Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009014.1 Hibiscus syriacus cultivar Beakdansim tig00112402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3470424
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 13
Found at i:237932 original size:40 final size:40
Alignment explanation
Indices: 237887--237962 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
237877 TTTAATAATG
237887 ATTAAATATTTAAATTTTATCTT-AATATTTAAATATTTAA
1 ATTAAATATTTAAATTTTAT-TTAAATATTTAAATATTTAA
* *
237927 ATTAAATCTTTAATTTTTATTTAAATATTTAAATAT
1 ATTAAATATTTAAATTTTATTTAAATATTTAAATAT
237963 AAATTTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (40 bp):
ATTAAATATTTAAATTTTATTTAAATATTTAAATATTTAA
Found at i:237933 original size:32 final size:31
Alignment explanation
Indices: 237896--237968 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 31
237886 GATTAAATAT
237896 TTAAATTTT-ATCTTAATATTTAAATATTTAAA
1 TTAAATTTTAAT-TT-ATATTTAAATATTTAAA
*
237928 TTAAATCTTTAATTTTTATTTAAATATTTAAA
1 TTAAAT-TTTAATTTATATTTAAATATTTAAA
237960 TATAAATTT
1 T-TAAATTT
237969 CATTGTACCA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
32 25 0.68
33 10 0.27
34 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (31 bp):
TTAAATTTTAATTTATATTTAAATATTTAAA
Found at i:239203 original size:14 final size:14
Alignment explanation
Indices: 239172--239200 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
239162 TTCTTTAATT
239172 AATTTAAGATAAAA
1 AATTTAAGATAAAA
239186 AATTTAA-ATAAAA
1 AATTTAAGATAAAA
239199 AA
1 AA
239201 ATTACCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AATTTAAGATAAAA
Found at i:239468 original size:14 final size:15
Alignment explanation
Indices: 239441--239472 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
239431 GTTTTTAATT
239441 AATTTAAGATAAAAA
1 AATTTAAGATAAAAA
239456 AATTTAA-ATAAAAA
1 AATTTAAGATAAAAA
239470 AAT
1 AAT
239473 ACCTTATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AATTTAAGATAAAAA
Found at i:249173 original size:43 final size:43
Alignment explanation
Indices: 249120--249521 Score: 479
Period size: 43 Copynumber: 9.4 Consensus size: 43
249110 AATGCCGCCT
* * *
249120 AGGTCAAGATCTATAGCGGCGTTTTTTGA-ACAAATGCTGCAAA
1 AGGTC-AGATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAA
*
249163 AGGTCGAGATCTATAGCGGCGTTTATGGA-ACAAACGCCGCAAA
1 AGGTC-AGATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAA
* * * *
249206 AGGTAAGATATTTAGCGGCGTTTTTGGATACAAACGCCGCAAA
1 AGGTCAGATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAA
* * ** * * **
249249 AAGTCAGATAT-TAAGCAACGTTTTTTGATACAAACGCTACAAA
1 AGGTCAGATCTAT-AGCGGCGTTTTTGGACACAAACGCCGCAAA
*
249292 AGGTCAGATCTATAGCGGCGATTTTGGA-ACAAACGCCGCAAA
1 AGGTCAGATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAA
* * *
249334 AGGTCATATCTATAGCGGTGTTTTTTGACACAAACGCCGCAAA
1 AGGTCAGATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAA
*
249377 AGGTCAGATCTATAGCGGCATTTTTGGACACAAACGCCGCAAA
1 AGGTCAGATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAA
* * *
249420 AGGTCAGATCTATTGCGGTGTTTTTGGACACAAACGCCACAAA
1 AGGTCAGATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAA
* * * *
249463 AGGTTAAATCTATAGCAGCATTTTTGGACACAAACGCCGCAAA
1 AGGTCAGATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAA
* *
249506 AGGTTAAATCTATAGC
1 AGGTCAGATCTATAGC
249522 AGCAATTTTG
Statistics
Matches: 312, Mismatches: 43, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
42 57 0.18
43 254 0.81
44 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (43 bp):
AGGTCAGATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAA
Found at i:249320 original size:128 final size:125
Alignment explanation
Indices: 249126--249522 Score: 463
Period size: 128 Copynumber: 3.1 Consensus size: 125
249116 GCCTAGGTCA
** *
249126 AGATCTATAGCGGCGTTTTTTGAACAAATGCTGCAAAAGGTCGAGATCTATAGCGGCGTTTATGG
1 AGATCTATAGCAACGTTTTTTGAACAAACGCTGCAAAAGGTC-AGATCTATAGCGGCGTTT-TGG
* * *
249191 AACAAACGCCGCAAAAGGTAAGATATTTAGCGGCGTTTTTGGATACAAACGCCGCAAAAAGTC
64 AACAAACGCCGCAAAAGGTAA-ATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAAAAGTC
* *
249254 AGATAT-TAAGCAACGTTTTTTGATACAAACGCTACAAAAGGTCAGATCTATAGCGGCGATTTTG
1 AGATCTAT-AGCAACGTTTTTTGA-ACAAACGCTGCAAAAGGTCAGATCTATAGCGGCG-TTTTG
* * * *
249318 GAACAAACGCCGCAAAAGGTCATATCTATAGCGGTGTTTTTTGACACAAACGCCGCAAAAGGTC
63 GAACAAACGCCGCAAAAGGT-AAATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAAAAGTC
** * * * * *
249382 AGATCTATAGCGGCATTTTTGGACACAAACGCCGCAAAAGGTCAGATCTATTGCGGTGTTTTTGG
1 AGATCTATAGCAACGTTTTTTGA-ACAAACGCTGCAAAAGGTCAGATCTATAGCGGCG-TTTTGG
* * * * *
249447 ACACAAACGCCACAAAAGGTTAAATCTATAGCAGCATTTTTGGACACAAACGCCGCAAAAGGTT
64 A-ACAAACGCCGCAAAAGG-TAAATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAAAAGTC
*
249511 AAATCTATAGCA
1 AGATCTATAGCA
249523 GCAATTTTGG
Statistics
Matches: 230, Mismatches: 32, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
127 1 0.00
128 143 0.62
129 85 0.37
130 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (125 bp):
AGATCTATAGCAACGTTTTTTGAACAAACGCTGCAAAAGGTCAGATCTATAGCGGCGTTTTGGAA
CAAACGCCGCAAAAGGTAAATCTATAGCGGCGTTTTTGGACACAAACGCCGCAAAAAGTC
Found at i:252247 original size:3 final size:3
Alignment explanation
Indices: 252241--252312 Score: 87
Period size: 3 Copynumber: 23.7 Consensus size: 3
252231 ATTATTTTTT
252241 TAA TAA TAA TAA TAA T-A TATA TAA TAA T-A TATA TAAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A T-AA TAA TAA TAA
252287 TAA TAA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TA
252313 TTCAAATAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 14
0.82 0.00 0.18
Matches are distributed among these distances:
2 6 0.10
3 46 0.74
4 9 0.15
5 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:252757 original size:113 final size:113
Alignment explanation
Indices: 252574--253025 Score: 670
Period size: 113 Copynumber: 4.0 Consensus size: 113
252564 AGAATCATGC
*
252574 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGTGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * * *
252639 TATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCA
65 TATGAACTCGCCCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCA
* * *
252688 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
252753 ATGAACTCGCCCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCA
66 ATGAACTCGCCCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCA
* *
252801 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
252866 ATGAACTCGCCCTGGCAATGCTGATCCATCGAATGATGAATTTAAGCG
66 ATGAACTCGCCCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCA
* * *
252914 AACAGTTGAACAAGTTCTTCTCATTATGAACTTGTTCTTCCTTCTTCAGATGAGTTCTACTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * ** *
252979 ATGAACTCTTTCACTGGGGATGCTGATCCATCAAATGATGAATTCAA
66 ATGAACTC--GCCCTGGCAATGCTGATCCATCGAATGATGAATTCAA
253026 ATTCTTCTCA
Statistics
Matches: 311, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
113 275 0.88
114 5 0.02
115 31 0.10
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGCCCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCA
Found at i:253182 original size:212 final size:212
Alignment explanation
Indices: 252815--253555 Score: 804
Period size: 212 Copynumber: 3.4 Consensus size: 212
252805 GTTGAACAAG
* * *
252815 TTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATTATGAACTCGCCCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGTCCTG
*
252880 GCAATGCTGATCCATCGAA-TGATGAATTTAAGCGAACA-GTTGAACAAGTTCTTCTCATTATGA
66 GCAATGCTGATCCATC-AAGTGATGAATTTAAGC-AAAAGGTTGAACAAGTTCTTCTCATTATGA
* *
252943 ACTTGTTCTTCCTTCTTCAGATGAGTTCTACTCATTATGAACTCTTTCACTGGGGATGCTGATCC
129 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCACTGGGGATGCTGATCC
253008 ATCAAATGATGAATTCAAA
194 ATCAAATGATGAATTCAAA
* * * *
253027 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCTTTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGTCCTG
* * * *
253092 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
66 GCAATGCTGATCCATCAAGTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
**
253157 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCACT-GGGATAATGATCCAT
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCACTGGGGATGCTGATCCAT
*
253221 CGAATGATGAATTCAAA
196 CAAATGATGAATTCAAA
*** * *** *
253238 ----TAAAAGGT-TGAACAAATTCTT-CTTTTTCAGATAACGAGTTCTTCTCATTATGAACTC-T
1 TTCTTCTCA-TTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCGT
* * * * *
253296 ACTTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGCTCTTCTCATTA
62 -CCTGGCAATGCTGATCCATCAAGTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTA
* * * ** *
253361 TGAACTTCTTTTTCCTTCTTCAGATAAGTTCTTCTCATTATGAA--CTTTCTCTGGAAAAGCTGA
126 TGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCACTGGGGATGCTGA
*
253424 TCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAG
191 TCCATCAA---AT-GA--TG-----AA--TT---CAAA
* * *
253462 CTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGTCCTG
* * *
253527 GTAATGTTGATCCATCAAGTGATGGATTT
66 GCAATGCTGATCCATCAAGTGATGAATTT
253556 GAGCTTTGCT
Statistics
Matches: 437, Mismatches: 61, Indels: 48
0.80 0.11 0.09
Matches are distributed among these distances:
206 10 0.02
207 18 0.04
208 14 0.03
209 117 0.27
211 36 0.08
212 160 0.37
214 2 0.00
219 2 0.00
221 2 0.00
224 3 0.01
226 51 0.12
227 1 0.00
228 11 0.03
229 10 0.02
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (212 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGTCCTG
GCAATGCTGATCCATCAAGTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCACTGGGGATGCTGATCCAT
CAAATGATGAATTCAAA
Found at i:253354 original size:95 final size:95
Alignment explanation
Indices: 253177--253355 Score: 245
Period size: 95 Copynumber: 1.9 Consensus size: 95
253167 TTCTTCAGAT
* * *
253177 GAGTTCTTCTCATTATGAACTCTTTCACTGGGATAATGATCCATCGAATGATGAATTCAAATAAA
1 GAGTTCTTCTCATTATGAACTC-TTCACTGGAATAATGATCCATCAAATGATGAATTCAAACAAA
*
253242 AGGTTGAACAAATTCTTCTTTTTCAGATAAC
65 AGGTTGAACAAACTCTTCTTTTTCAGATAAC
** *
253273 GAGTTCTTCTCATTATGAACTC-T-ACTTGGCAATGTTGATCCATCAAATGATGAATTTAAACAA
1 GAGTTCTTCTCATTATGAACTCTTCAC-TGG-AATAATGATCCATCAAATGATGAATTCAAACAA
*
253336 AAGGTTGAACAAGCTCTTCT
64 AAGGTTGAACAAACTCTTCT
253356 CATTATGAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
93 2 0.03
94 4 0.05
95 45 0.62
96 22 0.30
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (95 bp):
GAGTTCTTCTCATTATGAACTCTTCACTGGAATAATGATCCATCAAATGATGAATTCAAACAAAA
GGTTGAACAAACTCTTCTTTTTCAGATAAC
Found at i:253556 original size:113 final size:113
Alignment explanation
Indices: 253273--253557 Score: 437
Period size: 113 Copynumber: 2.5 Consensus size: 113
253263 TTCAGATAAC
* * * * *
253273 GAGTTCTTCTCATTATGAACTCTACTTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAA
1 GAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGGATTTGAACAAAA
*
253338 GGTTGAACAAGCTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGAT
66 GGTTGAACAAGCTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGAT
* * * * *
253386 AAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGATCAAA
1 GAGTTCTTCTCATTATGAACTCTAC-CTGGAAATGTTGATCCATCAAGTGATGGATTTGAACAAA
253450 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGAT
65 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGAT
* *
253499 GAGTTCTTCTCATTATGAACTCGACCTGGTAATGTTGATCCATCAAGTGATGGATTTGA
1 GAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGGATTTGA
253558 GCTTTGCTAA
Statistics
Matches: 153, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
112 2 0.01
113 150 0.98
114 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (113 bp):
GAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGGATTTGAACAAAA
GGTTGAACAAGCTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGAT
Found at i:253982 original size:22 final size:22
Alignment explanation
Indices: 253957--254030 Score: 121
Period size: 22 Copynumber: 3.4 Consensus size: 22
253947 GATAAAGCTT
* *
253957 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTAAAAAGGGAATCTG
253979 TCATCTTTAAAAAGGGAATCTG
1 TCATCTTTAAAAAGGGAATCTG
*
254001 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTAAAAAGGGAATCTG
254023 TCATCTTT
1 TCATCTTT
254031 GAAGAGTGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTAAAAAGGGAATCTG
Found at i:254481 original size:54 final size:54
Alignment explanation
Indices: 254399--254564 Score: 271
Period size: 54 Copynumber: 3.1 Consensus size: 54
254389 TCATAATAGC
* * *
254399 ATGTTCGTAAAACATTTGACAGCGCATTCATCCTTTCCTATGGCTTCTGCTCAG
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAG
*
254453 ATGTTAGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAG
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAG
*
254507 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGC-CAAG
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTC-AG
254561 ATGT
1 ATGT
254565 CTCAATCATT
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAG
Found at i:258215 original size:13 final size:13
Alignment explanation
Indices: 258197--258226 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
258187 ATATTCATCA
258197 GGTCCATCAATTT
1 GGTCCATCAATTT
258210 GGTCCATCAATTT
1 GGTCCATCAATTT
258223 GGTC
1 GGTC
258227 AGTTGTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (13 bp):
GGTCCATCAATTT
Found at i:258591 original size:7 final size:7
Alignment explanation
Indices: 258557--258598 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
258547 ATAAGAGTAT
258557 AAATGCA
1 AAATGCA
* *
258564 CAATGAA
1 AAATGCA
258571 AAATGCA
1 AAATGCA
258578 AAGATGCA
1 AA-ATGCA
258586 AAATGC-
1 AAATGCA
258592 AAATGCA
1 AAATGCA
258599 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:260781 original size:21 final size:20
Alignment explanation
Indices: 260744--260787 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
260734 TTTTTCTTTG
*
260744 ATATTAAAAAAAATAAATAA
1 ATATTAAAAAAAATAAAAAA
*
260764 ATATTAAAATATAATAAAAAA
1 ATATTAAAA-AAAATAAAAAA
260785 ATA
1 ATA
260788 ATTTATGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
ATATTAAAAAAAATAAAAAA
Found at i:265107 original size:123 final size:123
Alignment explanation
Indices: 264935--265165 Score: 270
Period size: 123 Copynumber: 1.9 Consensus size: 123
264925 AATATTTAGC
* * * *
264935 GGCGTTTATATTAAAGTGCCACTAAAGTACAAGTATTTAGCGACGTTTGTGCT-TAAAATGCCAC
1 GGCGTTTATATTAAAGCGCCACTAAAGTACAAGTATTTAGCGACATTTGT-ATAT-AAACGCCAC
*
264999 TAAAGTAC-AGTATTTCGCGACATTTATATAAAAACACCACTAAACTATGAGTCTTTAAT
64 TAAAGTACGAGTATTTAGCGACATTTATATAAAAACACCACTAAACTATGAGTCTTTAAT
* * * **
265058 GGCGTTTGTATATAAA-CGCCACTAAAGTACGAGTCTTTAGCGGTATTTGTATATAAACGCCACT
1 GGCGTTTATAT-TAAAGCGCCACTAAAGTACAAGTATTTAGCGACATTTGTATATAAACGCCACT
* * * * **
265122 AAAGTACGAGTCTTTAGTGGCATTTGTATAAAAATGCCACTAAA
65 AAAGTACGAGTATTTAGCGACATTTATATAAAAACACCACTAAA
265166 TCACGAGTCT
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
122 17 0.19
123 68 0.76
124 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (123 bp):
GGCGTTTATATTAAAGCGCCACTAAAGTACAAGTATTTAGCGACATTTGTATATAAACGCCACTA
AAGTACGAGTATTTAGCGACATTTATATAAAAACACCACTAAACTATGAGTCTTTAAT
Found at i:265172 original size:41 final size:40
Alignment explanation
Indices: 264888--265344 Score: 242
Period size: 41 Copynumber: 11.2 Consensus size: 40
264878 ATAATGATTA
* * * * *
264888 TTTAGCGGCGTTTGTACTTAAAACGCCATTAAAGTAC-AATA
1 TTTAGCGGCATTTGTA-TAAAAACGCCACTAAA-TACGAGTC
* * * ** * *
264929 TTTAGCGGCGTTTATATTAAAGTGCCACTAAAGTACAAGTA
1 TTTAGCGGCATTTGTATAAAAACGCCACTAAA-TACGAGTC
* * * * * *
264970 TTTAGCGACGTTTGTGCTTAAAATGCCACTAAAGTAC-AGTA
1 TTTAGCGGCATTTGT-ATAAAAACGCCACTAAA-TACGAGTC
* * * * *
265011 TTTCGCGACATTTATATAAAAACACCACTAAACTATGAGTC
1 TTTAGCGGCATTTGTATAAAAACGCCACTAAA-TACGAGTC
** * *
265052 TTTAATGGCGTTTGTATATAAACGCCACTAAAGTACGAGTC
1 TTTAGCGGCATTTGTATAAAAACGCCACTAAA-TACGAGTC
* *
265093 TTTAGCGGTATTTGTATATAAACGCCACTAAAGTACGAGTC
1 TTTAGCGGCATTTGTATAAAAACGCCACTAAA-TACGAGTC
* *
265134 TTTAGTGGCATTTGTATAAAAATGCCACTAAATCACGAGTC
1 TTTAGCGGCATTTGTATAAAAACGCCACTAAAT-ACGAGTC
* ** * *
265175 TATAGCGGCATTT-TCAATAAAAACATCACTAAATTACAACT-
1 TTTAGCGGCATTTGT--ATAAAAACGCCACTAAA-TACGAGTC
* * * *
265216 TTATAGCGGCGTTTGTACAGAAATGCCACTAAATGAC-AGTC
1 TT-TAGCGGCATTTGTATAAAAACGCCACTAAAT-ACGAGTC
** ** * *
265257 TTTAATGGTGTTTGTATAAAAACACCACTAAAGTAC-ATTC
1 TTTAGCGGCATTTGTATAAAAACGCCACTAAA-TACGAGTC
* * * * * * **
265297 TTTAACGACGTTTTTATAAAAATGCCGCTATTGTACGAGTC
1 TTTAGCGGCATTTGTATAAAAACGCCACTA-AATACGAGTC
265338 TTTAGCG
1 TTTAGCG
265345 ATGTTTGTTC
Statistics
Matches: 331, Mismatches: 71, Indels: 28
0.77 0.17 0.07
Matches are distributed among these distances:
40 91 0.27
41 191 0.58
42 47 0.14
43 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (40 bp):
TTTAGCGGCATTTGTATAAAAACGCCACTAAATACGAGTC
Found at i:265172 original size:82 final size:81
Alignment explanation
Indices: 264888--265344 Score: 332
Period size: 82 Copynumber: 5.6 Consensus size: 81
264878 ATAATGATTA
* * * * * * * * **
264888 TTTAGCGGCGTTTGTACTTAAAACGCCATTAAAGTAC-AATATTTAGCGGCGTTTATATTAAAGT
1 TTTAGCGGCGTTTGTA-TAAAAATGCCACTAAA-TACGAGTCTTTAGCGGCATTTGTATAAAAAC
* *
264952 GCCACTAAAGTACAAGTA
64 ACCACTAAAGTACAAGTC
* * * * * * *
264970 TTTAGCGACGTTTGTGCTTAAAATGCCACTAAAGTAC-AGTATTTCGCGACATTTATATAAAAAC
1 TTTAGCGGCGTTTGT-ATAAAAATGCCACTAAA-TACGAGTCTTTAGCGGCATTTGTATAAAAAC
* **
265034 ACCACTAAACTATGAGTC
64 ACCACTAAAGTACAAGTC
** * * * * *
265052 TTTAATGGCGTTTGTATATAAACGCCACTAAAGTACGAGTCTTTAGCGGTATTTGTATATAAACG
1 TTTAGCGGCGTTTGTATAAAAATGCCACTAAA-TACGAGTCTTTAGCGGCATTTGTATAAAAACA
*
265117 CCACTAAAGTACGAGTC
65 CCACTAAAGTACAAGTC
* * *
265134 TTTAGTGGCATTTGTATAAAAATGCCACTAAATCACGAGTCTATAGCGGCATTT-TCAATAAAAA
1 TTTAGCGGCGTTTGTATAAAAATGCCACTAAAT-ACGAGTCTTTAGCGGCATTTGT--ATAAAAA
* * *
265198 CATCACTAAATTACAACT-
63 CACCACTAAAGTACAAGTC
* * ** **
265216 TTATAGCGGCGTTTGTACAGAAATGCCACTAAATGAC-AGTCTTTAATGGTGTTTGTATAAAAAC
1 TT-TAGCGGCGTTTGTATAAAAATGCCACTAAAT-ACGAGTCTTTAGCGGCATTTGTATAAAAAC
*
265280 ACCACTAAAGTAC-ATTC
64 ACCACTAAAGTACAAGTC
* * * * **
265297 TTTAACGACGTTTTTATAAAAATGCCGCTATTGTACGAGTCTTTAGCG
1 TTTAGCGGCGTTTGTATAAAAATGCCACTA-AATACGAGTCTTTAGCG
265345 ATGTTTGTTC
Statistics
Matches: 298, Mismatches: 67, Indels: 21
0.77 0.17 0.05
Matches are distributed among these distances:
80 26 0.09
81 50 0.17
82 173 0.58
83 49 0.16
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (81 bp):
TTTAGCGGCGTTTGTATAAAAATGCCACTAAATACGAGTCTTTAGCGGCATTTGTATAAAAACAC
CACTAAAGTACAAGTC
Found at i:265367 original size:42 final size:41
Alignment explanation
Indices: 265251--265368 Score: 114
Period size: 40 Copynumber: 2.9 Consensus size: 41
265241 CCACTAAATG
* * *
265251 ACAGTCTTTAATGGTGTTTG-TATAAAAACACCACTAAAGT
1 ACAGTCTTTAACGATGTTTGTTATAAAAACACCGCTAAAGT
* * ** **
265291 ACATTCTTTAACGACGTTT-TTATAAAAATGCCGCTATTGT
1 ACAGTCTTTAACGATGTTTGTTATAAAAACACCGCTAAAGT
* *
265331 ACGAGTCTTTAGCGATGTTTGTTCTAAAAACACCGCTA
1 AC-AGTCTTTAACGATGTTTGTTATAAAAACACCGCTA
265369 CAAATGCCAC
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
40 32 0.53
41 14 0.23
42 14 0.23
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (41 bp):
ACAGTCTTTAACGATGTTTGTTATAAAAACACCGCTAAAGT
Found at i:267279 original size:21 final size:22
Alignment explanation
Indices: 267253--267293 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
267243 TGAAATTATT
*
267253 TTATATCAGTC-TTCTAGTCCA
1 TTATATCAGTCATTCAAGTCCA
*
267274 TTATATGAGTCATTCAAGTC
1 TTATATCAGTCATTCAAGTC
267294 TTATTTAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (22 bp):
TTATATCAGTCATTCAAGTCCA
Found at i:273830 original size:125 final size:125
Alignment explanation
Indices: 273608--273857 Score: 473
Period size: 125 Copynumber: 2.0 Consensus size: 125
273598 GCTACGTACC
*
273608 AGTGAATGTACAAATATTTACTATATAATCACTCCACCTTATGACATGCCAATTGTACCTACGAC
1 AGTGAATGTACAAATATTTACTATATAATCACTCCACCTCATGACATGCCAATTGTACCTACGAC
273673 TCTCAAAGCACTGTAGGCTTTTATGTCACAATCATATCTCATTAATATATCCAATGTATT
66 TCTCAAAGCACTGTAGGCTTTTATGTCACAATCATATCTCATTAATATATCCAATGTATT
273733 AGTGAATGTACAAATATTTACTATATAATCACTCCACCTCATGACATGCCAATTGTACCTACGAC
1 AGTGAATGTACAAATATTTACTATATAATCACTCCACCTCATGACATGCCAATTGTACCTACGAC
* *
273798 TCTCAAGGCACTGTAGGCTTTTATGTCACAATCATATCTCATTCATATATCCAATGTATT
66 TCTCAAAGCACTGTAGGCTTTTATGTCACAATCATATCTCATTAATATATCCAATGTATT
273858 CAAATATACC
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 122 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (125 bp):
AGTGAATGTACAAATATTTACTATATAATCACTCCACCTCATGACATGCCAATTGTACCTACGAC
TCTCAAAGCACTGTAGGCTTTTATGTCACAATCATATCTCATTAATATATCCAATGTATT
Found at i:275584 original size:21 final size:21
Alignment explanation
Indices: 275558--275599 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
275548 ACCCATGAAC
275558 TAATATTTTATTAGCTTCCAT
1 TAATATTTTATTAGCTTCCAT
275579 TAATATTTTATTAGCTTCCAT
1 TAATATTTTATTAGCTTCCAT
275600 CTTTATCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.05, T:0.52
Consensus pattern (21 bp):
TAATATTTTATTAGCTTCCAT
Found at i:277938 original size:21 final size:21
Alignment explanation
Indices: 277880--277929 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
277870 ACATATCAAG
*
277880 GTTTATTAAGCGAAATAGTAA
1 GTTTATTGAGCGAAATAGTAA
277901 GTTTATTGAGCGAAATAGTAA
1 GTTTATTGAGCGAAATAGTAA
277922 -TTTCATTG
1 GTTT-ATTG
277930 GGTCGAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (21 bp):
GTTTATTGAGCGAAATAGTAA
Found at i:281064 original size:15 final size:15
Alignment explanation
Indices: 281036--281073 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
281026 ACACATGAAC
281036 ACATGCAT--GAGAT
1 ACATGCATACGAGAT
*
281049 ACGTGCATACGAGAT
1 ACATGCATACGAGAT
281064 ACATGCATAC
1 ACATGCATAC
281074 ATCATACACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 7 0.33
15 14 0.67
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (15 bp):
ACATGCATACGAGAT
Found at i:282467 original size:14 final size:14
Alignment explanation
Indices: 282448--282499 Score: 86
Period size: 14 Copynumber: 3.7 Consensus size: 14
282438 TCATTAATAT
282448 GTTCATTTATGTTC
1 GTTCATTTATGTTC
282462 GTTCATTTATGTTC
1 GTTCATTTATGTTC
*
282476 ATTCATTTATGTTC
1 GTTCATTTATGTTC
*
282490 GTTTATTTAT
1 GTTCATTTAT
282500 ATTTAGCCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.60
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:282712 original size:23 final size:23
Alignment explanation
Indices: 282684--282747 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
282674 TTATGTTCGT
282684 TTACGTTCATTCATTGTATTCAC
1 TTACGTTCATTCATTGTATTCAC
* * *
282707 TTACGTTTATTCATTTGTGTTCGC
1 TTACGTTCATTCA-TTGTATTCAC
* *
282731 TTACGTTCGTTTATTGT
1 TTACGTTCATTCATTGT
282748 GTTCGTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 16 0.47
24 18 0.53
ACGTcount: A:0.16, C:0.17, G:0.14, T:0.53
Consensus pattern (23 bp):
TTACGTTCATTCATTGTATTCAC
Found at i:282733 original size:24 final size:24
Alignment explanation
Indices: 282669--282761 Score: 91
Period size: 23 Copynumber: 4.0 Consensus size: 24
282659 AAAATTTATT
* *
282669 TTCATTTATGTTCGTTTACGTTCA
1 TTCATTTGTGTTCGCTTACGTTCA
* * *
282693 TTCA-TTGTATTCACTTACGTTTA
1 TTCATTTGTGTTCGCTTACGTTCA
*
282716 TTCATTTGTGTTCGCTTACGTTCG
1 TTCATTTGTGTTCGCTTACGTTCA
* * *
282740 TTTA-TTGTGTTCGTTTATGTTC
1 TTCATTTGTGTTCGCTTACGTTC
282762 GTTTATGTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
23 34 0.61
24 22 0.39
ACGTcount: A:0.14, C:0.16, G:0.15, T:0.55
Consensus pattern (24 bp):
TTCATTTGTGTTCGCTTACGTTCA
Found at i:282762 original size:23 final size:23
Alignment explanation
Indices: 282721--282791 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
282711 GTTTATTCAT
* *
282721 TTGTGTTCGCTTACGTTCGTTTA
1 TTGTGTTCGTTTATGTTCGTTTA
282744 TTGTGTTCGTTTATGTTCGTTTA
1 TTGTGTTCGTTTATGTTCGTTTA
* * * *
282767 TGTTTGTTCATATGTGTTCGTTTA
1 T-TGTGTTCGTTTATGTTCGTTTA
282791 T
1 T
282792 CATTTAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 22 0.54
24 19 0.46
ACGTcount: A:0.10, C:0.11, G:0.21, T:0.58
Consensus pattern (23 bp):
TTGTGTTCGTTTATGTTCGTTTA
Found at i:282784 original size:24 final size:23
Alignment explanation
Indices: 282735--282791 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
282725 GTTCGCTTAC
* *
282735 GTTCGTTTATTGTGTTCGTTTAT
1 GTTCGTTTATTGTGTTCATATAT
* *
282758 GTTCGTTTATGTTTGTTCATATGT
1 GTTCGTTTAT-TGTGTTCATATAT
282782 GTTCGTTTAT
1 GTTCGTTTAT
282792 CATTTAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.11, C:0.09, G:0.21, T:0.60
Consensus pattern (23 bp):
GTTCGTTTATTGTGTTCATATAT
Found at i:305509 original size:21 final size:21
Alignment explanation
Indices: 305480--305522 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
305470 TTCTAGGTTG
305480 TGTGCATCGATGCA-TCTTCAA
1 TGTGCATCGATGCACTC-TCAA
*
305501 TGTGTATCGATGCACTCTCAA
1 TGTGCATCGATGCACTCTCAA
305522 T
1 T
305523 TAAAGAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (21 bp):
TGTGCATCGATGCACTCTCAA
Found at i:309296 original size:19 final size:19
Alignment explanation
Indices: 309253--309302 Score: 86
Period size: 17 Copynumber: 2.7 Consensus size: 19
309243 AATGTAATTC
309253 GTGCATCGATGCATAAGGA
1 GTGCATCGATGCATAAGGA
309272 --GCATCGATGCATAAGGA
1 GTGCATCGATGCATAAGGA
309289 GTGCATCGATGCAT
1 GTGCATCGATGCAT
309303 CCCCTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 17 0.59
19 12 0.41
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (19 bp):
GTGCATCGATGCATAAGGA
Found at i:317500 original size:66 final size:65
Alignment explanation
Indices: 317408--317579 Score: 231
Period size: 66 Copynumber: 2.6 Consensus size: 65
317398 GACAGATTTT
* *
317408 TTTGAAACAAATTTTGTCTCACTTGAGACAGTTTCCCTTGAAACATAAACTTTTGAGATT-ATTA
1 TTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTGAAACATAAACATTTGAGATTGATTA
* *
317472 CTGTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACATTTGAGATTGTT
1 -T-TTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTGAAACATAAACATTTGAGATTGAT
317537 TA
64 TA
* * * * *
317539 TCT-AAAAAAAATTCGTCTCGCATGAGACAGTTTCCCTTGAA
1 TTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTGAA
317580 GCCAAATTTT
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 33 0.35
65 2 0.02
66 57 0.60
67 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (65 bp):
TTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTGAAACATAAACATTTGAGATTGATTA
Found at i:317515 original size:36 final size:35
Alignment explanation
Indices: 317393--317518 Score: 88
Period size: 36 Copynumber: 3.7 Consensus size: 35
317383 GTATGTCTTT
*
317393 CTTGAGACAGATTT-TTTTGAAACAAATTTTGTCTC
1 CTTGAGACAG-TTTCTCTTGAAACAAATTTTGTCTC
* *
317428 ACTTGAGACAGTTTCCCTTGAAACATAA-----ACT-
1 -CTTGAGACAGTTTCTCTTGAAACA-AATTTTGTCTC
* * * *
317459 TTTGAGATTA-TTACTGTTGAAACAAATTTTGTCTC
1 CTTGAGA-CAGTTTCTCTTGAAACAAATTTTGTCTC
317494 GCTTGAGACAGTTTCTCTTGAAACA
1 -CTTGAGACAGTTTCTCTTGAAACA
317519 TAAACATTTG
Statistics
Matches: 66, Mismatches: 13, Indels: 22
0.65 0.13 0.22
Matches are distributed among these distances:
29 2 0.03
30 17 0.26
31 1 0.02
32 2 0.03
34 2 0.03
35 4 0.06
36 36 0.55
37 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (35 bp):
CTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTC
Found at i:317614 original size:64 final size:65
Alignment explanation
Indices: 317409--317629 Score: 229
Period size: 66 Copynumber: 3.4 Consensus size: 65
317399 ACAGATTTTT
* * * *
317409 TTGAAACAAATTTTGTCTCACTTGAGACAGTTTCCCTTGAAACATAAACTTTTGAGATTATTACT
1 TTGAAACAAAATTTGTCTCGCTTGAGACAGTTTCCCTTGAAACATAAACTTTTGAGATTGTTTC-
*
317474 G
65 A
* * *
317475 TTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACATTTGAGATTGTTT-A
1 TTGAAACAAAATTTGTCTCGCTTGAGACAGTTTCCCTTGAAACATAAACTTTTGAGATTGTTTCA
* * * * *
317539 TCT-AAAAAAAATTCGTCTCGCATGAGACAGTTTCCCTTGAAGC-CAAA-TTTTGA-AGTTGTTT
1 T-TGAAACAAAATTTGTCTCGCTTGAGACAGTTTCCCTTGAAACATAAACTTTTGAGA-TTGTTT
317600 CA
64 CA
*
317602 CTTGAAACAAAA-TTGATCTCACTTGAGA
1 -TTGAAACAAAATTTG-TCTCGCTTGAGA
317630 TTGTTTTCCT
Statistics
Matches: 131, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
61 1 0.01
62 11 0.08
63 7 0.05
64 53 0.40
65 1 0.01
66 58 0.44
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (65 bp):
TTGAAACAAAATTTGTCTCGCTTGAGACAGTTTCCCTTGAAACATAAACTTTTGAGATTGTTTCA
Found at i:317645 original size:98 final size:98
Alignment explanation
Indices: 317526--317713 Score: 229
Period size: 98 Copynumber: 1.9 Consensus size: 98
317516 ACATAAACAT
* * ** *
317526 TTGAGATTGTTTATCTAAAAAAAATTCGTCTCGCATGAGACAG-TTTCCCTTGAAGC-CAAATTT
1 TTGAGATTGTTTATCT-AAAAAAA-CCCTCTCGCATGAGACAGTTTTCCCACGAAACACAAATTT
* *
317589 TGAAGTTGTTTCACTTGAAACAAAATTGATCTCAC
64 TGAAATTGTTTCACTCGAAACAAAATTGATCTCAC
* * * *
317624 TTGAGATTGTTT-TCCTTAAAAAACCCTCTTGCTTGAGACAGTTTTCCCACGAAACATAAATTTT
1 TTGAGATTGTTTAT-CTAAAAAAACCCTCTCGCATGAGACAGTTTTCCCACGAAACACAAATTTT
317688 GAAATTGTTTCACTCGAAACAAAATT
65 GAAATTGTTTCACTCGAAACAAAATT
317714 TTTATCTCAC
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
96 14 0.18
97 17 0.22
98 45 0.59
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (98 bp):
TTGAGATTGTTTATCTAAAAAAACCCTCTCGCATGAGACAGTTTTCCCACGAAACACAAATTTTG
AAATTGTTTCACTCGAAACAAAATTGATCTCAC
Found at i:320376 original size:15 final size:15
Alignment explanation
Indices: 320356--320414 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
320346 CTTGGCCTCG
* *
320356 AGTTCATCATCTTCC
1 AGTTCATCTTCTTCA
*
320371 AGTTCATCTTCTTCG
1 AGTTCATCTTCTTCA
*
320386 AGTTCGTCTTCTTCA
1 AGTTCATCTTCTTCA
*
320401 AGTTCGTCTTCTTC
1 AGTTCATCTTCTTC
320415 GGATGTATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.14, C:0.29, G:0.12, T:0.46
Consensus pattern (15 bp):
AGTTCATCTTCTTCA
Found at i:320389 original size:30 final size:30
Alignment explanation
Indices: 320353--320415 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
320343 CACCTTGGCC
*
320353 TCGAGTTCATCATCTTCCAGTTCATCTTCT
1 TCGAGTTCATCATCTTCAAGTTCATCTTCT
* * *
320383 TCGAGTTCGTCTTCTTCAAGTTCGTCTTCT
1 TCGAGTTCATCATCTTCAAGTTCATCTTCT
320413 TCG
1 TCG
320416 GATGTATCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.13, C:0.29, G:0.14, T:0.44
Consensus pattern (30 bp):
TCGAGTTCATCATCTTCAAGTTCATCTTCT
Found at i:323607 original size:4 final size:4
Alignment explanation
Indices: 323598--323681 Score: 54
Period size: 4 Copynumber: 22.5 Consensus size: 4
323588 AAATAATTAT
* * * *
323598 TATA TATA TATA -ATA T-TA -ATA AATT TA-A TTTA AATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
323642 TATA TA-A TATT TATA TATT TA-A TTTA AATA TATA TATA TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TA
323682 CCCGGCACGA
Statistics
Matches: 59, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
3 12 0.20
4 47 0.80
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:323609 original size:6 final size:6
Alignment explanation
Indices: 323598--323681 Score: 54
Period size: 6 Copynumber: 15.0 Consensus size: 6
323588 AAATAATTAT
* * * *
323598 TATATA TATATA -ATAT- TA-ATA AATTTA -ATTTA AATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * *
323642 TATATA -ATATT TATATA TTTA-A TTTAAA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA
323682 CCCGGCACGA
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
4 2 0.03
5 20 0.32
6 41 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATA
Found at i:323647 original size:38 final size:38
Alignment explanation
Indices: 323598--323681 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 38
323588 AAATAATTAT
323598 TATATATATATAATATTAATAAATTTAATTTAAATATA
1 TATATATATATAATATTAATAAATTTAATTTAAATATA
* *
323636 TATATATATATAATATTTATATATTTAATTTAAATATA
1 TATATATATATAATATTAATAAATTTAATTTAAATATA
323674 TATATATA
1 TATATATA
323682 CCCGGCACGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (38 bp):
TATATATATATAATATTAATAAATTTAATTTAAATATA
Found at i:323849 original size:25 final size:25
Alignment explanation
Indices: 323801--323850 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
323791 ATCCCTACGA
* *
323801 TTTTTTAAGCGGGGACGGATACGGG
1 TTTTTTAAACGGGGACGGAGACGGG
* *
323826 TTTTTTAAACGGGGATGGGGACGGG
1 TTTTTTAAACGGGGACGGAGACGGG
323851 GGACCAATAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.42, T:0.28
Consensus pattern (25 bp):
TTTTTTAAACGGGGACGGAGACGGG
Found at i:332366 original size:31 final size:31
Alignment explanation
Indices: 332326--332421 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
332316 AAGAGTAGAG
* * *
332326 GGTTACCTATGTCTTTCGAGATATATGGATA
1 GGTTACCTATGTCCTTCGAGACATATGGACA
*
332357 GTTTACCTATGTCCTTCGAGACATATGGACA
1 GGTTACCTATGTCCTTCGAGACATATGGACA
* * *
332388 GGTTACTTATGTTCTTC-AGAACATATGGATA
1 GGTTACCTATGTCCTTCGAG-ACATATGGACA
332419 GGT
1 GGT
332422 CTTCCGGGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
30 2 0.04
31 54 0.96
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (31 bp):
GGTTACCTATGTCCTTCGAGACATATGGACA
Found at i:337264 original size:31 final size:31
Alignment explanation
Indices: 337225--337297 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
337215 AGAGTAGAGG
*
337225 GTTACCTATGTCTTTC-GAGACATATGGACAA
1 GTTACCTATGTCATTCAG-GACATATGGACAA
* *
337256 TTTACCTATGTCATTCAGGACATGTGGACAA
1 GTTACCTATGTCATTCAGGACATATGGACAA
337287 GTTACCTATGT
1 GTTACCTATGT
337298 TCTTCGGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 36 0.97
32 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
GTTACCTATGTCATTCAGGACATATGGACAA
Found at i:340495 original size:72 final size:72
Alignment explanation
Indices: 340378--340514 Score: 213
Period size: 72 Copynumber: 1.9 Consensus size: 72
340368 ATGTCTTTTA
** *
340378 GAGATATGACCATCTGTCTCTTATCTTTCCAACGGTTCTTTAATTGCATCAATCC-AATATAGGG
1 GAGATATGACCATCTGTCTCTTATCTTTCCAAAAGTTCTTGAATTGCATCAATCCAAAT-TAGGG
340442 ATTAATAT
65 ATTAATAT
* *
340450 GAGATATGATCATTTGTCTCTTATCTTTCCAAAAGTTCTTGAATTGCATCAATCCAAATTAGGGA
1 GAGATATGACCATCTGTCTCTTATCTTTCCAAAAGTTCTTGAATTGCATCAATCCAAATTAGGGA
340515 ACTCAAGATA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 56 0.95
73 3 0.05
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (72 bp):
GAGATATGACCATCTGTCTCTTATCTTTCCAAAAGTTCTTGAATTGCATCAATCCAAATTAGGGA
TTAATAT
Found at i:341131 original size:59 final size:58
Alignment explanation
Indices: 341002--341120 Score: 157
Period size: 59 Copynumber: 2.0 Consensus size: 58
340992 GGAGGGTTGG
* * ** *
341002 TTAGAGCCATATTATCGAGTTTTCCTTTCATTGCGACTAGGAGGGTTTGATAGGACAC
1 TTAGAGACATATTATCAAGTTTTCCTTTCATTGAAACTAGGAGGGTTCGATAGGACAC
* * *
341060 TTAGAGCCATATTATCAAGTTTTCCATTTTATTGAAACTAGGAGGGTTCGATATGACAC
1 TTAGAGACATATTATCAAGTTTTCC-TTTCATTGAAACTAGGAGGGTTCGATAGGACAC
341119 TT
1 TT
341121 TTCTATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 24 0.44
59 30 0.56
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (58 bp):
TTAGAGACATATTATCAAGTTTTCCTTTCATTGAAACTAGGAGGGTTCGATAGGACAC
Found at i:342353 original size:18 final size:18
Alignment explanation
Indices: 342326--342360 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
342316 GGAGTGACTT
342326 TTGAAGTTTCTTGCTTTG
1 TTGAAGTTTCTTGCTTTG
* *
342344 TTGAATTTTCTTTCTTT
1 TTGAAGTTTCTTGCTTT
342361 TATTTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.11, G:0.14, T:0.63
Consensus pattern (18 bp):
TTGAAGTTTCTTGCTTTG
Found at i:346025 original size:22 final size:22
Alignment explanation
Indices: 346000--346041 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
345990 AAGAGTTATT
* *
346000 TGATTTAATTCCAGGGGTTACA
1 TGATATAATTCCAGGAGTTACA
*
346022 TGATATAATTTCAGGAGTTA
1 TGATATAATTCCAGGAGTTA
346042 TAACAGCTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (22 bp):
TGATATAATTCCAGGAGTTACA
Found at i:347717 original size:20 final size:20
Alignment explanation
Indices: 347692--347734 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
347682 TCTAAGAGCC
*
347692 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
347712 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
347732 CAT
1 CAT
347735 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:352660 original size:20 final size:20
Alignment explanation
Indices: 352635--352677 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
352625 TCTAAGAGCC
*
352635 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
352655 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
352675 CAT
1 CAT
352678 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:358351 original size:6 final size:6
Alignment explanation
Indices: 358340--358388 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
358330 TCATCTCGGC
* * * *
358340 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGC TCGCGG TTGTGG TTGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
358388 T
1 T
358389 AATACGTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.16, G:0.47, T:0.37
Consensus pattern (6 bp):
TCGTGG
Found at i:358686 original size:22 final size:22
Alignment explanation
Indices: 358661--358715 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
358651 TCAGGAGTTA
* *
358661 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
358683 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
358705 CAGGCGTTATA
1 CAGGAGTTATA
358716 ATAGCTTAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:363302 original size:22 final size:22
Alignment explanation
Indices: 363277--363345 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
363267 TACTGAAGGG
363277 AGTATCGGTACCATATTATAGA
1 AGTATCGGTACCATATTATAGA
* * *
363299 AGTATCGATACCATA--CTAGG
1 AGTATCGGTACCATATTATAGA
* * *
363319 GGTACCGGTTCCATATTATAGA
1 AGTATCGGTACCATATTATAGA
363341 AGTAT
1 AGTAT
363346 TGATAACATA
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
20 14 0.41
22 20 0.59
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (22 bp):
AGTATCGGTACCATATTATAGA
Found at i:363334 original size:42 final size:42
Alignment explanation
Indices: 363273--363366 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
363263 TGGATACTGA
* *
363273 AGGGAGTATCGGTACCATATTATAGAAGTATCGATACCATACT
1 AGGG-GTACCGGTACCATATTATAGAAGTATCGATAACATACT
* *
363316 AGGGGTACCGGTTCCATATTATAGAAGTATTGATAACATACT
1 AGGGGTACCGGTACCATATTATAGAAGTATCGATAACATACT
363358 AGGGGTACC
1 AGGGGTACC
363367 TACACTATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 43 0.91
43 4 0.09
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (42 bp):
AGGGGTACCGGTACCATATTATAGAAGTATCGATAACATACT
Found at i:368904 original size:22 final size:22
Alignment explanation
Indices: 368862--368906 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
368852 ATGTTTATTT
*
368862 TACATAACTTAGAAAGAAAAAA
1 TACATAACTTACAAAGAAAAAA
*
368884 TACATAAC-TACAAATATAAAAA
1 TACATAACTTACAAAGA-AAAAA
368906 T
1 T
368907 TATATATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.22
Consensus pattern (22 bp):
TACATAACTTACAAAGAAAAAA
Found at i:378474 original size:20 final size:20
Alignment explanation
Indices: 378445--378509 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 20
378435 AAATCCAGAA
*
378445 CCCC-AGGGGGGTATC-GATT
1 CCCCTAGGGGGGAATCAG-TT
378464 CCCCTAGGGGGGAATCAGTT
1 CCCCTAGGGGGGAATCAGTT
*
378484 CCCCTTTAAAGGGGGAATCAGTT
1 CCCC--T-AGGGGGGAATCAGTT
378507 CCC
1 CCC
378510 TCATGGGGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.10
20 16 0.41
21 1 0.03
22 1 0.03
23 17 0.44
ACGTcount: A:0.20, C:0.28, G:0.31, T:0.22
Consensus pattern (20 bp):
CCCCTAGGGGGGAATCAGTT
Found at i:382379 original size:22 final size:21
Alignment explanation
Indices: 382337--382376 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
382327 GAGTTTATTT
*
382337 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
382358 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
382377 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:384611 original size:31 final size:31
Alignment explanation
Indices: 384553--384612 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
384543 TAGTTGTATG
* * **
384553 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAATATTACAAAACTAA
384584 AATTATTTAAATCTCAATATTACAAAACT
1 AATTATTTAAATCTCAATATTACAAAACT
384613 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAATATTACAAAACTAA
Found at i:390819 original size:22 final size:22
Alignment explanation
Indices: 390794--390838 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
390784 ATGTAAGAGA
390794 AGCTAAAGAAATAGTTGACTAC
1 AGCTAAAGAAATAGTTGACTAC
390816 AGCTAAAGAAATAGTTGACTAC
1 AGCTAAAGAAATAGTTGACTAC
390838 A
1 A
390839 TAGTCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (22 bp):
AGCTAAAGAAATAGTTGACTAC
Found at i:391000 original size:24 final size:24
Alignment explanation
Indices: 390967--391012 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
390957 ATATATACTC
* *
390967 AAAAATCCTAGTTTTCTCTCATCG
1 AAAAAACCTAATTTTCTCTCATCG
*
390991 AAAAAACCTAATTTTTTCTCAT
1 AAAAAACCTAATTTTCTCTCAT
391013 TGGTGTGCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (24 bp):
AAAAAACCTAATTTTCTCTCATCG
Found at i:393818 original size:15 final size:15
Alignment explanation
Indices: 393776--393838 Score: 81
Period size: 15 Copynumber: 4.2 Consensus size: 15
393766 CACCTTGGCC
*
393776 TCGAGTTCATCATCT
1 TCGAGTTCATCTTCT
393791 TCGAGTTCATCTTCT
1 TCGAGTTCATCTTCT
*
393806 TCGAGTTCGTCTTCT
1 TCGAGTTCATCTTCT
** *
393821 TCTTGTTCGTCTTCT
1 TCGAGTTCATCTTCT
393836 TCG
1 TCG
393839 GATGTATCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.10, C:0.27, G:0.16, T:0.48
Consensus pattern (15 bp):
TCGAGTTCATCTTCT
Found at i:394861 original size:30 final size:30
Alignment explanation
Indices: 394820--394915 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
394810 CACATGTTGC
* ** *
394820 AACAACTTGGTGGAATATTTGGAAGATATA
1 AACAGCTTGGTGGAGCATTTGGAAGACATA
*
394850 TACAGCTTGGTGGAGCATTTGGAAGACATA
1 AACAGCTTGGTGGAGCATTTGGAAGACATA
*
394880 AACAGCTTAGTGGAGCATTTGG-AGACATA
1 AACAGCTTGGTGGAGCATTTGGAAGACATA
394909 AACAGCT
1 AACAGCT
394916 CACAAACAGC
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
29 14 0.24
30 45 0.76
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (30 bp):
AACAGCTTGGTGGAGCATTTGGAAGACATA
Found at i:402604 original size:30 final size:30
Alignment explanation
Indices: 402569--402662 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
402559 CACACGTTGG
*
402569 AACAGCTTGGTGGAACATTTGGAAGATATA
1 AACAGCTTGGTGGAACATTTGGAAGACATA
*
402599 TACAGCTTGGTGGAGA-ATTTGGAAGACATA
1 AACAGCTTGGTGGA-ACATTTGGAAGACATA
* * * * *
402629 AACAACTTAGTGGAGCATTTGGGATACATA
1 AACAGCTTGGTGGAACATTTGGAAGACATA
402659 AACA
1 AACA
402663 ACTCACAAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
30 53 0.98
31 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.26
Consensus pattern (30 bp):
AACAGCTTGGTGGAACATTTGGAAGACATA
Found at i:403204 original size:11 final size:11
Alignment explanation
Indices: 403185--403215 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
403175 CCTAATTCCT
403185 TCATTTCTTCA
1 TCATTTCTTCA
*
403196 TCCTTTCTTCA
1 TCATTTCTTCA
403207 TCATTTCTT
1 TCATTTCTT
403216 AGCCAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (11 bp):
TCATTTCTTCA
Found at i:404630 original size:21 final size:22
Alignment explanation
Indices: 404606--404646 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
404596 AATCTGTTGC
404606 TTCGAATTT-TTTCTGATATTG
1 TTCGAATTTGTTTCTGATATTG
*
404627 TTCGTATTTGTTTCTGATAT
1 TTCGAATTTGTTTCTGATAT
404647 GATTCTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.17, C:0.10, G:0.15, T:0.59
Consensus pattern (22 bp):
TTCGAATTTGTTTCTGATATTG
Found at i:404869 original size:13 final size:14
Alignment explanation
Indices: 404853--404910 Score: 52
Period size: 13 Copynumber: 4.4 Consensus size: 14
404843 AAAGAAAGAA
404853 AAAAT-AATAAAAT
1 AAAATAAATAAAAT
*
404866 AAAATATA-AAAAT
1 AAAATAAATAAAAT
*
404879 AAAATGAA-AAAA-
1 AAAATAAATAAAAT
*
404891 GAAATAAATAAAAT
1 AAAATAAATAAAAT
404905 GAAAAT
1 -AAAAT
404911 GAAAATTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 6 0.17
13 24 0.69
14 1 0.03
15 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:404869 original size:34 final size:36
Alignment explanation
Indices: 404831--404915 Score: 86
Period size: 39 Copynumber: 2.3 Consensus size: 36
404821 TAATAGACCC
404831 TAAAAAAGAAAAAAA-GAAAGAAA-AAAT-AATAAAA
1 TAAAAAAGAAAAAAATGAAA-AAAGAAATAAATAAAA
*
404865 TAAAATATAAAAATAAAATGAAAAAAGAAATAAATAAAA
1 TAAAA-A-AGAAA-AAAATGAAAAAAGAAATAAATAAAA
* *
404904 TGAAAATGAAAA
1 TAAAAAAGAAAA
404916 TTACATATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
34 5 0.12
35 1 0.02
36 5 0.12
37 10 0.24
38 9 0.22
39 11 0.27
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (36 bp):
TAAAAAAGAAAAAAATGAAAAAAGAAATAAATAAAA
Found at i:404916 original size:21 final size:20
Alignment explanation
Indices: 404853--404916 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
404843 AAAGAAAGAA
404853 AAAAT-AATAAAAT-AAAAT
1 AAAATAAATAAAATGAAAAT
* *
404871 ATAA-AAATAAAATGAAAAA
1 AAAATAAATAAAATGAAAAT
404890 AGAAATAAATAAAATGAAAAT
1 A-AAATAAATAAAATGAAAAT
404911 GAAAAT
1 -AAAAT
404917 TACATATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
18 11 0.30
19 5 0.14
20 2 0.05
21 18 0.49
22 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (20 bp):
AAAATAAATAAAATGAAAAT
Found at i:404961 original size:37 final size:33
Alignment explanation
Indices: 404920--405318 Score: 163
Period size: 36 Copynumber: 11.4 Consensus size: 33
404910 TGAAAATTAC
404920 ATATTATATATATTTAAAAAAATGTTTTCAAAATCAT
1 ATATTATATATATTT--AAAAATGTTTTCAAAAT--T
* *
404957 ATATTATATATATTTTCGAAAATGTTTTCTAAATT
1 ATATTATATATA-TTT-AAAAATGTTTTCAAAATT
* *
404992 ATATTATATATATTTCAAAACGTTTTCAAAA-T
1 ATATTATATATATTTAAAAATGTTTTCAAAATT
* * **
405024 GT-TT-T-CA-A---AAATGTGTTTTCAAAACTAT
1 ATATTATATATATTTAAAAATGTTTTCAAAA-T-T
* * *
405052 ATAATATATATTTTTAAAAATTATTTTCAAAATT
1 ATATTATATATATTTAAAAA-TGTTTTCAAAATT
* * *
405086 ATATAATATATATTTTCAAAAATTATTTTCAAAACT
1 ATATTATATATA-TTT-AAAAA-TGTTTTCAAAATT
* *
405122 ATATAATATCT-TTTCAAAAATGTGTTTTCAAAATT
1 ATATTATATATATTT-AAAAA--TGTTTTCAAAATT
* * * * *
405157 ATATAATATATGTTTTTAAAACGTTTTTTCAAAACT
1 ATAT--TATATATATTTAAAA-ATGTTTTCAAAATT
*
405193 ATATTATATATACTTTTAAAAATGATTTTTTAAAAAGTAT
1 ATATTATATATA--TTTAAAAATG---TTTTCAAAA-T-T
* *
405233 ATATTATATGT-TTTCAATAACTGTTTTCTAAAAATT
1 ATATTATATATATTT-AA-AAATGTTTTC--AAAATT
* * * *
405269 ATATGTTATATGTTTTTCGAAAATGTTTTAAAAAATT
1 ATA--TTATATATATTT-AAAAATGTTTT-CAAAATT
*
405306 ATACTATAT-TATT
1 ATATTATATATATT
405319 ATATATTAAA
Statistics
Matches: 282, Mismatches: 46, Indels: 71
0.71 0.12 0.18
Matches are distributed among these distances:
25 12 0.04
28 3 0.01
29 2 0.01
30 2 0.01
31 3 0.01
32 2 0.01
33 13 0.05
34 31 0.11
35 41 0.15
36 68 0.24
37 49 0.17
38 36 0.13
39 9 0.03
40 11 0.04
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (33 bp):
ATATTATATATATTTAAAAATGTTTTCAAAATT
Found at i:405036 original size:12 final size:11
Alignment explanation
Indices: 405004--405047 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
404994 ATTATATATA
*
405004 TTTCAAAACGT
1 TTTCAAAATGT
405015 TTTCAAAATGT
1 TTTCAAAATGT
405026 TTTCAAAAATGTGT
1 TTTC-AAAA--TGT
405040 TTTCAAAA
1 TTTCAAAA
405048 CTATATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 14 0.48
12 4 0.14
13 4 0.14
14 7 0.24
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (11 bp):
TTTCAAAATGT
Found at i:405079 original size:36 final size:36
Alignment explanation
Indices: 405025--405249 Score: 233
Period size: 36 Copynumber: 6.2 Consensus size: 36
405015 TTTCAAAATG
*
405025 TTTTCAAAAATGTGTTTTCAAAACTATATAATATATA
1 TTTTCAAAAAT-TATTTTCAAAACTATATAATATATA
* *
405062 TTTTTAAAAATTATTTTCAAAATTATATAATATATA
1 TTTTCAAAAATTATTTTCAAAACTATATAATATATA
*
405098 TTTTCAAAAATTATTTTCAAAACTATAT-A-ATATC
1 TTTTCAAAAATTATTTTCAAAACTATATAATATATA
* * *
405132 TTTTCAAAAATGTGTTTTCAAAATTATATAATATATG
1 TTTTCAAAAAT-TATTTTCAAAACTATATAATATATA
* * *
405169 TTTTTAAAACGTT-TTTTCAAAACTATATTATATATA
1 TTTTCAAAA-ATTATTTTCAAAACTATATAATATATA
* * * * *
405205 CTTTT-AAAAATGATTTTTTAAAAAGTATATATTATATG
1 -TTTTCAAAAAT--TATTTTCAAAACTATATAATATATA
405243 TTTTCAA
1 TTTTCAA
405250 TAACTGTTTT
Statistics
Matches: 159, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
34 15 0.09
35 17 0.11
36 74 0.47
37 32 0.20
38 21 0.13
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTTCAAAAATTATTTTCAAAACTATATAATATATA
Found at i:405083 original size:12 final size:12
Alignment explanation
Indices: 405063--405119 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
405053 TAATATATAT
*
405063 TTTTAAAAATTA
1 TTTTCAAAATTA
405075 TTTTCAAAATTA
1 TTTTCAAAATTA
* *
405087 -TAT-AATATATA
1 TTTTCAAAAT-TA
405098 TTTTCAAAAATTA
1 TTTTC-AAAATTA
405111 TTTTCAAAA
1 TTTTCAAAA
405120 CTATATAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
10 4 0.11
11 4 0.11
12 17 0.47
13 7 0.19
14 4 0.11
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTTCAAAATTA
Found at i:405114 original size:13 final size:13
Alignment explanation
Indices: 405060--405119 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
405050 ATATAATATA
*
405060 TATTTTTAAAAAT
1 TATTTTCAAAAAT
405073 TATTTTC-AAAAT
1 TATTTTCAAAAAT
* *
405085 TA-TAT--AATAT
1 TATTTTCAAAAAT
405095 ATATTTTCAAAAAT
1 -TATTTTCAAAAAT
405109 TATTTTCAAAA
1 TATTTTCAAAA
405120 CTATATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
10 4 0.11
11 4 0.11
12 9 0.24
13 17 0.45
14 4 0.11
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTTTCAAAAAT
Found at i:405137 original size:107 final size:107
Alignment explanation
Indices: 405025--405221 Score: 308
Period size: 107 Copynumber: 1.8 Consensus size: 107
405015 TTTCAAAATG
*
405025 TTTTCAAAAATGTGTTTTCAAAACTATATAATATATATTTTTAAAA-ATTATTTTCAAAATTATA
1 TTTTCAAAAATGTGTTTTCAAAACTATATAATATATATTTTTAAAACATT-TTTTCAAAACTATA
*
405089 TAATATATA-TTTTCAAAAATTATTTTCAAAACTATATAATATC
65 TAATATATACTTTT-AAAAATGATTTTCAAAACTATATAATATC
* * *
405132 TTTTCAAAAATGTGTTTTCAAAATTATATAATATATGTTTTTAAAACGTTTTTTCAAAACTATAT
1 TTTTCAAAAATGTGTTTTCAAAACTATATAATATATATTTTTAAAACATTTTTTCAAAACTATAT
*
405197 TATATATACTTTTAAAAATGATTTT
66 AATATATACTTTTAAAAATGATTTT
405222 TTAAAAAGTA
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 76 0.93
108 6 0.07
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (107 bp):
TTTTCAAAAATGTGTTTTCAAAACTATATAATATATATTTTTAAAACATTTTTTCAAAACTATAT
AATATATACTTTTAAAAATGATTTTCAAAACTATATAATATC
Found at i:405265 original size:38 final size:37
Alignment explanation
Indices: 405022--405308 Score: 221
Period size: 36 Copynumber: 7.8 Consensus size: 37
405012 CGTTTTCAAA
* * * *
405022 ATGTTTTCAAAAATGTGTTTTCAAAACTATATAATAT
1 ATGTTTTCAAAAATGTTTTTTAAAAATTATATATTAT
* * * * *
405059 ATATTTTTAAAAAT-TATTTTCAAAATTATATAATAT
1 ATGTTTTCAAAAATGTTTTTTAAAAATTATATATTAT
* * * *
405095 ATATTTTCAAAAAT-TATTTTCAAAACTATATA--AT
1 ATGTTTTCAAAAATGTTTTTTAAAAATTATATATTAT
* * * *
405129 ATCTTTTCAAAAATGTGTTTTCAAAATTATATAATAT
1 ATGTTTTCAAAAATGTTTTTTAAAAATTATATATTAT
* * * *
405166 ATGTTTT-TAAAACGTTTTTTCAAAACTATAT-TATAT
1 ATGTTTTCAAAAATGTTTTTTAAAAATTATATAT-TAT
* *
405202 ATACTTTT-AAAAATGATTTTTTAAAAAGTATATATTAT
1 AT-GTTTTCAAAAATG-TTTTTTAAAAATTATATATTAT
* * *
405240 ATGTTTTCAATAACTGTTTTCTAAAAATTATATGTTAT
1 ATGTTTTCAA-AAATGTTTTTTAAAAATTATATATTAT
* *
405278 ATGTTTTTCGAAAATG-TTTTAAAAAATTATA
1 ATG-TTTTCAAAAATGTTTTTTAAAAATTATA
405309 CTATATTATT
Statistics
Matches: 211, Mismatches: 29, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
34 15 0.07
35 16 0.08
36 75 0.36
37 46 0.22
38 48 0.23
39 11 0.05
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (37 bp):
ATGTTTTCAAAAATGTTTTTTAAAAATTATATATTAT
Found at i:405896 original size:28 final size:28
Alignment explanation
Indices: 405849--405904 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
405839 CCTCCGCTGC
* *
405849 CCACAATGAAGATATTTATGCATAAAAG
1 CCACAATGAAGACATCTATGCATAAAAG
*
405877 CCACAATGAAGGCATCTATGCATAAAAG
1 CCACAATGAAGACATCTATGCATAAAAG
405905 ATTCAAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (28 bp):
CCACAATGAAGACATCTATGCATAAAAG
Found at i:410160 original size:18 final size:18
Alignment explanation
Indices: 410139--410177 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
410129 CTTTAACCTT
410139 ACAACACTTACCACGACA
1 ACAACACTTACCACGACA
* *
410157 ACAACATTTGCCACGACA
1 ACAACACTTACCACGACA
410175 ACA
1 ACA
410178 CCATTCATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.36, G:0.08, T:0.13
Consensus pattern (18 bp):
ACAACACTTACCACGACA
Found at i:411499 original size:23 final size:23
Alignment explanation
Indices: 411444--411507 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
411434 CAGCTCATAT
411444 AAATACACCTG-AGTGCCACGTAG
1 AAATACACC-GAAGTGCCACGTAG
* * *
411467 AATTGCACCGAAGTGCCGCGTAG
1 AAATACACCGAAGTGCCACGTAG
* *
411490 AAATATACCGTAGTGCCA
1 AAATACACCGAAGTGCCA
411508 TATAAGATGT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (23 bp):
AAATACACCGAAGTGCCACGTAG
Found at i:412991 original size:20 final size:20
Alignment explanation
Indices: 412966--413003 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
412956 TTCCCTTTGA
412966 AGTGCATCGATGCATTCTAT
1 AGTGCATCGATGCATTCTAT
412986 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
413004 TTAACATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAT
Found at i:413019 original size:24 final size:20
Alignment explanation
Indices: 412966--413023 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
412956 TTCCCTTTGA
*
412966 AGTGCATCGATGCATTCTAT
1 AGTGCATCGATGCATTCTAC
412986 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
413009 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
413024 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:413102 original size:64 final size:66
Alignment explanation
Indices: 413030--413172 Score: 161
Period size: 64 Copynumber: 2.2 Consensus size: 66
413020 TGCACTACCC
* * * * *
413030 ATGCATCGATACACAAATTACCTTCGATGTTTTCA-TTTTAAGGGGATGCATTGATGAAC-TCCT
1 ATGCATCGATACACAAATTACATTCAATGTTTCCATTTTTAAGAGG-TGCATCGATGAACTTCCT
413093 -T
65 GT
* * * *
413094 ATGCATCGATGCACCAATTGCATTCAATGTTTCCATTTTTAAGAGGTGCATCGATGCACTTCCTG
1 ATGCATCGATACACAAATTACATTCAATGTTTCCATTTTTAAGAGGTGCATCGATGAACTTCCTG
413159 T
66 T
413160 A--CATCGATACACA
1 ATGCATCGATACACA
413173 CTGAACAATT
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
64 50 0.77
65 13 0.20
66 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (66 bp):
ATGCATCGATACACAAATTACATTCAATGTTTCCATTTTTAAGAGGTGCATCGATGAACTTCCTG
T
Found at i:418035 original size:24 final size:20
Alignment explanation
Indices: 417982--418039 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
417972 TTCCCTTTGA
*
417982 AGTGCATCAATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
418002 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
418025 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
418040 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:423498 original size:83 final size:81
Alignment explanation
Indices: 423376--424386 Score: 810
Period size: 83 Copynumber: 12.4 Consensus size: 81
423366 AATCAAGGAT
* * *
423376 AGAAGGGTTATCTGTGACCAAAAGATCTTCGA-TTTGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTG-CACC-AAAGA-CCTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
423440 TGCAGCATAACTTAAGTCG
63 TGCAGCATAACTTAAGTCG
*
423459 AGAAGGGTTATCTGCCAACCAAAGACCTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
1 AGAAGGGTTATCTG-C-ACCAAAGACCTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* * *
423524 GTAGCACAACTTAAGTCT
64 GCAGCATAACTTAAGTCG
* * * *
423542 AGAAGGGTTGTCTGCAACAAAAGACCTTTGAGTTCGACTATGCTCAGCT-CAACGG-ACATCA-T
1 AGAAGGGTTATCTGC-ACCAAAGACC-TCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATT
* * *
423604 TACAGTATAGCTTAAGTCG
63 TGCAGCATAACTTAAGTCG
* * * * *
423623 AGAAGGG-TATCTG---CAAAGAACCCCGAGTTCGATTA-ACTCAGCTTCGAGGGCACATCATTT
1 AGAAGGGTTATCTGCACCAAAG-ACCTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTT
* * * *
423683 ACAGCATAACTCAAGGCT
64 GCAGCATAACTTAAGTCG
* * *
423701 AGAAGGGTTA--TG-ACAAAAGATCTTCGAGTTC-ACTACGCTCAGCTCCAAGGCATATCATTTG
1 AGAAGGGTTATCTGCACCAAAGA-CCTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* * *
423762 CAGCACAACTGAA-TCT
65 CAGCATAACTTAAGTCG
* * *
423778 AGAAGGGTTGT-TGCCAACC-AAGACCTTTGAGTTCGACTACGCTCAACT-CAACGGCACATCAT
1 AGAAGGGTTATCTG-C-ACCAAAGACC-TCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCAT
* *
423840 TTGCAGTATAGCTTAAGTCG
62 TTGCAGCATAACTTAAGTCG
* * * ** *
423860 AGAAGGGTTATCTG--CCAAAGACCCCTGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTT
1 AGAAGGGTTATCTGCACCAAAGACCTC-GAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTT
* * * *
423923 ACAGCATAACTCAAGGCT
64 GCAGCATAACTTAAGTCG
* * *
423941 AGAAGGGTTCTGTG-ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTT
1 AGAAGGGTTATCTGCACC-AAAGACC-TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
424005 GCAGTATAGCTTAAGTCG
64 GCAGCATAACTTAAGTCG
* * * * ** * *
424023 AGAAGGGCTATCTG--CCAAAGACCCTCGAGTTCAATTACTCTCAGCTTGGAGGGCACATCATTC
1 AGAAGGGTTATCTGCACCAAAGA-CCTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTT
* ** * * *
424086 ACAATATAACTCAAGGCT
64 GCAGCATAACTTAAGTCG
*
424104 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCCAGGCACATCATTT
1 AGAAGGGTTATCTG-CACCAAAGACC-TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
*
424169 GCAGTATAACTTAAGTCG
64 GCAGCATAACTTAAGTCG
* * ** * * * * *
424187 AGAAGGGCTATCTG--CCAAAGACCCCCGAGTTTAATTACACTCAACTTCAAGGGCATATCATTT
1 AGAAGGGTTATCTGCACCAAAGA-CCTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTT
* * * *
424250 ACAGCATAACTCAAGGCT
64 GCAGCATAACTTAAGTCG
* * * *
424268 AGAAGGGTTATTTGTTACTAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTT
1 AGAAGGGTTATCTG-CACCAAAGACC-TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* * *
424333 GCAGTATAGCTTAAGTTG
64 GCAGCATAACTTAAGTCG
*
424351 AGAAGGGTTATCTGCCAACCGAAGACCTCTGAGTTC
1 AGAAGGGTTATCTG-C-ACCAAAGACCTC-GAGTTC
424387 AATTATATTC
Statistics
Matches: 732, Mismatches: 152, Indels: 87
0.75 0.16 0.09
Matches are distributed among these distances:
75 6 0.01
76 17 0.02
77 23 0.03
78 53 0.07
79 23 0.03
80 89 0.12
81 173 0.24
82 76 0.10
83 205 0.28
84 67 0.09
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (81 bp):
AGAAGGGTTATCTGCACCAAAGACCTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
AGCATAACTTAAGTCG
Found at i:424163 original size:327 final size:323
Alignment explanation
Indices: 423412--424368 Score: 1026
Period size: 327 Copynumber: 3.0 Consensus size: 323
423402 CTTCGATTTG
** * * * *
423412 ACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
1 ACTACGCTCAGCTCCAAGGCACATCATTCACAACACAACTCAAG-CTAGAAGGGTTATCTGCCAA
* * * *
423477 CCAAAGACC-TCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCACAACTTAAGTC
65 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTC
* * ** * ** *
423541 TAGAAGGGTTGTCTGCAACAAAAGACCTTTGAGTTCGACTATGCTCAGC-TCAACGG-ACATCA-
130 GAGAAGGGTTATCTGC--C-AAAGACCCCTGAGTTCGATTACACTCAGCTTCAAGGGCACATCAT
* * * * * * * *
423603 TTACAGTATAGCTTAAGTCGAGAAGGGTATC--TG-CAAAGAACC-CCGAGTTCGATTA-ACTCA
192 TTACAGCATAACTCAAGGCTAGAAGGGTATCTGTGACAAAG-ACCTTCGAGTTCGACTACGCTCA
* * * * * * * * * * * *
423663 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT-TATGACAAAAGATCTTCG
256 GC-TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGTATCTG-CCAAAGACCCTCG
423727 AGTTC
319 AGTTC
* ** * * * *
423732 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTGAATCTAGAAGGGTTGT-TGCCAAC
1 ACTACGCTCAGCTCCAAGGCACATCATTCACAACACAACTCAAGCTAGAAGGGTTATCTGCCAAC
* * *
423796 C-AAGACCTTTGAGTTCGACTACGCTCAACT-CAACGGCACATCATTTGCAGTATAGCTTAAGTC
66 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGTATAACTTAAGTC
**
423859 GAGAAGGGTTATCTGCCAAAGACCCCTGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTA
130 GAGAAGGGTTATCTGCCAAAGACCCCTGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTA
423924 CAGCATAACTCAAGGCTAGAAGGGT-TCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGC
195 CAGCATAACTCAAGGCTAGAAGGGTATCTGTGA-C-AAAGACCTTCGAGTTCGACTACGCTCAGC
*
423988 TCTAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGT
258 TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGG-TATCTGCCAAAGACCCTCGAGT
424053 TC
322 TC
* * ** * * * *
424055 AATTACTCTCAGCTTGGAGGGCACATCATTCACAATATAACTCAAGGCTAGAAGGGTTATCTGTC
1 -ACTACGCTCAGC-TCCAAGGCACATCATTCACAACACAACTCAA-GCTAGAAGGGTTATCTGCC
*
424120 -ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCCAGGCACATCATTTGCAGTATAACTTAAG
63 AACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAG
* * ** * *
424184 TCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTTAATTACACTCAACTTCAAGGGCATATCATT
128 TCGAGAAGGGTTATCTGCCAAAGACCCCTGAGTTCGATTACACTCAGCTTCAAGGGCACATCATT
* * *
424249 TACAGCATAACTCAAGGCTAGAAGGGTTATTTGTTACTAAAGACCTTCGAGTTCGACTACGCTTA
193 TACAGCATAACTCAAGGCTAGAAGGG-TATCTGTGAC-AAAGACCTTCGAGTTCGACTACGCTCA
*
424314 GCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTTGAGAAGGGTTATCTGCCAA
256 GCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGG-TATCTGCCAA
424369 CCGAAGACCT
Statistics
Matches: 538, Mismatches: 77, Indels: 36
0.83 0.12 0.06
Matches are distributed among these distances:
315 24 0.04
316 5 0.01
317 17 0.03
318 89 0.17
319 13 0.02
320 40 0.07
321 4 0.01
322 49 0.09
323 22 0.04
324 13 0.02
325 21 0.04
326 15 0.03
327 139 0.26
328 82 0.15
329 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (323 bp):
ACTACGCTCAGCTCCAAGGCACATCATTCACAACACAACTCAAGCTAGAAGGGTTATCTGCCAAC
CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCG
AGAAGGGTTATCTGCCAAAGACCCCTGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTAC
AGCATAACTCAAGGCTAGAAGGGTATCTGTGACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
AAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGTATCTGCCAAAGACCCTCGAGTTC
Found at i:424192 original size:164 final size:164
Alignment explanation
Indices: 423418--424368 Score: 967
Period size: 164 Copynumber: 5.9 Consensus size: 164
423408 TTTGACTACG
* * * * * *
423418 CTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
1 CTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAA
* * * * *
423482 GACC-TCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCACAACTTAAGTCTAGAA
65 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAA
* * * * * **
423546 GGGTTGTCTGCAACAAAAGACCTTTGAGTTCGACTATG
130 GGGTTATCTGC--C-AAAGACCCTCGAGTTCAATTACA
* * * * * *
423584 CTCAGC-TCAACGG-ACATCA-TTACAGTATAGCTTAAGTCGAGAAGGG-TATCTG----CAAAG
1 CTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAG
* * * * * * * * * *
423641 AACC-CCGAGTTCGATTA-ACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGA
66 -ACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGTATAACTTAAGTCGAGA
* * * * *
423704 AGGGTTA--TGACAAAAGATCTTCGAGTTC-ACTACG
129 AGGGTTATCTG-CCAAAGACCCTCGAGTTCAATTACA
* * * * * * * *
423738 CTCAGCTCCAA-GGCATATCATTTGCAGCACAACTGAA-TCTAGAAGGGTTGT-TGCCAACC-AA
1 CTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAA
* * *
423799 GACCTTTGAGTTCGACTACGCTCAACT-CAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGA
65 GACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGTATAACTTAAGTCGAGA
*
423863 AGGGTTATCTGCCAAAGACCC-CTGAGTTCGATTACA
129 AGGGTTATCTGCCAAAGACCCTC-GAGTTCAATTACA
** *
423899 CTCAGCTTTGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG-T-TCTGTGACCAAAA
1 CTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAA
* *
423962 GACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAA
65 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAA
* *
424027 GGGCTATCTGCCAAAGACCCTCGAGTTCAATTACT
130 GGGTTATCTGCCAAAGACCCTCGAGTTCAATTACA
** * **
424062 CTCAGCTTGGAGGGCACATCATTCACAATATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAG
1 CTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAG
*
424127 ACCTTCGAGTTCGACTACGCTCAGCTCCCAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAG
66 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAG
* * *
424192 GGCTATCTGCCAAAGACCCCCGAGTTTAATTACA
131 GGTTATCTGCCAAAGACCCTCGAGTTCAATTACA
* * * * *
424226 CTCAACTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTTACTAAAG
1 CTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAG
* * *
424291 ACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTTGAGAAG
66 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAG
424356 GGTTATCTGCCAA
131 GGTTATCTGCCAA
424369 CCGAAGACCT
Statistics
Matches: 667, Mismatches: 89, Indels: 60
0.82 0.11 0.07
Matches are distributed among these distances:
154 13 0.02
155 33 0.05
156 13 0.02
157 2 0.00
158 16 0.02
159 99 0.15
160 19 0.03
161 18 0.03
162 25 0.04
163 151 0.23
164 253 0.38
165 17 0.03
166 8 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (164 bp):
CTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAG
ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAG
GGTTATCTGCCAAAGACCCTCGAGTTCAATTACA
Found at i:425078 original size:36 final size:33
Alignment explanation
Indices: 425011--425335 Score: 194
Period size: 34 Copynumber: 9.7 Consensus size: 33
425001 TGTAAAAATG
* *
425011 TTTTGACAAA-ATA-ATATATAATTTTCAGAAAATGA
1 TTTTGA-AAATATATATATATAGTTTT--GAAAA-CA
*
425046 TTTTCGAAAATTATATATATATAGTTTTGAAAATA
1 TTTT-GAAAA-TATATATATATAGTTTTGAAAACA
*
425081 TTTTTAAAATATATATAATATAGTTTTGAAAACA
1 TTTTGAAAATATATAT-ATATAGTTTTGAAAACA
* *
425115 TTTTGAAAACGTTTATATATTATAGTTTTTAAAACA
1 TTTTGAAAA--TATATATA-TATAGTTTTGAAAACA
425151 TTTTGAAAAATATATATATATAGTTTT-AAAACA
1 TTTTG-AAAATATATATATATAGTTTTGAAAACA
* * **
425184 TTTTTTGTGAAAT-TATA-ATATAGTTTTAAAAATT
1 --TTTTG-AAAATATATATATATAGTTTTGAAAACA
* *
425218 TTTTG-AAA-A-CTATATAT--TTTT-AAAACG
1 TTTTGAAAATATATATATATAGTTTTGAAAACA
* * *
425245 TTTTGAAAACTATGTAATATATAGTTTTGGAAACT
1 TTTTGAAAA-TATAT-ATATATAGTTTTGAAAACA
*** * *
425280 TTTTTTTAA-GTATATATATAGTTTTCTAAAACATA
1 TTTTGAAAATATATATATATAGTTTT-GAAAAC--A
425315 TTTTG--AATATATAT-TATAGTT
1 TTTTGAAAATATATATATATAGTT
425336 ATATCATATT
Statistics
Matches: 236, Mismatches: 28, Indels: 54
0.74 0.09 0.17
Matches are distributed among these distances:
27 9 0.04
28 7 0.03
29 2 0.01
30 8 0.03
31 1 0.00
32 23 0.10
33 38 0.16
34 54 0.23
35 43 0.18
36 33 0.14
37 7 0.03
38 11 0.05
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (33 bp):
TTTTGAAAATATATATATATAGTTTTGAAAACA
Found at i:425090 original size:34 final size:33
Alignment explanation
Indices: 424994--425234 Score: 202
Period size: 34 Copynumber: 7.0 Consensus size: 33
424984 GTTTTTTTAT
* *
424994 TATAGTTTGTAAAAATGTTTTGACAAA-ATA-ATA
1 TATAGTTT-TGAAAATATTTTGA-AAATATATATA
*
425027 TATAATTTTCAGAAAATGATTTTCGAAAATTATATATA
1 TATAGTTTT--GAAAAT-ATTTT-GAAAA-TATATATA
*
425065 TATAGTTTTGAAAATATTTTTAAAATATATATAA
1 TATAGTTTTGAAAATATTTTGAAAATATATAT-A
* *
425099 TATAGTTTTGAAAACATTTTGAAAACGTTTATATA
1 TATAGTTTTGAAAATATTTTGAAAA--TATATATA
* *
425134 TTATAGTTTTTAAAACATTTTGAAAAATATATATA
1 -TATAGTTTTGAAAATATTTTG-AAAATATATATA
* * *
425169 TATAGTTTTAAAACATTTTTTGTGAAAT-TATA-A
1 TATAGTTTTGAAA-ATATTTTG-AAAATATATATA
* *
425202 TATAGTTTTAAAAATTTTTTGAAAACTATATAT
1 TATAGTTTTGAAAATATTTTGAAAA-TATATAT
425235 TTTTAAAACG
Statistics
Matches: 176, Mismatches: 16, Indels: 31
0.79 0.07 0.14
Matches are distributed among these distances:
31 3 0.02
32 10 0.06
33 32 0.18
34 49 0.28
35 30 0.17
36 34 0.19
37 7 0.04
38 11 0.06
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (33 bp):
TATAGTTTTGAAAATATTTTGAAAATATATATA
Found at i:425178 original size:33 final size:33
Alignment explanation
Indices: 425045--425272 Score: 184
Period size: 33 Copynumber: 6.8 Consensus size: 33
425035 TCAGAAAATG
* *
425045 ATTTTCGAAAATTATATATATATAGTTTTGAAAAT
1 ATTTT-GAAAAATATATATATATAGTTTT-AAAAC
*
425080 ATTTT-TAAAATATATATAATATAGTTTTGAAAAC
1 ATTTTGAAAAATATATAT-ATATAGTTTT-AAAAC
* *
425114 ATTTTGAAAACGTTTATATATTATAGTTTTTAAAAC
1 ATTTTGAAAA-ATATATATA-TATAG-TTTTAAAAC
425150 ATTTTGAAAAATATATATATATAGTTTTAAAAC
1 ATTTTGAAAAATATATATATATAGTTTTAAAAC
**
425183 ATTTTTTGTGAAAT-TATA-ATATAGTTTTAAAA-
1 A--TTTTGAAAAATATATATATATAGTTTTAAAAC
*** *
425215 ATTTTTTGAAA-A-CTATATAT--TTTTAAAAC
1 ATTTTGAAAAATATATATATATAGTTTTAAAAC
* * *
425244 GTTTTGAAAACTATGTAATATATAGTTTT
1 ATTTTGAAAAATATAT-ATATATAGTTTT
425273 GGAAACTTTT
Statistics
Matches: 160, Mismatches: 18, Indels: 31
0.77 0.09 0.15
Matches are distributed among these distances:
28 8 0.05
29 8 0.05
30 14 0.09
31 1 0.01
32 7 0.04
33 34 0.21
34 33 0.21
35 25 0.16
36 26 0.16
37 4 0.03
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (33 bp):
ATTTTGAAAAATATATATATATAGTTTTAAAAC
Found at i:425326 original size:94 final size:93
Alignment explanation
Indices: 425135--425329 Score: 220
Period size: 94 Copynumber: 2.1 Consensus size: 93
425125 GTTTATATAT
425135 TATAGTTTTTAAAACATTTTGAAAAATATATATATATAGTTTTAAAACATTTTTTGTGAAATTAT
1 TATA-TTTTTAAAACATTTTGAAAAATATATATATATAGTTTTAAAACATTTTTTGTGAAATTAT
*
425200 AATATAGTTTTAAAAATTTTTTGAAAACTA
65 AATATAGTTTTAAAAATATTTTG-AAACTA
* * * * * *
425230 TATATTTTTAAAACGTTTTGAAAACTATGTAATATATAGTTTTGGAAAC-TTTTTT-T-TAAGTA
1 TATATTTTTAAAACATTTTGAAAAATATAT-ATATATAGTTTT-AAAACATTTTTTGTGAAATTA
425292 TATATATAGTTTTCTAAAACATATTTTG-AA-TA
64 TA-ATATAG-TTT-TAAAA-ATATTTTGAAACTA
425324 TATATT
1 TATATT
425330 ATAGTTATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
93 6 0.07
94 38 0.44
95 27 0.31
96 9 0.10
97 7 0.08
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (93 bp):
TATATTTTTAAAACATTTTGAAAAATATATATATATAGTTTTAAAACATTTTTTGTGAAATTATA
ATATAGTTTTAAAAATATTTTGAAACTA
Found at i:425328 original size:34 final size:33
Alignment explanation
Indices: 425057--425335 Score: 126
Period size: 33 Copynumber: 8.5 Consensus size: 33
425047 TTTCGAAAAT
* * *
425057 TATATATATATAGTTTTGAAAATAT-TTTTAAAA
1 TATATATATATAGTTTTTAAAACATATTTT-GAA
*
425090 TATATATAATATAGTTTTGAAAAC--ATTTTGAAAA
1 TATATAT-ATATAGTTTTTAAAACATATTTTG--AA
*
425124 CGTTTATATATTATAGTTTTTAAAAC--ATTTTGAAAAA
1 --TATATATA-TATAGTTTTTAAAACATATTTTG---AA
*
425161 TATATATATATAG-TTTTAAAACATTTTTTGTGAA
1 TATATATATATAGTTTTTAAAACA-TATTT-TGAA
*
425195 -AT-TATAATATAG-TTTTAAAA-ATTTTTTGAA
1 TATATAT-ATATAGTTTTTAAAACATATTTTGAA
* *
425225 -A-A-CTATATA-TTTTTAAAAC--GTTTTGAAAA
1 TATATATATATAGTTTTTAAAACATATTTTG--AA
* ** * * *
425254 CTATGTAATATATAGTTTTGGAAACTTTTTTTTAA
1 -TATAT-ATATATAGTTTTTAAAACATATTTTGAA
*
425289 -GTATATATATAGTTTTCTAAAACATATTTTGAA
1 TATATATATATAGTTTT-TAAAACATATTTTGAA
425322 TATATAT-TATAGTT
1 TATATATATATAGTT
425336 ATATCATATT
Statistics
Matches: 196, Mismatches: 22, Indels: 56
0.72 0.08 0.20
Matches are distributed among these distances:
27 5 0.03
28 13 0.07
29 3 0.02
30 5 0.03
31 6 0.03
32 16 0.08
33 56 0.29
34 35 0.18
35 18 0.09
36 29 0.15
37 10 0.05
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (33 bp):
TATATATATATAGTTTTTAAAACATATTTTGAA
Found at i:426657 original size:13 final size:12
Alignment explanation
Indices: 426607--426657 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 12
426597 CTTTCTTTCA
426607 TTATTATTATTATT
1 TTATTA-TATT-TT
426621 TT-TTATATTTT
1 TTATTATATTTT
*
426632 TTATTCATTTTTT
1 TTATT-ATATTTT
426645 TTATTATCATTTT
1 TTATTAT-ATTTT
426658 GTTTTCGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 4 0.12
12 8 0.25
13 18 0.56
14 2 0.06
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (12 bp):
TTATTATATTTT
Found at i:429362 original size:15 final size:15
Alignment explanation
Indices: 429340--429418 Score: 122
Period size: 15 Copynumber: 5.3 Consensus size: 15
429330 CACCTTGGCC
* *
429340 TCGAGTTCATCATCT
1 TCGAGTTCGTCTTCT
*
429355 TGGAGTTCGTCTTCT
1 TCGAGTTCGTCTTCT
429370 TCGAGTTCGTCTTCT
1 TCGAGTTCGTCTTCT
429385 TCGAGTTCGTCTTCT
1 TCGAGTTCGTCTTCT
*
429400 TCGAGTTCTTCTTCT
1 TCGAGTTCGTCTTCT
429415 TCGA
1 TCGA
429419 ATGTATCAGG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 59 1.00
ACGTcount: A:0.10, C:0.25, G:0.19, T:0.46
Consensus pattern (15 bp):
TCGAGTTCGTCTTCT
Found at i:433478 original size:38 final size:42
Alignment explanation
Indices: 433436--433521 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
433426 AGTAAAATAA
* * *
433436 ATATAAAAT-ATAAAA-A-ATAGTAAATAGTAA-ATATATAT
1 ATATAAAATAATAAAACAGATAATAAAAAATAACATATATAT
*
433474 ATATAAATTAATAAAACAGATAATAAAAAATAACATATATAT
1 ATATAAAATAATAAAACAGATAATAAAAAATAACATATATAT
433516 ATATAA
1 ATATAA
433522 TCTAAAAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
38 8 0.20
39 6 0.15
40 1 0.03
41 11 0.28
42 14 0.35
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (42 bp):
ATATAAAATAATAAAACAGATAATAAAAAATAACATATATAT
Found at i:433673 original size:14 final size:15
Alignment explanation
Indices: 433654--433692 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
433644 AAATGTACGT
*
433654 ATAAATAAAGTTA-A
1 ATAAATAAAATTATA
433668 ATAAATAAAATTATA
1 ATAAATAAAATTATA
*
433683 ATAATTAAAA
1 ATAAATAAAA
433693 CCTAAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
ATAAATAAAATTATA
Found at i:434134 original size:37 final size:37
Alignment explanation
Indices: 434084--434191 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
434074 TTGTGGATCC
* *
434084 TATTTTTAGGAGTTTGAATCATAGTAGAACTCTATCA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
434121 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
*
434158 TATTTTTAAGAGTTTGAATCCTAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
434192 ACGTTATGTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
Found at i:435425 original size:247 final size:248
Alignment explanation
Indices: 434763--436194 Score: 1884
Period size: 247 Copynumber: 5.8 Consensus size: 248
434753 AAATTTGGTT
* * * *
434763 TGCCTTTGAGCTGAGCGTAATCGAACTCGAAAGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* * * *
434828 AGTTATGCTGCAAATAATGTGCCTTGGAGCTGAGCATAGTC-AACTTGAAGGTCTTTATTGG---
66 AGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT-TTGGTCA
* *
434889 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG-GCCCTCGAAGCTGAGTGTAATCGA
129 CAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
* * * *
434953 ACTAGAGGGTCTTTAGCAGATAGCCTTTCTCGACTTAAGTTAT-CTGCAAATGA-
194 ACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAG
* * *
435006 TGCCTTAGAGCTCAGCGTAGTTTGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTT
1 TGCCTTGGAGCTGAGCGTAG-TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTT
* * * *
435071 AAGTTATGCTGCAAATGATATACCTTGGAACTGAGCGTAGTCGAACTCGAATGTCTTTTGGTGAC
65 AAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCAC
* ** *
435136 ATATAACCCTTCTA-CCTTGAGTTATGTTGTAAATGTTGTGCCCTCGAAGCTGAGAGTGTAATCG
130 AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCT--GAGTGTAATCG
*
435200 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAAT-A-
193 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAG
* *
435254 TGCCTTGGAGCTGAGCTTAGTCGAACTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* * * * **
435319 AGTTATGTTGTAAA-GATATGCCTTGAAGCTGAGCGGAGTCGAACTCGAACATCTTTTGGTCACA
66 AGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACA
* *
435383 GATAACCCTTCTAGCCTTGAGTTATACTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAAC
131 GATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
* *
435448 TCGA-GGTCTTTGGCAGATAGCCCTTCTCGACTTGAGCTATACTGCAAATGATG
196 TCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA-G
* * * ** **
435501 TGCCTTGGAGATGAGCGTAGTCAAACTCGAAGGTC-TT-GTTGGTAGATAATTCTT-TTTACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* *
435563 AGTT-TGCTGC-AACGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGGTCACA
66 AGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACA
* **
435626 GATAACCCTTCTAGCCTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTACAATCGAAC
131 GATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
* * *
435691 TCGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGATGTAAATGATG
196 TCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA-G
* * * *
435745 TGCCTTGGAGCTGAGTGTAGTTGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTC
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* * * * *
435810 CGTTATGCTGCAAATG--ATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGTTTTTTTGGTTACA
66 AGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACA
* *
435873 GATAACCCATCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAAC
131 GATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
*
435938 TCGAGGGTCTTTGG-ATGATAGCCCTTCTCGAATTAAGCTATGCTGCAAATGATG
196 TCGAGGGTCTTTGGCA-GATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA-G
*
435992 TGCCTTGGAGCTGAGCGTAGTCGATCTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* * * **
436057 AGTTATGCTGAAAATGATATGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGATC--TTGGTGGCA
66 AGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACA
* * * * * * * * * *
436120 GATAGCCCTTCTGGCCTTGAGCTATGCTATAAATGATGTG-CCTTGGAGCTAAGAGTAGTCGAAC
131 GATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
*
436184 TCGAAGGTCTT
196 TCGAGGGTCTT
436195 GGCTAACAGA
Statistics
Matches: 1044, Mismatches: 122, Indels: 43
0.86 0.10 0.04
Matches are distributed among these distances:
242 2 0.00
243 134 0.13
244 207 0.20
245 65 0.06
246 127 0.12
247 392 0.38
248 75 0.07
249 42 0.04
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (248 bp):
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
AGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACA
GATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
TCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAG
Found at i:435751 original size:491 final size:488
Alignment explanation
Indices: 434763--436194 Score: 1874
Period size: 491 Copynumber: 2.9 Consensus size: 488
434753 AAATTTGGTT
* * * * *
434763 TGCCTTTGAGCTGAGCGTAATCGAACTCGAAAGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCTTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* * * *
434828 AGTTATGCTGCAAATAATGTGCCTTGGAGCTGAGCATAGTCAACTTGAAGGTCTTTATTGG--CA
66 AGTTATGCTG--AA-AATATGCCTTGGAGCTGAGCGTAGTCAACTCGAAGATC-TT-TTGGTACA
* *
434891 GATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG-GCCCTCGAAGCTGAGTGTAATCGAAC
126 GATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
* * * * *
434955 TAGAGGGTCTTTAGCAGATAGCCTTTCTCGACTTAAGTTATCTGCAAATGA--TGCCTTAGAGCT
191 TCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATCTGCAAATGATGTGCCTTGGAGCT
* *
435018 CAGCGTAGTTTGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
256 GAGCGTAG-TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
* * * *
435083 AAATGATATACCTTGGAACTGAGCGTAGTCGAACTCGAATGTCTTTTGGTGACATATAACCCTTC
320 -AATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTC
* **
435148 TA-CCTTGAGTTATGTTGTAAATGTTGTGCCCTCGAAGCTGAGAGTGTAATCGAACTCGAGGGTC
383 TAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCT-AGAGTACAATCGAACTCGAGGGTC
* *
435212 TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATA
447 TTTGGCAGATAGCCCTTCTCAACTTAAGCTATGATGCAAATA
*
435254 TGCCTTGGAGCTGAGCTTAGTCGAACTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCTTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* * * *
435319 AGTTATGTTGTAAAGATATGCCTTGAAGCTGAGCGGAGTCGAACTCGAACATCTTTTGGTCACAG
66 AGTTATGCTG-AAA-ATATGCCTTGGAGCTGAGCGTAGTC-AACTCGAAGATCTTTTGGT-ACAG
* *
435384 ATAACCCTTCTAGCCTTGAGTTATACTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
127 ATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
* *
435449 CGA-GGTCTTTGGCAGATAGCCCTTCTCGACTTGAGCTATACTGCAAATGATGTGCCTTGGAGAT
192 CGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT-CTGCAAATGATGTGCCTTGGAGCT
* * ** **
435513 GAGCGTAGTCAAACTCGAAGGTC-TT-GTTGGTAGATAATTCTT-TTTACTTAAGTT-TGCTGCA
256 GAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCA
* *
435574 ACGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGGTCACAGATAACCCTTCTA
321 ATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GGTGACAGATAACCCTTCTA
*
435639 GCCTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCT-GAGTACAATCGAACTCGAGGGTCTTT
385 GCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTAGAGTACAATCGAACTCGAGGGTCTTT
*
435703 GGCAGATAGCCCTTCTCAACTTAAGCTATGATGTAAATGA
450 GGCAGATAGCCCTTCTCAACTTAAGCTATGATGCAAAT-A
* *
435743 TGTGCCTTGGAGCTGAG-TGTAGTTGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGAC
1 --TGCCTTGGAGCTGAGCT-TAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC
** * * *
435807 TTCCGTTATGCTGCAAATGATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGTTTTTTTGGTTAC
63 TTAAGTTATGCTGAAAAT-ATGCCTTGGAGCTGAGCGTAGTC-AACTCGAAGATCTTTTGG-TAC
* *
435872 AGATAACCCATCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAA
125 AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
*
435937 CTCGAGGGTCTTTGG-ATGATAGCCCTTCTCGAATTAAGCTATGCTGCAAATGATGTGCCTTGGA
190 CTCGAGGGTCTTTGGCA-GATAGCCCTTCTCGACTTAAGCTAT-CTGCAAATGATGTGCCTTGGA
*
436001 GCTGAGCGTAGTCGATCTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
253 GCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
* * * * *
436066 GAAAATGATATGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGATC-TTGGTGGCAGATAGCCCTT
318 G-CAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTT
* * * * * * * *
436130 CTGGCCTTGAGCTATGCTATAAATGATGTG-CCTTGGAGCTAAGAGT--AGTCGAACTCGAAGGT
382 CTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCT-AGAGTACAATCGAACTCGAGGGT
436192 CTT
446 CTT
436195 GGCTAACAGA
Statistics
Matches: 824, Mismatches: 91, Indels: 50
0.85 0.09 0.05
Matches are distributed among these distances:
488 62 0.08
489 64 0.08
490 174 0.21
491 231 0.28
492 85 0.10
493 79 0.10
494 62 0.08
495 28 0.03
496 39 0.05
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (488 bp):
TGCCTTGGAGCTGAGCTTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
AGTTATGCTGAAAATATGCCTTGGAGCTGAGCGTAGTCAACTCGAAGATCTTTTGGTACAGATAA
CCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAG
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATCTGCAAATGATGTGCCTTGGAGCTGAGCG
TAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAATGAT
ATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTG
AGTTATGTTGTAAATGATGTGCCCTCGAAGCTAGAGTACAATCGAACTCGAGGGTCTTTGGCAGA
TAGCCCTTCTCAACTTAAGCTATGATGCAAATA
Found at i:440024 original size:20 final size:19
Alignment explanation
Indices: 439999--440080 Score: 92
Period size: 20 Copynumber: 4.1 Consensus size: 19
439989 CCGTTAGACA
*
439999 GGGGGAATCGGTACCCCATG
1 GGGGGAATCTGTACCCC-TG
*
440019 GGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTG-TACCCCTG
*
440039 GGGGGAATCAGTAACCCCTAG
1 GGGGGAATCTGT-ACCCCT-G
440060 GGGGGAATCTGTACCCGCTG
1 GGGGGAATCTGTACCC-CTG
440080 G
1 G
440081 ACATTCTGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.02
20 33 0.62
21 19 0.36
ACGTcount: A:0.18, C:0.26, G:0.38, T:0.18
Consensus pattern (19 bp):
GGGGGAATCTGTACCCCTG
Found at i:440067 original size:41 final size:40
Alignment explanation
Indices: 439999--440080 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 40
439989 CCGTTAGACA
* *
439999 GGGGGAATCGGTACCCCATGGGGGGAATCTGTTCCCCCTG
1 GGGGGAATCAGTACCCCATGGGGGGAATCTGTACCCCCTG
*
440039 GGGGGAATCAGTAACCCC-TAGGGGGGAATCTGTACCCGCTG
1 GGGGGAATCAGT-ACCCCAT-GGGGGGAATCTGTACCCCCTG
440080 G
1 G
440081 ACATTCTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 12 0.32
41 25 0.68
ACGTcount: A:0.18, C:0.26, G:0.38, T:0.18
Consensus pattern (40 bp):
GGGGGAATCAGTACCCCATGGGGGGAATCTGTACCCCCTG
Found at i:441592 original size:19 final size:20
Alignment explanation
Indices: 441549--441596 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
441539 TCTAAATCCT
*
441549 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
441569 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
441588 TTTTCAAAA
1 TTTTCAAAA
441597 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:442508 original size:34 final size:32
Alignment explanation
Indices: 442455--442524 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
442445 CCTTACAAAC
*
442455 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
442487 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
442521 TCCC
1 TCCC
442525 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:444002 original size:24 final size:22
Alignment explanation
Indices: 443975--444050 Score: 55
Period size: 24 Copynumber: 3.1 Consensus size: 22
443965 TATATAAAAA
443975 ATAAAGAAAAAGAAGAAATAATAT
1 ATAAA-AAAAAGAA-AAATAATAT
*
443999 ATAAATAAAACA-AATAAATAAAAT
1 ATAAA-AAAA-AGAA-AAATAATAT
*
444023 AATAATAAAAAGGTAAAAATAATAT
1 -ATAA-AAAAAAG-AAAAATAATAT
444048 ATA
1 ATA
444051 TATATATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
24 22 0.52
25 17 0.40
26 3 0.07
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (22 bp):
ATAAAAAAAAGAAAAATAATAT
Found at i:444027 original size:49 final size:49
Alignment explanation
Indices: 443952--444131 Score: 154
Period size: 49 Copynumber: 3.6 Consensus size: 49
443942 ATAGTGAGTA
*
443952 AAATAAATAAAAATATATAAAAAATAA-AGAAAAAG-AAGAAATAATATAT
1 AAATAAATAAAAATAAATAAAAAATAATA-AAAAAGTAA-AAATAATATAT
* *
444001 AAATAAA-ACAAATAAATAAAATAATAATAAAAAGGTAAAAATAATATAT
1 AAATAAATAAAAATAAATAAAA-AATAATAAAAAAGTAAAAATAATATAT
* * *
444050 ATATATATATATATAATAAATAAAAACATAA-AAAATAGTAAATAGAT-ATATAT
1 A-A-ATAAATA-AAAATAAATAAAAA-ATAATAAAAAAGTAAA-A-ATAATATAT
* *
444103 AAATTAATAAAAAAGATAATAAAAAATAA
1 AAATAAAT-AAAAATA-AATAAAAAATAA
444132 CATATATATA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
48 12 0.11
49 29 0.27
50 4 0.04
51 16 0.15
52 21 0.20
53 23 0.21
54 2 0.02
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.24
Consensus pattern (49 bp):
AAATAAATAAAAATAAATAAAAAATAATAAAAAAGTAAAAATAATATAT
Found at i:444176 original size:26 final size:25
Alignment explanation
Indices: 444122--444179 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
444112 AAAAAGATAA
*
444122 TAAAAAATAACATATATATATAATC
1 TAAAAAATAACAAATATATATAATC
444147 TAAAAATATAA-AAATATATACTAA-C
1 TAAAAA-ATAACAAATATATA-TAATC
444172 GTAAAAAA
1 -TAAAAAA
444180 CGAAAATGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.28
Consensus pattern (25 bp):
TAAAAAATAACAAATATATATAATC
Found at i:444735 original size:37 final size:37
Alignment explanation
Indices: 444685--444759 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
444675 ATGCTTGTGG
*
444685 ATCTTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
1 ATCTTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
444722 ATCTTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCTTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
444759 A
1 A
444760 ACGTTATGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.43
Consensus pattern (37 bp):
ATCTTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:446907 original size:15 final size:15
Alignment explanation
Indices: 446887--446936 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
446877 GTCTGAACAT
*
446887 GATGAAATCAAAGAA
1 GATGAAATCGAAGAA
* *
446902 GATGAACTCGATGAA
1 GATGAAATCGAAGAA
* *
446917 GATGAATTCGAAGAT
1 GATGAAATCGAAGAA
446932 GATGA
1 GATGA
446937 TGAACTCGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.46, C:0.08, G:0.26, T:0.20
Consensus pattern (15 bp):
GATGAAATCGAAGAA
Found at i:446932 original size:18 final size:18
Alignment explanation
Indices: 446899--446945 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
446889 TGAAATCAAA
446899 GAAGATGAACTC---GAT
1 GAAGATGAACTCGAAGAT
*
446914 GAAGATGAATTCGAAGAT
1 GAAGATGAACTCGAAGAT
*
446932 GATGATGAACTCGA
1 GAAGATGAACTCGA
446946 TACCAAGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 11 0.42
18 15 0.58
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (18 bp):
GAAGATGAACTCGAAGAT
Found at i:448478 original size:3 final size:3
Alignment explanation
Indices: 448470--448553 Score: 100
Period size: 3 Copynumber: 28.0 Consensus size: 3
448460 TTTTATTTAT
* * * *
448470 TTA TTA TTA CTA TTA TTA TTA TTA TAA TAA TTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
448518 TTA -TA TATA TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
448554 AAAAAATAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.06
3 61 0.86
4 6 0.08
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:449802 original size:13 final size:13
Alignment explanation
Indices: 449786--449825 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
449776 ATATAATAAA
449786 TAAATATTTATTT
1 TAAATATTTATTT
*
449799 TAAATAAATTATTT
1 TAAAT-ATTTATTT
449813 T-AATATTTATTT
1 TAAATATTTATTT
449825 T
1 T
449826 TCAATATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:450570 original size:28 final size:29
Alignment explanation
Indices: 450492--450571 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 29
450482 TTTTCAAAAT
450492 TTTTATATTTACTTA-TTATTTT-CATAATA
1 TTTTAT-TTTA-TTATTTATTTTGCATAATA
* *
450521 TTTATATGTT-TTATTT-TATTTGCA-ATTA
1 TTT-TATTTTATTATTTAT-TTTGCATAATA
450549 TTTTATTTTATTATTTATTTTGC
1 TTTTATTTTATTATTTATTTTGC
450572 TATCAAAGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
27 9 0.21
28 22 0.52
29 8 0.19
30 3 0.07
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (29 bp):
TTTTATTTTATTATTTATTTTGCATAATA
Found at i:452167 original size:14 final size:14
Alignment explanation
Indices: 452129--452182 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
452119 ATTTTAAATA
*
452129 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
452143 TTTTACATTTGCAT
1 ATTTACATTTGCAT
452157 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
452172 CTTTGCATTTG
1 ATTTACATTTG
452183 TATTGCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:455503 original size:16 final size:15
Alignment explanation
Indices: 455478--455508 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
455468 AAGAAAGAAG
455478 AAAAAAAAAGGAAAA
1 AAAAAAAAAGGAAAA
455493 AAAAGAAAAAGGAAAA
1 AAAA-AAAAAGGAAAA
455509 TTGAACCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGGAAAA
Found at i:458042 original size:114 final size:114
Alignment explanation
Indices: 457758--458098 Score: 565
Period size: 114 Copynumber: 3.0 Consensus size: 114
457748 AAGTGACATG
457758 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
457823 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTTAAAGATGAATT
66 TGGTTTGGTATGAACCCC-AAAACCAATCATTGGATTTAAAAGATGAATT
457873 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
457938 TGGTTTGGTATGAACCTCAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
* *
457987 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * * *
458052 TGATTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAA
458099 CTGCATGATC
Statistics
Matches: 213, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
114 131 0.62
115 82 0.38
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
Found at i:460399 original size:50 final size:54
Alignment explanation
Indices: 460219--460419 Score: 241
Period size: 54 Copynumber: 3.8 Consensus size: 54
460209 AGAAATCTTG
* * * ** * *
460219 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTATGAACGTTTGA
1 GCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
* *
460273 GCAAAAACCACAAAAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
1 GCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
* * *
460327 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTAC-ATC-TC-GA
1 GCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
*
460378 -CAGAAACCACAGGAAAA-GATGAATGTATTGTCAAATGTTTTA
1 GCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATGTTTTA
460420 TGAACCAGTG
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 33 0.26
51 7 0.05
52 2 0.02
53 2 0.02
54 85 0.66
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (54 bp):
GCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
Found at i:460820 original size:22 final size:22
Alignment explanation
Indices: 460791--460845 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
460781 ATCTACACTC
*
460791 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
460813 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
460835 TTCAAAGATGA
1 TTCAAAGATGA
460846 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:461937 original size:113 final size:113
Alignment explanation
Indices: 461245--461924 Score: 1080
Period size: 113 Copynumber: 6.0 Consensus size: 113
461235 TAGCAAAGAT
461245 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
461310 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
461358 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
461423 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
461471 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
461536 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
461584 TCAAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
461649 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGC
66 AGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-GC
* * * * * *
461697 TCGAATTCATCA-CTCGATGGATCAACTTTTCCAGTGAAAGAGTTCATAATGAGAATAACTTATC
1 TCAAATCCATCATCT-GATGGATCAGCTTTTCCA--GAAAAAGTTCATAATGAGAAGAACTCATC
* * *
461761 TGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTCGC
63 TGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-GC
* * * *
461812 TCGAATTCATCA-CTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATCT-GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* * *
461876 AAGAAAGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCGACCTTTTGC
65 AAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
461925 ATGACTCTAT
Statistics
Matches: 542, Mismatches: 20, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
112 7 0.01
113 421 0.78
114 5 0.01
115 109 0.20
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:462026 original size:17 final size:17
Alignment explanation
Indices: 461968--462026 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
461958 CAAGATTTCC
461968 AGAAGAAGTTCACAATG
1 AGAAGAAGTTCACAATG
**
461985 AGAA-AAACTCATCTGAA-G
1 AGAAGAAGTTCA-C--AATG
462003 AAGAAGAAGTTCACAATG
1 -AGAAGAAGTTCACAATG
462021 AGAAGA
1 AGAAGA
462027 GCTTGTGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
16 5 0.16
17 13 0.41
18 2 0.06
19 7 0.22
20 5 0.16
ACGTcount: A:0.51, C:0.12, G:0.22, T:0.15
Consensus pattern (17 bp):
AGAAGAAGTTCACAATG
Found at i:462277 original size:3 final size:3
Alignment explanation
Indices: 462269--462352 Score: 109
Period size: 3 Copynumber: 28.0 Consensus size: 3
462259 TTTTATTTAT
* * *
462269 TTA TTA TTA CTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
462317 TTA -TA TATA TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
462353 AAAAAATAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.06
3 61 0.86
4 6 0.08
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:463607 original size:13 final size:13
Alignment explanation
Indices: 463591--463630 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
463581 ATATAATAAA
463591 TAAATATTTATTT
1 TAAATATTTATTT
*
463604 TAAATAAATTATTT
1 TAAAT-ATTTATTT
463618 T-AATATTTATTT
1 TAAATATTTATTT
463630 T
1 T
463631 TCAATATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:479812 original size:3 final size:3
Alignment explanation
Indices: 479798--479830 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
479788 TCTACAAAAA
*
479798 TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
479831 GGTAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Done.