
Matches: 378, Mismatches: 52, Indels: 23
0.83 0.11 0.05
Matches are distributed among these distances:
123 6 0.02
124 99 0.26
125 135 0.36
126 130 0.34
127 8 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (124 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTTAAAAACACTTC
Found at i:10471995 original size:126 final size:124
Alignment explanation
Indices: 10471573--10472138 Score: 701
Period size: 126 Copynumber: 4.5 Consensus size: 124
10471563 GATAAAATCA
* * * * *
10471573 AAGCAGGATGAC-TTATCAGAAGGATTTTTGAAGTCGCGCCCTCGTGTACGCGCTTTTGCTACAA
1 AAGCAGGATG-CTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTAC-A
* * *
10471637 G-AGGTCTTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTC
64 GTAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAAAA-ACTTC
* * * *
10471698 AAGTAGGATGCTTTGTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * * *
10471763 TGGTCCTGGAAGAAATAATTTTGAGTTGACATTTTTGAGCAAATAGCT-TAAAAACACTTC
66 AGGTCCTGGAA-AAATAATTTTGACTTGACGTTTCTGAGCAAATAG-TATAAAAAAACTTC
* * *
10471823 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * *
10471888 AGGTCCT-GAAAAAGTAATTTTGAGTTGACGTTTCCGAGAAAATAGTATAAAAAAATGCTGC
66 AGGTCCTGGAAAAA-TAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAAAAA--CTTC
* * *
10471949 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * ***
10472013 TTGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCATAAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAAAAACTTC
* * *
10472073 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
10472138 A
66 A
10472139 ACATGTTTGG
Statistics
Matches: 378, Mismatches: 52, Indels: 23
0.83 0.11 0.05
Matches are distributed among these distances:
123 6 0.02
124 99 0.26
125 129 0.34
126 135 0.36
127 9 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (124 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAAAAACTTC
Found at i:10472031 original size:250 final size:250
Alignment explanation
Indices: 10471573--10472138 Score: 784
Period size: 250 Copynumber: 2.3 Consensus size: 250
10471563 GATAAAATCA
* * * * *
10471573 AAGCAGGATGAC-TTATCAGAAGGATTTTTGAAGTCGCGCCCTCGTGTACGCGCTTTTGCTACAA
1 AAGCAGGATG-CTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTAC-A
* * * * *
10471637 G-AGGTCTTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTCAAG
64 GTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCCGAGAAAATAGTATAAAAAACACTGCAAG
* * * * *
10471701 TAGGATGCTTTGTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTACTACAGTTGG
129 CAGCATGCTTTGTGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTACTACAGTTGG
* * *
10471766 TCCTGGAAGAAATAATTTTGAGTTGACATTTTTGAGCAAATAGCTTAAAAACACTTC
194 TCCTGGAAGAAATAATTTTGACTTGACATTTCTGAGCAAATAGCATAAAAACACTTC
10471823 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
10471888 AGGTCCT-GAAAAAGTAATTTTGAGTTGACGTTTCCGAGAAAATAGTATAAAAAA-ATGCTGCAA
66 AGGTCCTGGAAAAA-TAATTTCGACTTGACGTTTCCGAGAAAATAGTATAAAAAACA--CTGCAA
*
10471951 GCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTGCTACAGTT
128 GCAGCATGCT-TTGTGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTACTACAGTT
* * *
10472015 GGTCCTGGAA-AAATAATTTTGACTTGACGTTTCTGAGCAAATAGCATAAAATCGCTTC
192 GGTCCTGGAAGAAATAATTTTGACTTGACATTTCTGAGCAAATAGCATAAAAACACTTC
* * * *
10472073 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
10472138 A
66 A
10472139 ACATGTTTGG
Statistics
Matches: 282, Mismatches: 28, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
249 10 0.04
250 200 0.71
251 70 0.25
252 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (250 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCCGAGAAAATAGTATAAAAAACACTGCAAGCA
GCATGCTTTGTGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTACTACAGTTGGTC
CTGGAAGAAATAATTTTGACTTGACATTTCTGAGCAAATAGCATAAAAACACTTC
Found at i:10473325 original size:22 final size:22
Alignment explanation
Indices: 10473284--10473666 Score: 334
Period size: 22 Copynumber: 17.0 Consensus size: 22
10473274 TCAAATTATA
10473284 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10473305 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
10473327 TTAAAGTTAAAGGTCTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
10473349 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10473371 TTCAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10473392 TTTAGGTTAAGGGTTTATGGG-T
1 TTTAAGTTAAGGGTTTA-GGGTT
*
10473414 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10473435 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
10473457 TTTAAGTTAAAGTTTTAAGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
10473478 TTTAAGGTTTTAA-AGTTAAGGGTTT
1 TTTAA-G--TTAAGGGTTTAGGG-TT
* *
10473503 AGAGTATTAAAGTTAAAGGTCTAGGGTT
1 ----T-TT-AAGTTAAGGGTTTAGGGTT
*
10473531 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10473552 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
10473573 TTTAATTTAAAGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10473595 TTTAAGTTAAGGGGTTAAGGG-T
1 TTTAAGTTAA-GGGTTTAGGGTT
10473617 TTTAAGTTAAGGGTTAGGATTAGGGTT
1 TTTAAGTTAAGGG-T----TTAGGGTT
* *
10473644 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
10473666 T
1 T
10473667 GTCAATTAAA
Statistics
Matches: 297, Mismatches: 40, Indels: 49
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.01
21 92 0.31
22 143 0.48
23 16 0.05
24 5 0.02
25 1 0.00
26 6 0.02
27 13 0.04
28 6 0.02
29 7 0.02
30 3 0.01
31 2 0.01
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.43
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:10473406 original size:43 final size:43
Alignment explanation
Indices: 10473284--10473658 Score: 378
Period size: 43 Copynumber: 8.3 Consensus size: 43
10473274 TCAAATTATA
*
10473284 TTTAAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
10473327 TTAAAGTTAAAGGTCTATGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
10473371 TTCAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GGGTT
* *
10473414 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
10473457 TTTAAGTTAAAGTTTTAAGGTTTTAAGGTTTTAAAGTTAAGGGTTTAGAGTA
1 TTTAAGTT-AAG------GG--TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
10473509 TTAAAGTTAAAGGTCTAGGGTTTTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
10473552 TTTAGGTTAAGGGTTAGGGTTTTTAATTTAAAGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
10473595 TTTAAGTTAAGGGGTTAAGGG-TTTTAAGTTAAGGGTTAGGATTAGGGTT
1 TTTAAGTTAA-GGGTT-AGGGTTTTTAAGTTAAGGG-T----TTAGGGTT
*
10473644 TTTAGGTTAAGGGTT
1 TTTAAGTTAAGGGTT
10473659 TAAGGTTTGT
Statistics
Matches: 276, Mismatches: 35, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
42 19 0.07
43 112 0.41
44 81 0.29
45 7 0.03
48 5 0.02
49 16 0.06
50 2 0.01
51 2 0.01
52 32 0.12
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.43
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:10473479 original size:8 final size:8
Alignment explanation
Indices: 10473441--10473490 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
10473431 GGTTTTTAAG
*
10473441 TTAAGGGT
1 TTAAGGTT
10473449 TTAAGGTTT
1 TTAAGG-TT
10473458 TTAA-G--
1 TTAAGGTT
*
10473463 TTAAAGTT
1 TTAAGGTT
10473471 TTAAGGTT
1 TTAAGGTT
10473479 TTAAGGTT
1 TTAAGGTT
10473487 TTAA
1 TTAA
10473491 AGTTAAGGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
5 4 0.11
6 1 0.03
8 26 0.72
9 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (8 bp):
TTAAGGTT
Found at i:10473502 original size:52 final size:52
Alignment explanation
Indices: 10473431--10473534 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
10473421 TAAGGGTTAG
* * * * *
10473431 GGTTTTTAAGTTAAGGGTTTA-AGGTTTTTAAGTTAAAGTTTTAAGGTTTTAA
1 GGTTTTAAAGTTAAGGGTTTAGA-GTATTAAAGTTAAAGGTCTAAGGTTTTAA
*
10473483 GGTTTTAAAGTTAAGGGTTTAGAGTATTAAAGTTAAAGGTCTAGGGTTTTAA
1 GGTTTTAAAGTTAAGGGTTTAGAGTATTAAAGTTAAAGGTCTAAGGTTTTAA
10473535 AGTTAAGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 44 0.98
53 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.25, T:0.43
Consensus pattern (52 bp):
GGTTTTAAAGTTAAGGGTTTAGAGTATTAAAGTTAAAGGTCTAAGGTTTTAA
Found at i:10473530 original size:160 final size:160
Alignment explanation
Indices: 10473311--10473626 Score: 467
Period size: 160 Copynumber: 2.0 Consensus size: 160
10473301 GGTTTTAAAG
* * * * * *
10473311 TTAAGGGTTTAGGGTTTTAAAGTTAAAGGTCTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAA
1 TTAAGGGTTTAAGGTTTTAAAGTTAAAGGTCTATGGTATTAAAGTTAAAGGTCTAGGGTTTTAAA
*
10473376 GTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGG-TTTTAATTT-AAGGGTTAGGGTTTTTA
66 GTTAAGGGTTAGGGTTTTTAGGTTAAGGG-TTA-GGGTTTTTAATTTAAAGGGTTAAGGTTTTTA
* *
10473439 AGTTAAGGGTTTAAGGTTTTTAAGTTAAAGTT
129 AGTTAAGGGGTTAAGGGTTTTAAGTTAAAGTT
* * *
10473471 TTAAGGTTTTAAGGTTTTAAAGTTAAGGGTTTA-GAGTATTAAAGTTAAAGGTCTAGGGTTTTAA
1 TTAAGGGTTTAAGGTTTTAAAGTTAAAGGTCTATG-GTATTAAAGTTAAAGGTCTAGGGTTTTAA
*
10473535 AGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAATTTAAAGGTTTAAGGTTTTTAA
65 AGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAATTTAAAGGGTTAAGGTTTTTAA
10473600 GTTAAGGGGTTAAGGGTTTTAAGTTAA
130 GTTAAGGGGTTAAGGGTTTTAAGTTAA
10473627 GGGTTAGGAT
Statistics
Matches: 140, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
158 3 0.02
159 13 0.09
160 124 0.89
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.43
Consensus pattern (160 bp):
TTAAGGGTTTAAGGTTTTAAAGTTAAAGGTCTATGGTATTAAAGTTAAAGGTCTAGGGTTTTAAA
GTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAATTTAAAGGGTTAAGGTTTTTAAG
TTAAGGGGTTAAGGGTTTTAAGTTAAAGTT
Found at i:10474244 original size:18 final size:18
Alignment explanation
Indices: 10474218--10474260 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10474208 GAGTCGAAAA
* *
10474218 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
10474236 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
10474254 AGGAAAC
1 AGGAAAC
10474261 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:10474888 original size:7 final size:7
Alignment explanation
Indices: 10474878--10474909 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
10474868 TTATATACAT
10474878 AATACTA
1 AATACTA
10474885 AATACTA
1 AATACTA
10474892 AATACT-
1 AATACTA
10474898 AATACTA
1 AATACTA
10474905 AATAC
1 AATAC
10474910 CAATTGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:10474903 original size:13 final size:14
Alignment explanation
Indices: 10474878--10474909 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
10474868 TTATATACAT
10474878 AATACTAAATACTA
1 AATACTAAATACTA
10474892 AATACT-AATACTA
1 AATACTAAATACTA
10474905 AATAC
1 AATAC
10474910 CAATTGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (14 bp):
AATACTAAATACTA
Found at i:10476108 original size:51 final size:51
Alignment explanation
Indices: 10476053--10476150 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
10476043 AATTATTTAA
10476053 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
10476104 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
10476151 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:10476126 original size:11 final size:11
Alignment explanation
Indices: 10476112--10476188 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
10476102 ATAAATATGG
10476112 ATTTGAGAGAA
1 ATTTGAGAGAA
*
10476123 ATTTTGA-AGGA
1 A-TTTGAGAGAA
10476134 ATTTGAGAGCAA
1 ATTTGAGAG-AA
10476146 A-TTGAGAGGAA
1 ATTTGAGA-GAA
10476157 ATTT-AGAAGAA
1 ATTTGAG-AGAA
10476168 A-TTGAGAGAAA
1 ATTTGAGAG-AA
10476179 ATTTGAGAGA
1 ATTTGAGAGA
10476189 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
10 9 0.16
11 28 0.51
12 18 0.33
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:10476151 original size:33 final size:33
Alignment explanation
Indices: 10476112--10476188 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
10476102 ATAAATATGG
* * *
10476112 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAGAAA
10476146 A-TTGAGAGGAAATTTAGAAGAAATTGAGAGAAA
1 ATTTGAGA-GAAATTTAGAAGAAATTGAGAGAAA
10476179 ATTTGAGAGA
1 ATTTGAGAGA
10476189 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAGAAA
Found at i:10476941 original size:22 final size:21
Alignment explanation
Indices: 10476919--10476958 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10476909 AATTATTAAT
* *
10476919 ATAATTAT-TAATTTTTTGAA
1 ATAAATATATAATATTTTGAA
10476939 ATAAATATATAATATTTTGA
1 ATAAATATATAATATTTTGA
10476959 GTATACTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
ATAAATATATAATATTTTGAA
Found at i:10477595 original size:61 final size:61
Alignment explanation
Indices: 10477500--10477622 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
10477490 TAACGACGAG
*
10477500 TATGCTTGAAACAAATTTGTACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
1 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
10477561 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
1 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
10477622 T
1 T
10477623 GATCTATCCC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (61 bp):
TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
Found at i:10484360 original size:27 final size:26
Alignment explanation
Indices: 10484315--10484367 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
10484305 TTCCTATTTA
*
10484315 AAAAAGCTTTAATTTTTTAATTATTTTT
1 AAAAAGCTTTAATATTTT-ATT-TTTTT
*
10484343 AAAAAGTTTTAA-ATTTTATTTTTTT
1 AAAAAGCTTTAATATTTTATTTTTTT
10484368 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.22
26 3 0.13
27 4 0.17
28 11 0.48
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (26 bp):
AAAAAGCTTTAATATTTTATTTTTTT
Found at i:10485486 original size:7 final size:7
Alignment explanation
Indices: 10485472--10485518 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
10485462 TAGTCGATTG
10485472 GTATTTA
1 GTATTTA
*
10485479 GCATTTA
1 GTATTTA
10485486 GTATTTA
1 GTATTTA
10485493 GTATTTA
1 GTATTTA
10485500 GTATTTA
1 GTATTTA
10485507 GTATTTA
1 GTATTTA
10485514 GTATT
1 GTATT
10485519 ATGTATTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.55
Consensus pattern (7 bp):
GTATTTA
Found at i:10486196 original size:18 final size:18
Alignment explanation
Indices: 10486173--10486215 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10486163 TGCCAGGTAC
* *
10486173 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
10486191 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
10486209 GTTTCCT
1 GTATCCT
10486216 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:10490137 original size:126 final size:126
Alignment explanation
Indices: 10489912--10490327 Score: 629
Period size: 126 Copynumber: 3.3 Consensus size: 126
10489902 CCAAACATGC
* * ** *
10489912 GCTACTGTAGCAAAAGCGCGTCCATGTAGAAGCTTCTTTCAGTACT-TCTGCTGACAAAGCATCC
1 GCTACTATACCAAAAGCGCGTCCACATAGGAGCTTCTTTCAGTACTAT-TGCTGACAAAGCATCC
*
10489976 TGCTTAAAGCATTTTTGACACCATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
65 TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
*
10490038 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
1 GCTACTATACCAAAAGCGCGTCCACATAGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
* *
10490103 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAAGTATTTTTTCAAGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
* *
10490164 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGTTGACAAAGCATCCT
1 GCTACTATACCAAAAGCGCGTCCACATAGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
* * * *
10490229 ACTTAAAGCCTTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTT-AGGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
* * * * *
10490289 GCTACTGTAGCAAAAACGCGTCCACGTAAGAGCTTCTTT
1 GCTACTATACCAAAAGCGCGTCCACATAGGAGCTTCTTT
10490328 AAATTAACAA
Statistics
Matches: 268, Mismatches: 21, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
125 36 0.13
126 231 0.86
127 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (126 bp):
GCTACTATACCAAAAGCGCGTCCACATAGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
Found at i:10490504 original size:98 final size:95
Alignment explanation
Indices: 10490367--10490545 Score: 243
Period size: 98 Copynumber: 1.9 Consensus size: 95
10490357 CTAAACCCCA
* * * * * *
10490367 AACCCTAATTTATTTGTGTTTTTACTTAAAAATCCTAAACACTAAAGCCTAATCTAATTTTTTTA
1 AACCCTAATTTATTTGTATTTTTACTTAAAAAACATAAACACGAAA-CCTAATCCAA--TTTTGA
10490432 AAAATTTATAATTAATTTACTCAAGTAACCCTG
63 AAAATTTATAATTAATTTACTCAAGTAACCCTG
*
10490465 AACCCTAATTTATTTG-ATTTTTCCTTAAAAAACAATAAACACGAAACCTAATCCAATTTTGAAA
1 AACCCTAATTTATTTGTATTTTTACTTAAAAAAC-ATAAACACGAAACCTAATCCAATTTTGAAA
*
10490529 AATTTATGATTAATTTA
65 AATTTATAATTAATTTA
10490546 ATTGACAAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 23 0.32
97 23 0.32
98 26 0.36
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (95 bp):
AACCCTAATTTATTTGTATTTTTACTTAAAAAACATAAACACGAAACCTAATCCAATTTTGAAAA
ATTTATAATTAATTTACTCAAGTAACCCTG
Found at i:10490636 original size:35 final size:33
Alignment explanation
Indices: 10490596--10490661 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
10490586 TTTTCTCTAA
*
10490596 AACCCTAAACCTAAAAACACCAAAACTCTAACCCT
1 AACCCTAAACC-AAAAAC-CCAAAACCCTAACCCT
*
10490631 AACCCTAAACCAATAACCCAAAACCCTAACC
1 AACCCTAAACCAAAAACCCAAAACCCTAACC
10490662 GCAGGACACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 13 0.45
34 5 0.17
35 11 0.38
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.12
Consensus pattern (33 bp):
AACCCTAAACCAAAAACCCAAAACCCTAACCCT
Found at i:10492663 original size:48 final size:47
Alignment explanation
Indices: 10492600--10492690 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
10492590 AACACACCAT
* **
10492600 TTGTGGACAAGCCACCACATAATTGCTGATAAACGGCAACATAACACA
1 TTGTAGACAAGCCACCACATAATTGCCAAT-AACGGCAACATAACACA
*
10492648 TTGTAGACAAGCCACCACATAATTGCCAATAACGGCCACATAA
1 TTGTAGACAAGCCACCACATAATTGCCAATAACGGCAACATAA
10492691 TTGCAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 12 0.31
48 27 0.69
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (47 bp):
TTGTAGACAAGCCACCACATAATTGCCAATAACGGCAACATAACACA
Found at i:10499346 original size:27 final size:27
Alignment explanation
Indices: 10499307--10499458 Score: 153
Period size: 27 Copynumber: 5.6 Consensus size: 27
10499297 CACCATGCTC
*
10499307 AGTGCTATATAATCAACTCGCACACTT
1 AGTGCTACATAATCAACTCGCACACTT
* *
10499334 AGTGCTACGTAATCAAATCGCACACTT
1 AGTGCTACATAATCAACTCGCACACTT
*
10499361 AGTGCTACATAGTCAAACTCGCACACTT
1 AGTGCTACATAATC-AACTCGCACACTT
** ** *
10499389 AGTGCCGCATGGTCAATTCGCACACTT
1 AGTGCTACATAATCAACTCGCACACTT
* **
10499416 AGTGC-ATCATATTCATTTCGCACACTT
1 AGTGCTA-CATAATCAACTCGCACACTT
* *
10499443 AGTGCAACATAGTCAA
1 AGTGCTACATAATCAA
10499459 ATTTGAAGTA
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 82 0.77
28 24 0.23
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (27 bp):
AGTGCTACATAATCAACTCGCACACTT
Found at i:10499383 original size:55 final size:54
Alignment explanation
Indices: 10499307--10499460 Score: 166
Period size: 55 Copynumber: 2.8 Consensus size: 54
10499297 CACCATGCTC
* * *
10499307 AGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTT
1 AGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTT
* * ** *
10499361 AGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTT
1 AGTGCTACATAATC-AACTCGCACACTTAGTGCCACATAATCAAATCGCACACTT
* ** * *
10499416 AGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 AGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
10499461 TTGAAGTAGC
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 38 0.46
55 45 0.54
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (54 bp):
AGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTT
Found at i:10503737 original size:40 final size:39
Alignment explanation
Indices: 10503639--10503901 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
10503629 TCCTCGTTCA
* * * *
10503639 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
10503678 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
10503717 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
10503757 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
10503797 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
10503837 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
10503878 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10503902 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:10503861 original size:120 final size:119
Alignment explanation
Indices: 10503639--10503901 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
10503629 TCCTCGTTCA
* * *
10503639 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
10503704 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
10503757 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
10503822 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
10503878 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
10503902 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:10503910 original size:41 final size:41
Alignment explanation
Indices: 10503833--10503910 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
10503823 TTTGTATCTC
* * *
10503833 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
10503874 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
10503911 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:10511630 original size:39 final size:40
Alignment explanation
Indices: 10511585--10511756 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
10511575 GCTCCTCGTT
* * *
10511585 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
10511625 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
10511664 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
10511704 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
10511744 CAAATGCCTTCGG
1 CAAATGCCTTCGG
10511757 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:10511685 original size:40 final size:39
Alignment explanation
Indices: 10511587--10511809 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
10511577 TCCTCGTTCA
* * * *
10511587 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
10511626 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
10511665 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
10511705 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
10511745 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
10511786 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10511810 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:10511769 original size:80 final size:79
Alignment explanation
Indices: 10511585--10511809 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
10511575 GCTCCTCGTT
* * * * *
10511585 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
10511649 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
10511664 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
10511729 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
10511744 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
10511808 GA
63 GA
10511810 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:10511818 original size:41 final size:41
Alignment explanation
Indices: 10511741--10511818 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
10511731 TTTGTATCTC
* * *
10511741 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
10511782 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
10511819 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:10519139 original size:5 final size:5
Alignment explanation
Indices: 10519129--10519155 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
10519119 AAAACACATT
10519129 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
10519156 CGATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:10527604 original size:3 final size:3
Alignment explanation
Indices: 10527596--10527643 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
10527586 GGTTCTACAT
* *
10527596 TTG TTG TTG TTG TTG TTG TTG TTG TTT TTG TTG TT- TCTA TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T-TG TTG TTG
10527641 TTG
1 TTG
10527644 CTGTCGACGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
2 1 0.03
3 38 0.95
4 1 0.03
ACGTcount: A:0.02, C:0.02, G:0.27, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:10533504 original size:21 final size:21
Alignment explanation
Indices: 10533485--10533553 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
10533475 AGCTAATAAA
* *
10533485 AGCTAAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCAAAAG
10533506 AGCTGAACAGAAGCTCAAAAG
1 AGCTGAACAGAAGCTCAAAAG
10533527 AGCTGAACAGAAGCTCAAAAG
1 AGCTGAACAGAAGCTCAAAAG
10533548 AGCTGA
1 AGCTGA
10533554 TCCACCCGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCAAAAG
Found at i:10535741 original size:41 final size:41
Alignment explanation
Indices: 10535684--10535801 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 41
10535674 AGCGGCGATT
* *
10535684 CTCAGATCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATG
1 CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATG
** *
10535725 CTCAGATCTTTAGCGGCATTTTCCAAAAAGCGCCACTAATG
1 CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATG
* **
10535766 CTCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGC
1 CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGC
10535802 AAAAACATTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (41 bp):
CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATG
Found at i:10536240 original size:14 final size:15
Alignment explanation
Indices: 10536207--10536240 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10536197 TAAGGTTTAT
10536207 AGATTATGGAATTAG
1 AGATTATGGAATTAG
10536222 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
10536236 GGATT
1 AGATT
10536241 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:10536420 original size:89 final size:89
Alignment explanation
Indices: 10536327--10536502 Score: 289
Period size: 89 Copynumber: 2.0 Consensus size: 89
10536317 TTCAATGTTA
* *
10536327 AGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGGG
1 AGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
10536392 TTAGGGGTTAGGGATTCGGGGTCG
66 TTAGGGGTTAGGGATTCGGGGTCG
* *
10536416 AGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGG
1 AGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
* * *
10536481 TTAGTGGTTAGGGGTTTGGGGT
66 TTAGGGGTTAGGGATTCGGGGT
10536503 TTGGGGTTAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (89 bp):
AGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
TTAGGGGTTAGGGATTCGGGGTCG
Found at i:10536510 original size:21 final size:22
Alignment explanation
Indices: 10536471--10536511 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10536461 TATTAAATAA
*
10536471 GGTTTAGGGGTTAGTGGTTAGG
1 GGTTTAGGGGTTAGGGGTTAGG
*
10536493 GGTTT-GGGGTTTGGGGTTA
1 GGTTTAGGGGTTAGGGGTTA
10536512 AGAGTTAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.10, C:0.00, G:0.51, T:0.39
Consensus pattern (22 bp):
GGTTTAGGGGTTAGGGGTTAGG
Found at i:10537258 original size:22 final size:23
Alignment explanation
Indices: 10537228--10537292 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
10537218 AAAATCCACT
10537228 CCCCTTAAAATCCCCAACTTTCC
1 CCCCTTAAAATCCCCAACTTTCC
* *
10537251 CGCC-TAAAATCCCTAA-TTTCC
1 CCCCTTAAAATCCCCAACTTTCC
* *
10537272 CCCCTTGAAACCCCCAACTTT
1 CCCCTTAAAATCCCCAACTTT
10537293 ACAAACATAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 8 0.24
22 20 0.59
23 6 0.18
ACGTcount: A:0.26, C:0.45, G:0.03, T:0.26
Consensus pattern (23 bp):
CCCCTTAAAATCCCCAACTTTCC
Found at i:10541198 original size:42 final size:42
Alignment explanation
Indices: 10541138--10541377 Score: 164
Period size: 43 Copynumber: 5.6 Consensus size: 42
10541128 TAATTTTTTT
* * * *
10541138 TAAAGATTATGTT-TTTAGCGGCGTTT-TAGCTAGAAGCACTGC
1 TAAAGGTT-TGTTCTTTAGCGGCGTTTGT-GATAAAAGCACCGC
*
10541180 TAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
1 TAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAAAAGCACCGC
* *
10541222 TAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGA-AAAA-CGCCGC
1 TAAAGGT-TTGTTCTTTAGCGGCGTTTGT--GATAAAAGCACCGC
* * * * *** * *
10541265 TAAAGGTCGTGGTCATTAGCGGCATTTGTGGGGAAAGCGCCAC
1 TAAAGGT-TTGTTCTTTAGCGGCGTTTGTGATAAAAGCACCGC
* * ** ** *
10541308 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGTCGT
1 TAAAGGT-TTGTTCTTTAGCGGCGTTTGTGATAAAAGCACCGC
*
10541351 TAAAGGTCTTGGTCTTTAGCGGCGTTT
1 TAAAGGT-TTGTTCTTTAGCGGCGTTT
10541378 TTTTCTGAAA
Statistics
Matches: 171, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
41 5 0.03
42 40 0.23
43 120 0.70
44 4 0.02
45 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.31
Consensus pattern (42 bp):
TAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAAAAGCACCGC
Found at i:10541247 original size:43 final size:43
Alignment explanation
Indices: 10541178--10541377 Score: 260
Period size: 43 Copynumber: 4.7 Consensus size: 43
10541168 TAGAAGCACT
* *
10541178 GCTAAAGGT-TTGTTCTTTAGCGGCGTTTGTGATAAAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCC
*
10541220 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT-AGGAAAAACGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGA-GAAAAGCGCC
* * * * *
10541263 GCTAAAGGTCGTGGTCATTAGCGGCATTTGTGGGGAAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCC
* * * *
10541306 ACTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGTC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCC
*
10541349 GTTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTT
10541378 TTTTCTGAAA
Statistics
Matches: 137, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
42 10 0.07
43 127 0.93
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (43 bp):
GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCC
Found at i:10541470 original size:22 final size:22
Alignment explanation
Indices: 10541442--10541483 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10541432 GGCACTTCTC
*
10541442 AAAGCGCCGCTAAAGGCCTAAA
1 AAAGCGCCGCTAAAAGCCTAAA
10541464 AAAGCGCCGCTAAAAGCCTA
1 AAAGCGCCGCTAAAAGCCTA
10541484 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAGCGCCGCTAAAAGCCTAAA
Found at i:10542940 original size:26 final size:24
Alignment explanation
Indices: 10542906--10542957 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
10542896 TATATACTAA
*
10542906 ATCAATTAATAATAAAATAATAAAAT
1 ATCAATTAAAAATAAAAT--TAAAAT
* *
10542932 ATCATTTAAAAATCAAATTAAAAT
1 ATCAATTAAAAATAAAATTAAAAT
10542956 AT
1 AT
10542958 TAATAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.35
26 15 0.65
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATCAATTAAAAATAAAATTAAAAT
Found at i:10544394 original size:18 final size:17
Alignment explanation
Indices: 10544353--10544395 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
10544343 GTTTACAAAT
10544353 ATTTTTAAATTATTGAA
1 ATTTTTAAATTATTGAA
* *
10544370 ATCTTTTCAATTATTTATA
1 AT-TTTTAAATTATTGA-A
10544389 ATTTTTA
1 ATTTTTA
10544396 CTTGATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.10
18 16 0.76
19 3 0.14
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (17 bp):
ATTTTTAAATTATTGAA
Found at i:10555404 original size:29 final size:29
Alignment explanation
Indices: 10555371--10555437 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
10555361 TTCTTAAATG
*
10555371 ATAATCACTCTCAGACTTTTGTTTGGCGA
1 ATAATCACTCTCAGACTCTTGTTTGGCGA
* * *
10555400 ATAATCACTGTCAGACTCTTGTTTTGCTA
1 ATAATCACTCTCAGACTCTTGTTTGGCGA
10555429 ATAATCACT
1 ATAATCACT
10555438 ATGACTCTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (29 bp):
ATAATCACTCTCAGACTCTTGTTTGGCGA
Found at i:10562009 original size:9 final size:9
Alignment explanation
Indices: 10561995--10562025 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10561985 GTTAAACGAA
10561995 TCGAGTTAT
1 TCGAGTTAT
*
10562004 TCGAGTTAA
1 TCGAGTTAT
10562013 TCGAGTTAT
1 TCGAGTTAT
10562022 TCGA
1 TCGA
10562026 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:10569459 original size:30 final size:30
Alignment explanation
Indices: 10569423--10569482 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
10569413 AGTAAGTTAT
10569423 GATACCTTTTCAGACTAGTTTCAGATAATC
1 GATACCTTTTCAGACTAGTTTCAGATAATC
*
10569453 GATACCTTTTCAGTCTAGTTTCAGATAATC
1 GATACCTTTTCAGACTAGTTTCAGATAATC
10569483 ACAGCACTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.38
Consensus pattern (30 bp):
GATACCTTTTCAGACTAGTTTCAGATAATC
Found at i:10589078 original size:21 final size:23
Alignment explanation
Indices: 10589041--10589083 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
10589031 TAACAATTTA
10589041 ATAAATATATAAATTT-ATTATC
1 ATAAATATATAAATTTAATTATC
*
10589063 ATAAATA-ATAAGTTTAATTAT
1 ATAAATATATAAATTTAATTAT
10589084 TATTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATAAATATATAAATTTAATTATC
Found at i:10589385 original size:21 final size:21
Alignment explanation
Indices: 10589359--10589399 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10589349 CACTATTTCT
*
10589359 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAATATCC
10589380 AATCTCACTGCTACAATATC
1 AATCTCACTGCTACAATATC
10589400 ACCACTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.29
Consensus pattern (21 bp):
AATCTCACTGCTACAATATCC
Found at i:10597635 original size:40 final size:40
Alignment explanation
Indices: 10597546--10597809 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
10597536 TTGAATGCTG
* *
10597546 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
10597585 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10597625 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10597664 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
10597704 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAATTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10597744 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
10597785 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10597810 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 17, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 52 0.26
40 139 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10597827 original size:120 final size:119
Alignment explanation
Indices: 10597546--10597842 Score: 342
Period size: 120 Copynumber: 2.5 Consensus size: 119
10597536 TTGAATGCTG
* * **
10597546 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGACAATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTATATCCGGGTTAAGATCCGAAGGCAT
* *
10597608 TTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* ** * *
10597664 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATATCCGGGTTAAGATCC-GAAGGCATT
*
10597728 TGTGCGA-ATTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
65 TGTGCGAGA-TACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
*
10597785 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA-ATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATATCCGGGTTAAGA-TCCGAAGG
10597843 TATGTGATTT
Statistics
Matches: 153, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
118 26 0.17
119 62 0.41
120 63 0.41
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10605874 original size:79 final size:80
Alignment explanation
Indices: 10605739--10605962 Score: 280
Period size: 79 Copynumber: 2.8 Consensus size: 80
10605729 TTGAATGCTG
* * *
10605739 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
*
10605800 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAAA
*
10605818 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
10605882 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* * * *
10605897 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AATCCGGGCTAAGTCCCGAAGGCATT
10605961 TG
65 TG
10605963 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
78 10 0.08
79 61 0.48
80 55 0.43
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:10605976 original size:40 final size:40
Alignment explanation
Indices: 10605739--10605962 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
10605729 TTGAATGCTG
* *
10605739 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
10605778 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10605818 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10605857 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
10605897 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
10605938 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10605963 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 52 0.32
40 102 0.62
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10605980 original size:80 final size:80
Alignment explanation
Indices: 10605739--10605995 Score: 235
Period size: 79 Copynumber: 3.2 Consensus size: 80
10605729 TTGAATGCTG
* * * *
10605739 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TCACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
** *
10605800 TTTGTGCGAGAT-ACTAAT
63 TTTGAACGAG-TGACTAAA
* * *
10605818 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATCACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
10605882 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
10605897 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATCACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
10605961 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
10605977 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
10605996 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
78 11 0.07
79 73 0.48
80 67 0.44
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATCACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:10610730 original size:9 final size:9
Alignment explanation
Indices: 10610704--10610748 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
10610694 TTTTCCTTAA
10610704 ATATATTTT
1 ATATATTTT
*
10610713 GT-T-TTTT
1 ATATATTTT
10610720 ATATATTTT
1 ATATATTTT
10610729 ATATATTTT
1 ATATATTTT
10610738 ACTAT-TTTT
1 A-TATATTTT
10610747 AT
1 AT
10610749 TTATCCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
7 5 0.16
8 3 0.10
9 20 0.65
10 3 0.10
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
ATATATTTT
Found at i:10612836 original size:9 final size:9
Alignment explanation
Indices: 10612822--10612865 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
10612812 CGCCTCTTTT
*
10612822 TTGCATTTA
1 TTGCATTCA
10612831 TTGCATTCA
1 TTGCATTCA
10612840 TTGCATTCA
1 TTGCATTCA
10612849 -TGCATTAGCA
1 TTGCATT--CA
10612859 TTGCATT
1 TTGCATT
10612866 GCATCAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 6 0.19
9 17 0.55
10 2 0.06
11 6 0.19
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (9 bp):
TTGCATTCA
Found at i:10612864 original size:5 final size:5
Alignment explanation
Indices: 10612830--10612869 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
10612820 TTTTGCATTT
10612830 ATTGC ATT-C ATTGC ATT-C A-TGC ATTAGC ATTGC ATTGC AT
1 ATTGC ATTGC ATTGC ATTGC ATTGC ATT-GC ATTGC ATTGC AT
10612870 CAAATGCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
3 1 0.03
4 8 0.26
5 17 0.55
6 5 0.16
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (5 bp):
ATTGC
Found at i:10615496 original size:10 final size:11
Alignment explanation
Indices: 10615445--10615498 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 11
10615435 TACTTCACTT
10615445 AAAAA-AAAG-
1 AAAAAGAAAGA
*
10615454 AAAAAGAGAGA
1 AAAAAGAAAGA
10615465 AAAAAGATAAAAGA
1 AAAAAG---AAAGA
10615479 AAAAAGAAAG-
1 AAAAAGAAAGA
10615489 AAAAAGAAAG
1 AAAAAGAAAG
10615499 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 5 0.13
10 13 0.34
11 10 0.26
14 10 0.26
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:10615496 original size:17 final size:16
Alignment explanation
Indices: 10615445--10615497 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 16
10615435 TACTTCACTT
10615445 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
*
10615461 GAGAAAAAAGATAAAAGA
1 -AAAAAAAAGA-AAAAGA
10615479 AAAAAGAAAGAAAAAGA
1 AAAAA-AAAGAAAAAGA
10615496 AA
1 AA
10615498 GGGAGAGGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 21 0.66
18 11 0.34
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:10616739 original size:143 final size:143
Alignment explanation
Indices: 10616359--10617162 Score: 1085
Period size: 143 Copynumber: 5.6 Consensus size: 143
10616349 GTCATTATAG
* *
10616359 CGAATCTTATTTCCCTGGCATTGTAGTGGAACAGATTAAAGCTACAAATTCTGGCAGATCTTATC
1 CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* * * *
10616424 TTCATGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAATTGCAGCGGAGC
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
10616489 AGACTGAAGACAA
131 AGACTGAAGACAA
* * * * *
10616502 CGAATCTTATTTTTCCCTGGCGTTGCAGTGGAATAGATTAAACCTATAAATTATGGCGGATCTTA
1 CGAATCTTA--TTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTA
* * *
10616567 TCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATTTCCCTGAAGTTGCAGCGGA
64 TCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGA
*
10616632 GCAGACTGAAGACAG
129 GCAGACTGAAGACAA
** *
10616647 CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAAATACAAATTATGGTAGATCTTATC
1 CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* * * * *
10616712 TTCCTGAAGTTGAAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCTTGAAGTTGTAGCAGAGT
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
*
10616777 AGACTGAAGAAAA
131 AGACTGAAGACAA
* * **
10616790 TGAATCTTATTTCCCTGGCATTGCAGTGGAACACATTAAAGCTACAAATTATTACAGATCTTATC
1 CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* * * * *
10616855 TTCCTGAAGTTGTAATGGAGCAGATTGAATCCACCATCCTTATCTCCCTGAAGTTGTAGCGAAGC
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
10616920 AGACTGAAGACAA
131 AGACTGAAGACAA
* * * * *
10616933 CGAATCTTATTTCTCTGGCGTTGCAGTGGAACAGATTAAATCTACAAATTATGACGGATCTTATC
1 CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* *** *
10616998 TTCCTGAAGTTGCAGTGGAGCAGGTTGAAGCCACCAGCCTTATCTTTTTGAAGTTGTAGTGGAGC
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
* *
10617063 AGACTGAAGATAG
131 AGACTGAAGACAA
* * *
10617076 CGAATCTTATTTCCCT-GAAGTTGCAATGGAACAGATTAAAGCTATAAATTA---CAGATCTTAT
1 CGAATCTTATTTCCCTGGCA-TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTAT
* * * *
10617137 CTCCCTAAAGTTGCAGTAGAGTAGAT
65 CTTCCTGAAGTTGCAGTGGAGCAGAT
10617163 CATATCAAAA
Statistics
Matches: 580, Mismatches: 78, Indels: 9
0.87 0.12 0.01
Matches are distributed among these distances:
140 30 0.05
142 1 0.00
143 419 0.72
145 130 0.22
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (143 bp):
CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
AGACTGAAGACAA
Found at i:10617251 original size:44 final size:43
Alignment explanation
Indices: 10617131--10617423 Score: 136
Period size: 44 Copynumber: 6.9 Consensus size: 43
10617121 AAATTACAGA
* * *
10617131 TCTTATCTCCCTAAAGTTGCAGTAGAGTAGA-T-CA-TATCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTA-CAAG
* * * * * * *
10617172 ACTTATCTCCTTAATGTTGCAATTGAATAGGTTGAAGTTACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAG-TACAAG
* *
10617216 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGCCACCAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAG-TACAAG
* * * * * * *
10617260 CCTTATCTCCCTGAAGTTGCAGCGGAGCATACTGAA-AACAACG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTACAA-G
* * * * * *
10617303 AATCCTATTTCCCTGAAGTTACAGTGGA-TA-A---AACTACAAA
1 --TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTACAAG
* * ** **
10617343 TCTTGTCCCCCTAAAGTTGTGGCAGAGTAGATTGAAGCTACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAG-TACAAG
* * * * *
10617387 TCGTATCTCTCTGAAGTTGCAGTGGAGTGGATCGAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAG
10617424 CAACAAGACG
Statistics
Matches: 180, Mismatches: 58, Indels: 25
0.68 0.22 0.10
Matches are distributed among these distances:
38 16 0.09
39 2 0.01
40 3 0.02
41 28 0.16
42 4 0.02
43 5 0.03
44 99 0.55
45 23 0.13
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTACAAG
Found at i:10618660 original size:17 final size:17
Alignment explanation
Indices: 10618641--10618672 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10618631 TTTTTGTTGT
10618641 TTTTTA-TATTTTTATA
1 TTTTTACTATTTTTATA
10618657 TTTTTACTATTTTTAT
1 TTTTTACTATTTTTAT
10618673 TTATCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTACTATTTTTATA
Found at i:10618671 original size:9 final size:8
Alignment explanation
Indices: 10618641--10618672 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
10618631 TTTTTGTTGT
10618641 TTTTTATA
1 TTTTTATA
10618649 TTTTTATA
1 TTTTTATA
10618657 TTTTTACTA
1 TTTTTA-TA
10618666 TTTTTAT
1 TTTTTAT
10618673 TTATCCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTATA
Found at i:10623381 original size:15 final size:15
Alignment explanation
Indices: 10623361--10623400 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10623351 TTTACAACAG
*
10623361 TAAACCCTATTAGCC
1 TAAACCCAATTAGCC
10623376 TAAACCCAATTAGCC
1 TAAACCCAATTAGCC
*
10623391 TAAGCCCAAT
1 TAAACCCAAT
10623401 ACCCCTAGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.38, C:0.33, G:0.07, T:0.23
Consensus pattern (15 bp):
TAAACCCAATTAGCC
Found at i:10624074 original size:4 final size:4
Alignment explanation
Indices: 10624065--10624210 Score: 60
Period size: 4 Copynumber: 36.0 Consensus size: 4
10624055 GAAGGAGAGG
* * *
10624065 GAAA GAAA GAAA GAAA GGAAT GAAG GAAAA CAAA GGGAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA -GAAA GAAA G-AAA GAAA --GAAA GAAA GAAA
* *
10624113 GAAA GGAAT GAAG GAAA -ACAA -AAA -AAA GGAAA G-AA GAAA -AAA GAAA
1 GAAA -GAAA GAAA GAAA GA-AA GAAA GAAA -GAAA GAAA GAAA GAAA GAAA
*
10624159 G-AA -AAA GAAG GAAA GAAAA GGAAA GGAGAA GAGAA -AAA -AAA GAAA
1 GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA GA-AA GAAA GAAA GAAA
10624204 G-AA GAAA
1 GAAA GAAA
10624211 AGGGAAGGAA
Statistics
Matches: 115, Mismatches: 10, Indels: 34
0.72 0.06 0.21
Matches are distributed among these distances:
3 24 0.21
4 60 0.52
5 25 0.22
6 6 0.05
ACGTcount: A:0.70, C:0.01, G:0.27, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:10624109 original size:36 final size:36
Alignment explanation
Indices: 10624062--10624134 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
10624052 GGAGAAGGAG
10624062 AGGGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAA
1 AGGGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAA
10624098 AGGGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAA
1 AGGGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAA
10624134 A
1 A
10624135 AAAAAGGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.64, C:0.03, G:0.30, T:0.03
Consensus pattern (36 bp):
AGGGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAA
Found at i:10624144 original size:40 final size:36
Alignment explanation
Indices: 10624064--10624239 Score: 141
Period size: 36 Copynumber: 5.3 Consensus size: 36
10624054 AGAAGGAGAG
*
10624064 GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAG
1 GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAA
10624100 GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAA
1 GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAA
* * * *
10624136 -AAAAGGAAAG-AAGAAA--AAAGAAAGAAAA-AGAA
1 GGAAA-GAAAGAAAGAAAGGAATGAAGGAAAACAAAA
*
10624168 GGAAAG-AA-AAGGAAAGG-A-GAAGAGAAAA-AAAA
1 GGAAAGAAAGAAAGAAAGGAATGAAG-GAAAACAAAA
* *
10624200 -GAAAG-AAG-AA-AAGGGAAGGAAGGAAAA-AAAA
1 GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAA
*
10624231 -GAAAAAAAG
1 GGAAAGAAAG
10624240 GTACTTTTTA
Statistics
Matches: 118, Mismatches: 12, Indels: 24
0.77 0.08 0.16
Matches are distributed among these distances:
30 4 0.03
31 32 0.27
32 20 0.17
33 13 0.11
35 9 0.08
36 40 0.34
ACGTcount: A:0.69, C:0.01, G:0.28, T:0.01
Consensus pattern (36 bp):
GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAA
Found at i:10624158 original size:14 final size:13
Alignment explanation
Indices: 10624132--10624238 Score: 72
Period size: 14 Copynumber: 7.3 Consensus size: 13
10624122 GAAGGAAAAC
10624132 AAAAAAAAGGAAAG
1 AAAAAAAA-GAAAG
10624146 AAGAAAAAAGAAAG
1 AA-AAAAAAGAAAG
*
10624160 AAAAAGAAGGAAAG
1 AAAAA-AAAGAAAG
10624174 AAAAGGAAAGGAGAAGAG
1 AAAA--AAA--AGAA-AG
10624192 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
*
10624205 AAGAAAAGGGAAGGAAGG
1 AA-AAAA---AA-GAAAG
10624223 AAAAAAAAGAAA-
1 AAAAAAAAGAAAG
10624235 AAAA
1 AAAA
10624239 GGTACTTTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
12 4 0.05
13 10 0.13
14 30 0.39
15 8 0.10
16 4 0.05
17 9 0.12
18 12 0.16
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:10624169 original size:43 final size:47
Alignment explanation
Indices: 10624101--10624230 Score: 126
Period size: 43 Copynumber: 2.8 Consensus size: 47
10624091 AAAACAAAGG
10624101 GAAAGAAAGAAAGAAAGGAATGAAGGAAA-ACAAAAAAAAGGA-AAGA-A
1 GAAA-AAAGAAAGAAA-GAATGAAGGAAAGA-AAAAAAAAGGAGAAGAGA
**
10624148 GAAAAAAGAAAGAAA-AA-GAAGGAAAGAAAAGGAAAGGAGAAGAGA
1 GAAAAAAGAAAGAAAGAATGAAGGAAAGAAAAAAAAAGGAGAAGAGA
* * * *
10624193 AAAAAAAGAAAGAAGAAAAGGGAAGGAAGGAAAAAAAA
1 GAAAAAAGAAAGAA-AGAA-TGAAGGAAAGAAAAAAAA
10624231 GAAAAAAAGG
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
43 17 0.24
44 7 0.10
45 14 0.20
46 12 0.17
47 6 0.09
49 14 0.20
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.01
Consensus pattern (47 bp):
GAAAAAAGAAAGAAAGAATGAAGGAAAGAAAAAAAAAGGAGAAGAGA
Found at i:10624226 original size:31 final size:35
Alignment explanation
Indices: 10624136--10624239 Score: 108
Period size: 31 Copynumber: 3.0 Consensus size: 35
10624126 GAAAACAAAA
* * *
10624136 AAAAGGAAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAG
1 AAAAGGAAAG--GAGAAGAGAAA-AAAAAGAAAGAAAG
10624174 AAAAGGAAAGGAGAAGAGAAAAAAAAGAAAG-AAG
1 AAAAGGAAAGGAGAAGAGAAAAAAAAGAAAGAAAG
* *
10624208 AAAAGGGAA-G-GAAG-GAAAAAAAAGAAAAAAAG
1 AAAAGGAAAGGAGAAGAGAAAAAAAAGAAAGAAAG
10624240 GTACTTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
31 13 0.22
32 7 0.12
33 1 0.02
34 11 0.18
35 9 0.15
36 9 0.15
38 10 0.17
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (35 bp):
AAAAGGAAAGGAGAAGAGAAAAAAAAGAAAGAAAG
Found at i:10624982 original size:27 final size:27
Alignment explanation
Indices: 10624952--10625007 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
10624942 AAAAGAGGCT
10624952 AATGGAGGGGAATAAAAAGGCGGCACC
1 AATGGAGGGGAATAAAAAGGCGGCACC
10624979 AATGGAGGGGAATAAAAAGGCGGCACC
1 AATGGAGGGGAATAAAAAGGCGGCACC
10625006 AA
1 AA
10625008 AATGTGGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.14, G:0.36, T:0.07
Consensus pattern (27 bp):
AATGGAGGGGAATAAAAAGGCGGCACC
Found at i:10629124 original size:81 final size:81
Alignment explanation
Indices: 10628993--10629154 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
10628983 CTTCTTTTCA
10628993 CTCCATACCCGAAATACAAGCCGTAACCTTGACCCATAATACACACACAAAATCAAATAATCGGA
1 CTCCATACCCGAAATACAAGCCGTAACCTTGACCCATAATACACACACAAAATCAAATAATCGGA
10629058 AATGTTTTAAGATTTT
66 AATGTTTTAAGATTTT
*
10629074 CTCCATCCCCGAAATACAAGCCGTAACCTTGACCCATAATACACACACAAAATCAAATAATCGGA
1 CTCCATACCCGAAATACAAGCCGTAACCTTGACCCATAATACACACACAAAATCAAATAATCGGA
10629139 AATGTTTTAAGATTTT
66 AATGTTTTAAGATTTT
10629155 AAGTTTTAAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (81 bp):
CTCCATACCCGAAATACAAGCCGTAACCTTGACCCATAATACACACACAAAATCAAATAATCGGA
AATGTTTTAAGATTTT
Found at i:10634209 original size:25 final size:24
Alignment explanation
Indices: 10634181--10634264 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
10634171 TCCTGTACAT
10634181 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTGT-AATCG
* *
10634206 GTATGCTCATTCGAGTTGTAGATCG
1 GTATGCTCATACGAGCTGTA-ATCG
* *
10634231 GTATGCTC-TCACGAGCTATAAATCA
1 GTATGCTCAT-ACGAGCTGT-AATCG
10634256 GTATGCTCA
1 GTATGCTCA
10634265 CAAGAGTTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 2 0.04
25 46 0.94
26 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (24 bp):
GTATGCTCATACGAGCTGTAATCG
Found at i:10635234 original size:12 final size:12
Alignment explanation
Indices: 10635217--10635270 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
10635207 GTTTTATTTT
10635217 ATTTAATTTATC
1 ATTTAATTTATC
*
10635229 ATTTAA-TTATTT
1 ATTTAATTTA-TC
*
10635241 ATTTTATTT-T-
1 ATTTAATTTATC
*
10635251 ATTTCATTTATC
1 ATTTAATTTATC
10635263 ATTTAATT
1 ATTTAATT
10635271 ATTTAATTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 8 0.24
11 5 0.15
12 19 0.56
13 2 0.06
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTAATTTATC
Found at i:10635240 original size:20 final size:20
Alignment explanation
Indices: 10635215--10635278 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
10635205 TTGTTTTATT
10635215 TTATTTAATTTATCATTTAA
1 TTATTTAATTTATCATTTAA
10635235 TTATTT-ATTT-T-A-TT--
1 TTATTTAATTTATCATTTAA
*
10635249 TTATTTCATTTATCATTTAA
1 TTATTTAATTTATCATTTAA
10635269 TTATTTAATT
1 TTATTTAATT
10635279 ACCTAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
14 6 0.16
15 4 0.11
16 3 0.08
17 2 0.05
18 3 0.08
19 4 0.11
20 15 0.41
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTTAATTTATCATTTAA
Found at i:10635251 original size:34 final size:34
Alignment explanation
Indices: 10635208--10635275 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
10635198 TGAAAGCTTG
10635208 TTTTATTTTATTTAATTTATCATTTAATTATTTA
1 TTTTATTTTATTTAATTTATCATTTAATTATTTA
*
10635242 TTTTATTTTATTTCATTTATCATTTAATTATTTA
1 TTTTATTTTATTTAATTTATCATTTAATTATTTA
10635276 ATTACCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (34 bp):
TTTTATTTTATTTAATTTATCATTTAATTATTTA
Found at i:10637792 original size:52 final size:52
Alignment explanation
Indices: 10637682--10637785 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
10637672 AATTCAAGGG
*
10637682 AAAGATAAAGGTCCTAAATAACATAGCCGAGCTAATAGAAAAGATACGCGAT
1 AAAGAGAAAGGTCCTAAATAACATAGCCGAGCTAATAGAAAAGATACGCGAT
10637734 AAAGAGAAAGGTCCTAAATAACATAGCCGAGCTAATAGAAAAGATACGCGAT
1 AAAGAGAAAGGTCCTAAATAACATAGCCGAGCTAATAGAAAAGATACGCGAT
10637786 TTAGAGATGC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.16
Consensus pattern (52 bp):
AAAGAGAAAGGTCCTAAATAACATAGCCGAGCTAATAGAAAAGATACGCGAT
Found at i:10638596 original size:4 final size:4
Alignment explanation
Indices: 10638579--10638631 Score: 52
Period size: 4 Copynumber: 13.2 Consensus size: 4
10638569 CCAATTTTAA
* * ** * *
10638579 TCAT TCAC TCAT TCAT TCAT TCAT TCAT CCAT TCGC TCAT CCAT TCAC
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
10638627 TCAT T
1 TCAT T
10638632 TGTTTATTCA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.23, C:0.34, G:0.02, T:0.42
Consensus pattern (4 bp):
TCAT
Found at i:10644105 original size:42 final size:42
Alignment explanation
Indices: 10644038--10644380 Score: 454
Period size: 42 Copynumber: 8.2 Consensus size: 42
10644028 TCTCAAATCA
* * *
10644038 TTCATTGCATTTAGAGGCTCGGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
*
10644080 TTTATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
*
10644122 TTCATTGCATTTAGAGGCCCAGGTTTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
* **
10644164 TTCATTGTATTTAGAACCCCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
*
10644206 TTCATTAG-ATTTAGAGGCCCAGGTGTGGAGGTTCATTCACTT
1 TTCATT-GCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
* * * * * * *
10644248 TTCATCGCATTTAGAGACTCAAGTGTGCAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
* * * *
10644290 TTCGTTGCATTTAGAGGCCCAAGTGTGGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
* * * *
10644332 TTCATTGCATTTAAAGGCCTAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
10644374 TTCATTG
1 TTCATTG
10644381 TATTGTATAT
Statistics
Matches: 267, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
41 1 0.00
42 265 0.99
43 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
Found at i:10645256 original size:77 final size:77
Alignment explanation
Indices: 10645129--10645282 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
10645119 TCTCGTTTTT
*
10645129 TCCTTCCCCTTTTTTATTTTTTTAAAAGAGAGTTTAGATTTTAAAAATAAAAATATATTTTTTTT
1 TCCTTCCCCTTTTTTATTTTTTCAAAAGAGAGTTTAGATTTTAAAAATAAAAATATATTTTTTTT
10645194 AGTCATTTTAAA
66 AGTCATTTTAAA
10645206 TCCTTCCCCTTTTTTATTTTTTCAAAAGAGAGTTTAGATTTTAAAAATAAAAATATATTTTTTTT
1 TCCTTCCCCTTTTTTATTTTTTCAAAAGAGAGTTTAGATTTTAAAAATAAAAATATATTTTTTTT
10645271 AGTCATTTTAAA
66 AGTCATTTTAAA
10645283 GGAAAGTTTA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (77 bp):
TCCTTCCCCTTTTTTATTTTTTCAAAAGAGAGTTTAGATTTTAAAAATAAAAATATATTTTTTTT
AGTCATTTTAAA
Done.