Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold204
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: 427869
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
File 3 of 3
Found at i:376926 original size:29 final size:28
Alignment explanation
Indices: 376851--377002 Score: 112
Period size: 29 Copynumber: 5.2 Consensus size: 28
376841 CTTTCAATCC
*
376851 TTTCAAAAGCCCACGAG-CTAGTGGCACTCT
1 TTTC-AAAGCCCACAAGTC-AGTGGCAC-CT
* *
376881 TTT-AAAGCCCACGAGTCAGTGCCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
376908 TTTCAAAAGCTCACAAGTCAGTGGTACCCT
1 TTTC-AAAGCCCACAAGTCAGTGGCA-CCT
* *
376938 TTTTAAAGCCTACACAAGTCAGCGGCAACC-
1 TTTCAAAGCC--CACAAGTCAGTGGC-ACCT
* * *
376968 TCTCAAAAGCCCATAAGTCAGTGGCACTT
1 TTTC-AAAGCCCACAAGTCAGTGGCACCT
376997 TTTCAA
1 TTTCAA
377003 TCTTTTCAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
27 5 0.05
28 23 0.23
29 38 0.39
30 11 0.11
31 20 0.20
32 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:377493 original size:28 final size:28
Alignment explanation
Indices: 377006--378806 Score: 1087
Period size: 28 Copynumber: 63.3 Consensus size: 28
376996 TTTTCAATCT
*
377006 TTTCAAAAGCCCACAAGTTAGTGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
* * *
377035 TTTTCAAAGCCCACAAGTCAATGGCGCCTT
1 -TTTCAAAGCCCACAAGTCAGTGGCACC-C
*
377065 TTTCAAAG-CCACAAGTCAGTGGCGCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
377092 TTTCAAAAGCCCATAAGTAAGTGACACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
*
377121 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
377149 TTTTAAAACCCACAAGTCAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
377177 TTTTTAAAGCCCACAAGCCAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * **
377206 TTTCAAAAGCCCACAAGCCAATTGCACTA
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
* * * ***
377235 TTTTAAAGTCCACAAGTTAGTGGCATATT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
*
377264 TTTTAAAGCCCACAAG-CTAGTGGCACCC
1 TTTCAAAGCCCACAAGTC-AGTGGCACCC
377292 TTTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
* * * *
377321 TTTTAAAGCCCACAAGCCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
377350 TTTCAAAGCCCACAAGCCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
**
377378 TTTCAAAAGCCCACAAGTCAGTGGCACTA
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
* * * **
377407 TTTTAAAGCCTACAAGTTAGTGGCACTTT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
377436 TTTCAAAGCCCACAAG-CTAGTGGCACCC
1 TTTCAAAGCCCACAAGTC-AGTGGCACCC
** *
377464 TTTCAAAAGCCCACAAGTCAGTAACACCT
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
* * *
377493 TTTTAAAGCCCACGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * *
377521 TTTCAATGCCCACGAGTAAGTAGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* ** * * *
377549 TTTCAAAGCCAATGAGTTAGTAGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
377577 TTTCAAAGCTCACAAGTTAGTGGCA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * **
377604 TATTCAAAGCCCATAAGTTAGTGGCATTC
1 T-TTCAAAGCCCACAAGTCAGTGGCACCC
* *
377633 TTTCAAAAGCCCACAAGTTAATGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
377662 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * **
377690 TTTCAAAACCCACACGTCAATGGTAGTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
377718 TTTCAAAGCCCACAAGTCACT-ACACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
377745 TTTCAGAGCCCATAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
377773 TTTCAAAGCCCACAAGTTAGTGGCAGCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
377801 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
377829 TTTCAGAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
377857 TTCCAAAGCCCACAAGAT-GGTGGCACCC
1 TTTCAAAGCCCACAAG-TCAGTGGCACCC
** * *
377885 TTTCAAAGTGCACATGTCGGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
377913 TTTCAAAGCCCACAAGTCGGTAGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
377941 TTTCAAAACCCACAAGTCGGTGGTA-CA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
**
377968 TTTTGAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
377996 TTTTAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
378024 -TTCTAAAGCCCACAAGAT-AGTAGCATCC
1 TTTC-AAAGCCCACAAG-TCAGTGGCACCC
*
378052 TTTCAAAATCCCAC-A---AGT--CA-CC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
*
378074 TTTCAAAGCCCACAACTCCA-TGGCACCCC
1 TTTCAAAGCCCACAAGT-CAGTGGCA-CCC
* * * * * *
378103 TTTTAAA-TCCATAACTCCGTGGCTCTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
** * * * *
378131 TTT-TTAGTTCCACAACTCCGTGACACCTTTCC
1 TTTCAAAG-CCCACAAGTCAGTGGCA-C---CC
* * * * *
378163 TTTTTAAAGTCAACAACTCTGTGGCACCTTTCTC
1 -TTTCAAAGCCCACAAGTCAGTGGCA-C---C-C
* * * * *
378197 TTTTAAAGTCTACAACTCTGTGGCACATTTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC----CC
* * * * **
378229 TTTCTAAAGTCCATAACTCTGTGGCATATTTTC
1 TTTC-AAAGCCCACAAGTCAGTGGC--A--CCC
* *** * ** * *
378262 TTTCAAAGTCTGTAATTCTTTGGTACTTC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
378291 TTT-TAAGTCCACAACTCCA-T--CACCTTTTC
1 TTTCAAAGCCCACAAGT-CAGTGGCACC----C
* ** * * *
378320 TTTTAAAGTTCATAACTCTGTGGCAACCC
1 TTTCAAAGCCCACAAGTCAGTGGC-ACCC
** * * *
378349 TTTTTAAGTCCACAACTCCGTGGCACCTC
1 TTTCAAAGCCCACAAGTCAGTGGCACC-C
** *
378378 TTTTCAAAGTTCACAACTCCA-TGGCACCTTCTC
1 -TTTCAAAGCCCACAAGT-CAGTGGCA-C--C-C
* *
378411 TTTCAAAGCCTACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
378439 TTTCAAAGCCCATAAATTAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
378467 TTTCAAAACCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
378495 TTTCAGAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
378523 TTTCATAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
378551 -TTCTAAAGCCCATAAGTTAGTGGCA-GC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
378578 TTTCCAAAGCCCACAAGTC-GATAGG-ACCC
1 TTT-CAAAGCCCACAAGTCAG-T-GGCACCC
* * *
378607 TTTCAAAGCCCACAAATCGGTAAG-ACCC
1 TTTCAAAGCCCACAAGTCAGT-GGCACCC
* * * * **
378635 TTTCAAAGCTCACAAATCGGTAGCATAC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
378663 TTTCAAAGCCCACAAGTCGGTGGTA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
** * *
378690 TTTTGAAGCCCACAAGTCGGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
378718 TTTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
378746 TTTTAGAGCCCACAAGTCAGTGGTA---
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
378771 TTT-ATAGCCCACAAGTCAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
378798 TTCCAAAGC
1 TTTCAAAGC
378807 TTGCAAGACA
Statistics
Matches: 1440, Mismatches: 250, Indels: 164
0.78 0.13 0.09
Matches are distributed among these distances:
21 8 0.01
22 7 0.00
23 2 0.00
24 20 0.01
25 7 0.00
26 3 0.00
27 84 0.06
28 800 0.56
29 341 0.24
30 38 0.03
31 4 0.00
32 42 0.03
33 80 0.06
34 3 0.00
35 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:377814 original size:139 final size:140
Alignment explanation
Indices: 377033--378069 Score: 552
Period size: 143 Copynumber: 7.3 Consensus size: 140
377023 TTAGTGGCAC
* * * * * * * *
377033 CCTTTTCAAAGCCCACAAGTCAATGGCGCCTTTTTC-AAAG-CCACAAGTCAGTGGCGCCCTTTC
1 CCTTTTCAAAGCCCATAAGTTAGTGGCACC-CTTTCAAAAGCCCACAAGTTAATGGCACCCTTTC
* * * * * * ** *
377096 AAAAGCCCATAAGTAAGTGACACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAACCCA
65 -AAAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAATGGCACCCTTCCAAAGCCCA
*
377161 CAAGTCAGTGGTAC-
129 CAAGTCA---CTACA
* * ** ** * ** *
377175 CCTTTTTAAAGCCCACAAGCCAGTGGCACCCTTTCAAAAGCCCACAAGCCAATTGCACTATTTTA
1 CCTTTTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTTAATGGCACCCTTTCA
* * *** * * * *
377240 AAGTCCACAAGTTAGTGGCATATTTTTTAAAGCCCACAAG-CTAGTGGCACCCTTTCAAAAGCCC
66 AAGCCCACAAGTCAGTGGCA-CCCTTTCAAAACCCACAAGTC-AATGGCACCC-TTCCAAAGCCC
* *
377304 ACAAGTCAGTGGCA
128 ACAAGTCACT-ACA
* ** * * ** *
377318 CCCTTTT-AAAGCCCACAAGCCAATGGCACTCTTTTC-AAAGCCCACAAGCCAGTGGCACCCTTT
1 -CCTTTTCAAAGCCCATAAGTTAGTGGCAC-CCTTTCAAAAGCCCACAAGTTAATGGCACCCTTT
** * * * * * ** *
377381 CAAAAGCCCACAAGTCAGTGGCACTATTTTAAAGCCTACAAGTTAGTGGCACTTTTTTCAAAGCC
64 C-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAATGGCAC-CCTTCCAAAGCC
* *
377446 CACAAG-CTAGTGGCA
127 CACAAGTC-ACT-ACA
* * * ** ** * * * *
377461 CCCTTTCAAAAGCCCACAAGTCAGTAACA-CCTTTTTAAAGCCCACGAGTCAGTGGCATCCTTTC
1 CCTTTTC-AAAGCCCATAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTTAATGGCACCCTTTC
* * * * * * * ** * * * * * *
377525 AATGCCCACGAGTAAGTAGCACCTTTTCAAAGCCAATGAGTTAGTAGCACCTTTTCAAAGCTCAC
65 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAATGGCACCCTTCCAAAGCCCAC
* * *
377590 AAGTTAGTGGCA
130 AAGTCACT-ACA
* * **
377602 TCTATTCAAAGCCCATAAGTTAGTGGCATTCTTTCAAAAGCCCACAAGTTAATGGCACCCTTTCA
1 CCTTTTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTTAATGGCACCCTTTCA
* * ** *
377667 AAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCACACGTCAATGGTAGTCTTTCAAAGCCCACA
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAATGGCACCCTTCCAAAGCCCACA
377732 AGTCACTACA
131 AGTCACTACA
* * * *
377742 CCTTTTCAGAGCCCATAAGTTAGTGGCACCCTTTC-AAAGCCCACAAGTTAGTGGCAGCTTTTCA
1 CCTTTTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTTAATGGCACCCTTTCA
* * * *
377806 AAGCCCACAAGTTAGTGGCACCCTTTCAGAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACA
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAATGGCACCCTTCCAAAGCCCACA
** *
377871 AGAT-GGTGGCA
131 AG-TCACT-ACA
* ** * * ** *** * *
377882 CCCTTTCAAAGTGCACATGTCGGTGGCACCCTTTC-AAAGCCCACAAGTCGGTAGCATCCTTTCA
1 CCTTTTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTTAATGGCACCCTTTCA
* * * * ** * * **
377946 AAACCCACAAGTCGGTGGTA-CATTTTGAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACA
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAATGGCACCCTTCCAAAGCCCACA
* *
378010 AGTCAATGGCA
131 AGTCACT-ACA
* * * * * *
378021 CC-CTTCTAAAGCCCACAAGATAGTAGCATCCTTTCAAAATCCCACAAGT
1 CCTTTTC-AAAGCCCATAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGT
378070 CACCTTTCAA
Statistics
Matches: 716, Mismatches: 156, Indels: 48
0.78 0.17 0.05
Matches are distributed among these distances:
138 4 0.01
139 152 0.21
140 131 0.18
141 114 0.16
142 97 0.14
143 155 0.22
144 63 0.09
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (140 bp):
CCTTTTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTTAATGGCACCCTTTCA
AAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAATGGCACCCTTCCAAAGCCCACA
AGTCACTACA
Found at i:378147 original size:29 final size:28
Alignment explanation
Indices: 378083--378222 Score: 82
Period size: 33 Copynumber: 4.6 Consensus size: 28
378073 CTTTCAAAGC
*
378083 CCACAACTCCATGGCACCCCTTTTAAAT
1 CCACAACTCCGTGGCACCCCTTTTAAAT
* * * **
378111 CCATAACTCCGTGGCTCTCCTTTTTAGTT
1 CCACAACTCCGTGGCAC-CCCTTTTAAAT
*
378140 CCACAACTCCGTGACACCTTTCCTTTTTAAAGT
1 CCACAACTCCGTGGCACC---CC-TTTTAAA-T
* *
378173 CAACAACTCTGTGGCACCTTTCTCTTTTAAAGT
1 CCACAACTCCGTGGCACC---C-CTTTTAAA-T
* *
378206 CTACAACTCTGTGGCAC
1 CCACAACTCCGTGGCAC
378223 ATTTCCTTTC
Statistics
Matches: 89, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
28 15 0.17
29 22 0.25
31 1 0.01
32 5 0.06
33 45 0.51
34 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.11, T:0.33
Consensus pattern (28 bp):
CCACAACTCCGTGGCACCCCTTTTAAAT
Found at i:378191 original size:33 final size:33
Alignment explanation
Indices: 378142--378254 Score: 147
Period size: 33 Copynumber: 3.4 Consensus size: 33
378132 TTTTAGTTCC
* *
378142 ACAACTCCGTGACACCTTTCCTTTTTAAAGTCA
1 ACAACTCTGTGGCACCTTTCCTTTTTAAAGTCA
*
378175 ACAACTCTGTGGCACCTTT-CTCTTTTAAAGTCT
1 ACAACTCTGTGGCACCTTTCCT-TTTTAAAGTCA
* * *
378208 ACAACTCTGTGGCACATTTCCTTTCTAAAGTCC
1 ACAACTCTGTGGCACCTTTCCTTTTTAAAGTCA
*
378241 ATAACTCTGTGGCA
1 ACAACTCTGTGGCA
378255 TATTTTCTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
32 2 0.03
33 67 0.94
34 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (33 bp):
ACAACTCTGTGGCACCTTTCCTTTTTAAAGTCA
Found at i:378212 original size:66 final size:65
Alignment explanation
Indices: 378142--378272 Score: 172
Period size: 66 Copynumber: 2.0 Consensus size: 65
378132 TTTTAGTTCC
* * * *
378142 ACAACTCCGTGACACCTTTCCTTTTTAAAGTCAACAACTCTGTGGCACCTTTCTCTTTTAAAGTC
1 ACAACTCCGTGACACATTTCCTTTCTAAAGTCAACAACTCTGTGGCACATTT-TCTTTCAAAGTC
378207 T
65 T
* * * * *
378208 ACAACTCTGTGGCACATTTCCTTTCTAAAGTCCATAACTCTGTGGCATATTTTCTTTCAAAGTCT
1 ACAACTCCGTGACACATTTCCTTTCTAAAGTCAACAACTCTGTGGCACATTTTCTTTCAAAGTCT
378273 GTAATTCTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
65 12 0.21
66 44 0.79
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.37
Consensus pattern (65 bp):
ACAACTCCGTGACACATTTCCTTTCTAAAGTCAACAACTCTGTGGCACATTTTCTTTCAAAGTCT
Found at i:378265 original size:33 final size:33
Alignment explanation
Indices: 378142--378271 Score: 138
Period size: 33 Copynumber: 4.0 Consensus size: 33
378132 TTTTAGTTCC
* * * * *
378142 ACAACTCCGTGACACCTTTCCTTTTTAAAGTCA
1 ACAACTCTGTGGCACATTTTCTTTCTAAAGTCA
* *
378175 ACAACTCTGTGGCACCTTTCTCTTT-TAAAGTCT
1 ACAACTCTGTGGCACATTT-TCTTTCTAAAGTCA
* *
378208 ACAACTCTGTGGCACATTTCCTTTCTAAAGTCC
1 ACAACTCTGTGGCACATTTTCTTTCTAAAGTCA
* *
378241 ATAACTCTGTGGCATATTTTCTTTC-AAAGTC
1 ACAACTCTGTGGCACATTTTCTTTCTAAAGTC
378272 TGTAATTCTT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
32 10 0.12
33 71 0.84
34 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (33 bp):
ACAACTCTGTGGCACATTTTCTTTCTAAAGTCA
Found at i:378351 original size:29 final size:29
Alignment explanation
Indices: 378318--378406 Score: 108
Period size: 29 Copynumber: 3.0 Consensus size: 29
378308 CATCACCTTT
* *
378318 TCTTTTAAAGTTCATAACTCTGTGGCAACC
1 TCTTTTAAAGTTCACAACTCCGTGGC-ACC
* *
378348 -CTTTTTAAGTCCACAACTCCGTGGCACC
1 TCTTTTAAAGTTCACAACTCCGTGGCACC
*
378376 TCTTTTCAAAGTTCACAACTCCATGGCACC
1 TCTTTT-AAAGTTCACAACTCCGTGGCACC
378406 T
1 T
378407 TCTCTTTCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.06
29 26 0.52
30 21 0.42
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (29 bp):
TCTTTTAAAGTTCACAACTCCGTGGCACC
Found at i:378354 original size:30 final size:30
Alignment explanation
Indices: 378320--378406 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
378310 TCACCTTTTC
* *
378320 TTTTAAAGTTCATAACTCTGTGGCAACC-CT
1 TTTTAAAGTTCACAACTCCGTGGC-ACCTCT
*
378350 TTTT-AAGTCCACAACTCCGTGGCACCTCT
1 TTTTAAAGTTCACAACTCCGTGGCACCTCT
* *
378379 TTTCAAAGTTCACAACTCCATGGCACCT
1 TTTTAAAGTTCACAACTCCGTGGCACCT
378407 TCTCTTTCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.06
29 21 0.43
30 25 0.51
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (30 bp):
TTTTAAAGTTCACAACTCCGTGGCACCTCT
Found at i:378403 original size:59 final size:57
Alignment explanation
Indices: 378291--378403 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 57
378281 TTGGTACTTC
* **
378291 TTTTAAGTCCACAACTCCATCACCTTTTCTTTTAAAGTTCATAACTCTGTGGCAACCCT
1 TTTTAAGTCCACAACTCCATCACC--TTCTTTTAAAGTTCACAACTCCATGGCAACCCT
*
378350 TTTTAAGTCCACAACTCCGTGGCACC-TCTTTTCAAAGTTCACAACTCCATGGCA
1 TTTTAAGTCCACAACTCCAT--CACCTTCTTTT-AAAGTTCACAACTCCATGGCA
378404 CCTTCTCTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
58 6 0.13
59 37 0.79
61 4 0.09
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.34
Consensus pattern (57 bp):
TTTTAAGTCCACAACTCCATCACCTTCTTTTAAAGTTCACAACTCCATGGCAACCCT
Found at i:378779 original size:24 final size:24
Alignment explanation
Indices: 378747--378794 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
378737 GTGGCACCCT
378747 TTTAGAGCCCACAAGTCAGTGGTA
1 TTTAGAGCCCACAAGTCAGTGGTA
*
378771 TTTATAGCCCACAAGTCAGTGGTA
1 TTTAGAGCCCACAAGTCAGTGGTA
378795 CCCTTCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
TTTAGAGCCCACAAGTCAGTGGTA
Found at i:378943 original size:32 final size:31
Alignment explanation
Indices: 378861--379063 Score: 165
Period size: 29 Copynumber: 6.7 Consensus size: 31
378851 CAAAGCCTAT
*
378861 AACTCCGTGGCACC--CC-TTTTAAATTCAC
1 AACTCCGTGGCACCTTCCTTTTTAAATCCAC
* *
378889 AACTCCATGGC-TC-TCCTTTTTAAATCCAC
1 AACTCCGTGGCACCTTCCTTTTTAAATCCAC
*
378918 AACTCCGTGGCACCTTTCCTTTTTAAGTCCAC
1 AACTCCGTGGCACC-TTCCTTTTTAAATCCAC
* ** * *
378950 AACTTCGTGGCATATT-TTCTTTTAAAGTCCAT
1 AACTCCGTGGCACCTTCCT-TTTTAAA-TCCAC
* * *
378982 AACTCCGTGGTAAC--CCTTTTTAAGTCCAC
1 AACTCCGTGGCACCTTCCTTTTTAAATCCAC
*
379011 AACTCCATGGCACC-T-CTTTTTAAAGTCCAC
1 AACTCCGTGGCACCTTCCTTTTTAAA-TCCAC
*
379041 AACTCCATGGCACCTTCTCTTTT
1 AACTCCGTGGCACCTTC-CTTTT
379064 AAAGCCAACA
Statistics
Matches: 139, Mismatches: 23, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
27 1 0.01
28 12 0.09
29 44 0.32
30 27 0.19
31 10 0.07
32 40 0.29
33 5 0.04
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (31 bp):
AACTCCGTGGCACCTTCCTTTTTAAATCCAC
Found at i:379064 original size:61 final size:59
Alignment explanation
Indices: 378861--379065 Score: 193
Period size: 61 Copynumber: 3.4 Consensus size: 59
378851 CAAAGCCTAT
* * *
378861 AACTCCGTGGCACCC-CTTTTAAATTCACAACTCCATGGC-TCTCCTTTTTAAA-TCCAC
1 AACTCCGTGGCACCCTCTTTTAAGTCCACAACTCCATGGCAACT-CTTTTTAAAGTCCAC
* * * * * *
378918 AACTCCGTGGCACCTTTCCTTTTTAAGTCCACAACTTCGTGGCATATTTTCTTTTAAAGTCCAT
1 AACTCCGTGGCACC-CT-C-TTTTAAGTCCACAACTCCATGGCA-ACTCT-TTTTAAAGTCCAC
* *
378982 AACTCCGTGGTAACCCT-TTTTAAGTCCACAACTCCATGGCACCTCTTTTTAAAGTCCAC
1 AACTCCGTGG-CACCCTCTTTTAAGTCCACAACTCCATGGCAACTCTTTTTAAAGTCCAC
*
379041 AACTCCATGGCACCTTCTCTTTTAA
1 AACTCCGTGGCACC--CTCTTTTAA
379066 AGCCAACACA
Statistics
Matches: 117, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
57 14 0.12
58 3 0.03
59 21 0.18
60 5 0.04
61 47 0.40
62 1 0.01
63 8 0.07
64 15 0.13
65 3 0.03
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.34
Consensus pattern (59 bp):
AACTCCGTGGCACCCTCTTTTAAGTCCACAACTCCATGGCAACTCTTTTTAAAGTCCAC
Found at i:379099 original size:122 final size:120
Alignment explanation
Indices: 378850--379099 Score: 251
Period size: 122 Copynumber: 2.1 Consensus size: 120
378840 AAGTCACCTT
* * *
378850 TCAAAG-CCTATAACTCCGTGGCACCCCTTTTAAATTCACAACTCCATGGCTCTCCTTTTTAAAT
1 TCAAAGTCCTATAACTCCGTGGAACCCCTTTTAAATCCACAACTCCATGGCCCTCCTTTTTAAAT
* * * ** *
378914 CCACAACTCCGTGGCACCTTTCCTTTTTAAGTCCACAACTTCGTGGCATATTTTCTT
66 CCACAACTCCATGGCACCTTTCCTTTTAAAGCCCACAACTTCGTGGCA-A-TCCCTA
* * *
378971 TTAAAGTCC-ATAACTCCGTGGTAACCCTTTTTAAGTCCACAACTCCATGGCACCT-CTTTTTAA
1 TCAAAGTCCTATAACTCCGTGG-AACCCCTTTTAAATCCACAACTCCATGGC-CCTCCTTTTTAA
* *
379034 AGTCCACAACTCCATGGCACC-TTCTCTTTTAAAGCCAACACAAGTTGGTGGC-A-CCCTAA
64 A-TCCACAACTCCATGGCACCTTTC-CTTTTAAAGCC--CACAACTTCGTGGCAATCCCT-A
379093 TCAAAGT
1 TCAAAGT
379100 TCACATGAGT
Statistics
Matches: 106, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
121 19 0.18
122 45 0.42
123 30 0.28
125 12 0.11
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (120 bp):
TCAAAGTCCTATAACTCCGTGGAACCCCTTTTAAATCCACAACTCCATGGCCCTCCTTTTTAAAT
CCACAACTCCATGGCACCTTTCCTTTTAAAGCCCACAACTTCGTGGCAATCCCTA
Found at i:379140 original size:62 final size:62
Alignment explanation
Indices: 379071--379229 Score: 162
Period size: 62 Copynumber: 2.6 Consensus size: 62
379061 TTTAAAGCCA
* * ** * * *
379071 ACACAAGTTGGTGGCACCCTAATCAAAGT-TCACATGAGTTGGTGGCACTTGAGTCAAAACCC
1 ACACAAGTTGG-GGCACCCTAGTCAAAGTCCCACACAAGTTGGCGGCACCTAAGTCAAAACCC
* * *
379133 ACACAAGTTGCGGGCACCATAGTCAAA-TCCCGCACAAGTTGGCGGCACCTAAGTCAAAGCCC
1 ACACAAGTTG-GGGCACCCTAGTCAAAGTCCCACACAAGTTGGCGGCACCTAAGTCAAAACCC
* *
379195 GCACAAGTTGACGGCACCCTAGTCAAAG-CCCACAC
1 ACACAAGTTG-GGGCACCCTAGTCAAAGTCCCACAC
379230 GAGAACCTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
61 1 0.01
62 77 0.97
63 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.22, T:0.17
Consensus pattern (62 bp):
ACACAAGTTGGGGCACCCTAGTCAAAGTCCCACACAAGTTGGCGGCACCTAAGTCAAAACCC
Found at i:379142 original size:31 final size:29
Alignment explanation
Indices: 379107--379204 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 29
379097 AGTTCACATG
* *
379107 AGTTGGTGGCACTTGAGTCAAAACCCACACA
1 AGTTGG-GGCACAT-AGTCAAAACCCGCACA
*
379138 AGTTGCGGGCACCATAGTCAAATCCCGCACA
1 AGTTG-GGGCA-CATAGTCAAAACCCGCACA
* *
379169 AGTTGGCGGCACCTAAGTCAAAGCCCGCACA
1 AGTTGG-GGCACAT-AGTCAAAACCCGCACA
379200 AGTTG
1 AGTTG
379205 ACGGCACCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
30 3 0.05
31 52 0.90
32 3 0.05
ACGTcount: A:0.30, C:0.29, G:0.24, T:0.17
Consensus pattern (29 bp):
AGTTGGGGCACATAGTCAAAACCCGCACA
Found at i:379210 original size:31 final size:30
Alignment explanation
Indices: 379122--379225 Score: 122
Period size: 31 Copynumber: 3.4 Consensus size: 30
379112 GTGGCACTTG
* *
379122 AGTCAAAACCCACACAAGTTGCGGGCACC-A
1 AGTCAAAGCCCGCACAAGTTGC-GGCACCTA
*
379152 TAGTCAAATCCCGCACAAGTTGGCGGCACCTA
1 -AGTCAAAGCCCGCACAAGTT-GCGGCACCTA
379184 AGTCAAAGCCCGCACAAGTTGACGGCACCCT-
1 AGTCAAAGCCCGCACAAGTTG-CGGCA-CCTA
379215 AGTCAAAGCCC
1 AGTCAAAGCCC
379226 ACACGAGAAC
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
30 1 0.02
31 59 0.89
32 6 0.09
ACGTcount: A:0.32, C:0.34, G:0.21, T:0.13
Consensus pattern (30 bp):
AGTCAAAGCCCGCACAAGTTGCGGCACCTA
Found at i:380052 original size:8 final size:8
Alignment explanation
Indices: 380041--380087 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
380031 TATAAAATTT
380041 AAAAATAA
1 AAAAATAA
380049 AAAAATTAA
1 AAAAA-TAA
* *
380058 AGAAATCA
1 AAAAATAA
*
380066 AAAAATCA
1 AAAAATAA
380074 AAAAATAA
1 AAAAATAA
380082 AAAAAT
1 AAAAAT
380088 TCAAAAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 27 0.79
9 7 0.21
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (8 bp):
AAAAATAA
Found at i:380063 original size:25 final size:24
Alignment explanation
Indices: 380034--380095 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
380024 TTTTTGATAT
*
380034 AAAATTTAAAAATAAAAAAATTAAA
1 AAAATTAAAAAATAAAAAAA-TAAA
* * *
380059 GAAATCAAAAAATCAAAAAATAAA
1 AAAATTAAAAAATAAAAAAATAAA
380083 AAAATTCAAAAAA
1 AAAATT-AAAAAA
380096 AGATGATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.18
Consensus pattern (24 bp):
AAAATTAAAAAATAAAAAAATAAA
Found at i:380091 original size:17 final size:17
Alignment explanation
Indices: 380041--380095 Score: 78
Period size: 17 Copynumber: 3.3 Consensus size: 17
380031 TATAAAATTT
380041 AAAAATAAAAAAATT-A
1 AAAAATAAAAAAATTCA
*
380057 AAGAAATCAAAAAA-TCA
1 AA-AAATAAAAAAATTCA
380074 AAAAATAAAAAAATTCA
1 AAAAATAAAAAAATTCA
380091 AAAAA
1 AAAAA
380096 AGATGATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 13 0.38
17 21 0.62
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.15
Consensus pattern (17 bp):
AAAAATAAAAAAATTCA
Found at i:381773 original size:31 final size:31
Alignment explanation
Indices: 381731--381951 Score: 238
Period size: 31 Copynumber: 7.1 Consensus size: 31
381721 CAAATCTCTT
381731 TTCTTCAAAGTCCACGACTTAGTGGCAATCTC
1 TTCTTCAAAGTCCACGACTTAGTGGC-ATCTC
*
381763 TTC-TCAAAGTCCACGACTTAGTGGCATCTT
1 TTCTTCAAAGTCCACGACTTAGTGGCATCTC
*
381793 TTCTTCAAAGTCCACGACTTAGTGGCATCTT
1 TTCTTCAAAGTCCACGACTTAGTGGCATCTC
*
381824 TTCTTCAAAGTCCACGACTTAGTGACATCTC
1 TTCTTCAAAGTCCACGACTTAGTGGCATCTC
* * *
381855 TTC-CCAAAGTCCACGACTCTA-TGGCACCTTT
1 TTCTTCAAAGTCCACGACT-TAGTGGCATC-TC
* * * *
381886 TTCTTTCAAACTCCACGACTCT-GTGACACCTTT
1 TTC-TTCAAAGTCCACGACT-TAGTGGCATC-TC
381919 TTCTTTCAAAGTCCACGACTCT-GTGGCA-CTC
1 TTC-TTCAAAGTCCACGACT-TAGTGGCATCTC
381950 TT
1 TT
381952 TTTCCTTTTA
Statistics
Matches: 170, Mismatches: 13, Indels: 13
0.87 0.07 0.07
Matches are distributed among these distances:
30 26 0.15
31 90 0.53
32 4 0.02
33 50 0.29
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (31 bp):
TTCTTCAAAGTCCACGACTTAGTGGCATCTC
Found at i:381803 original size:62 final size:63
Alignment explanation
Indices: 381727--381972 Score: 281
Period size: 62 Copynumber: 3.9 Consensus size: 63
381717 TCTTCAAATC
* *
381727 TCTTTTCTTCAAAGTCCACGACT-TAGTGGCAATCTCTTC-TCAAAGTCCACGACTTAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCTAGTGGC-ATCTTTTCTTCAAAGTCCACGACTTAGTGACA
381789 TCTTTTCTTCAAAGTCCACGACT-TAGTGGCATCTTTTCTTCAAAGTCCACGACTTAGTGACA
1 TCTTTTCTTCAAAGTCCACGACTCTAGTGGCATCTTTTCTTCAAAGTCCACGACTTAGTGACA
* * * *
381851 TCTCTTC-CCAAAGTCCACGACTCTA-TGGCACCTTTTTCTTTCAAACTCCACGACTCT-GTGAC
1 TCTTTTCTTCAAAGTCCACGACTCTAGTGGCATC-TTTTC-TTCAAAGTCCACGACT-TAGTGAC
381913 A
63 A
* **
381914 CCTTTTTCTTTCAAAGTCCACGACTCT-GTGGCACTCTTTTTCCTTTTAAGTCCACGACT
1 TC-TTTTC-TTCAAAGTCCACGACTCTAGTGGCA-TC-TTTT-CTTCAAAGTCCACGACT
381973 CCGTGGCACT
Statistics
Matches: 160, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
61 27 0.17
62 65 0.41
63 22 0.14
64 5 0.03
66 21 0.13
67 19 0.12
68 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (63 bp):
TCTTTTCTTCAAAGTCCACGACTCTAGTGGCATCTTTTCTTCAAAGTCCACGACTTAGTGACA
Found at i:381906 original size:33 final size:33
Alignment explanation
Indices: 381729--382925 Score: 561
Period size: 34 Copynumber: 36.2 Consensus size: 33
381719 TTCAAATCTC
381729 TTTTC-TTCAAAGTCCACGACT-TAGTGGCA---
1 TTTTCTTTCAAAGTCCACGACTCT-GTGGCACCT
* * *
381758 ATCTCTTCTCAAAGTCCACGACT-TAGTGGCATC-
1 TTTTCTT-TCAAAGTCCACGACTCT-GTGGCACCT
*
381791 TTTTC-TTCAAAGTCCACGACT-TAGTGGCATC-
1 TTTTCTTTCAAAGTCCACGACTCT-GTGGCACCT
* *
381822 TTTTC-TTCAAAGTCCACGACT-TAGTGACATC-
1 TTTTCTTTCAAAGTCCACGACTCT-GTGGCACCT
* * *
381853 TCTTC--CCAAAGTCCACGACTCTATGGCACCT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
* *
381884 TTTTCTTTCAAACTCCACGACTCTGTGACACCT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
381917 TTTTCTTTCAAAGTCCACGACTCTGTGGCACTCT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCAC-CT
* *
381951 TTTTCCTTT-TAAGTCCACGACTCCGTGGCACTCT
1 TTTT-CTTTCAAAGTCCACGACTCTGTGGCAC-CT
* ** * *
381985 TTTTCCTTTTAAA-TCCATAACTCCGTAGCACCCT
1 TTTT-CTTTCAAAGTCCACGACTCTGTGGCA-CCT
* * *
382019 TTTTCCTTT-TAAGTCCACAACTCCGTGGCACCCT
1 TTTT-CTTTCAAAGTCCACGACTCTGTGGCA-CCT
* * * * *
382053 TTTCCCTTT-TAAGCCCGCAACTCTGTGGCACCCT
1 TTT-TCTTTCAAAGTCCACGACTCTGTGGCA-CCT
* * * * *
382087 CTTCTCTTT-TAAGCCCACAACTCCGTGGCACCT
1 -TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
* * * ** *
382120 TGTTCCTTT-TAAGCCCATAACTCCGTGGCACC-
1 T-TTTCTTTCAAAGTCCACGACTCTGTGGCACCT
** *
382152 TTTTCTTTTTAAGTCCACGACTTTGTGGCACCT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
** * * *
382185 TTTTCTTTTTAAGCCCAAGACTCTGTGGCACAT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
*
382218 TTTTCTTTCAAAGTCCACGACTCTAT-GCACCT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
* *
382250 TTTTCTTCCTAAAGTCCACGACTCTCTGGCACTCT
1 TTTTCTTTC-AAAGTCCACGACTCTGTGGCAC-CT
* * * *
382285 TTTTCCTTT-TAAGTCCACAACTCCGTGGCAGTCT
1 TTTT-CTTTCAAAGTCCACGACTCTGTGGCA-CCT
* * ** *
382319 TTTTCCTTT-TAAGTCCACAACTCCATGACACCCT
1 TTTT-CTTTCAAAGTCCACGACTCTGTGGCA-CCT
* * * * *
382353 TTTCCCTTT-TAAGCCCACAACTTTGTGGCACCCT
1 TTT-TCTTTCAAAGTCCACGACTCTGTGGCA-CCT
* * * **
382387 CTTCTCTTT-TAAGCCCATAACT-TCGTGGCACCT
1 -TTTTCTTTCAAAGTCCACGACTCT-GTGGCACCT
* * ** *
382420 TGTTCCTTT-TAAG-CCTAAAACTCCGTGGCACC-
1 T-TTTCTTTCAAAGTCC-ACGACTCTGTGGCACCT
** *
382452 TTTTCTTTTTAAGTCCATGACTCTGTGGCACCT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
* * *
382485 TTTTCCTTT-TAAGTCCACAACTCTGTGACACTCT
1 TTTT-CTTTCAAAGTCCACGACTCTGTGGCAC-CT
* ** *
382519 TTTTCTTT-TAAGTCCAAAACTCTGTGGTACCTT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCACC-T
** * * *
382552 TTTTCTTTTTAAGTCCACAACTCCGTGGCGCCAT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCACC-T
* * *
382586 TTTCCCTTT-TAAG-CCTACGACTCAGTGGCACCCT
1 TTT-TCTTTCAAAGTCC-ACGACTCTGTGGCA-CCT
* * * * *
382620 CTTCTCTTT-TATGCCCACGACTCTATGGCACCCT
1 -TTTTCTTTCAAAGTCCACGACTCTGTGGCA-CCT
* * * * *
382654 CTTCTCTTT-TAAGCCCACAACTCCGTGGCACCT
1 -TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
* * * * * *
382687 TGTTCCTTT-TAAGCCCACAACTCCGTGACA-CT
1 T-TTTCTTTCAAAGTCCACGACTCTGTGGCACCT
** * *
382719 TTTTCTTTTTAAGTCCACAACTCTGTGGCATCT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
382752 TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
* * *
382785 TTTT-TTCCTAAAGTCCACGACTTTGTGGCACTTT
1 TTTTCTTTC-AAAGTCCACGACTCTGTGGCAC-CT
* * * *
382819 TTTTCCTTT-TAAGTCCACAACTTTGTAGCACCCT
1 TTTT-CTTTCAAAGTCCACGACTCTGTGGCA-CCT
* * * *
382853 TTTTCCTTT-TAAGTCTACAACTCCGTGGCACCCT
1 TTTT-CTTTCAAAGTCCACGACTCTGTGGCA-CCT
* ** *
382887 TTTCCTTTTTAAGCCCACGACTCTGTGGCACCCT
1 TTTTCTTTCAAAGTCCACGACTCTGTGGCA-CCT
382921 TTTTC
1 TTTTC
382926 CCTTTTAAGC
Statistics
Matches: 983, Mismatches: 135, Indels: 95
0.81 0.11 0.08
Matches are distributed among these distances:
29 3 0.00
30 20 0.02
31 105 0.11
32 81 0.08
33 325 0.33
34 416 0.42
35 28 0.03
36 5 0.01
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.37
Consensus pattern (33 bp):
TTTTCTTTCAAAGTCCACGACTCTGTGGCACCT
Found at i:381965 original size:34 final size:33
Alignment explanation
Indices: 381861--383022 Score: 974
Period size: 34 Copynumber: 34.8 Consensus size: 33
381851 TCTCTTCCCA
* * *
381861 AAGTCCACGACTCTATGGCACCTTTTT-CTTTCA
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTT-T
* * * *
381894 AACTCCACGACTCTGTGACACCTTTTT-CTTTCA
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTT-T
*
381927 AAGTCCACGACTCTGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCAC-CTTTTTCCTTTT
* *
381961 AAGTCCACGACTCCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCAC-CTTTTTCCTTTT
* * * *
381995 AAATCCATAACTCCGTAGCACCCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTTTCCTTTT
* *
382029 AAGTCCACAACTCCGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTTTCCTTTT
* * * *
382063 AAGCCCGCAACTCTGTGGCACCCTCTTCTCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTC-CTTTT
* * *
382097 AAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* * * *
382130 AAGCCCATAACTCCGTGGCACC-TTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* * *
382162 AAGTCCACGACTTTGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* * *
382195 AAGCCCA-AGACTCTGTGGCACATTTTT-CTTTCA
1 AAGTCCACA-ACTCTGTGGCACCTTTTTCCTTT-T
* * *
382228 AAGTCCACGACTCTAT-GCACCTTTTT-CTTCCTA
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTT--TT
* *
382261 AAGTCCACGACTCTCTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCAC-CTTTTTCCTTTT
* *
382295 AAGTCCACAACTCCGTGGCAGTCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTTTCCTTTT
** * *
382329 AAGTCCACAACTCCATGACACCCTTTTCCCTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTTTCCTTTT
* * * *
382363 AAGCCCACAACTTTGTGGCACCCTCTTCTCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTC-CTTTT
* * *
382397 AAGCCCATAACT-TCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCT-GTGGCACCTTTTTCCTTTT
* * *
382430 AAG-CCTAAAACTCCGTGGCACC-TTTTCTTTTT
1 AAGTCC-ACAACTCTGTGGCACCTTTTTCCTTTT
**
382462 AAGTCCATGACTCTGTGGCACCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
*
382495 AAGTCCACAACTCTGTGACACTCTTTTT-CTTTT
1 AAGTCCACAACTCTGTGGCAC-CTTTTTCCTTTT
* * *
382528 AAGTCCAAAACTCTGTGGTACCTTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACC-TTTTTCCTTTT
* * *
382562 AAGTCCACAACTCCGTGGCGCCATTTTCCCTTTT
1 AAGTCCACAACTCTGTGGCACC-TTTTTCCTTTT
* * * *
382596 AAG-CCTACGACTCAGTGGCACCCTCTTCTCTTTT
1 AAGTCC-ACAACTCTGTGGCACCTTTTTC-CTTTT
* * * * * *
382630 ATGCCCACGACTCTATGGCACCCTCTTCTCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTC-CTTTT
* * *
382664 AAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* * * *
382697 AAGCCCACAACTCCGTGACA-CTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* *
382729 AAGTCCACAACTCTGTGGCATCTTTTT-CTTTCA
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTT-T
* *
382762 AAGTCCACGACTCTGTGGCACCTTTTT--TTCCTA
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTT--TT
* * *
382795 AAGTCCACGACTTTGTGGCACTTTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCAC-CTTTTTCCTTTT
* *
382829 AAGTCCACAACTTTGTAGCACCCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTTTCCTTTT
* * *
382863 AAGTCTACAACTCCGTGGCACCCTTTTCCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCC-TTTT
* *
382897 AAGCCCACGACTCTGTGGCACCCTTTTTCCCTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTTT-CCTTTT
* * * * *
382932 AAGCCCATACCTCCGTAGCA-CTATTTTCCCTTTT
1 AAGTCCACAACTCTGTGGCACCT-TTTT-CCTTTT
* *
382966 AAGCCCACAACTCCGTGGCACCTTTTT-CTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
**
382998 AAGTCCACAACTCCATGGCACCTTT
1 AAGTCCACAACTCTGTGGCACCTTT
383023 AAATCCAATA
Statistics
Matches: 952, Mismatches: 138, Indels: 79
0.81 0.12 0.07
Matches are distributed among these distances:
32 127 0.13
33 315 0.33
34 462 0.49
35 41 0.04
36 7 0.01
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.37
Consensus pattern (33 bp):
AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
Found at i:382481 original size:267 final size:268
Alignment explanation
Indices: 381876--383022 Score: 1275
Period size: 267 Copynumber: 4.3 Consensus size: 268
381866 CACGACTCTA
* * * * * * **
381876 TGGCACCTT-TTTCTTTCAAACTCCACGACTCTGTGACACCTTTTTCTTTCAAAGTCCACGACTC
1 TGGCACCTTGTTCCTTTTAAGC-CCACAACTCCGTGGCACC-TTTTCTTTTTAAGTCCACGACTC
* * * *
381940 TGTGGCACTCTTTTTCCTTTTAAGTCCACGACTCCGTGGCACTCTTTTTCCTTTTAAA-TCCATA
64 TGTGGCAC-CTTTTTCCTTTAAAGTCCACGACTCTGTGGCACTCTTTTT-CTTCTAAAGTCCACA
* * *
382004 ACTC-CGTAGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTCCCTTTTAAGCC
127 ACTCTC-TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTCCCTTTTAAGTC
* ** * * * *
382068 CGCAACTCTGTGGCACCCTCTTCTCTTTTAAGCCCACAACTCCGTGGCACCTTGTTC-CTTTTAA
191 CACAACTCCATGGCACCCTCTTCCCTTTTAAGCCCACAACTCTGTGGCACCCTCTTCTCTTTTAA
382132 GCCCATAACTCCG
256 GCCCATAACTCCG
* * * ** * *
382145 TGGCACCTT-TTCTTTTTAAGTCCACGACTTTGTGGCACCTTTTTCTTTTTAAGCCCAAGACTCT
1 TGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCACC-TTTTCTTTTTAAGTCCACGACTCT
* * *
382209 GTGGCACATTTTT-CTTTCAAAGTCCACGACTCTAT-GCAC-CTTTTTCTTCCTAAAGTCCACGA
65 GTGGCACCTTTTTCCTTT-AAAGTCCACGACTCTGTGGCACTCTTTTTCTT-CTAAAGTCCACAA
** *
382271 CTCTCTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAGTCTTTTTCCTTTTAAGTCCA
128 CTCTCTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTCCCTTTTAAGTCCA
* * *
382336 CAACTCCATGACACCCTTTTCCCTTTTAAGCCCACAACTTTGTGGCACCCTCTTCTCTTTTAAGC
193 CAACTCCATGGCACCCTCTTCCCTTTTAAGCCCACAACTCTGTGGCACCCTCTTCTCTTTTAAGC
*
382401 CCATAACTTCG
258 CCATAACTCCG
* * *
382412 TGGCACCTTGTTCCTTTTAAGCCTAAAACTCCGTGGCACCTTTTCTTTTTAAGTCCATGACTCTG
1 TGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCACGACTCTG
* * * * *
382477 TGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGACACTCTTTTTCTT-TTAAGTCCAAAACTC
66 TGGCACCTTTTTCCTTTAAAGTCCACGACTCTGTGGCACTCTTTTTCTTCTAAAGTCCACAACTC
* * * * *
382541 TGTGGTAC-CTTTTTTCTTTTTAAGTCCACAACTCCGTGGCGCCATTTTCCCTTTTAAG-CCTAC
131 TCTGGCACTC-TTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTCCCTTTTAAGTCC-AC
* * * * *
382604 GACT-CAGTGGCACCCTCTTCTCTTTTATGCCCACGACTCTATGGCACCCTCTTCTCTTTTAAGC
194 AACTCCA-TGGCACCCTCTTCCCTTTTAAGCCCACAACTCTGTGGCACCCTCTTCTCTTTTAAGC
*
382668 CCACAACTCCG
258 CCATAACTCCG
* * *
382679 TGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGACACTTTTTCTTTTTAAGTCCACAACTCTG
1 TGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCACGACTCTG
* *
382744 TGGCATCTTTTT-CTTTCAAAGTCCACGACTCTGTGGCAC-CTTTTT-TTCCTAAAGTCCACGAC
66 TGGCACCTTTTTCCTTT-AAAGTCCACGACTCTGTGGCACTCTTTTTCTT-CTAAAGTCCACAAC
* * * ** * * *
382806 TTTGTGGCACTTTTTTTCCTTTTAAGTCCACAACTTTGTAGCACCCTTTTTCCTTTTAAGTCTAC
129 TCTCTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTCCCTTTTAAGTCCAC
* * * * * *
382871 AACTCCGTGGCACCCTTTTCCTTTTTAAGCCCACGACTCTGTGGCACCCTTTTTCCCTTTTAAGC
194 AACTCCATGGCACCCTCTTCCCTTTTAAGCCCACAACTCTGTGGCACCC-TCTTCTCTTTTAAGC
*
382936 CCATACCTCCG
258 CCATAACTCCG
* * *
382947 TAGCA-CTATTTTCCCTTTTAAGCCCACAACTCCGTGGCACCTTTT-TCTTTTAAGTCCACAACT
1 TGGCACCT-TGTT-CCTTTTAAGCCCACAACTCCGTGGCACCTTTTCT-TTTTAAGTCCACGACT
**
383010 CCATGGCACCTTT
63 CTGTGGCACCTTT
383023 AAATCCAATA
Statistics
Matches: 744, Mismatches: 112, Indels: 44
0.83 0.12 0.05
Matches are distributed among these distances:
264 3 0.00
265 12 0.02
266 130 0.17
267 412 0.55
268 106 0.14
269 81 0.11
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.37
Consensus pattern (268 bp):
TGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCACGACTCTG
TGGCACCTTTTTCCTTTAAAGTCCACGACTCTGTGGCACTCTTTTTCTTCTAAAGTCCACAACTC
TCTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTCCCTTTTAAGTCCACAA
CTCCATGGCACCCTCTTCCCTTTTAAGCCCACAACTCTGTGGCACCCTCTTCTCTTTTAAGCCCA
TAACTCCG
Found at i:383144 original size:14 final size:14
Alignment explanation
Indices: 383125--383155 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
383115 AAGTCGAATG
383125 TCGCTGGCCTTGAA
1 TCGCTGGCCTTGAA
383139 TCGCTGGCCTTGAA
1 TCGCTGGCCTTGAA
383153 TCG
1 TCG
383156 ATACAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.29, T:0.29
Consensus pattern (14 bp):
TCGCTGGCCTTGAA
Found at i:383214 original size:15 final size:16
Alignment explanation
Indices: 383194--383225 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
383184 CAAGGAAATG
383194 TATCGATACATT-ATC
1 TATCGATACATTGATC
383209 TATCGATACATTGATC
1 TATCGATACATTGATC
383225 T
1 T
383226 TTGTATCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (16 bp):
TATCGATACATTGATC
Found at i:383645 original size:19 final size:19
Alignment explanation
Indices: 383621--383658 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
383611 GTACCCTCAC
383621 TTTGTTGGAAACAAACCAT
1 TTTGTTGGAAACAAACCAT
383640 TTTGTTGGAAACAAACCAT
1 TTTGTTGGAAACAAACCAT
383659 GATCTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
TTTGTTGGAAACAAACCAT
Found at i:384421 original size:31 final size:31
Alignment explanation
Indices: 384347--384539 Score: 149
Period size: 31 Copynumber: 6.1 Consensus size: 31
384337 TTCAAATCTT
*
384347 TTTTCTTCAAAGTCCACGACTCAGTGGCAATA
1 TTTTCTTCAAAGTCCACGACTCAGTGGC-ATC
* *
384379 TCTTC-TCAAAGTCCACGACTCAATGGCATC
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATC
* * * *
384409 TTTTCTTTAAAGTCTATGACTTAGTGGCATC
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATC
** * * *
384440 CCTTC-CCAAAATCCACGACTCTA-TGGCACC
1 TTTTCTTCAAAGTCCACGACTC-AGTGGCATC
* * * *
384470 TTTTTTTCAAAGTCCACGATTCTGTGGCACC
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATC
* *
384501 TTTTTCTTCCTAAAGTCCACGACTCCGTGACACTC
1 -TTTTCTT-C-AAAGTCCACGACTCAGTGGCA-TC
384536 TTTT
1 TTTT
384540 TCCTTTTAAG
Statistics
Matches: 123, Mismatches: 30, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
30 24 0.20
31 65 0.53
32 10 0.08
33 1 0.01
34 22 0.18
35 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.34
Consensus pattern (31 bp):
TTTTCTTCAAAGTCCACGACTCAGTGGCATC
Found at i:384473 original size:61 final size:62
Alignment explanation
Indices: 384347--384498 Score: 173
Period size: 61 Copynumber: 2.5 Consensus size: 62
384337 TTCAAATCTT
* * * * *
384347 TTTTCTTCAAAGTCCACGACTCAGTGGCAATATCTTCTCAAAGTCCACGACTCAATGGCATC
1 TTTTCTTTAAAGTCCACGACTCAGTGGCAATACCTTCCCAAAATCCACGACTCAATGGCACC
* * * * *
384409 TTTTCTTTAAAGTCTATGACTTAGTGGC-ATCCCTTCCCAAAATCCACGACTCTATGGCACC
1 TTTTCTTTAAAGTCCACGACTCAGTGGCAATACCTTCCCAAAATCCACGACTCAATGGCACC
* *
384470 TTTT-TTTCAAAGTCCACGATTCTGTGGCA
1 TTTTCTTT-AAAGTCCACGACTCAGTGGCA
384499 CCTTTTTCTT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
60 3 0.04
61 46 0.63
62 24 0.33
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (62 bp):
TTTTCTTTAAAGTCCACGACTCAGTGGCAATACCTTCCCAAAATCCACGACTCAATGGCACC
Found at i:384691 original size:33 final size:32
Alignment explanation
Indices: 384451--385340 Score: 596
Period size: 34 Copynumber: 26.7 Consensus size: 32
384441 CTTCCCAAAA
* * **
384451 TCCACGACTCTATGGCACCTTTT-TTTCAAAG
1 TCCACAACTCTGTGGCACCTTTTCTTTTTAAG
* * * *
384482 TCCACGATTCTGTGGCACCTTTTTCTTCCTAAAG
1 TCCACAACTCTGTGGCACC-TTTTCTT-TTTAAG
* * * *
384516 TCCACGACTCCGTGACACTCTTTTTCCTTTTAAG
1 TCCACAACTCTGTGGCAC-C-TTTTCTTTTTAAG
* **
384550 TCCACAACTCTGTAGCACCCTTTTTCCGTTTAAG
1 TCCACAACTCTGTGGCA-CC-TTTTCTTTTTAAG
* * *
384584 TCCGCAACTCCGTGGCACCCTTTTCCCTTTTAAG
1 TCCACAACTCTGTGGCA-CCTTTT-CTTTTTAAG
* * *
384618 CCCACAACTCTATGGCACCCTCTTCTCTTTTAAG
1 TCCACAACTCTGTGGCA-CCTTTTCT-TTTTAAG
*
384652 -CTCACAACTCTATGGCACCTTCTTCTTTTTAAG
1 TC-CACAACTCTGTGGCACCTT-TTCTTTTTAAG
* ** *
384685 CCCACAACTCCATGGCACCGTTTCTTTTTAAG
1 TCCACAACTCTGTGGCACCTTTTCTTTTTAAG
** *
384717 TCCACGGCTCTATGGCACCTTTTTCTTTTTAAG
1 TCCACAACTCTGTGGCACC-TTTTCTTTTTAAG
** * **
384750 TTTACGACTCTGTGGCACCTTTTTCTTTCAAAG
1 TCCACAACTCTGTGGCACC-TTTTCTTTTTAAG
* * * * *
384783 TCCACGACTTTGTGGCACATTTTTCTTCCTAAAG
1 TCCACAACTCTGTGGCAC-CTTTTCTT-TTTAAG
* * *
384817 TCCACAACTCTGTGGCACTATTTTTCCTCTTAAG
1 TCCACAACTCTGTGGCAC--CTTTTCTTTTTAAG
** *
384851 TCCACAACTCTGTGGCAGTTTTTTTCCTTTTAAG
1 TCCACAACTCTGTGGCA--CCTTTTCTTTTTAAG
* *
384885 TCCACAAGTCTGTGGCATCCTTTTCCTTTTAAG
1 TCCACAACTCTGTGGCA-CCTTTTCTTTTTAAG
* ** *
384918 TCCACAACTCCGTAACACCATTTTCCTTTTAAG
1 TCCACAACTCTGTGGCACC-TTTTCTTTTTAAG
* *
384951 CCCACAACTCTGTGGCACCCTCTTCTCTTTTAAG
1 TCCACAACTCTGTGGCA-CCTTTTCT-TTTTAAG
* * * *
384985 CCCATAACTCCGTGGCACCTTATTCCTTTTAAG
1 TCCACAACTCTGTGGCACCTT-TTCTTTTTAAG
* * * *
385018 CCCACATCACTGTGACACCTTTTCTTTTTAAG
1 TCCACAACTCTGTGGCACCTTTTCTTTTTAAG
* * * **
385050 TCCACGACTCCGTGGCACATTTTTCTTTCAAAG
1 TCCACAACTCTGTGGCAC-CTTTTCTTTTTAAG
* * *
385083 TCCACGACTCTGTGGCACCCTTTTCTTCCTAAAG
1 TCCACAACTCTGTGGCA-CCTTTTCTT-TTTAAG
** * *
385117 TCCATGACTCTATGGCACTCTTTTTCCTTTTAAG
1 TCCACAACTCTGTGGCAC-C-TTTTCTTTTTAAG
* * * *
385151 TCCACAACTCCGTGACACTATTTTTCCTTTTAAG
1 TCCACAACTCTGTGGCAC--CTTTTCTTTTTAAG
* * *
385185 TCCACAACTCTGTGGTATCATTTTCCCTTTTAAG
1 TCCACAACTCTGTGGCA-CCTTTT-CTTTTTAAG
* * * *
385219 CCCACGACTCCGTGGCGCACTTTTCTCTTTTAAG
1 TCCACAACTCTGTGGCAC-CTTTTCT-TTTTAAG
* * * * *
385253 CCCACACCTCCGTGGCACCCTCTTCCCTTTTAAG
1 TCCACAACTCTGTGGCA-CCT-TTTCTTTTTAAG
* *
385287 CCCACAACTCCGTGGCACCTTTTCTTTTTAAG
1 TCCACAACTCTGTGGCACCTTTTCTTTTTAAG
*
385319 TCCACAACTCCGTGGCACCTTT
1 TCCACAACTCTGTGGCACCTTT
385341 ACGTCCAGTA
Statistics
Matches: 708, Mismatches: 119, Indels: 63
0.80 0.13 0.07
Matches are distributed among these distances:
31 17 0.02
32 85 0.12
33 223 0.31
34 355 0.50
35 28 0.04
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (32 bp):
TCCACAACTCTGTGGCACCTTTTCTTTTTAAG
Found at i:385611 original size:138 final size:141
Alignment explanation
Indices: 385343--385612 Score: 366
Period size: 142 Copynumber: 1.9 Consensus size: 141
385333 GCACCTTTAC
* * *
385343 GTCCAGTATTGCTGGCCTTGAATCAGCATATTGGCACCATTATCTTTAAGACCAATGTCGCTAGC
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATTATCTCTAAGACCAATGTCGCTAGC
** * *
385408 CCTGAATCAGCACTTTGGCACCTTTAAGTCGAATATCACTGGCCTTGAATCAGCATATTGACACC
66 CCTGAATCAGCACAATGGCACC--TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGACACC
385473 TTTACCATTTTGA
129 TTTACCATTTTGA
* * * * *
385486 GTCCAATATCGCTGGCCTTGAATCGGCATATTGGCA-CTTTGTCTCTAAGACCAATGTCTCTGGC
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATTATCTCTAAGACCAATGTCGCTAGC
* * *
385550 CTTGAATCAGCACAATGGCA-C-AAGCCCAATATCCCTGGCCTTGAATCAGCATATTGGCACCTT
66 CCTGAATCAGCACAATGGCACCTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGACACCTT
385613 GTCTCTAAGA
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
138 38 0.34
141 1 0.01
142 40 0.36
143 33 0.29
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (141 bp):
GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATTATCTCTAAGACCAATGTCGCTAGC
CCTGAATCAGCACAATGGCACCTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGACACCTT
TACCATTTTGA
Found at i:392367 original size:18 final size:19
Alignment explanation
Indices: 392336--392386 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
392326 ATAATCACAA
* *
392336 TATTTTAATATTAAATAAT
1 TATTTAAATATTAAAAAAT
392355 TATTTAAAT-TTAAAAAAT
1 TATTTAAATATTAAAAAAT
* *
392373 TAATAAAATATTAA
1 TATTTAAATATTAA
392387 TATATAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TATTTAAATATTAAAAAAT
Found at i:392696 original size:44 final size:44
Alignment explanation
Indices: 392648--392748 Score: 152
Period size: 43 Copynumber: 2.3 Consensus size: 44
392638 CAAATTATGG
* *
392648 ACTAATTTTTTTCTTACCAAAGTTGCAATTTATTCAAGTGTGTA
1 ACTAATTTTTTTCTCACCAAAGTTGCAATATATTCAAGTGTGTA
* *
392692 ACTAA-TTTTTTCTCACCAAAGTTTCAATATATTCAAGTTTGTA
1 ACTAATTTTTTTCTCACCAAAGTTGCAATATATTCAAGTGTGTA
392735 ACT-ATTTTTTTCTC
1 ACTAATTTTTTTCTC
392749 CTATTTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.02
43 46 0.88
44 5 0.10
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.48
Consensus pattern (44 bp):
ACTAATTTTTTTCTCACCAAAGTTGCAATATATTCAAGTGTGTA
Found at i:394325 original size:10 final size:10
Alignment explanation
Indices: 394312--394360 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
394302 GATATTGTTT
*
394312 GATAGATATA
1 GATATATATA
394322 GATATATATA
1 GATATATATA
*
394332 TATATATATA
1 GATATATATA
*
394342 TATATATATA
1 GATATATATA
*
394352 TATATATAT
1 GATATATAT
394361 GTATGTATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (10 bp):
GATATATATA
Found at i:394330 original size:2 final size:2
Alignment explanation
Indices: 394317--394360 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
394307 TGTTTGATAG
*
394317 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
394359 AT
1 AT
394361 GTATGTATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:394697 original size:2 final size:2
Alignment explanation
Indices: 394652--394689 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
394642 AGGAAAACGA
394652 AT AT AT AT GA- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
394690 TCATATATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:394824 original size:2 final size:2
Alignment explanation
Indices: 394817--394841 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
394807 ATATTTGTAC
394817 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
394842 AATGTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:395188 original size:39 final size:39
Alignment explanation
Indices: 395129--395206 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
395119 GAAAGAATAA
* **
395129 TTAATTCGCAGCATGTTATAGAACCTTTGTTTTCATTAT
1 TTAATTCGCAGCATGGTATAGAACCTTCATTTTCATTAT
395168 TTAATTCGCAGCATGGTATAGAACCTTCATTTTCATTAT
1 TTAATTCGCAGCATGGTATAGAACCTTCATTTTCATTAT
395207 CTGTTTTGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.44
Consensus pattern (39 bp):
TTAATTCGCAGCATGGTATAGAACCTTCATTTTCATTAT
Found at i:398369 original size:21 final size:22
Alignment explanation
Indices: 398318--398374 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
398308 AAACTAGAAA
398318 AGAAAA-AAAGAAAGAAAAAAG
1 AGAAAAGAAAGAAAGAAAAAAG
398339 AGCGATAAAGAAAGAAA-AAAAAAG
1 A--GA-AAAGAAAGAAAGAAAAAAG
*
398363 AGAAAAGGAAGA
1 AGAAAAGAAAGA
398375 GTTTCTTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 9 0.29
22 2 0.06
23 2 0.06
24 11 0.35
25 7 0.23
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.02
Consensus pattern (22 bp):
AGAAAAGAAAGAAAGAAAAAAG
Found at i:399508 original size:2 final size:2
Alignment explanation
Indices: 399501--399532 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
399491 ATAGGAAAAG
399501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
399533 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:400155 original size:15 final size:16
Alignment explanation
Indices: 400135--400170 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
400125 AGGGCTCGAA
400135 TATTTTGA-TTTGAAT
1 TATTTTGACTTTGAAT
400150 TATTTTGACTTTGAAT
1 TATTTTGACTTTGAAT
*
400166 CATTT
1 TATTT
400171 CGAGTGTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.58
Consensus pattern (16 bp):
TATTTTGACTTTGAAT
Found at i:400462 original size:6 final size:6
Alignment explanation
Indices: 400451--400475 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
400441 TTTGATATAT
400451 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
400476 CTTTTATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:403347 original size:30 final size:30
Alignment explanation
Indices: 403313--403374 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
403303 ATTACTTTTA
403313 ACATATATTAAAAATATTTTAATAAATCAT
1 ACATATATTAAAAATATTTTAATAAATCAT
403343 ACATATATTAAAAATATTTTAATAAATCAT
1 ACATATATTAAAAATATTTTAATAAATCAT
403373 AC
1 AC
403375 TTAATAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (30 bp):
ACATATATTAAAAATATTTTAATAAATCAT
Found at i:403391 original size:30 final size:30
Alignment explanation
Indices: 403313--403394 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 30
403303 ATTACTTTTA
*
403313 ACATATATTAAAAATATTTTAATAAATCAT
1 ACATATAATAAAAATATTTTAATAAATCAT
*
403343 ACATATATTAAAAATATTTTAATAAATCAT
1 ACATATAATAAAAATATTTTAATAAATCAT
403373 AC-T-TAATAATAAATTATTTTAA
1 ACATATAATAA-AAA-TATTTTAA
403395 GAGAATATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
28 5 0.10
29 4 0.08
30 40 0.82
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.41
Consensus pattern (30 bp):
ACATATAATAAAAATATTTTAATAAATCAT
Found at i:405390 original size:17 final size:16
Alignment explanation
Indices: 405365--405419 Score: 76
Period size: 15 Copynumber: 3.4 Consensus size: 16
405355 TTCACTGCAA
405365 AAAAAAAAAAAAAGAG
1 AAAAAAAAAAAAAGAG
*
405381 -AAACAAAAAAAAGAG
1 AAAAAAAAAAAAAGAG
405396 AAAAAGAAAGAAAAAGAG
1 AAAAA-AAA-AAAAAGAG
405414 AAAAAA
1 AAAAAA
405420 TGAGGAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 14 0.41
16 3 0.09
17 4 0.12
18 13 0.38
ACGTcount: A:0.84, C:0.02, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAG
Found at i:405390 original size:18 final size:17
Alignment explanation
Indices: 405363--405419 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 17
405353 TTTTCACTGC
405363 AAAAAAAAAAAAAA-AG
1 AAAAAAAAAAAAAAGAG
* *
405379 AGAAACAAAAAAAAGAG
1 AAAAAAAAAAAAAAGAG
*
405396 AAAAAGAAAGAAAAAGAG
1 AAAAA-AAAAAAAAAGAG
405414 AAAAAA
1 AAAAAA
405420 TGAGGAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 12 0.35
17 7 0.21
18 15 0.44
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAGAG
Found at i:405429 original size:13 final size:13
Alignment explanation
Indices: 405411--405455 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
405401 GAAAGAAAAA
405411 GAGAAAAAATGAG
1 GAGAAAAAATGAG
*
405424 GAGAAAGAAA--AA
1 GAGAAA-AAATGAG
405436 GAGAAAAAATGAG
1 GAGAAAAAATGAG
405449 GA-AAAAA
1 GAGAAAAA
405456 TAGAGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
11 3 0.11
12 12 0.44
13 9 0.33
14 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (13 bp):
GAGAAAAAATGAG
Found at i:405448 original size:25 final size:25
Alignment explanation
Indices: 405400--405450 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
405390 AAAGAGAAAA
405400 AGAAAGAAAAAGAGAAAAAATGAGG
1 AGAAAGAAAAAGAGAAAAAATGAGG
405425 AGAAAGAAAAAGAGAAAAAATGAGG
1 AGAAAGAAAAAGAGAAAAAATGAGG
405450 A
1 A
405451 AAAAATAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (25 bp):
AGAAAGAAAAAGAGAAAAAATGAGG
Found at i:405453 original size:18 final size:18
Alignment explanation
Indices: 405363--405418 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 18
405353 TTTTCACTGC
*
405363 AAAAA-AAA-AAAAAAAG
1 AAAAAGAAAGAAAAAGAG
* *
405379 AGAAACAAA-AAAAAGAG
1 AAAAAGAAAGAAAAAGAG
405396 AAAAAGAAAGAAAAAGAG
1 AAAAAGAAAGAAAAAGAG
405414 AAAAA
1 AAAAA
405419 ATGAGGAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 4 0.12
17 17 0.50
18 13 0.38
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAGAAAAAGAG
Found at i:408289 original size:79 final size:78
Alignment explanation
Indices: 408150--408455 Score: 330
Period size: 79 Copynumber: 3.9 Consensus size: 78
408140 TGGAGATGAC
* * ** * *
408150 AACGGGGCTGGAGTATCCCTGATTATGGAAAATCGGTATTCTGAAAATAAAATTGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCTGATTAT-GAAAATTGGCGTTTTGAAAATAAAATCGGGGTTGGAGT
408215 ATCCCCTCGAAAAT
65 ATCCCCTCGAAAAT
* *
408229 AACAGGGTTGGAGTATCCTTGATTATAGAAAATTGGCGTTTTGAAAATAAAATCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCTGATTAT-GAAAATTGGCGTTTTGAAAATAAAATCGGGGTTGGAGT
*
408294 ATCCTCTCGAAAAT
65 ATCCCCTCGAAAAT
* * **
408308 AACGGGGTTGGAGTATCCCTGATTGTGAAAAATCAAT-GC-TTTAG-AAATAAAGCCGGGGTTGG
1 AACGGGGTTGGAGTATCCCTGATTATG-AAAAT---TGGCGTTTTGAAAATAAAATCGGGGTTGG
* *
408370 AGTATCCCCGCAAAAAT
62 AGTATCCCCTCGAAAAT
* * * * * * *
408387 AACGGGGTTAGAGTATCCCCGATTGTGAGAAATTAGTGTTTTGGAAATAAAATCGGAGTTGGAGT
1 AACGGGGTTGGAGTATCCCTGATTATGA-AAATTGGCGTTTTGAAAATAAAATCGGGGTTGGAGT
408452 ATCC
65 ATCC
408456 TCGATTATGG
Statistics
Matches: 193, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
76 1 0.01
77 1 0.01
78 6 0.03
79 178 0.92
80 4 0.02
81 2 0.01
82 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCTGATTATGAAAATTGGCGTTTTGAAAATAAAATCGGGGTTGGAGTA
TCCCCTCGAAAAT
Found at i:408461 original size:51 final size:51
Alignment explanation
Indices: 408397--408508 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
408387 AACGGGGTTA
* * *
408397 GAGTATCCCCGATTGT-GAGAAATTAGTGTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGGA-AAATTAGTATTTTAGAAATAAAATCGGAGTTG
* * *
408448 GAGTATCCTCGATTATGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTG
1 GAGTATCCCCGATTATGGAAAATTAGTATTTTAGAAATAAAATCGGAGTTG
408499 GAGTATCCCC
1 GAGTATCCCC
408509 TCAAAAATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
51 51 0.96
52 2 0.04
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTATGGAAAATTAGTATTTTAGAAATAAAATCGGAGTTG
Found at i:408527 original size:28 final size:29
Alignment explanation
Indices: 408484--408564 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 29
408474 TATTTTAGAA
408484 ATAAAAT--CGGGGTTGGAGTATCCCCTC
1 ATAAAATAACGGGGTTGGAGTATCCCCTC
* *
408511 A-AAAATAACGGGATTGGAGTATCCCC-G
1 ATAAAATAACGGGGTTGGAGTATCCCCTC
*
408538 ATGAAATAACGGGGTTGGAGTA-CCCCT
1 ATAAAATAACGGGGTTGGAGTATCCCCT
408565 AATTATGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
26 5 0.11
27 6 0.13
28 35 0.76
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (29 bp):
ATAAAATAACGGGGTTGGAGTATCCCCTC
Found at i:408642 original size:28 final size:28
Alignment explanation
Indices: 408602--408669 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
408592 ATATAAAGCT
**
408602 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGAGGAAATAAC
* *
408630 GGGGTTGGAGTATCCCCGATGAAATAAT
1 GGGGTTGGAGTATCCCCGAGGAAATAAC
*
408658 AGGGTTGGAGTA
1 GGGGTTGGAGTA
408670 CCTCTAATTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGAGGAAATAAC
Found at i:411778 original size:19 final size:20
Alignment explanation
Indices: 411746--411783 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
411736 GTATGGGAAA
411746 AAATAAAGAAAATAAAATAT
1 AAATAAAGAAAATAAAATAT
411766 AAATAAA-AAAATAAAATA
1 AAATAAAGAAAATAAAATA
411784 CAATAGCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (20 bp):
AAATAAAGAAAATAAAATAT
Found at i:413087 original size:16 final size:16
Alignment explanation
Indices: 413068--413102 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
413058 TTTGATTATT
413068 ATTAAATTAAATTTTA
1 ATTAAATTAAATTTTA
* *
413084 ATTAAGTTATATTTTA
1 ATTAAATTAAATTTTA
413100 ATT
1 ATT
413103 TAAGTGCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTAAATTAAATTTTA
Found at i:413777 original size:31 final size:31
Alignment explanation
Indices: 413742--413814 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
413732 CTCTAAAGCT
413742 CACACAAGTCAGTGGCAACCCTTT-TAAAGAC
1 CACACAAGTCAGTGGCAA-CCTTTATAAAGAC
*
413773 CACACAAGTCAGTGGCAACCTTTATAAAGTC
1 CACACAAGTCAGTGGCAACCTTTATAAAGAC
413804 CACACAAGTCA
1 CACACAAGTCA
413815 AGCACGCCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 5 0.12
31 35 0.88
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.19
Consensus pattern (31 bp):
CACACAAGTCAGTGGCAACCTTTATAAAGAC
Found at i:418108 original size:14 final size:14
Alignment explanation
Indices: 418089--418118 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
418079 TCTTGATCAT
418089 AAAAAAAAG-AGAG
1 AAAAAAAAGAAGAG
418102 AAAAAAAAGAAGAG
1 AAAAAAAAGAAGAG
418116 AAA
1 AAA
418119 TACTCCACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAGAG
Found at i:419242 original size:30 final size:30
Alignment explanation
Indices: 419208--419417 Score: 117
Period size: 29 Copynumber: 7.0 Consensus size: 30
419198 TTACCTCTTA
*
419208 AAAGTCTACGACTCAATGGCATCCCTTTTC
1 AAAGTCTACGACTCAATGGCATCCTTTTTC
* * *
419238 AAAGTCTAC-ATTCAGTGGCATCTTTTCTTC
1 AAAGTCTACGACTCAATGGCATCCTTT-TTC
* * *
419268 -AAGTTTATGACTCAGTGGCATCCTTTTTTCTTC
1 AAAGTCTACGACTCAATGGCATCC---TTT-TTC
* * ** *
419301 CAAGT-TCATGACTCCGTGGCAT-CTTTTTT
1 AAAGTCT-ACGACTCAATGGCATCCTTTTTC
* * * *
419330 AAAGTCCACAACTCTATGGCATCCCTTTTC
1 AAAGTCTACGACTCAATGGCATCCTTTTTC
* * *
419360 AAAGTCTACAACTCCATGGCAT-CTTTTTT
1 AAAGTCTACGACTCAATGGCATCCTTTTTC
* * **
419389 AAAGTCCACAACTCCGTGGCA-CCTTTTTC
1 AAAGTCTACGACTCAATGGCATCCTTTTTC
419418 TTCAAAGTCC
Statistics
Matches: 145, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
29 66 0.46
30 52 0.36
33 9 0.06
34 18 0.12
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.36
Consensus pattern (30 bp):
AAAGTCTACGACTCAATGGCATCCTTTTTC
Found at i:419327 original size:33 final size:32
Alignment explanation
Indices: 419249--419329 Score: 112
Period size: 34 Copynumber: 2.5 Consensus size: 32
419239 AAGTCTACAT
*
419249 TCAGTGGCATC--TTTTCTTCAAGTTTATGAC
1 TCAGTGGCATCTTTTTTCTTCAAGTTCATGAC
419279 TCAGTGGCATCCTTTTTTCTTCCAAGTTCATGAC
1 TCAGTGGCAT-CTTTTTTCTT-CAAGTTCATGAC
*
419313 TCCGTGGCATCTTTTTT
1 TCAGTGGCATCTTTTTT
419330 AAAGTCCACA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
30 10 0.22
31 1 0.02
33 14 0.31
34 20 0.44
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.44
Consensus pattern (32 bp):
TCAGTGGCATCTTTTTTCTTCAAGTTCATGAC
Found at i:419603 original size:89 final size:88
Alignment explanation
Indices: 419311--419789 Score: 443
Period size: 89 Copynumber: 5.4 Consensus size: 88
419301 CAAGTTCATG
* * * * *
419311 ACTCCGTGGCATC-TTTTTT-AAAGTCCACAACTCTATGGCATCCCTTTTCAAAGTCTACAACTC
1 ACTCTGTGGCACCTTTTTTTCAAAGTCCACAACTCTGTGGCATCCTTTTTCAAAGTCCACAACTC
*
419374 CATGGCATCTTTTTTAAAGTCCACA
66 CATGGCA-C-CTTTTAAAGTCCACA
* * * *
419399 ACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCTGTGGTAT-CTCTTTCAAAGTCCATAACT
1 ACTCTGTGGCACCTTTTT-TTCAAAGTCCACAACTCTGTGGCATCCTTTTTCAAAGTCCACAACT
** * *
419463 CTGTGGCATCTCTTTTAAAGTCTATA
65 CCATGGCA-C-CTTTTAAAGTCCACA
* * ** * * *
419489 ACTTTGTGACATCC-CATTGTCAAAGTCCACAACTCTGTCGTATCCTTTTTCAAAGTCCACAACT
1 ACTCTGTGGCA-CCTTTTTTTCAAAGTCCACAACTCTGTGGCATCCTTTTTCAAAGTCCACAACT
*
419553 TCATGGCACGCTTTTAAAGTCCACA
65 CCATGGCAC-CTTTTAAAGTCCACA
** * * * * *
419578 ACTCCATGGCACCTTTTTTTTAAAGTCCATAACTCCGTGGCA-CCTTTTTTTAAAGTCTACAACT
1 ACTCTGTGGCACCTTTTTTTCAAAGTCCACAACTCTGTGGCATCC-TTTTTCAAAGTCCACAACT
* *
419642 CCATGACACCTTTTTTAAGTCCACA
65 CCATGGCACC-TTTTAAAGTCCACA
* * *
419667 ACTCTATGGCACC-TTTTTT-AAAGTCCACAACTCTATGGCA-CCTTTTTTAAAGTCCACAACTC
1 ACTCTGTGGCACCTTTTTTTCAAAGTCCACAACTCTGTGGCATCCTTTTTCAAAGTCCACAACTC
* *
419729 CGTGGCACCATTTTTAAAGTTCACA
66 CATGGCACC--TTTTAAAGTCCACA
* * *
419754 ACTCTGTGACACATTTTTCTTCAAAGTCGACAACTC
1 ACTCTGTGGCACCTTTTT-TTCAAAGTCCACAACTC
419790 CGGGGCACCC
Statistics
Matches: 322, Mismatches: 57, Indels: 22
0.80 0.14 0.05
Matches are distributed among these distances:
86 26 0.08
87 43 0.13
88 27 0.08
89 119 0.37
90 85 0.26
91 22 0.07
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (88 bp):
ACTCTGTGGCACCTTTTTTTCAAAGTCCACAACTCTGTGGCATCCTTTTTCAAAGTCCACAACTC
CATGGCACCTTTTAAAGTCCACA
Found at i:419771 original size:29 final size:29
Alignment explanation
Indices: 419311--419757 Score: 387
Period size: 29 Copynumber: 15.1 Consensus size: 29
419301 CAAGTTCATG
* *
419311 ACTCCGTGGCATCTTTTTTAAAGTCCACA
1 ACTCCATGGCACCTTTTTTAAAGTCCACA
* * * *
419340 ACTCTATGGCATCCCTTTTCAAAGTCTACA
1 ACTCCATGGCA-CCTTTTTTAAAGTCCACA
*
419370 ACTCCATGGCATCTTTTTTAAAGTCCACA
1 ACTCCATGGCACCTTTTTTAAAGTCCACA
*
419399 ACTCCGTGGCACCTTTTTCTTCAAAGTCCACA
1 ACTCCATGGCACC-TTTT-TT-AAAGTCCACA
** * * * * *
419431 ACTCTGTGGTATCTCTTTCAAAGTCCATA
1 ACTCCATGGCACCTTTTTTAAAGTCCACA
** * * * *
419460 ACTCTGTGGCATCTCTTTTAAAGTCTATA
1 ACTCCATGGCACCTTTTTTAAAGTCCACA
*** * * * *
419489 ACTTTGTGACATCCCATTGTCAAAGTCCACA
1 ACTCCATGGCA--CCTTTTTTAAAGTCCACA
** * * *
419520 ACTCTGTCGTATCCTTTTTCAAAGTCCACA
1 ACTCCATGGCA-CCTTTTTTAAAGTCCACA
*
419550 ACTTCATGGCACGC--TTTTAAAGTCCACA
1 ACTCCATGGCAC-CTTTTTTAAAGTCCACA
*
419578 ACTCCATGGCACCTTTTTTTTAAAGTCCATA
1 ACTCCATGGCACC--TTTTTTAAAGTCCACA
* *
419609 ACTCCGTGGCACCTTTTTTTAAAGTCTACA
1 ACTCCATGGCACC-TTTTTTAAAGTCCACA
*
419639 ACTCCATGACACCTTTTTT-AAGTCCACA
1 ACTCCATGGCACCTTTTTTAAAGTCCACA
*
419667 ACTCTATGGCACCTTTTTTAAAGTCCACA
1 ACTCCATGGCACCTTTTTTAAAGTCCACA
*
419696 ACTCTATGGCACCTTTTTTAAAGTCCACA
1 ACTCCATGGCACCTTTTTTAAAGTCCACA
* * *
419725 ACTCCGTGGCACCATTTTTAAAGTTCACA
1 ACTCCATGGCACCTTTTTTAAAGTCCACA
419754 ACTC
1 ACTC
419758 TGTGACACAT
Statistics
Matches: 348, Mismatches: 58, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
27 1 0.00
28 49 0.14
29 152 0.44
30 78 0.22
31 48 0.14
32 20 0.06
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (29 bp):
ACTCCATGGCACCTTTTTTAAAGTCCACA
Found at i:419872 original size:31 final size:31
Alignment explanation
Indices: 419793--420104 Score: 253
Period size: 31 Copynumber: 9.9 Consensus size: 31
419783 ACAACTCCGG
* * *
419793 GGCACCCCTTCGAAAG-CCACACAAG-TCGAC
1 GGCAACCCTTCTAAAGCCCACACAAGTTCG-T
* *
419823 GGCAACCCTTCTCTAAAGCCCACAAAAGTTAGT
1 GGCAACCC-T-TCTAAAGCCCACACAAGTTCGT
* *
419856 GGCAACCCTTCGAAAGCCCACATAAG-TCGAT
1 GGCAACCCTTCTAAAGCCCACACAAGTTCG-T
*
419887 GGCAACCCTTCTCTAAAGCCCATACAAG-TCGGT
1 GGCAACCC-T-TCTAAAGCCCACACAAGTTC-GT
*
419920 GGCAACCCCTCTAAAGCCCACACAAG-TCGGT
1 GGCAACCCTTCTAAAGCCCACACAAGTTC-GT
* * ** *
419951 GGCAACCCTTCGAAAGCCTACA-TGGGTCGAT
1 GGCAACCCTTCTAAAGCCCACACAAGTTCG-T
* * *
419982 GGAAACCCTTTTTTAAAGCCCATACAAG-TCGAT
1 GGCAACCC--TTCTAAAGCCCACACAAGTTCG-T
*
420015 GGCAACCCTTCTAAAGCCCACACAAGTTAGT
1 GGCAACCCTTCTAAAGCCCACACAAGTTCGT
* *
420046 GGCAACCCTTCTAAAGTCCACACATG-TCGGT
1 GGCAACCCTTCTAAAGCCCACACAAGTTC-GT
*
420077 GGCAACCATTTCTAAAGCCCACACAAGT
1 GGCAACC-CTTCTAAAGCCCACACAAGT
420105 CGATAGTAAC
Statistics
Matches: 230, Mismatches: 35, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
30 12 0.05
31 125 0.54
32 26 0.11
33 63 0.27
34 4 0.02
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.19
Consensus pattern (31 bp):
GGCAACCCTTCTAAAGCCCACACAAGTTCGT
Found at i:419898 original size:64 final size:63
Alignment explanation
Indices: 419793--420104 Score: 335
Period size: 64 Copynumber: 4.9 Consensus size: 63
419783 ACAACTCCGG
* * * *
419793 GGCACCCCTTCGAAAG-CCACACAAGTCGACGGCAACCCTTCTCTAAAGCCCACAAAAGTTAGT
1 GGCAACCCTTCTAAAGCCCACACAAGTCGATGGCAACCCTT-TCTAAAGCCCACACAAGTTAGT
* * * **
419856 GGCAACCCTTCGAAAGCCCACATAAGTCGATGGCAACCCTTCTCTAAAGCCCATACAAGTCGGT
1 GGCAACCCTTCTAAAGCCCACACAAGTCGATGGCAACCCTT-TCTAAAGCCCACACAAGTTAGT
* * * * ** * *
419920 GGCAACCCCTCTAAAGCCCACACAAGTCGGTGGCAACCC-TTCGAAAGCCTACA-TGGGTCGAT
1 GGCAACCCTTCTAAAGCCCACACAAGTCGATGGCAACCCTTTCTAAAGCCCACACAAGTTAG-T
* * *
419982 GGAAACCCTTTTTTAAAGCCCATACAAGTCGATGGCAACCC-TTCTAAAGCCCACACAAGTTAGT
1 GGCAACCC--TTCTAAAGCCCACACAAGTCGATGGCAACCCTTTCTAAAGCCCACACAAGTTAGT
* * * *
420046 GGCAACCCTTCTAAAGTCCACACATGTCGGTGGCAACCATTTCTAAAGCCCACACAAGT
1 GGCAACCCTTCTAAAGCCCACACAAGTCGATGGCAACCCTTTCTAAAGCCCACACAAGT
420105 CGATAGTAAC
Statistics
Matches: 206, Mismatches: 37, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
61 2 0.01
62 43 0.21
63 35 0.17
64 123 0.60
65 3 0.01
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.19
Consensus pattern (63 bp):
GGCAACCCTTCTAAAGCCCACACAAGTCGATGGCAACCCTTTCTAAAGCCCACACAAGTTAGT
Found at i:419955 original size:95 final size:95
Alignment explanation
Indices: 419796--420137 Score: 402
Period size: 95 Copynumber: 3.6 Consensus size: 95
419786 ACTCCGGGGC
* * * * *
419796 ACCCCTTCGAAAG-CCACACAAGTCGACGGCAACCCTTCTCTAAAGCCCACAAAAGTTAGTGGCA
1 ACCCTTTCTAAAGCCCACACAAGTCGATGGCAACCC-TCTCTAAAGCCCACACAAGTCAGTGGCA
419860 ACCCTTCGAAAGCCCACATAAGTCGATGGCA
65 ACCCTTCGAAAGCCCACATAAGTCGATGGCA
* * *
419891 ACCCTTCTCTAAAGCCCATACAAGTCGGTGGCAACCC-CTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTT-TCTAAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTCAGTGGCA
* ** *
419955 ACCCTTCGAAAGCCTACATGGGTCGATGGAA
65 ACCCTTCGAAAGCCCACATAAGTCGATGGCA
* * *
419986 ACCCTTTTTTAAAGCCCATACAAGTCGATGGCAACCCT-TCTAAAGCCCACACAAGTTAGTGGCA
1 ACCC-TTTCTAAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTCAGTGGCA
* * * * *
420050 ACCCTTCTAAAGTCCACACATGTCGGTGGCA
65 ACCCTTCGAAAGCCCACATAAGTCGATGGCA
* * * * * *
420081 ACCATTTCTAAAGCCCACACAAGTCGATAGTAACCCTCTCAAAAGGCCGCACAAGTC
1 ACCCTTTCTAAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTC
420138 GATAGCATCT
Statistics
Matches: 209, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
94 29 0.14
95 153 0.73
96 8 0.04
97 19 0.09
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (95 bp):
ACCCTTTCTAAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTCAGTGGCAA
CCCTTCGAAAGCCCACATAAGTCGATGGCA
Found at i:420290 original size:52 final size:51
Alignment explanation
Indices: 420208--420510 Score: 222
Period size: 52 Copynumber: 5.8 Consensus size: 51
420198 AAACCATCTC
* *
420208 TTTTTAAGT-CAATGTCATTGGCTTTAAATCAGCACATTGGCACATTTTTC-
1 TTTTTAAGTCCAATGTCATTGGC-TTGAATCAGCACATTGGCACATTTGTCA
* * * *
420258 TTTCTTAAGTCCAATGTCGTTGGTCTTCAATCAGCATATTAGCATC-TTTGTCA
1 TTT-TTAAGTCCAATGTCATTGG-CTTGAATCAGCACATTGGCA-CATTTGTCA
** * * * *** * *
420311 TTCCTAAGCCCAATATTACTAATCTTGAATCAGCACATAGGCACCTTTGTCA
1 TTTTTAAGTCCAATGTCA-TTGGCTTGAATCAGCACATTGGCACATTTGTCA
* * * *
420363 TTTTTAAG-CTCAATGTTACTGGCCTTGAATAAGCACATTGGCACCTTTGTCA
1 TTTTTAAGTC-CAATGTCATTGG-CTTGAATCAGCACATTGGCACATTTGTCA
* * * * *
420415 TTTTAAAGTCTAATGTCGTTGGCATTAAATCAGCACATT-G-ACATTCTTTTCA
1 TTTTTAAGTCCAATGTCATTGGC-TTGAATCAGCACATTGGCACA-T-TTGTCA
* *
420467 TTTTCAAGTCCAATGTCATTGGCCTTGAATTAGCACATTGGCAC
1 TTTTTAAGTCCAATGTCATTGG-CTTGAATCAGCACATTGGCAC
420511 CATTCTCATC
Statistics
Matches: 196, Mismatches: 41, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
50 5 0.03
51 11 0.06
52 170 0.87
53 8 0.04
54 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (51 bp):
TTTTTAAGTCCAATGTCATTGGCTTGAATCAGCACATTGGCACATTTGTCA
Found at i:425516 original size:52 final size:52
Alignment explanation
Indices: 425368--425496 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
425358 CGAAATATGA
425368 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
425420 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
425472 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
425497 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:425523 original size:13 final size:13
Alignment explanation
Indices: 425505--425529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
425495 CAAAGATCAG
425505 TGTATCGATACAA
1 TGTATCGATACAA
425518 TGTATCGATACA
1 TGTATCGATACA
425530 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:425596 original size:19 final size:18
Alignment explanation
Indices: 425572--425669 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
425562 TAGCTTATAT
425572 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
425591 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
425604 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
425623 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
425636 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
425656 TGTATCGATACAAA
1 TGTATCGATACAAA
425670 TCTTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:425609 original size:13 final size:13
Alignment explanation
Indices: 425591--425647 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
425581 ACAAAACTTA
425591 TGTATCGATACAT
1 TGTATCGATACAT
425604 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
425622 ATGTATCGATACAT
1 -TGTATCGATACAT
425636 TGTATCGATACA
1 TGTATCGATACA
425648 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:425611 original size:32 final size:32
Alignment explanation
Indices: 425570--425667 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
425560 AGTAGCTTAT
*
425570 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
425602 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
425634 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
425667 A
1 A
425668 AATCTTTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:425674 original size:20 final size:20
Alignment explanation
Indices: 425604--425668 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
425594 ATCGATACAT
425604 TGTATCGATACAACAC-TTA
1 TGTATCGATACAACACTTTA
425623 TGTATCGAT---ACA---T-
1 TGTATCGATACAACACTTTA
425636 TGTATCGATACAACACTTTA
1 TGTATCGATACAACACTTTA
425656 TGTATCGATACAA
1 TGTATCGATACAA
425669 ATCTTTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 9 0.23
14 1 0.03
16 6 0.15
19 10 0.26
20 13 0.33
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (20 bp):
TGTATCGATACAACACTTTA
Found at i:426385 original size:49 final size:49
Alignment explanation
Indices: 426322--426440 Score: 193
Period size: 49 Copynumber: 2.4 Consensus size: 49
426312 ATATGCGGCT
* *
426322 AGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATAAAGGTGCCAATGTGCTAATTCAAGGCC
*
426371 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTAATTCAAGGCC
1 AGCGACATTGGACTTAAAGATAAAGGTGCCAATGTGCTAATTCAAGGCC
* *
426420 AGTGACATTAGACTTAAAGAT
1 AGCGACATTGGACTTAAAGAT
426441 GAAGATGAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (49 bp):
AGCGACATTGGACTTAAAGATAAAGGTGCCAATGTGCTAATTCAAGGCC
Found at i:426686 original size:49 final size:49
Alignment explanation
Indices: 426522--427222 Score: 728
Period size: 49 Copynumber: 14.7 Consensus size: 49
426512 AAAAGGATGT
* * *
426522 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGC
* *
426574 CAATATGCTTATTCAAGGCCAGCTATATTGGACTT--A-AAG-A--TGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* *
426617 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* * *
426666 CAATATGCTGATTCAAGGCCAGCGATATTAGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* * *
426709 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* * *
426758 CCATATGCTGATTCAAGGCCAAG-TATATTCGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCC-AGCTACATTGGACTTAAAGAAGAAGGTGC
* *
426801 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--A-GAAGGTGC
* * * *
426853 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* * * * **
426902 CAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGCAC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--A-GAAGGTGC
* *
426954 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATA-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGGTGC
* *
427003 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* *
427046 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* *
427095 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
*
427138 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* *
427187 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
427223 GAAGGGTTGT
Statistics
Matches: 547, Mismatches: 63, Indels: 81
0.79 0.09 0.12
Matches are distributed among these distances:
42 2 0.00
43 184 0.34
44 1 0.00
45 2 0.00
46 6 0.01
47 1 0.00
48 2 0.00
49 228 0.42
50 4 0.01
51 1 0.00
52 116 0.21
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
Found at i:426700 original size:92 final size:94
Alignment explanation
Indices: 426522--427222 Score: 740
Period size: 92 Copynumber: 7.4 Consensus size: 94
426512 AAAAGGATGT
* * *
426522 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTTATT
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AAAAGGTGCCAATATGCTGATT
426587 CAAGGCCAGCTATATTGGACTTAAAG-A-TGC
63 CAAGGCCAGCTATATTGGACTTAAAGAAGTGC
* * *
426617 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAA
* *
426682 GGCCAGCGATATTAGACTTAAAG--GTGC
66 GGCCAGCTATATTGGACTTAAAGAAGTGC
* * *
426709 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAA-GTGCCCATATGCTGATTCA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AAAAGGTGCCAATATGCTGATTCA
*
426773 AGGCCAAG-TATATTCGACTTAAAG--GTGC
65 AGGCC-AGCTATATTGGACTTAAAGAAGTGC
*
426801 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--A-AAAGGTGCCAATATGCTGATT
*
426866 CAAGGCCAGCGATATTGGACTTGAAGATGAAGGTGC
63 CAAGGCCAGCTATATTGGACTT-AA-A-GAA-GTGC
* * * **
426902 CAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--A-AAAGGTGCCAATATGCTGATT
*
426967 CAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAG---AA-GTGC
* * * *
427003 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G---GAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAA
*
427062 GGCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GGCCAGCTATATTGGACTT-AA-A-GAA-GTGC
* * *
427095 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT------AAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAA
*
427154 GGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
66 GGCCAGCTATATTGGACTT--A-AAGAA-GTGC
* *
427187 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
427223 GAAGGGTTGT
Statistics
Matches: 548, Mismatches: 35, Indels: 48
0.87 0.06 0.08
Matches are distributed among these distances:
92 326 0.59
93 9 0.02
94 7 0.01
95 71 0.13
96 2 0.00
97 1 0.00
98 3 0.01
99 1 0.00
100 2 0.00
101 126 0.23
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (94 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGAAGTGC
Found at i:426818 original size:21 final size:21
Alignment explanation
Indices: 426754--426818 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
426744 AAAGATGAAA
*
426754 GTGCCCATATGCTGATTCAA-
1 GTGCCAATATGCTGATTCAAG
** *
426774 G-GCCAAGTATATTCGACTTAAAG
1 GTGCCAA-TATGCT-GA-TTCAAG
426797 GTGCCAATATGCTGATTCAAG
1 GTGCCAATATGCTGATTCAAG
426818 G
1 G
426819 CCAGCTACAT
Statistics
Matches: 33, Mismatches: 7, Indels: 9
0.67 0.14 0.18
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 8 0.24
22 6 0.18
23 5 0.15
24 5 0.15
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (21 bp):
GTGCCAATATGCTGATTCAAG
Found at i:427302 original size:65 final size:65
Alignment explanation
Indices: 427215--427704 Score: 581
Period size: 65 Copynumber: 7.6 Consensus size: 65
427205 CCAGCTATAT
* * *
427215 TGGGC-TTAGA-AGGGTTGTCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
427278 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCGACTTGT
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGGTTGCCACCGACTTGT
427342 G
65 G
* * * *
427343 TGGGCTTT-GAAAAAGGTTGCCATCGACTTGTGTGGGCTTTAGAG--GGGATTGCCACCAACTTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGG-TTGCCACCGACTTG
427405 TG
64 TG
* * *
427407 TGGGCTTTAGAGAAAGGTTGCCACCGACTTGTGTGAGCTTT-GAAAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
427471 G
65 G
* * * * *
427472 TGGGCTTTGGAAAAAGGTTGCCATCGACTTGTGTGGGCTTT-GAAAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
427536 G
65 G
* * *
427537 TGGGCTTTTGA-AGGGATTGCCACCGACTTGTGTGGGCTTTAGAGAAAGATTGCCACCGACTTGT
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
427601 G
65 G
* * * **
427602 TGGGCTTTAGAG-GGGATTGCCACCAATTTGTGTGGGCTTTAGAAGAA-AGTTGCCACTAACTTG
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGGTTGCCACCGACTTG
427665 TG
64 TG
*
427667 TGGGCTTT-GAGAAGGGGATTGCCACCAACTTGTGTGGG
1 TGGGCTTTAGAG-A-GGG-TTGCCACCGACTTGTGTGGG
427705 AAGGGGGTGC
Statistics
Matches: 380, Mismatches: 29, Indels: 32
0.86 0.07 0.07
Matches are distributed among these distances:
63 10 0.03
64 61 0.16
65 274 0.72
66 12 0.03
67 23 0.06
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.29
Consensus pattern (65 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
Found at i:427395 original size:97 final size:97
Alignment explanation
Indices: 427215--427704 Score: 574
Period size: 97 Copynumber: 5.0 Consensus size: 97
427205 CCAGCTATAT
* * * *
427215 TGGGC-TTAGAAG--GGTTGTCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-GAAAAAGGTTGCCACCGACTTGT
427277 GTGGGCTTTAGAGAGGG-TTGCCACCGACTTGTG
65 GTGGGCTTTAGAG-GGGATTGCCACCGACTTGTG
*
427310 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAAGGTTGCCATCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAAGGTTGCCACCGACTTGTG
*
427375 TGGGCTTTAGAGGGGATTGCCACCAACTTGTG
66 TGGGCTTTAGAGGGGATTGCCACCGACTTGTG
* *
427407 TGGGCTTTAG-AGAAAGGTTGCCACCGACTTGTGTGAGCTTTGAAAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAGAAG-AAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAAGGTTGCCACCGACTTGT
* ** *
427471 GTGGGCTTTGGAAAAAGG-TTGCCATCGACTTGTG
65 GTGGGCTTT--AGAGGGGATTGCCACCGACTTGTG
*
427505 TGGGCTTT-GAA-AAGGGTTGCCACCGACTTGTGTGGGCTTTTG--AAGGGATTGCCACCGACTT
1 TGGGCTTTAGAAGAA-GGTTGCCACCGACTTGTGTGGGC-TTTGAAAAAGG-TTGCCACCGACTT
**
427566 GTGTGGGCTTTAGAGAAAGATTGCCACCGACTTGTG
63 GTGTGGGCTTTAGAG-GGGATTGCCACCGACTTGTG
* * * **
427602 TGGGCTTTAG-AG-GGGATTGCCACCAATTTGTGTGGGCTTTAGAAGAAA-GTTGCCACTAACTT
1 TGGGCTTTAGAAGAAGG-TTGCCACCGACTTGTGTGGGCTTT-GAA-AAAGGTTGCCACCGACTT
*
427664 GTGTGGGCTTTGAGAAGGGGATTGCCACCAACTTGTG
63 GTGTGGGCTTT-AG-AGGGGATTGCCACCGACTTGTG
427701 TGGG
1 TGGG
427705 AAGGGGGTGC
Statistics
Matches: 345, Mismatches: 28, Indels: 40
0.84 0.07 0.10
Matches are distributed among these distances:
95 7 0.02
96 26 0.08
97 205 0.59
98 75 0.22
99 28 0.08
100 4 0.01
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.29
Consensus pattern (97 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAAGGTTGCCACCGACTTGTG
TGGGCTTTAGAGGGGATTGCCACCGACTTGTG
Found at i:427505 original size:162 final size:160
Alignment explanation
Indices: 427215--427704 Score: 698
Period size: 162 Copynumber: 3.0 Consensus size: 160
427205 CCAGCTATAT
* * *
427215 TGGGC-TTAGAAGGG-TTGTCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAGGGATTGCCACCGACTTGTGTGGGCTTTAGAGAAAGGTTGCCACCGACTTGTG
* *
427278 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
66 TGGGCTTTA-AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCA-CGACTTGTG
* *
427343 TGGGCTTTGAAAAAGGTTGCCATCGACTTGTG
129 TGGGCTTTGAAAAGGGTTGCCACCGACTTGTG
* *
427375 TGGGCTTTAGAGGGGATTGCCACCAACTTGTGTGGGCTTTAGAGAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGGGATTGCCACCGACTTGTGTGGGCTTTAGAGAAAGGTTGCCACCGACTTGTG
* *
427440 TGAGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAAAGGTTGCCATCGACTTGTG
66 TGGGCTTT-AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCA-CGACTTGTG
427505 TGGGCTTTGAAAAGGGTTGCCACCGACTTGTG
129 TGGGCTTTGAAAAGGGTTGCCACCGACTTGTG
* *
427537 TGGGCTTTTGAAGGGATTGCCACCGACTTGTGTGGGCTTTAGAGAAAGATTGCCACCGACTTGTG
1 TGGGCTTTAGAAGGGATTGCCACCGACTTGTGTGGGCTTTAGAGAAAGGTTGCCACCGACTTGTG
* * * * *
427602 TGGGCTTTAGAGGGGATTGCCACCAATTTGTGTGGGCTTTAGAAGAAA-GTTGCCACTAACTTGT
66 TGGGCTTTAAAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAA-AAAGGTTGCCAC-GACTTGT
* *
427666 GTGGGCTTTGAGAAGGGGATTGCCACCAACTTGTG
128 GTGGGCTTTGA-AAAGGG-TTGCCACCGACTTGTG
427701 TGGG
1 TGGG
427705 AAGGGGGTGC
Statistics
Matches: 297, Mismatches: 25, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
160 5 0.02
161 14 0.05
162 250 0.84
163 9 0.03
164 19 0.06
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.29
Consensus pattern (160 bp):
TGGGCTTTAGAAGGGATTGCCACCGACTTGTGTGGGCTTTAGAGAAAGGTTGCCACCGACTTGTG
TGGGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACGACTTGTGTG
GGCTTTGAAAAGGGTTGCCACCGACTTGTG
Found at i:427782 original size:34 final size:34
Alignment explanation
Indices: 427711--427862 Score: 181
Period size: 34 Copynumber: 4.5 Consensus size: 34
427701 TGGGAAGGGG
*
427711 GTGCCACGGAGTTGTGGGCTTTAAA--AAAAA-A
1 GTGCCACGGAGTTGTGGACTTTAAAGGAAAAAGA
427742 GTTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGA
1 G-TGCCACGGAGTTGTGGACTTTA-AAGGAAAAAGA
* *
427777 GTGCCACAGAGTTGTGGAC-TTAAAAGAAACAAG-
1 GTGCCACGGAGTTGTGGACTTTAAAGGAAA-AAGA
*
427810 GTGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTT-AAA-GGAAAAAGA
427846 GTGCCACGGAGTTGTGG
1 GTGCCACGGAGTTGTGG
427863 GCTTGCT
Statistics
Matches: 104, Mismatches: 7, Indels: 15
0.83 0.06 0.12
Matches are distributed among these distances:
31 4 0.04
32 19 0.18
33 23 0.22
34 30 0.29
35 8 0.08
36 20 0.19
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (34 bp):
GTGCCACGGAGTTGTGGACTTTAAAGGAAAAAGA
Found at i:427827 original size:67 final size:68
Alignment explanation
Indices: 427711--427862 Score: 220
Period size: 69 Copynumber: 2.2 Consensus size: 68
427701 TGGGAAGGGG
* * *
427711 GTGCCACGGAGTTGTGGGCTTTAAAAAAAAAGTTGCCACGGAGTTGTGGAC-TTAGAA-GGAAAA
1 GTGCCACGGAGTTGTGGACTTTAAAAAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
427774 AGA
66 AGA
* *
427777 GTGCCACAGAGTTGTGGAC-TTAAAAGAAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAA
1 GTGCCACGGAGTTGTGGACTTTAAAA-AAA-AAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAA
427841 AAAGA
64 AAAGA
427846 GTGCCACGGAGTTGTGG
1 GTGCCACGGAGTTGTGG
427863 GCTTGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
65 6 0.08
66 20 0.26
67 20 0.26
68 5 0.07
69 25 0.33
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (68 bp):
GTGCCACGGAGTTGTGGACTTTAAAAAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
AGA
Done.