Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 17 of 322
Found at i:4776781 original size:81 final size:81
Alignment explanation
Indices: 4776639--4777257 Score: 704
Period size: 81 Copynumber: 7.6 Consensus size: 81
4776629 AATGTCATCA
* * * * *
4776639 TGAAGAAAGAAACTCCGGGAGGGACCAAATCCTCTTCATAACTCTAAACCTCCGCTAGCACCTAG
1 TGAAGAGAGAAACTCCGAGA-GGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAG
4776704 TGGTTTTAATATCATTG
65 TGGTTTTAATATCATTG
* * ** * *
4776721 TGAAGAGAGAAACTCCGAGATGTCCAAATCCTCTTCATAATTCTAATATTCTGTTGGCACCTAGT
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
* * *
4776786 GGTTTAAACATCATCG
66 GGTTTTAATATCATTG
* * * * *
4776802 TGAAGAGAGAAACTCC-AGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCATCTAC
1 TGAAGAGAGAAACTCCGA-GAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAG
4776866 TGGTTTTAATATCATTG
65 TGGTTTTAATATCATTG
* * * ** **
4776883 TGAAGAGAGAAGCTCCGGGAGGTCCAAATCCTCTTCATAATTCTAATCCTCCATTGGTTCCTAGT
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
* * *
4776948 GGTTTAAACATCATCG
66 GGTTTTAATATCATTG
* * * * * *
4776964 TGAAGAGAGAAGCTCC-AGGAGGACCAAATCCTATTCAAAATTCTAATCCTCTGCTAGCACTTAG
1 TGAAGAGAGAAACTCCGA-GAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAG
*
4777028 TGGTTTTAATGTCATTG
65 TGGTTTTAATATCATTG
* * * * * *
4777045 TGAAGAGAGAAACTCCGGGAGGACCAAATCCTATTCACAA-CCATAATCCTCCACAGGCACCTAG
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTC-TAATCCTCCGCTGGCACCTAG
*
4777109 TGGTTTTAATGTCATTG
65 TGGTTTTAATATCATTG
* * * *
4777126 TGAAGAGAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACAGACACCTAGT
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
*
4777191 GGTTTTAATGTCATTG
66 GGTTTTAATATCATTG
* * * * *
4777207 TGAAGCGGGAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCCTC
1 TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTC
4777258 TGCTAGCTCC
Statistics
Matches: 454, Mismatches: 77, Indels: 13
0.83 0.14 0.02
Matches are distributed among these distances:
80 2 0.00
81 433 0.95
82 19 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (81 bp):
TGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCTGGCACCTAGT
GGTTTTAATATCATTG
Found at i:4776927 original size:162 final size:162
Alignment explanation
Indices: 4776633--4777257 Score: 831
Period size: 162 Copynumber: 3.9 Consensus size: 162
4776623 TAAAAAAATG
* * * *
4776633 TCATCATGAAGAAAGAAACTCCGGGAGGGACCAAATCCTCTTCATAACTCTAAACCTCCGCTAGC
1 TCATCGTGAAGAGAGAAACTCCAGGA-GGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGC
* * * *
4776698 ACCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGAGATGTCCAAATCCTCTTCATAATT
65 ACCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATT
** **
4776763 CTAATATTCTGTTGGCACCTAGTGGTTTAAACA
130 CTAATCCTCCATTGGCACCTAGTGGTTTAAACA
*
4776796 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCA
1 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGCA
* * * * *
4776861 TCTACTGGTTTTAATATCATTGTGAAGAGAGAAGCTCCGGGAGGTCCAAATCCTCTTCATAATTC
66 CCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTC
**
4776926 TAATCCTCCATTGGTTCCTAGTGGTTTAAACA
131 TAATCCTCCATTGGCACCTAGTGGTTTAAACA
* * * * *
4776958 TCATCGTGAAGAGAGAAGCTCCAGGAGGACCAAATCCTATTCAAAATTCTAATCCTCTGCTAGCA
1 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGCA
* * * *
4777023 CTTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTATTCACAA-CC
66 CCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTC
** * **
4777087 ATAATCCTCCACAGGCACCTAGTGGTTTTAATG
131 -TAATCCTCCATTGGCACCTAGTGGTTTAAACA
* * * *
4777120 TCATTGTGAAGAGAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCAC-AGAC
1 TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAG-C
* * * *
4777184 ACCTAGTGGTTTTAATGTCATTGTGAAGCGGGAAACTCCGGGAGGACCAAATCCTCTTCACAACT
65 ACCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATT
4777249 CTAATCCTC
130 CTAATCCTC
4777258 TGCTAGCTCC
Statistics
Matches: 411, Mismatches: 48, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
161 3 0.01
162 384 0.93
163 24 0.06
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (162 bp):
TCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTAGCA
CCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTC
TAATCCTCCATTGGCACCTAGTGGTTTAAACA
Found at i:4777094 original size:243 final size:242
Alignment explanation
Indices: 4776639--4777264 Score: 788
Period size: 243 Copynumber: 2.6 Consensus size: 242
4776629 AATGTCATCA
* * * * *
4776639 TGAAGAAAGAAACTCCGGGAGGGACCAAATCCTCTTCATAACTCTAAACCTCCGCTAGCACCTAG
1 TGAAGAGAGAAACTCCGGGA-GGACCAAATCCTCTTCATAATTCTAATCCTCCACTGGCACCTAG
* * * *
4776704 TGGTTTTAATATCATTGTGAAGAGAGAAACTCCGAGATGTCCAAATCCTCTTCATAATTCTAATA
65 TGGTTTTAATATCATTGTGAAGAGAGAAACTCCG-GAGGACCAAATCCTCTTCAAAATTCTAATC
* * *
4776769 TTCTGTTGGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
129 CTCTGCTAGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
* * ** *
4776834 CTTCATAACTCTAATCCTCTGCTA-GCATCTACTGGTTTTAATATCATTG
194 ATTCACAACTCTAATCCTCCAC-AGGCACCTACTGGTTTTAATATCATTG
* * * **
4776883 TGAAGAGAGAAGCTCCGGGAGGTCCAAATCCTCTTCATAATTCTAATCCTCCATTGGTTCCTAGT
1 TGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACTGGCACCTAGT
* * * * *
4776948 GGTTTAAACATCATCGTGAAGAGAGAAGCTCCAGGAGGACCAAATCCTATTCAAAATTCTAATCC
66 GGTTTTAATATCATTGTGAAGAGAGAAACTCC-GGAGGACCAAATCCTCTTCAAAATTCTAATCC
* * ** * *
4777013 TCTGCTAGCACTTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTA
130 TCTGCTAGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTA
* *
4777078 TTCACAAC-CATAATCCTCCACAGGCACCTAGTGGTTTTAATGTCATTG
195 TTCACAACTC-TAATCCTCCACAGGCACCTACTGGTTTTAATATCATTG
** * *
4777126 TGAAGAGAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACAGACACCTAGT
1 TGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACTGGCACCTAGT
* * * * *
4777191 GGTTTTAATGTCATTGTGAAGCGGGAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCC
66 GGTTTTAATATCATTGTGAAGAGAGAAACTCC-GGAGGACCAAATCCTCTTCAAAATTCTAATCC
4777256 TCTGCTAGC
130 TCTGCTAGC
4777265 TCCGCTTCCG
Statistics
Matches: 324, Mismatches: 55, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
242 2 0.01
243 303 0.94
244 19 0.06
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (242 bp):
TGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACTGGCACCTAGT
GGTTTTAATATCATTGTGAAGAGAGAAACTCCGGAGGACCAAATCCTCTTCAAAATTCTAATCCT
CTGCTAGCACCTAGTGGTTTAAACATCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTAT
TCACAACTCTAATCCTCCACAGGCACCTACTGGTTTTAATATCATTG
Found at i:4781105 original size:19 final size:19
Alignment explanation
Indices: 4781081--4781123 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
4781071 TTTTTTTAAC
4781081 AATTAAAAAAATAATTTCA
1 AATTAAAAAAATAATTTCA
4781100 AATTAAAAAAATAATTTCA
1 AATTAAAAAAATAATTTCA
4781119 AATTA
1 AATTA
4781124 TTTCCTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTAAAAAAATAATTTCA
Found at i:4782186 original size:31 final size:29
Alignment explanation
Indices: 4782151--4782227 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
4782141 TTAATAGCTC
*
4782151 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* ***
4782182 AGTGACAAAAATGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
4782211 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
4782228 CTAAGGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.23
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:4783210 original size:81 final size:81
Alignment explanation
Indices: 4783054--4783505 Score: 796
Period size: 81 Copynumber: 5.5 Consensus size: 81
4783044 TATCATTAAA
** * * * * *
4783054 AATGTCATCATGAAGAGAGAAACTTCGGGAGGATCAAATTATCCTCTTCACAATTCTAATCCTCC
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGA-CCAA--ATCCTCTTCACGATTCTAATCCTCT
*
4783119 ACAGGCACCTAGTGGTTTT
63 GCAGGCACCTAGTGGTTTT
4783138 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
4783203 GGCACCTAGTGGTTTT
66 GGCACCTAGTGGTTTT
4783219 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
4783284 GGCACCTAGTGGTTTT
66 GGCACCTAGTGGTTTT
4783300 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
4783365 GGCACCTAGTGGTTTT
66 GGCACCTAGTGGTTTT
4783381 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
4783446 GGCACCTAGTGGTTTT
66 GGCACCTAGTGGTTTT
*
4783462 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCT
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCT
4783506 CCACCATGAA
Statistics
Matches: 359, Mismatches: 9, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
81 327 0.91
83 3 0.01
84 29 0.08
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (81 bp):
AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
GGCACCTAGTGGTTTT
Found at i:4783324 original size:162 final size:162
Alignment explanation
Indices: 4783054--4784449 Score: 1828
Period size: 162 Copynumber: 8.4 Consensus size: 162
4783044 TATCATTAAA
** * * * * *
4783054 AATGTCATCATGAAGAGAGAAACTTCGGGAGGATCAAATTATCCTCTTCACAATTCTAATCCTCC
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGA-CCAA--ATCCTCTTCACGATTCTAATCCTCT
*
4783119 ACAGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTC
63 GCAGGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTC
4783184 ACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
128 ACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
4783219 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
4783284 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACG
66 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACG
4783349 ATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
131 ATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
4783381 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
* * *
4783446 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTCCACC
66 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACG
* * * * * * ** **
4783511 A-T-GAA-ACTCCGGGAGG-ACCAAATCCTCTCC
131 ATTCTAATCCT-CTGCAGGCACCTAGTGGT-TTT
* * * *
4783541 ACCAT-TCTAATCCTCCGCTGGCACCTAGTG-GTTTTAA-TGTCATTGTGAAGAGA-GAAA--CT
1 A--ATGTC--AT--T--G-T-G-A---AGAGAG---AAACT-CCA--G-G-AG-GACCAAATCCT
* ** *
4783600 C--CAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAATGTC
43 CTTCACGA--TTCTAA------------------TCCTCTGCAGGCACCTAGTGGTTTTAATGTC
4783663 ATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACC
88 ATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACC
4783728 TAGTGGTTTT
153 TAGTGGTTTT
4783738 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
4783803 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACG
66 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACG
4783868 ATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
131 ATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
4783900 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
4783965 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACG
66 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACG
4784030 ATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
131 ATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
* * *
4784062 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCT
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
* *
4784127 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACC
66 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACG
* *
4784192 ATTCTAATCCTCCGCTGGCACCTAGTGGTTTT
131 ATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
* * * *
4784224 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCT
1 AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
**
4784289 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATA
66 GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACG
* *
4784354 ATTCTAATCCTCCGCAGACACCTAGTGGTTTT
131 ATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
* * * *
4784386 AATGTCATTGTGAAGCG-GAAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCCTCTGC
1 AATGTCATTGTGAAGAGAG-AAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGC
4784450 TAGCTCCGCC
Statistics
Matches: 1106, Mismatches: 67, Indels: 119
0.86 0.05 0.09
Matches are distributed among these distances:
159 8 0.01
160 9 0.01
161 4 0.00
162 889 0.80
163 2 0.00
164 3 0.00
165 30 0.03
167 1 0.00
168 1 0.00
169 1 0.00
170 1 0.00
172 1 0.00
173 3 0.00
174 1 0.00
175 8 0.01
177 9 0.01
178 6 0.01
179 6 0.01
180 9 0.01
182 8 0.01
183 1 0.00
184 3 0.00
185 1 0.00
187 1 0.00
188 1 0.00
189 1 0.00
190 1 0.00
192 1 0.00
194 2 0.00
195 74 0.07
196 3 0.00
197 9 0.01
198 8 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (162 bp):
AATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
GGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACG
ATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
Found at i:4783522 original size:33 final size:33
Alignment explanation
Indices: 4783480--4783545 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4783470 TGTGAAGAGA
4783480 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
1 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
4783513 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
1 GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
4783546 TCTAATCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.15
Consensus pattern (33 bp):
GAAACTCCGGGAGGACCAAATCCTCTCCACCAT
Found at i:4783599 original size:114 final size:114
Alignment explanation
Indices: 4783399--4783619 Score: 388
Period size: 114 Copynumber: 1.9 Consensus size: 114
4783389 TGTGAAGAGA
* * *
4783399 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
*
4783464 TGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTCCACCAT
66 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCAT
* *
4783513 GAAACTCCGGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
4783578 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCT
66 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCT
4783620 TCACGATTCT
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (114 bp):
GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCAT
Found at i:4783648 original size:81 final size:81
Alignment explanation
Indices: 4783513--4784449 Score: 1642
Period size: 81 Copynumber: 11.6 Consensus size: 81
4783503 TCTCCACCAT
* * * * *
4783513 GAAACTCCGGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
4783578 TGTCATTGTGAAGAGA
66 TGTCATTGTGAAGAGA
4783594 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
4783659 TGTCATTGTGAAGAGA
66 TGTCATTGTGAAGAGA
4783675 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
4783740 TGTCATTGTGAAGAGA
66 TGTCATTGTGAAGAGA
4783756 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
4783821 TGTCATTGTGAAGAGA
66 TGTCATTGTGAAGAGA
4783837 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
4783902 TGTCATTGTGAAGAGA
66 TGTCATTGTGAAGAGA
4783918 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
4783983 TGTCATTGTGAAGAGA
66 TGTCATTGTGAAGAGA
4783999 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
4784064 TGTCATTGTGAAGAGA
66 TGTCATTGTGAAGAGA
* * *
4784080 GAAACTCCAGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
4784145 TGTCATTGTGAAGAGA
66 TGTCATTGTGAAGAGA
* * * *
4784161 GAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
4784226 TGTCATTGTGAAGAGA
66 TGTCATTGTGAAGAGA
* * * *
4784242 GAAACTCCGGGAGGACCAAATCCTCTTCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
4784307 TGTCATTGTGAAGAGA
66 TGTCATTGTGAAGAGA
** * *
4784323 GAAACTCCAGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCAGACACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
*
4784388 TGTCATTGTGAAGCG-
66 TGTCATTGTGAAGAGA
* * *
4784403 GAAAACTCCGGGAGGACCAAATCCTCTTCACAACTCTAATCCTCTGC
1 G-AAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGC
4784450 TAGCTCCGCC
Statistics
Matches: 836, Mismatches: 19, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
80 1 0.00
81 835 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (81 bp):
GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
TGTCATTGTGAAGAGA
Found at i:4783650 original size:195 final size:195
Alignment explanation
Indices: 4783318--4783700 Score: 712
Period size: 195 Copynumber: 2.0 Consensus size: 195
4783308 TGTGAAGAGA
* * *
4783318 GAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
4783383 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGG
66 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGG
*
4783448 CACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTCCACCAT
131 CACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCAT
* *
4783513 GAAACTCCGGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCTGGCACCTAGTGGTTTTAA
1 GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
4783578 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGG
66 TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGG
4783643 CACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCT
131 CACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCT
4783701 TCACGATTCT
Statistics
Matches: 182, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
195 182 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (195 bp):
GAAACTCCAGGAGGACCAAATCCTCTCCACCATTCTAATCCTCCGCAGGCACCTAGTGGTTTTAA
TGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCAGG
CACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTCCACCAT
Found at i:4785334 original size:5 final size:5
Alignment explanation
Indices: 4785324--4785352 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4785314 TATGTTTGAA
4785324 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
4785353 ACATGGGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:4787174 original size:80 final size:81
Alignment explanation
Indices: 4787009--4787270 Score: 235
Period size: 81 Copynumber: 3.2 Consensus size: 81
4786999 TCCAAGATGG
* *
4787009 CCAAATCCTCTTCATAACTCTAATCTTTCGCTGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
1 CCAAATCCTCTTCATAACTCCAATCTTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
* *
4787074 AAAAACTCTAGGAGGG
66 AAAAACTCTAGAAGGA
* * *
4787090 CCAAATCCTCTTCATAACTCCAATCATTT-GCAGGCA-CTGGTGGTTTTAATATCATCGTGAAGA
1 CCAAATCCTCTTCATAACTCCAATC-TTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGA
* *
4787153 GACAAA-TACTAGAAGGA
65 AAAAAACT-CTAGAAGGA
* ** ** * *** * * **
4787170 CCAAATACTCTTCATAGTTTTAATCCTCTATTA-TCACCTAGTGGTCTTAATATCATCACGAAGA
1 CCAAATCCTCTTCATAACTCCAAT-CTTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGA
* * *
4787234 AAGAAACTCCAGGAGGA
65 AAAAAACTCTAGAAGGA
*
4787251 CCAAATCCTTTTCATAACTC
1 CCAAATCCTCTTCATAACTC
4787271 TAATAGACAC
Statistics
Matches: 144, Mismatches: 31, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
79 1 0.01
80 58 0.40
81 81 0.56
82 4 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (81 bp):
CCAAATCCTCTTCATAACTCCAATCTTTCGCAGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
AAAAACTCTAGAAGGA
Found at i:4787377 original size:155 final size:157
Alignment explanation
Indices: 4787009--4787366 Score: 393
Period size: 161 Copynumber: 2.3 Consensus size: 157
4786999 TCCAAGATGG
* * * **
4787009 CCAAATCCTCTTCATAACTCTAATCTTTCGCTGGCACCTAGTGGTCTTAATACCATCGTGAAGAA
1 CCAAATCCTCTTCATAACTCTAATC-CTCGCTGACACCTAGTGGTCTTAATATCATCACGAAGAA
* *
4787074 AAAAACTCTAGGAGGGCCAAATCCTCTTCATAACTCCAATCATTTGCAGGCACTGGTGGTTTTAA
65 AAAAACTCCAGGAGGACCAAATCCTCTTCATAACTCCAATCA--TGCA-GCACTGGTGGTTTTAA
4787139 TATCATCGTGAAGAGACAAATACTAGAAGGA
127 TATCATCGTGAAGAGACAAATACTAGAAGGA
* ** * ** *
4787170 CCAAATACTCTTCATAGTTTTAATCCTCTATTATCACCTAGTGGTCTTAATATCATCACGAAGAA
1 CCAAATCCTCTTCATAACTCTAATCCTCGCTGA-CACCTAGTGGTCTTAATATCATCACGAAGAA
* * *
4787235 AGAAACTCCAGGAGGACCAAATCCTTTTCATAACTCTAAT-A-G-A-CACCTGGTGGTTTTAATA
65 AAAAACTCCAGGAGGACCAAATCCTCTTCATAACTCCAATCATGCAGCA-CTGGTGGTTTTAATA
* * * * * *
4787296 TCTTTGTTAAGAGAGACACT-CTAGGAGGA
129 TCATCGTGAAGAGACA-AATACTAGAAGGA
*
4787325 CCGAATCCTCTTCATAACTCTAATCCTCCGCTGACACCTAGT
1 CCAAATCCTCTTCATAACTCTAATCCT-CGCTGACACCTAGT
4787367 AATTTTAATA
Statistics
Matches: 162, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
154 2 0.01
155 65 0.40
156 6 0.04
157 1 0.01
160 4 0.02
161 84 0.52
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (157 bp):
CCAAATCCTCTTCATAACTCTAATCCTCGCTGACACCTAGTGGTCTTAATATCATCACGAAGAAA
AAAACTCCAGGAGGACCAAATCCTCTTCATAACTCCAATCATGCAGCACTGGTGGTTTTAATATC
ATCGTGAAGAGACAAATACTAGAAGGA
Found at i:4792298 original size:20 final size:20
Alignment explanation
Indices: 4792273--4792311 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4792263 CAAATTTGAG
4792273 TGTAATAGAAGGATCAAATT
1 TGTAATAGAAGGATCAAATT
4792293 TGTAATAGAAGGATCAAAT
1 TGTAATAGAAGGATCAAAT
4792312 ATGATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (20 bp):
TGTAATAGAAGGATCAAATT
Found at i:4795972 original size:29 final size:31
Alignment explanation
Indices: 4795940--4795997 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
4795930 TTTAATATAT
* * *
4795940 AATTTTATACGTG-AACTTTAATT-TGGTGC
1 AATTATATACATGAAACTCTAATTGTGGTGC
4795969 AATTATATACATGAAACTCTAATTGTGGT
1 AATTATATACATGAAACTCTAATTGTGGT
4795998 TCAAATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.46
30 9 0.38
31 4 0.17
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (31 bp):
AATTATATACATGAAACTCTAATTGTGGTGC
Found at i:4802292 original size:23 final size:22
Alignment explanation
Indices: 4802249--4802306 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
4802239 AAAGGGTATC
* *
4802249 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
4802270 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
4802293 TACATATCATATCT
1 TACAAATCATATCT
4802307 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:4802309 original size:19 final size:19
Alignment explanation
Indices: 4802262--4802340 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 19
4802252 AAATTAAATC
*
4802262 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
4802282 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
4802304 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
4802325 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
4802341 CTCAAAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 14 0.28
21 18 0.36
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:4802322 original size:21 final size:21
Alignment explanation
Indices: 4802296--4802339 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4802286 CTAAGATTAC
4802296 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
4802317 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
4802338 AT
1 AT
4802340 CCTCAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:4807173 original size:14 final size:15
Alignment explanation
Indices: 4807152--4807189 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
4807142 ATTTTACATT
4807152 ATTGTTAATTAAGTA
1 ATTGTTAATTAAGTA
4807167 A-TGTTAA-TAAGTA
1 ATTGTTAATTAAGTA
4807180 ATTGTTAATT
1 ATTGTTAATT
4807190 TTACTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 12 0.57
15 2 0.10
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (15 bp):
ATTGTTAATTAAGTA
Found at i:4817281 original size:72 final size:73
Alignment explanation
Indices: 4816969--4817294 Score: 505
Period size: 73 Copynumber: 4.5 Consensus size: 73
4816959 ACATGTGAAC
* * * * *
4816969 TGAGGCTCAATTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAA-CAGAAATTGAAATTACC
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAAGCAAAAATTGAAAATACC
* *
4817032 TCAGCGTGTCC
63 TCAACGTGTCT
*
4817043 CGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCTCA
4817108 ACGTGTCT
66 ACGTGTCT
4817116 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCTCA
4817181 ACGTGTCT
66 ACGTGTCT
* *
4817189 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCTCA
*
4817253 ATGTGTCT
66 ACGTGTCT
4817261 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
4817295 TTCTTTCAAA
Statistics
Matches: 238, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
72 67 0.28
73 143 0.60
74 28 0.12
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (73 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCTCA
ACGTGTCT
Found at i:4817376 original size:88 final size:87
Alignment explanation
Indices: 4817227--4817472 Score: 289
Period size: 88 Copynumber: 2.8 Consensus size: 87
4817217 AGTTGAATTT
* ** * **
4817227 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
4817292 TGATTCTTTCAAAAACATA-ATAA
66 TGATTCTTTCAAAAA-ATAGA-AA
* * *
4817315 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* **
4817380 TGATTTTTTTGAAAAATAGAAA
66 TGATTCTTTCAAAAAATAGAAA
* **
4817402 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
4817466 GAGTTGA
62 GAGTTGA
4817473 AATTAAAACA
Statistics
Matches: 135, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
87 10 0.07
88 83 0.61
89 2 0.01
90 40 0.30
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (87 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTCTTTCAAAAAATAGAAA
Found at i:4817581 original size:54 final size:55
Alignment explanation
Indices: 4817517--4817622 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
4817507 GCCCCGAGGC
* * *
4817517 TCAACTCACCTCTTGCAATATGAGCTGATT-TTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTCTTGAAAAA-CAGAAATTGAAAAGGT
* *
4817571 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATTCTTGAAAAACAGAAATTGAAAA
4817623 TACCTCAACG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTCTTGAAAAACAGAAATTGAAAAGGT
Found at i:4817701 original size:72 final size:71
Alignment explanation
Indices: 4817581--4817837 Score: 352
Period size: 72 Copynumber: 3.5 Consensus size: 71
4817571 TCAACCCACC
* * *
4817581 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTC
1 TCTCGCAATATGAGTTGATT-TTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
4817646 AACTCATT
64 AACTCATT
*
4817654 TCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
1 TCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
4817719 ACTCATT
65 ACTCATT
*
4817726 TCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
1 TCTCGCAATATGAGTTGA----TTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
**
4817791 CTCAACTCACC
61 CTCAACTCATT
* *
4817802 TCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT
1 TCTCGCAATATGAGTTGATTTTG-AAAACAGAAATT
4817838 AAAAGGCTTA
Statistics
Matches: 166, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
71 1 0.01
72 73 0.44
73 22 0.13
74 3 0.02
75 6 0.04
76 61 0.37
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (71 bp):
TCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
CTCATT
Found at i:4817788 original size:76 final size:75
Alignment explanation
Indices: 4817581--4817823 Score: 336
Period size: 76 Copynumber: 3.3 Consensus size: 75
4817571 TCAACCCACC
* * * *
4817581 TCTCGCAATATGAGTTGA---TTCTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGG
1 TCTCGCAATATGAGTTGATTTTTTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
4817643 CTCAACTCATT
65 CTCAACTCATT
* *
4817654 TCTCGCAATATAAGTTGA---ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
1 TCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
4817716 TCAACTCATT
66 TCAACTCATT
*
4817726 TCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
1 TCTCGCAATATGAGTTGATTTTTTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
**
4817791 CTCAACTCACC
65 CTCAACTCATT
*
4817802 TCTAGCAATATGAGTTGATTTT
1 TCTCGCAATATGAGTTGATTTT
4817824 GAAAAACAAA
Statistics
Matches: 154, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
72 61 0.40
73 22 0.14
75 6 0.04
76 65 0.42
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (75 bp):
TCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
TCAACTCATT
Found at i:4817988 original size:70 final size:70
Alignment explanation
Indices: 4817841--4818015 Score: 212
Period size: 70 Copynumber: 2.5 Consensus size: 70
4817831 AAAAATTAAA
* * * * * **
4817841 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
4817905 CCCCG
66 CCCCG
*
4817910 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
4817974 GTCTTG
65 GCCCCG
4817980 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
4818016 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
69 27 0.29
70 61 0.66
71 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:4830075 original size:130 final size:130
Alignment explanation
Indices: 4829842--4830100 Score: 500
Period size: 130 Copynumber: 2.0 Consensus size: 130
4829832 AATGTTAAAC
4829842 CGGTACATTTCCTTGTTTATTGAAATTAATTAGCAAAACAAATATATGATTTTCGACATAATGCA
1 CGGTACATTTCCTTGTTTATTGAAATTAATTAGCAAAACAAATATATGATTTTCGACATAATGCA
4829907 AAGTAAATTGATATAAAATAAAAATAAATAAATGATAGGGCTAGGCATATTTGAAACAAATAACT
66 AAGTAAATTGATATAAAATAAAAATAAATAAATGATAGGGCTAGGCATATTTGAAACAAATAACT
4829972 CGGTACATTTCCTTGTTTATTGAAATTAATTAGCAAAACAAATATATGATTTTCGACATAATGCA
1 CGGTACATTTCCTTGTTTATTGAAATTAATTAGCAAAACAAATATATGATTTTCGACATAATGCA
**
4830037 AAGTAAATTGATATGCAATAAAAATAAATAAATGATAGGGCTAGGCATATTTGAAACAAATAAC
66 AAGTAAATTGATATAAAATAAAAATAAATAAATGATAGGGCTAGGCATATTTGAAACAAATAAC
4830101 AAACATGACA
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 127 1.00
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (130 bp):
CGGTACATTTCCTTGTTTATTGAAATTAATTAGCAAAACAAATATATGATTTTCGACATAATGCA
AAGTAAATTGATATAAAATAAAAATAAATAAATGATAGGGCTAGGCATATTTGAAACAAATAACT
Found at i:4830668 original size:21 final size:20
Alignment explanation
Indices: 4830642--4830714 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
4830632 ACATATATGT
4830642 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
4830663 ATAATAATAGTGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
4830685 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
4830705 GTAACAATAT
1 ATAATAATAT
4830715 TAGTAATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.24
21 27 0.60
22 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:4830686 original size:16 final size:15
Alignment explanation
Indices: 4830657--4830699 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
4830647 AATGATGAAA
4830657 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
4830671 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
4830687 ATAATAATAAATA
1 ATAATAATAAATA
4830700 TAATAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:4831256 original size:17 final size:17
Alignment explanation
Indices: 4831234--4831285 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
4831224 CCGGTCCGAT
4831234 CGCCGGACCGTTGCCGG
1 CGCCGGACCGTTGCCGG
* *
4831251 CGCCGGTCCGAT-----
1 CGCCGGACCGTTGCCGG
4831263 CGCCGGACCGTTGCCGG
1 CGCCGGACCGTTGCCGG
4831280 CGCCGG
1 CGCCGG
4831286 TCCGATCGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
12 10 0.38
17 16 0.62
ACGTcount: A:0.06, C:0.42, G:0.40, T:0.12
Consensus pattern (17 bp):
CGCCGGACCGTTGCCGG
Found at i:4831257 original size:29 final size:29
Alignment explanation
Indices: 4831224--4831314 Score: 173
Period size: 29 Copynumber: 3.1 Consensus size: 29
4831214 GGGGAGGGCT
4831224 CCGGTCCGATCGCCGGACCGTTGCCGGCG
1 CCGGTCCGATCGCCGGACCGTTGCCGGCG
4831253 CCGGTCCGATCGCCGGACCGTTGCCGGCG
1 CCGGTCCGATCGCCGGACCGTTGCCGGCG
*
4831282 CCGGTCCGATCGCCAGACCGTTGCCGGCG
1 CCGGTCCGATCGCCGGACCGTTGCCGGCG
4831311 CCGG
1 CCGG
4831315 CCACCGCGTG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.08, C:0.42, G:0.37, T:0.13
Consensus pattern (29 bp):
CCGGTCCGATCGCCGGACCGTTGCCGGCG
Found at i:4832351 original size:108 final size:107
Alignment explanation
Indices: 4832114--4832388 Score: 378
Period size: 108 Copynumber: 2.6 Consensus size: 107
4832104 TTTCAAAAAT
4832114 AGATGGT-GAGTGGG-TCGTCCCTTCAATAATATCCCAATGTTCAAACCAGGACCAACTTGACTT
1 AGATGGTGGAGTGGGCTC-TCCCTTCAATAATATCCCAATGTTCAAACCAGGACCAACTTGACTT
* *
4832177 CTATGAGATGTGGCAGAACTTGATTTCCACCTTTTCCAAGGGC
65 CTATGAGATGAGGCAGAACTTGATTTACACCTTTTCCAAGGGC
* * ** *
4832220 AGATGGTGGAGTGGACCCTCCCTTCGGTAACATCCCAATGTTCAAACCAGGACCAACTTGACTTA
1 AGATGGTGGAGTGGGCTCTCCCTTCAATAATATCCCAATGTTCAAACCAGGACCAACTTGACTT-
* * *
4832285 CT-TGAGATGGAGGCGGAACTTGATTTATACCTTTTCCAGGGGC
65 CTATGAGAT-GAGGCAGAACTTGATTTACACCTTTTCCAAGGGC
* *
4832328 AGATGGTGGAGTGGGCTCTCCCTTCAATAATATCCCAAAGTTTAAACC-GTGACCAACTTGA
1 AGATGGTGGAGTGGGCTCTCCCTTCAATAATATCCCAATGTTCAAACCAG-GACCAACTTGA
4832389 GGCGATGGTG
Statistics
Matches: 147, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
106 7 0.05
107 56 0.38
108 84 0.57
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (107 bp):
AGATGGTGGAGTGGGCTCTCCCTTCAATAATATCCCAATGTTCAAACCAGGACCAACTTGACTTC
TATGAGATGAGGCAGAACTTGATTTACACCTTTTCCAAGGGC
Found at i:4832458 original size:99 final size:99
Alignment explanation
Indices: 4832307--4832596 Score: 381
Period size: 99 Copynumber: 2.9 Consensus size: 99
4832297 GCGGAACTTG
* * *
4832307 ATTTATACCTTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCAATAATATCCCAAAGTTTA
1 ATTTATACGTTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTTAGTAATATCCCAAAGTTTA
* *
4832372 AACCGTGACCAACTTGAGGCGATGGTGCTGGTGT
66 AACCGTGACCAACTTGAGGCGGTGGTGCTGGCGT
* ** *
4832406 ATTTATACGTTTTCTAGAAGCAGATGGTGGAGTGGGCTCTCCCTTTGGTAATATCCCAAAGTTTA
1 ATTTATACGTTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTTAGTAATATCCCAAAGTTTA
* *
4832471 AACCGTGA-CAACCTTAAGGCGGTGGTGGTGGCGT
66 AACCGTGACCAA-CTTGAGGCGGTGGTGCTGGCGT
* * *
4832505 ATTTATACGTTTTCCAGGGGAAAATGGTGGAGTGGG-TCCTCCCTTTCGTAATATCCCAAAGTTC
1 ATTTATACGTTTTCCAGGGGCAGATGGTGGAGTGGGCT-CTCCCTTTAGTAATATCCCAAAGTT-
*
4832569 TAATA--GTGACCAACTTGAAGCGGTGGTG
64 TAA-ACCGTGACCAACTTGAGGCGGTGGTG
4832597 GTGACCAACT
Statistics
Matches: 167, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
98 4 0.02
99 156 0.93
100 6 0.04
101 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (99 bp):
ATTTATACGTTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTTAGTAATATCCCAAAGTTTA
AACCGTGACCAACTTGAGGCGGTGGTGCTGGCGT
Found at i:4836773 original size:31 final size:32
Alignment explanation
Indices: 4836738--4836804 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
4836728 TTACTCCCTA
* * *
4836738 TTAAAATTCAATAATTCAATTT-AATCCTTTT
1 TTAAAAGTAAATAATTCAATTTAAATCATTTT
*
4836769 TTAAAAGTAAATAATTTAATTTAAATCATTTT
1 TTAAAAGTAAATAATTCAATTTAAATCATTTT
4836801 TTAA
1 TTAA
4836805 TATTAATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 19 0.61
32 12 0.39
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.48
Consensus pattern (32 bp):
TTAAAAGTAAATAATTCAATTTAAATCATTTT
Found at i:4838416 original size:21 final size:21
Alignment explanation
Indices: 4838375--4838417 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
4838365 CATTCTAATC
*
4838375 TTTTAATATTTTTCATGATTT
1 TTTTAATATTTTTCATAATTT
* *
4838396 TTTTAAT-TTTTTTATAAATT
1 TTTTAATATTTTTCATAATTT
4838416 TT
1 TT
4838418 AAATTATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTAATATTTTTCATAATTT
Found at i:4848704 original size:42 final size:43
Alignment explanation
Indices: 4848657--4848743 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
4848647 TAATTGTAAT
* * *
4848657 TTAAATTCTAATT-TTTTTAATTTATAATTATCACGACTTCTA
1 TTAAATTCTAATTATTTTAAATGTATAATTATCACAACTTCTA
* *
4848699 TTAAATTGTAATTATTTTAAATGTATAATTATCACAAGTTCTA
1 TTAAATTCTAATTATTTTAAATGTATAATTATCACAACTTCTA
4848742 TT
1 TT
4848744 TTATTTCAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 12 0.31
43 27 0.69
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.51
Consensus pattern (43 bp):
TTAAATTCTAATTATTTTAAATGTATAATTATCACAACTTCTA
Found at i:4850344 original size:16 final size:16
Alignment explanation
Indices: 4850323--4850353 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4850313 AACTTGAATG
4850323 ACCCAAAATCAAAACA
1 ACCCAAAATCAAAACA
*
4850339 ACCCAAACTCAAAAC
1 ACCCAAAATCAAAAC
4850354 CACTTAACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.35, G:0.00, T:0.06
Consensus pattern (16 bp):
ACCCAAAATCAAAACA
Found at i:4854764 original size:22 final size:21
Alignment explanation
Indices: 4854737--4854777 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4854727 AAACATGAAT
4854737 TATATA-ATAGACATAAAAAA
1 TATATATATAGACATAAAAAA
* *
4854757 TATATATATATATATAAAAAA
1 TATATATATAGACATAAAAAA
4854778 GGAGATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
TATATATATAGACATAAAAAA
Found at i:4861356 original size:42 final size:42
Alignment explanation
Indices: 4861294--4861408 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 42
4861284 TTCGTTTTCC
* * *
4861294 CGATGCCATAGTTCAACTATGGTCTTACACATCTTCATATAAT
1 CGATGCCATAGTCCAGCTATGGTCTTACACATATTCATAT-AT
*
4861337 -GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATAT
1 CGATGCCATAGTCCAGCTATGGTCTTACACATATTCATATAT
* *
4861378 CAATGCTATAGTCCAGCTATGGTCTTACACA
1 CGATGCCATAGTCCAGCTATGGTCTTACACA
4861409 AATCACATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 2 0.03
42 62 0.97
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (42 bp):
CGATGCCATAGTCCAGCTATGGTCTTACACATATTCATATAT
Found at i:4861561 original size:31 final size:31
Alignment explanation
Indices: 4861526--4861612 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
4861516 CTTGTCACTT
*
4861526 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
4861557 GTAGCCGGAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4861588 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
4861613 TGTCATTTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:4861694 original size:50 final size:51
Alignment explanation
Indices: 4861588--4861716 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
4861578 CACTGATTAG
* * *
4861588 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
4861639 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
4861689 GTAGCCGAAGCTTTCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
4861717 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:4867452 original size:12 final size:12
Alignment explanation
Indices: 4867435--4867470 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
4867425 AATTTGAAAG
4867435 TTTAATTTTTTA
1 TTTAATTTTTTA
4867447 TTTAATTATTTTTA
1 TTTAA-T-TTTTTA
4867461 TTTAATTTTT
1 TTTAATTTTT
4867471 ATAATGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 11 0.50
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTAATTTTTTA
Found at i:4868715 original size:19 final size:19
Alignment explanation
Indices: 4868691--4868733 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
4868681 TGCCAACATA
4868691 AGCTACAGCTTGGGTCATT
1 AGCTACAGCTTGGGTCATT
4868710 AGCTACAGCTTGGGTCATT
1 AGCTACAGCTTGGGTCATT
4868729 AGCTA
1 AGCTA
4868734 AATTACGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (19 bp):
AGCTACAGCTTGGGTCATT
Found at i:4870987 original size:35 final size:36
Alignment explanation
Indices: 4870937--4871015 Score: 99
Period size: 38 Copynumber: 2.2 Consensus size: 36
4870927 TATGTATTTT
4870937 CGTATGTTTGTTCAAG-TTCCGAGTC-TAAGACTGCA
1 CGTAT-TTTGTTCAAGATTCCGAGTCTTAAGACTGCA
* *
4870972 CGTATTTTGTATCAAGTATTTCGAGTCTTAAGGCTGCA
1 CGTATTTTGT-TCAAG-ATTCCGAGTCTTAAGACTGCA
4871010 CGTATT
1 CGTATT
4871016 CTAGATTAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
34 5 0.13
35 10 0.26
37 8 0.21
38 15 0.39
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (36 bp):
CGTATTTTGTTCAAGATTCCGAGTCTTAAGACTGCA
Found at i:4871324 original size:30 final size:30
Alignment explanation
Indices: 4871290--4871346 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
4871280 TCTAATAATG
4871290 TTAAATTAATTTCAATATTATAATGTATTA
1 TTAAATTAATTTCAATATTATAATGTATTA
4871320 TTAAATTAATTTCAATATTATAATGTA
1 TTAAATTAATTTCAATATTATAATGTA
4871347 AACATGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (30 bp):
TTAAATTAATTTCAATATTATAATGTATTA
Found at i:4871788 original size:13 final size:13
Alignment explanation
Indices: 4871770--4871795 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4871760 GGTTATGTTC
4871770 GTTTAATATAGAT
1 GTTTAATATAGAT
4871783 GTTTAATATAGAT
1 GTTTAATATAGAT
4871796 AGCTAGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTAATATAGAT
Found at i:4874805 original size:42 final size:42
Alignment explanation
Indices: 4874758--4874842 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
4874748 ACCATAAACC
4874758 TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
1 TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
*
4874800 TTTCAAAAAGAGTTAAATTGTTGTTGTTTTTAATAGAAATAT
1 TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
4874842 T
1 T
4874843 GACTAAAACG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (42 bp):
TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
Found at i:4875555 original size:17 final size:18
Alignment explanation
Indices: 4875533--4875566 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4875523 TTCGCCCCTC
4875533 ATTATACATA-CTAAATA
1 ATTATACATACCTAAATA
*
4875550 ATTATATATACCTAAAT
1 ATTATACATACCTAAAT
4875567 TATGTTAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTATACATACCTAAATA
Found at i:4879771 original size:46 final size:46
Alignment explanation
Indices: 4879704--4879795 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
4879694 ACTTTTAAGC
4879704 AAAATAGTGATAATAACATATTTAAAAAAAATTAAAAGGAAAGAGT
1 AAAATAGTGATAATAACATATTTAAAAAAAATTAAAAGGAAAGAGT
*
4879750 AAAATAGTGATAATAACATATTTAAAAAAAATTAAAATGAAAGAGT
1 AAAATAGTGATAATAACATATTTAAAAAAAATTAAAAGGAAAGAGT
4879796 GAGAAAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (46 bp):
AAAATAGTGATAATAACATATTTAAAAAAAATTAAAAGGAAAGAGT
Found at i:4891009 original size:20 final size:20
Alignment explanation
Indices: 4890984--4891031 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4890974 TTTTGACGAG
4890984 ATTTTTTATAAA-TATTTTGA
1 ATTTTTTA-AAATTATTTTGA
*
4891004 ATTTTTGAAAATTATTTTGA
1 ATTTTTTAAAATTATTTTGA
4891024 ATTCTTTT
1 ATT-TTTT
4891032 TGTAACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.60
Consensus pattern (20 bp):
ATTTTTTAAAATTATTTTGA
Found at i:4891466 original size:83 final size:83
Alignment explanation
Indices: 4891327--4891491 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
4891317 TTTAATTTTA
*
4891327 TTAAAACAACGATTTTGGTCTACGAAATTCAGAAAAATGAGTTCGGGAGCCGGTTACGCACGAGG
1 TTAAAACAACGATTTTGGTCTACGAAATTCAGAAAAATGAGTTCGGGAGCCGGTTACGCACGAGA
4891392 AAGGATTAGCACCCTCGG
66 AAGGATTAGCACCCTCGG
4891410 TTAAAACAACGATTTTGGTCTACGAAATTCAGAAAAATGAGTTCGGGAGCCGGTTACGCACGAGA
1 TTAAAACAACGATTTTGGTCTACGAAATTCAGAAAAATGAGTTCGGGAGCCGGTTACGCACGAGA
4891475 AAGGATTAGCACCCTCG
66 AAGGATTAGCACCCTCG
4891492 ATACGCCCAA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (83 bp):
TTAAAACAACGATTTTGGTCTACGAAATTCAGAAAAATGAGTTCGGGAGCCGGTTACGCACGAGA
AAGGATTAGCACCCTCGG
Found at i:4892438 original size:3 final size:3
Alignment explanation
Indices: 4892430--4892456 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4892420 AAGCATAAAC
4892430 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
4892457 CATTGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4898770 original size:17 final size:18
Alignment explanation
Indices: 4898732--4898770 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4898722 AATGTGTTCT
*
4898732 AAATTACATAATATATAA
1 AAATAACATAATATATAA
4898750 AAATAACATAATATA-AA
1 AAATAACATAATATATAA
4898767 AAAT
1 AAAT
4898771 TATAAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:4905468 original size:47 final size:47
Alignment explanation
Indices: 4905409--4905565 Score: 233
Period size: 47 Copynumber: 3.3 Consensus size: 47
4905399 TCGGGACTTT
* * * *
4905409 TCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTT
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
4905456 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
* * *
4905503 TCTCATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTA
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
* *
4905550 TCTCATATATATACTT
1 TCACATATATACACTT
4905566 GTACATCAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 102 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
Found at i:4910070 original size:27 final size:27
Alignment explanation
Indices: 4910040--4910091 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4910030 GGATAGGTAT
*
4910040 ATAATATAATATGAAA-AATATATGCAC
1 ATAAGATAATAT-AAAGAATATATGCAC
*
4910067 ATAAGATAATGTAAAGAATATATGC
1 ATAAGATAATATAAAGAATATATGC
4910092 GTAACTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.29
Consensus pattern (27 bp):
ATAAGATAATATAAAGAATATATGCAC
Found at i:4910479 original size:3 final size:3
Alignment explanation
Indices: 4910465--4910515 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
4910455 AAACATAAAC
* *
4910465 TAA TACA TAA TAA TAT TAA TAA TAA TAA -AA TTAA TAA T-A TAA AAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
4910510 TAA TAA
1 TAA TAA
4910516 GAGTATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 31 0.77
4 5 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4910497 original size:15 final size:15
Alignment explanation
Indices: 4910465--4910515 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
4910455 AAACATAAAC
*
4910465 TAATACATAATAATAT
1 TAATA-ATAATAAAAT
4910481 TAATAATAATAAAAT
1 TAATAATAATAAAAT
*
4910496 TAATAAT-ATAAAAA
1 TAATAATAATAAAAT
4910510 TAATAA
1 TAATAA
4910516 GAGTATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.36
15 16 0.48
16 5 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATAATAATAAAAT
Found at i:4918429 original size:30 final size:30
Alignment explanation
Indices: 4918395--4918455 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
4918385 ACGTGGGCTA
4918395 GAATAAAATAAAAAATAAATTATAAATTAT
1 GAATAAAATAAAAAATAAATTATAAATTAT
4918425 GAATAAAATAAAAAATAAATTATAAATTAT
1 GAATAAAATAAAAAATAAATTATAAATTAT
4918455 G
1 G
4918456 TATTGAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (30 bp):
GAATAAAATAAAAAATAAATTATAAATTAT
Found at i:4926564 original size:26 final size:26
Alignment explanation
Indices: 4926528--4926637 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
4926518 CATGAAATTC
4926528 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAAACCA
*
4926554 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
*
4926580 TTATCATGAAACATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAAACCA
*
4926606 TTATCATGGAACATTTACCT-AACCTA
1 TTATCATGAAACATTTACCTAAACC-A
4926632 TTATCA
1 TTATCA
4926638 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 3 0.04
26 76 0.96
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAAACCA
Found at i:4936485 original size:12 final size:12
Alignment explanation
Indices: 4936468--4936498 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4936458 CTAAGGCCTT
4936468 CCTGACATGACA
1 CCTGACATGACA
4936480 CCTGACATGACA
1 CCTGACATGACA
*
4936492 CATGACA
1 CCTGACA
4936499 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.16
Consensus pattern (12 bp):
CCTGACATGACA
Found at i:4936599 original size:30 final size:31
Alignment explanation
Indices: 4936565--4936622 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
4936555 GTTTATGGTT
*
4936565 AAATTTCAG-TTTAATCCTTATATTTTATTC
1 AAATTTCAGATTTAATCCTTATACTTTATTC
* *
4936595 AAATTTGAGATTTAATCTTTATACTTTA
1 AAATTTCAGATTTAATCCTTATACTTTA
4936623 CTTTTAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (31 bp):
AAATTTCAGATTTAATCCTTATACTTTATTC
Found at i:4940708 original size:14 final size:15
Alignment explanation
Indices: 4940689--4940718 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4940679 TTGGCTCTCC
4940689 ACTTA-TTAATTACA
1 ACTTATTTAATTACA
4940703 ACTTATTTAATTACA
1 ACTTATTTAATTACA
4940718 A
1 A
4940719 AGTCATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (15 bp):
ACTTATTTAATTACA
Found at i:4943573 original size:35 final size:35
Alignment explanation
Indices: 4943527--4943599 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
4943517 TATACTAGGT
4943527 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
1 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
4943562 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
1 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
4943597 CAT
1 CAT
4943600 GTATTGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (35 bp):
CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
Found at i:4951449 original size:162 final size:162
Alignment explanation
Indices: 4951154--4951553 Score: 541
Period size: 162 Copynumber: 2.5 Consensus size: 162
4951144 ATTAAAAATG
* * ** * **
4951154 TCATCATAAAGAAAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCA
1 TCATCATGAAGAGAGAAACTCTAGGAGGACTAAATCCTCTTCATAACTCTAATCCTCTGCTAGCA
* * * * * * *
4951219 CTTAGTGGTTTTAATGTCATTGTGAAGAGAGAAGCTCCGAGAGGTCCAAATTCTCTTCATATTTC
66 CATAGTGGTTTTAATATCATTGTGAAGAGAGAAACCCCGAGAGATCCAAATCCTCTTCATAATTC
*
4951284 TAATCTTCCGTTGGCACCTAGTGGTTTAAACA
131 TAATCCTCCGTTGGCACCTAGTGGTTTAAACA
** * *
4951316 TCATTGTGAAGAGATAAACTCTAGGAGGACTAAATCCTCTTCATAACTCTAATCCTCTGCTGGCA
1 TCATCATGAAGAGAGAAACTCTAGGAGGACTAAATCCTCTTCATAACTCTAATCCTCTGCTAGCA
* *
4951381 CATGGTGGTTTTAATATCATTGTGAAGAGAGAAACCCCGGGAGATCCAAATCCTCTTCATAATTC
66 CATAGTGGTTTTAATATCATTGTGAAGAGAGAAACCCCGAGAGATCCAAATCCTCTTCATAATTC
*
4951446 TAATCCTCTGTTGGCACCTAGTGGTTTAAACA
131 TAATCCTCCGTTGGCACCTAGTGGTTTAAACA
** * *
4951478 TCATCATGAAGAGAGAAACTCTAGGAGGA-TCAAATCCAATTCGTAATTCTAATCCTCTGCTAGC
1 TCATCATGAAGAGAGAAACTCTAGGAGGACT-AAATCCTCTTCATAACTCTAATCCTCTGCTAGC
*
4951542 ACCTAGTGGTTT
65 ACATAGTGGTTT
4951554 ACTCTTTTGC
Statistics
Matches: 205, Mismatches: 32, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
161 1 0.00
162 204 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (162 bp):
TCATCATGAAGAGAGAAACTCTAGGAGGACTAAATCCTCTTCATAACTCTAATCCTCTGCTAGCA
CATAGTGGTTTTAATATCATTGTGAAGAGAGAAACCCCGAGAGATCCAAATCCTCTTCATAATTC
TAATCCTCCGTTGGCACCTAGTGGTTTAAACA
Found at i:4951554 original size:81 final size:81
Alignment explanation
Indices: 4951162--4951554 Score: 416
Period size: 81 Copynumber: 4.9 Consensus size: 81
4951152 TGTCATCATA
* * * * ** * *
4951162 AAGAAAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACTTAGTGG
1 AAGAGAGAAACTCCAGGAGGATCAAATCCTCTTCATAATTCTAATCCTCTGCTGGCACCTAGTGG
* **
4951227 TTTTAATGTCATTGTG
66 TTTAAACATCATTGTG
* * * * * *
4951243 AAGAGAGAAGCTCC-GAGAGG-TCCAAATTCTCTTCATATTTCTAATCTTCCGTTGGCACCTAGT
1 AAGAGAGAAACTCCAG-GAGGAT-CAAATCCTCTTCATAATTCTAATCCTCTGCTGGCACCTAGT
4951306 GGTTTAAACATCATTGTG
64 GGTTTAAACATCATTGTG
* * * * *
4951324 AAGAGATAAACTCTAGGAGGA-CTAAATCCTCTTCATAACTCTAATCCTCTGCTGGCACATGGTG
1 AAGAGAGAAACTCCAGGAGGATC-AAATCCTCTTCATAATTCTAATCCTCTGCTGGCACCTAGTG
* *
4951388 GTTTTAATATCATTGTG
65 GTTTAAACATCATTGTG
* * *
4951405 AAGAGAGAAACCCCGGGA-GATCCAAATCCTCTTCATAATTCTAATCCTCTGTTGGCACCTAGTG
1 AAGAGAGAAACTCCAGGAGGAT-CAAATCCTCTTCATAATTCTAATCCTCTGCTGGCACCTAGTG
**
4951469 GTTTAAACATCATCATG
65 GTTTAAACATCATTGTG
* ** * *
4951486 AAGAGAGAAACTCTAGGAGGATCAAATCCAATTCGTAATTCTAATCCTCTGCTAGCACCTAGTGG
1 AAGAGAGAAACTCCAGGAGGATCAAATCCTCTTCATAATTCTAATCCTCTGCTGGCACCTAGTGG
4951551 TTTA
66 TTTA
4951555 CTCTTTTGCT
Statistics
Matches: 257, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
80 4 0.02
81 248 0.96
82 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (81 bp):
AAGAGAGAAACTCCAGGAGGATCAAATCCTCTTCATAATTCTAATCCTCTGCTGGCACCTAGTGG
TTTAAACATCATTGTG
Found at i:4953489 original size:16 final size:16
Alignment explanation
Indices: 4953468--4953500 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4953458 AAATGGTTAG
4953468 GCCTATATATAGTTGA
1 GCCTATATATAGTTGA
*
4953484 GCCTATTTATAGTTGA
1 GCCTATATATAGTTGA
4953500 G
1 G
4953501 ATTCAGGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.39
Consensus pattern (16 bp):
GCCTATATATAGTTGA
Found at i:4955590 original size:21 final size:21
Alignment explanation
Indices: 4955564--4955604 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4955554 ATCTGCTCAA
* *
4955564 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4955585 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4955605 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4956907 original size:42 final size:42
Alignment explanation
Indices: 4956792--4956937 Score: 170
Period size: 42 Copynumber: 3.5 Consensus size: 42
4956782 CATGGGGATG
* * *
4956792 AGATTTGTGTTTTTAGTCTGCTCCACTACTACTTAGGGAGATA
1 AGATCTGTGGTTTTA-TCTGCTCCACTACTGCTTAGGGAGATA
* *** * * *
4956835 AGA-CT-TGATGCGATCTGCTTCACTATTGCTTAGGGAAATA
1 AGATCTGTGGTTTTATCTGCTCCACTACTGCTTAGGGAGATA
4956875 AGATCTGTGGTTTTATCTGCTCCACTACTGCTTAGGGAGATA
1 AGATCTGTGGTTTTATCTGCTCCACTACTGCTTAGGGAGATA
*
4956917 AGATCTGTGGTTTTGTCTGCT
1 AGATCTGTGGTTTTATCTGCT
4956938 GTGATCTACT
Statistics
Matches: 84, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
40 26 0.31
41 6 0.07
42 49 0.58
43 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (42 bp):
AGATCTGTGGTTTTATCTGCTCCACTACTGCTTAGGGAGATA
Found at i:4957013 original size:44 final size:45
Alignment explanation
Indices: 4956984--4957295 Score: 126
Period size: 44 Copynumber: 6.8 Consensus size: 45
4956974 CCTTTATTTT
*
4956984 AATCCACTCCACTGTAATCTCAGGCAGATAGGAT-TACTATCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
* * * * *
4957028 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTTTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT-ACTA-TCTTC
** *** * **
4957074 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
* * *
4957118 AATCTGATGTGATCTACTCTACTGTAA-CTTCAGAG-AGATAAGATCCT-TTAT-TTT
1 AATC---------C-ACTCCACTGTAATC-TCAG-GCAGATAAGAT-CTACTATCTTC
* * *
4957172 AATCCGCTCCACTGTAA-CTTCAGAG-AGATAGGAT-TACTAGCTTC
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGATCTACTATCTTC
* * **
4957216 AATCTACTCCGCTGTAATCTCAGAG-AGATAAGATCT-CTGGCTTC
1 AATCCACTCCACTGTAATCTCAG-GCAGATAAGATCTACTATCTTC
** * *
4957260 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT
4957296 GAAATTCTTC
Statistics
Matches: 207, Mismatches: 39, Indels: 44
0.71 0.13 0.15
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 129 0.62
45 5 0.02
46 36 0.17
53 1 0.00
54 28 0.14
55 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
Found at i:4957288 original size:88 final size:88
Alignment explanation
Indices: 4956941--4957289 Score: 244
Period size: 88 Copynumber: 3.8 Consensus size: 88
4956931 GTCTGCTGTG
* * * * * *
4956941 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
*
4957006 G-GCAGATAGGATTACTATCTTCA
66 GAG-AGATAGGATTACTAGCTTCA
* * * ** * *
4957029 ATCTACTCCGCTGTAA-TCTCAGGGAGATAAGAT-C-TGAAATTTTTCGGTCTGTTCCACTGTAA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTG--A--CTTCAATCCGCTCCACTGTAA
* * * *
4957091 TCTCAGGGAGATAAGATCT-CTGGCTTCA
61 CCTCAGAGAGATAGGAT-TACTAGCTTCA
* * *
4957119 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
1 ATC-----T-A-CT-C-C-ACTGTAACTTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCAC
*
4957184 TGTAACTTCAGAGAGATAGGATTACTAGCTTCA
56 TGTAACCTCAGAGAGATAGGATTACTAGCTTCA
* * *
4957217 ATCTACTCCGCTGTAA-TCTCAGAGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCT
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TGACTTCAATCCGCTCCACTGTAACCT
*
4957280 CAGGGAGATA
64 CAGAGAGATA
4957290 AGATCTGAAA
Statistics
Matches: 204, Mismatches: 34, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
86 1 0.00
87 5 0.02
88 80 0.39
89 1 0.00
90 40 0.20
91 4 0.02
92 1 0.00
93 1 0.00
95 1 0.00
96 1 0.00
97 3 0.01
98 41 0.20
99 1 0.00
100 21 0.10
101 2 0.01
102 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (88 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
GAGAGATAGGATTACTAGCTTCA
Found at i:4957419 original size:44 final size:44
Alignment explanation
Indices: 4957129--4957425 Score: 150
Period size: 44 Copynumber: 6.8 Consensus size: 44
4957119 ATCTGATGTG
* *
4957129 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTACTCCACTGTAAC-TCAGAGAGATAAGATCCTATTATTTCA
** * * *
4957173 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT--TACTAGCTTCA
1 ATCTACTCCACTGTAAC-TCAGAGAGATAAGATCCTATTA-TTTCA
* * ***
4957217 ATCTACTCCGCTGTAATCTCAGAGAGATAAGAT-CTCTGGCTTCA
1 ATCTACTCCACTGTAA-CTCAGAGAGATAAGATCCTATTATTTCA
* * * *
4957261 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATT-CTTCG
1 ATCTACTCCACTGTAA-CTCAGAGAGATAAGATCCT---ATTATTTCA
* * * * *
4957307 GTCTACTCCCCTGTAACCTCAGGGTGATAAGA-CCTGA-TA---CG
1 ATCTACTCCACTGTAA-CTCAGAGAGATAAGATCCT-ATTATTTCA
** *
4957348 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTACTCCACTGTAAC-TCAGAGAGATAAGATCCTATTATTTCA
** * *
4957392 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATC
1 ATCTACTCCACTGTAA-CTCAGAGAGATAAGATC
4957426 TGAAATTCTT
Statistics
Matches: 197, Mismatches: 40, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
40 1 0.01
41 29 0.15
42 4 0.02
43 3 0.02
44 122 0.62
45 3 0.02
46 34 0.17
47 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTACTCCACTGTAACTCAGAGAGATAAGATCCTATTATTTCA
Found at i:4957593 original size:132 final size:132
Alignment explanation
Indices: 4957442--4957975 Score: 897
Period size: 132 Copynumber: 4.0 Consensus size: 132
4957432 TCTTTGGTCC
4957442 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
1 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
* * * * *
4957507 GACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGAT
66 GACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGAT
4957572 CT
131 CT
4957574 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
1 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
* * * *
4957639 GACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGAACTGCTATCTTCGAT
66 GACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGAT
4957704 CT
131 CT
*
4957706 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAA
1 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
* * *
4957771 GACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAAGATAGGACCTGCTATCTTCGA
66 GACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGG-AAGATAGGACCTGCTATCTTCGA
4957836 TCT
130 TCT
*
4957839 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCATCAATATGGGAA
1 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
* * * *
4957904 GACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGAT
66 GACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGAT
4957969 CT
131 CT
4957971 ACTTC
1 ACTTC
4957976 TTGCCCCGGG
Statistics
Matches: 381, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
132 257 0.67
133 124 0.33
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
GACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGAT
CT
Found at i:4957595 original size:44 final size:44
Alignment explanation
Indices: 4957442--4959055 Score: 531
Period size: 44 Copynumber: 36.6 Consensus size: 44
4957432 TCTTTGGTCC
* * * *
4957442 ACTTCACGCCAATACATGAAGACAAGATCTGCTT-TCTGCGATCT
1 ACTTCACACCAATATAGGAAGACAAGATCTG-TTATCTTCGATCT
* * ** * *
4957486 ACTTCGCCACCAATATGGGAAGACAAGATCTG-CGTCGTCGATCC
1 ACTTC-ACACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * * *
4957530 ACTTC-CAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCT
1 ACTTCAC-ACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * *
4957574 ACTTCACGCCAATACATGAAGACAAGATCTGCTT-TCTGCGATCT
1 ACTTCACACCAATATAGGAAGACAAGATCTG-TTATCTTCGATCT
* * * *
4957618 ACTTCGCCACCAATATGGGAAGACAAGATCTG-TATCTTGGATCC
1 ACTTC-ACACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * *
4957662 ACTTC-CTATCAATATAGGAAGATAGGAACTGCTATCTTCGATCT
1 ACTTCAC-ACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * *
4957706 ACTTCACGCCAATACATGAAGACAAGATCTGCTT-TCTTCGATCT
1 ACTTCACACCAATATAGGAAGACAAGATCTG-TTATCTTCGATCT
* * * *
4957750 ACTTCGCCACCAATATGGGAAGACAAGATCTG-TATCTTGGATCC
1 ACTTC-ACACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * *
4957794 ACTTC-CTATCAATATAGGAAAGATAGGACCTGCTATCTTCGATCT
1 ACTTCAC-ACCAATATAGG-AAGACAAGATCTGTTATCTTCGATCT
* * * *
4957839 ACTTCACGCCAATACATGAAGACAAGATCTGCTT-TCTGCGATCT
1 ACTTCACACCAATATAGGAAGACAAGATCTG-TTATCTTCGATCT
* * * ** * *
4957883 ACTTCGCCATCAATATGGGAAGACAAGATCTG-CGTCGTCGATCC
1 ACTTC-ACACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * *
4957927 ACTTC-CTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCT
1 ACTTCAC-ACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
*** ** * * * * * * * *
4957971 ACTTCTTGCC----CCGGGAGA-TAGAACTATCAGCTTCAATGT
1 ACTTCACACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* *** * **
4958010 ACTCCACTGTAATCAT-GGAGGTA-AA-ATCTGCCATCTTCGATCT
1 ACTTCACACCAAT-ATAGGAAG-ACAAGATCTGTTATCTTCGATCT
* ** * * * *** *
4958053 GCTTTGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCT
1 ACTTCAC-ACC-AATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * * *
4958099 A-TTCCACTGCCAAATACAGGGAGA-TAGA---GTTATCGGCTTCAATGT
1 ACTT-CAC-ACC-AATATAGGAAGACAAGATCTGTTAT---CTTCGATCT
** * * ** * ** *
4958144 AC-TC-CA-CTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
1 ACTTCACACCAAT-AT-AGGAAGACAAGATCTGTTATCTTCGATCT
* * * * * *** *
4958187 GCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCT
1 ACTTCAC-ACC-AATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * * *
4958233 A-TTCCACTGCCAAATACAGGGAGA-TAGA---GTTATCGGCTTCAATGT
1 ACTT-CAC-ACC-AATATAGGAAGACAAGATCTGTTAT---CTTCGATCT
** * * ** * ** *
4958278 AC-TC-CA-CTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
1 ACTTCACACCAAT-AT-AGGAAGACAAGATCTGTTATCTTCGATCT
* * * * * ** *
4958321 GCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCT
1 ACTTCAC-ACC-AATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * *
4958367 ACTTCACCACCAGTATGGGAAGACAAGATCTG-CATCTTGGATCC
1 ACTTCA-CACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * *
4958411 ACTTC-CTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCT
1 ACTTCAC-ACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * *
4958455 ACTTCACGCCAATACATGAAGACAAGATCTGCTT-TCTGCGATCT
1 ACTTCACACCAATATAGGAAGACAAGATCTG-TTATCTTCGATCT
* * * * * *
4958499 ACTTCGCCACCAATATGGGAAGACAAGATCTG-CATATTGGATCC
1 ACTTC-ACACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * *
4958543 ACTTC-CTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCT
1 ACTTCAC-ACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * * *
4958587 TCTTCACGCCAATACATGAAGACAAGATCTACTT-TCTGCGATCT
1 ACTTCACACCAATATAGGAAGACAAGATCT-GTTATCTTCGATCT
* * * *
4958631 ACTTCGCCACCAATATGGGAAGACAAGATCTG-CATCTTCGATCC
1 ACTTC-ACACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * *
4958675 ACTTC-CTACCAATATAGAAAGATAGGATCTGCTACCTTCGATCT
1 ACTTCAC-ACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * *
4958719 ACTTCACGCCAATACATGAAGACAAGATCTGCTT-TCTGCGATCT
1 ACTTCACACCAATATAGGAAGACAAGATCTG-TTATCTTCGATCT
* * * *
4958763 ACTTCGCCACCAATATGGGAAGACAAGATCTG-CATCTTCGATCC
1 ACTTC-ACACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * *
4958807 ACTTC-CTACCAATATAGAAAGATAGGATCTGCTACCTTCGATCT
1 ACTTCAC-ACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * *
4958851 ACTTCACGCCAATACATGAAGACAAGATCTGCTT-TCTGCGATCT
1 ACTTCACACCAATATAGGAAGACAAGATCTG-TTATCTTCGATCT
* * * *
4958895 ACTTCGCCACCAATATGGGAAGACAAGATCTG-CATCTTCGATCC
1 ACTTC-ACACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * * *
4958939 ACTTC-CTACCAATATAGAAAGATAGGATCTGCTACCTTCGATCT
1 ACTTCAC-ACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
* * * *
4958983 ACTTCACGCCAATACATGAAGACAAGATCTGCTT-TCTGCGATCT
1 ACTTCACACCAATATAGGAAGACAAGATCTG-TTATCTTCGATCT
* *
4959027 ACTTCGCCACCAATATGGGAAGACAAGAT
1 ACTTC-ACACCAATATAGGAAGACAAGAT
4959056 TTGCATCCTG
Statistics
Matches: 1126, Mismatches: 347, Indels: 193
0.68 0.21 0.12
Matches are distributed among these distances:
39 15 0.01
40 7 0.01
41 2 0.00
42 25 0.02
43 202 0.18
44 484 0.43
45 280 0.25
46 106 0.09
47 3 0.00
48 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
ACTTCACACCAATATAGGAAGACAAGATCTGTTATCTTCGATCT
Found at i:4957899 original size:265 final size:264
Alignment explanation
Indices: 4957442--4957975 Score: 906
Period size: 265 Copynumber: 2.0 Consensus size: 264
4957432 TCTTTGGTCC
4957442 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
1 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
* * * *
4957507 GACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGAT
66 GACAAGATCTGCATCGTCGATCCACTTCCAATCAATATAGGAAGATAGGACCTGCTATCTTCGAT
4957572 CTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGG
131 CTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGG
* * * * *
4957637 AAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGAACTGCTATCTTCG
196 AAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGAACAGCTATCTTCG
4957702 ATCT
261 ATCT
*
4957706 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAA
1 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
* * * *
4957771 GACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAAGATAGGACCTGCTATCTTCGA
66 GACAAGATCTGCATCGTCGATCCACTTCCAATCAATATAGG-AAGATAGGACCTGCTATCTTCGA
*
4957836 TCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCATCAATATGG
130 TCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGG
* *
4957901 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTC
195 GAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGAACAGCTATCTTC
4957966 GATCT
260 GATCT
4957971 ACTTC
1 ACTTC
4957976 TTGCCCCGGG
Statistics
Matches: 252, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
264 99 0.39
265 153 0.61
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (264 bp):
ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
GACAAGATCTGCATCGTCGATCCACTTCCAATCAATATAGGAAGATAGGACCTGCTATCTTCGAT
CTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGG
AAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGAACAGCTATCTTCG
ATCT
Found at i:4958111 original size:46 final size:46
Alignment explanation
Indices: 4958059--4958252 Score: 143
Period size: 46 Copynumber: 4.3 Consensus size: 46
4958049 ATCTGCTTTG
4958059 CTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCA
* ** * *
4958105 CTGCCAAATACAGGGA-G-ATAGAGT-TATC-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AGA-TCTA-CAATCTTCAATCTATTCCA
*** * * * * * ** * *
4958150 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCT-ATTCCA
4958193 CTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCA
4958239 CTGCCAAATACAGG
1 CTGCCAAATACAGG
4958253 GAGATAGAGT
Statistics
Matches: 106, Mismatches: 30, Indels: 24
0.66 0.19 0.15
Matches are distributed among these distances:
42 8 0.08
43 15 0.14
44 3 0.03
45 25 0.24
46 55 0.52
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCA
Found at i:4958176 original size:134 final size:134
Alignment explanation
Indices: 4957983--4958367 Score: 689
Period size: 134 Copynumber: 2.9 Consensus size: 134
4957973 TTCTTGCCCC
** * ** * *
4957983 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCATGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
*
4958048 GATCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAAA
4958113 TACA
131 TACA
4958117 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
4958182 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAAA
4958247 TACA
131 TACA
4958251 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
*
4958316 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTA
4958368 CTTCACCACC
Statistics
Matches: 242, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 242 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (134 bp):
GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAAA
TACA
Found at i:4958570 original size:132 final size:132
Alignment explanation
Indices: 4958305--4959151 Score: 1316
Period size: 132 Copynumber: 6.4 Consensus size: 132
4958295 GAGGTAAAAT
* * * * * * ** * *
4958305 CTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACT
1 CTGCTATCTTCGATCTACTTCAC-GCC-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACT
* * * * *
4958370 TCACCACCAGTATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATA
64 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATA
4958435 GGAC
129 GGAC
4958439 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
* * * *
4958504 GCCACCAATATGGGAAGACAAGATCTGCATATTGGATCCACTTCCTATCAATATAGGAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGG
4958569 AC
131 AC
* *
4958571 CTGCTATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
4958636 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGG
*
4958701 AT
131 AC
*
4958703 CTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
4958768 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGG
*
4958833 AT
131 AC
*
4958835 CTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
4958900 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGG
*
4958965 AT
131 AC
*
4958967 CTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
* * * * * *
4959032 GCCACCAATATGGGAAGACAAGATTTGCATCCTGGATCCACTTCCTATCAATATAGGAAGGTAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGG
4959097 AC
131 AC
* * * * *
4959099 CTGCTATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACTTT
1 CTGCTATCTTCGATCTACTTCAC-GCC-AATACATGAAGACAAGATCTGCTTT
4959152 AATGACTTCA
Statistics
Matches: 675, Mismatches: 36, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
132 628 0.93
133 6 0.01
134 41 0.06
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGG
AC
Found at i:4971348 original size:12 final size:12
Alignment explanation
Indices: 4971333--4971362 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4971323 ACAATAATAC
4971333 TATATATAAATG
1 TATATATAAATG
*
4971345 TATATATATATG
1 TATATATAAATG
4971357 TATATA
1 TATATA
4971363 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATATATAAATG
Found at i:4971469 original size:19 final size:17
Alignment explanation
Indices: 4971445--4971491 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
4971435 AATTAAAGTA
*
4971445 ATAAAAAATAATACTATAT
1 ATAAAAAAT-ATA-TATAC
*
4971464 ATAAAATATATATATAC
1 ATAAAAAATATATATAC
4971481 AT-AAAAATATA
1 ATAAAAAATATA
4971492 CACTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 3 0.12
19 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATATATATAC
Found at i:4971487 original size:18 final size:19
Alignment explanation
Indices: 4971448--4971496 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
4971438 TAAAGTAATA
*
4971448 AAAAATA-ATACTATATAT
1 AAAAATATATACTATACAT
4971466 -AAAATATATA-TATACAT
1 AAAAATATATACTATACAT
*
4971483 AAAAATATACACTA
1 AAAAATATATACTA
4971497 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATATACTATACAT
Found at i:4971723 original size:3 final size:3
Alignment explanation
Indices: 4971710--4971795 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
4971700 GAGGGCATAT
4971710 ATA AT- ATA ATA ATA AT- ATA A-A A-A ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA
* *
4971754 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4971796 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 13 0.19
3 46 0.68
4 7 0.10
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:4971736 original size:18 final size:18
Alignment explanation
Indices: 4971715--4971795 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
4971705 CATATATAAT
4971715 ATAATAATAATATAAAAA
1 ATAATAATAATATAAAAA
* *
4971733 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-ATAAAAA
*
4971754 ATAATAATAATATAAATA
1 ATAATAATAATATAAAAA
*
4971772 ATAGTAA-AA-ATAATAAA
1 ATAATAATAATATAA-AAA
4971789 ATAATAA
1 ATAATAA
4971796 AACAAAGCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
16 4 0.08
17 10 0.19
18 18 0.34
19 5 0.09
20 5 0.09
21 11 0.21
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (18 bp):
ATAATAATAATATAAAAA
Found at i:4972160 original size:22 final size:23
Alignment explanation
Indices: 4972132--4972180 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
4972122 TTTTTCCAAA
4972132 AAAACAAA-AAAAAACCTCCTCC
1 AAAACAAAGAAAAAACCTCCTCC
* * *
4972154 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAAGAAAAAACCTCCTCC
4972177 AAAA
1 AAAA
4972181 AACCAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.57, C:0.29, G:0.02, T:0.12
Consensus pattern (23 bp):
AAAACAAAGAAAAAACCTCCTCC
Found at i:4992755 original size:45 final size:47
Alignment explanation
Indices: 4992706--4992812 Score: 128
Period size: 51 Copynumber: 2.2 Consensus size: 47
4992696 CTCCCTGAAG
* * *
4992706 TTGCAGTGGAGCAG-A-CTGAAGGTAGCGAATCTTATTTCCCTGGCT
1 TTGCAGTGGAACAGAAGCTAAAGGTAGCGAATCTTATTTCCCTGGCA
*
4992751 TTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCA
1 TTGCAGTGGAACAG----AAGCTAAAGGTAGCGAATCTTATTTCCCTGGCA
4992802 TTGCAGTGGAA
1 TTGCAGTGGAA
4992813 TAGATTAAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
45 13 0.25
50 1 0.02
51 38 0.73
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (47 bp):
TTGCAGTGGAACAGAAGCTAAAGGTAGCGAATCTTATTTCCCTGGCA
Found at i:4992800 original size:51 final size:51
Alignment explanation
Indices: 4992724--4992824 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
4992714 GAGCAGACTG
*
4992724 AAGGTAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGCTA
1 AAGGTAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTA
* *
4992775 AAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCT
1 AAGGTAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCT
4992825 GAAGTATAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (51 bp):
AAGGTAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTA
Found at i:4992895 original size:51 final size:51
Alignment explanation
Indices: 4992836--4993079 Score: 222
Period size: 51 Copynumber: 4.8 Consensus size: 51
4992826 AAGTATAGCG
*
4992836 GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCTTTGCAATGGAACA
1 GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCATTGCAATGGAACA
* * ** * * * * * *
4992887 GATTAAAGCTAAAGGTAGCAAATCTTGTTTCCCTGGCATTGCAGTGGAATA
1 GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCATTGCAATGGAACA
* * * *
4992938 GATTAAAGCTGAAGGCGGTGAATCCTATCTCCTTGGCATTACAGTGGAATA
1 GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCATTGCAATGGAACA
* * * * * *
4992989 GATTAAAGCTAAAGGTAGTGAATCTTGTTTCCCTGGCATTGC-A-GCGAAGCA
1 GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCATTGCAATG-GAA-CA
* ** **
4993040 TATTAAAGCTGAAGGCAACGAATTGTATCTCCTTGGCATT
1 GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCATT
4993080 AAAGACTAAA
Statistics
Matches: 150, Mismatches: 41, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
49 1 0.01
50 3 0.02
51 146 0.97
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (51 bp):
GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCATTGCAATGGAACA
Found at i:4992919 original size:123 final size:123
Alignment explanation
Indices: 4992721--4992951 Score: 399
Period size: 123 Copynumber: 1.9 Consensus size: 123
4992711 GTGGAGCAGA
* * * * *
4992721 CTGAAGGTAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
1 CTGAAGGCAGCGAATCCTATCTCCCTGGCTTTGCAATGGAACAGATTAAAGCTAAAGGTAGCAAA
4992786 TCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAGTATAGCGGATTAAAG
66 TCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAGTATAGCGGATTAAAG
* *
4992844 CTGAAGGCAGTGAATCCTATCTCCTTGGCTTTGCAATGGAACAGATTAAAGCTAAAGGTAGCAAA
1 CTGAAGGCAGCGAATCCTATCTCCCTGGCTTTGCAATGGAACAGATTAAAGCTAAAGGTAGCAAA
4992909 TCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAG
66 TCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAG
4992952 GCGGTGAATC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 101 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (123 bp):
CTGAAGGCAGCGAATCCTATCTCCCTGGCTTTGCAATGGAACAGATTAAAGCTAAAGGTAGCAAA
TCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAGTATAGCGGATTAAAG
Found at i:4993013 original size:102 final size:102
Alignment explanation
Indices: 4992836--4993080 Score: 348
Period size: 102 Copynumber: 2.4 Consensus size: 102
4992826 AAGTATAGCG
* *
4992836 GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCTTTGCAATGGAACAGATTAAAGCTAAAG
1 GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCATTACAATGGAACAGATTAAAGCTAAAG
* *
4992901 GTAGCAAATCTTGTTTCCCTGGCATTGCAGTGGAA-TA
66 GTAGCAAATCTTGTTTCCCTGGCATTGCAG-CGAAGCA
* * *
4992938 GATTAAAGCTGAAGGCGGTGAATCCTATCTCCTTGGCATTACAGTGGAATAGATTAAAGCTAAAG
1 GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCATTACAATGGAACAGATTAAAGCTAAAG
**
4993003 GTAGTGAATCTTGTTTCCCTGGCATTGCAGCGAAGCA
66 GTAGCAAATCTTGTTTCCCTGGCATTGCAGCGAAGCA
* ** **
4993040 TATTAAAGCTGAAGGCAACGAATTGTATCTCCTTGGCATTA
1 GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCATTA
4993081 AAGACTAAAG
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
101 3 0.02
102 124 0.98
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (102 bp):
GATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCATTACAATGGAACAGATTAAAGCTAAAG
GTAGCAAATCTTGTTTCCCTGGCATTGCAGCGAAGCA
Found at i:4995053 original size:18 final size:18
Alignment explanation
Indices: 4995015--4995053 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4995005 TTTAATGGTG
*
4995015 TTATCATTATTTTTACCA
1 TTATCATTATTTTTAACA
* *
4995033 TTATTATTATTTTTAATA
1 TTATCATTATTTTTAACA
4995051 TTA
1 TTA
4995054 CTGTTACCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATCATTATTTTTAACA
Found at i:4995207 original size:2 final size:2
Alignment explanation
Indices: 4995200--4995270 Score: 56
Period size: 2 Copynumber: 36.5 Consensus size: 2
4995190 TGTACACGTG
* * * * *
4995200 TA TA TA TA TA GA TA TA TA TA TT TA TA T- TT TA TA TA CA TA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
4995241 TA CA TA TC TA CA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4995271 TTTCATGAAT
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4995256 original size:41 final size:38
Alignment explanation
Indices: 4995223--4995317 Score: 75
Period size: 41 Copynumber: 2.3 Consensus size: 38
4995213 ATATATATTT
4995223 ATATTTTATATACATATCTACATATCTACATATATATATATATT
1 ATATTTTATATACATA--TACATA-CT-CA-ATATATATAT-TT
* *
4995267 ATATTTTCATGAATACATATACATACT-TATATATATTTTTT
1 ATATTTT-AT--ATACATATACATACTCAATATATA-TATTT
4995308 ATATTTTATA
1 ATATTTTATA
4995318 ATTTTTGTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
38 1 0.02
40 2 0.04
41 16 0.36
42 2 0.04
44 9 0.20
45 8 0.18
47 7 0.16
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (38 bp):
ATATTTTATATACATATACATACTCAATATATATATTT
Found at i:4999235 original size:17 final size:17
Alignment explanation
Indices: 4999213--4999248 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
4999203 TACATAATAT
4999213 AATAAACATATT-TAAAA
1 AATAAACAT-TTATAAAA
4999230 AATAAACATTTATAAAA
1 AATAAACATTTATAAAA
4999247 AA
1 AA
4999249 AATATTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAAACATTTATAAAA
Found at i:5000264 original size:26 final size:26
Alignment explanation
Indices: 5000209--5000265 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
5000199 AATAACTTGT
* * * *
5000209 TAGAAGGGTTGATTAATTGGAAAGCA
1 TAGAAGGGTTAATCAATTAGAAAACA
5000235 TAGAATGGGTTAATCAATTAGAAAAC-
1 TAGAA-GGGTTAATCAATTAGAAAACA
5000261 TAGAA
1 TAGAA
5000266 ATTATTAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.44, C:0.05, G:0.25, T:0.26
Consensus pattern (26 bp):
TAGAAGGGTTAATCAATTAGAAAACA
Found at i:5004420 original size:31 final size:31
Alignment explanation
Indices: 5004363--5004421 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
5004353 ATCACTATCG
**
5004363 TTTTAGATCATTTCTATTTTGGTCACTCACA
1 TTTTAGATCATTTCTATTTTACTCACTCACA
*
5004394 TTTTAGAGT-ATTTTTATTTTACTCACTC
1 TTTTAGA-TCATTTCTATTTTACTCACTC
5004422 TTCATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.96
32 1 0.04
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.53
Consensus pattern (31 bp):
TTTTAGATCATTTCTATTTTACTCACTCACA
Found at i:5008571 original size:9 final size:9
Alignment explanation
Indices: 5008546--5008582 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
5008536 TGAGTTTTCG
5008546 AATTCGAAT
1 AATTCGAAT
**
5008555 AACCCGAAT
1 AATTCGAAT
5008564 AATTCGAAT
1 AATTCGAAT
5008573 AATTCGAAT
1 AATTCGAAT
5008582 A
1 A
5008583 TTAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:5011231 original size:3 final size:3
Alignment explanation
Indices: 5011223--5011248 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5011213 CTTACTTATA
5011223 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
5011249 ATTTTGCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5017425 original size:33 final size:33
Alignment explanation
Indices: 5017388--5017459 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
5017378 AAATAAAATT
*
5017388 TAAAATTCTTTTATTATCAAATAAATTTCTTAA
1 TAAAATTCTTTTATTATCAAATAAAATTCTTAA
5017421 TAAAATTCTTTTATTATCAAATAAAATTCTTAA
1 TAAAATTCTTTTATTATCAAATAAAATTCTTAA
5017454 TGAAAA
1 T-AAAA
5017460 AATAAAACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 33 0.89
34 4 0.11
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.44
Consensus pattern (33 bp):
TAAAATTCTTTTATTATCAAATAAAATTCTTAA
Found at i:5019091 original size:17 final size:17
Alignment explanation
Indices: 5019069--5019121 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
5019059 ATAGAAAGTC
*
5019069 AAAGATATGAGTATAAA
1 AAAGATATGGGTATAAA
* *
5019086 AAAGATATGGGTATTAG
1 AAAGATATGGGTATAAA
5019103 AAAGATATGGGTATCAAA
1 AAAGATATGGGTAT-AAA
5019121 A
1 A
5019122 TCTGAGATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 28 0.93
18 2 0.07
ACGTcount: A:0.51, C:0.02, G:0.23, T:0.25
Consensus pattern (17 bp):
AAAGATATGGGTATAAA
Found at i:5024536 original size:8 final size:8
Alignment explanation
Indices: 5024523--5024547 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5024513 TAATATGTCA
5024523 CTCAAAAT
1 CTCAAAAT
5024531 CTCAAAAT
1 CTCAAAAT
5024539 CTCAAAAT
1 CTCAAAAT
5024547 C
1 C
5024548 ATCCAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (8 bp):
CTCAAAAT
Found at i:5027585 original size:46 final size:46
Alignment explanation
Indices: 5027523--5028029 Score: 197
Period size: 46 Copynumber: 11.1 Consensus size: 46
5027513 ATAACTCTAT
*
5027523 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * * * *
5027569 CTTCCTGTATTTGGCAG-CGAAGCA-AGTCGAAGATGGCGGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGA-TTGAAGATTGCAGATCTTAC
* * * * ** * * *
5027615 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
5027657 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * * * * *
5027703 CTTCCTGTATTTGGCAG-CGAAGCAGGTCGAAGATGGCGGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * ** * * *
5027749 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
* *
5027791 CTCCCTGTATTTGGCAGTGGAGTAGATTGAAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT------T-GCAGATCTTAC
* * * * ** * * *
5027844 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
5027886 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * * * *
5027932 CTTCCTGTATTTGGCAG-CGAAGCAGATCGAAAATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* **** * * *
5027978 CTCCCTGCATTCAATAGTGGAATAGAGTGAAGATTACAGATCTTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
5028024 CTCCCT
1 CTCCCT
5028030 AAGTAGTAGT
Statistics
Matches: 320, Mismatches: 108, Indels: 66
0.65 0.22 0.13
Matches are distributed among these distances:
41 7 0.02
42 30 0.09
43 21 0.07
44 10 0.03
45 61 0.19
46 148 0.46
47 11 0.03
50 17 0.05
51 1 0.00
52 1 0.00
53 10 0.03
54 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:5027680 original size:134 final size:134
Alignment explanation
Indices: 5027440--5027824 Score: 743
Period size: 134 Copynumber: 2.9 Consensus size: 134
5027430 CAAACTATTT
*
5027440 TGTATTTGGCAGCGAAGCAGGTCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACAT
1 TGTATTTGGCAGCGAAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTACAGTGGAGTACAT
5027505 TGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCC
66 TGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCC
5027570 TTCC
131 TTCC
*
5027574 TGTATTTGGCAGCGAAGCAAGTCGAAGATGGCGGATTTTACCTCCCTGACTACAGTGGAGTACAT
1 TGTATTTGGCAGCGAAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTACAGTGGAGTACAT
5027639 TGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCC
66 TGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCC
5027704 TTCC
131 TTCC
5027708 TGTATTTGGCAGCGAAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTACAGTGGAGTACAT
1 TGTATTTGGCAGCGAAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTACAGTGGAGTACAT
*
5027773 TGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAGTAGATTGAAGAT
66 TGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
5027825 CAAAGATGGC
Statistics
Matches: 247, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 247 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (134 bp):
TGTATTTGGCAGCGAAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTACAGTGGAGTACAT
TGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCC
TTCC
Found at i:5027811 original size:45 final size:45
Alignment explanation
Indices: 5027760--5027917 Score: 142
Period size: 45 Copynumber: 3.4 Consensus size: 45
5027750 TCCCTGACTA
5027760 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* * * * * * *
5027805 CAGTGGAGTAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGTATTTGG
5027855 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* *
5027900 CAGTGGAATAGATTGAAG
1 CAGTGGAGTACATTGAAG
5027918 ATTGCAGATC
Statistics
Matches: 86, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
42 11 0.13
43 2 0.02
44 1 0.01
45 33 0.38
46 3 0.03
47 1 0.01
48 1 0.01
49 3 0.03
50 17 0.20
51 1 0.01
52 2 0.02
53 11 0.13
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
Found at i:5027823 original size:88 final size:88
Alignment explanation
Indices: 5027706--5027926 Score: 307
Period size: 95 Copynumber: 2.4 Consensus size: 88
5027696 ATCTTGCCTT
* * * * * *
5027706 CCTGTATTTGGCAGCGAAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTACAGTGGAGTAC
1 CCTGTATTTGGCAGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTAC
5027771 ATTGAAGCCGATAACTCTATCTC
66 ATTGAAGCCGATAACTCTATCTC
5027794 CCTGTATTTGGCAGTGGAGTAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGT
1 CCTGTATTTGGCAGTGGAGTAGATT---G----AAGATGGCAGATTTTACCTCCCTGACTACAGT
5027859 GGAGTACATTGAAGCCGATAACTCTATCTC
59 GGAGTACATTGAAGCCGATAACTCTATCTC
* *
5027889 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGAT
1 CCTGTATTTGGCAGTGGAGTAGATTGAAGATGGCAGAT
5027927 CTTGCCTTCC
Statistics
Matches: 118, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
88 31 0.26
91 1 0.01
92 1 0.01
95 85 0.72
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (88 bp):
CCTGTATTTGGCAGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTAC
ATTGAAGCCGATAACTCTATCTC
Found at i:5027847 original size:95 final size:95
Alignment explanation
Indices: 5027732--5027919 Score: 358
Period size: 95 Copynumber: 2.0 Consensus size: 95
5027722 AAGCAGGTCG
*
5027732 AAGATGGCGGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
1 AAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
*
5027797 GTATTTGGCAGTGGAGTAGATTGAAGATCA
66 GTATTTGGCAGTGGAATAGATTGAAGATCA
5027827 AAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
1 AAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
5027892 GTATTTGGCAGTGGAATAGATTGAAGAT
66 GTATTTGGCAGTGGAATAGATTGAAGAT
5027920 TGCAGATCTT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (95 bp):
AAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
GTATTTGGCAGTGGAATAGATTGAAGATCA
Found at i:5032955 original size:16 final size:17
Alignment explanation
Indices: 5032920--5032954 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5032910 CGCATAATAT
5032920 AATAAACATATTTAAAA
1 AATAAACATATTTAAAA
5032937 AATAAACAT-TTATAAAA
1 AATAAACATATT-TAAAA
5032954 A
1 A
5032955 TTAATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAACATATTTAAAA
Found at i:5032970 original size:12 final size:12
Alignment explanation
Indices: 5032953--5032979 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5032943 CATTTATAAA
5032953 AATTAATTTAAT
1 AATTAATTTAAT
5032965 AATTAATTTAAT
1 AATTAATTTAAT
5032977 AAT
1 AAT
5032980 ATTTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTAATTTAAT
Found at i:5033466 original size:27 final size:27
Alignment explanation
Indices: 5033430--5033487 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
5033420 AATAACTTGT
* * *
5033430 TAGAA-GGGTTGATTAATTGGAAAGCA
1 TAGAATGGGTTAATGAATTAGAAAGCA
5033456 TAGAATGGGTTAATGAATTAGAAAGCA
1 TAGAATGGGTTAATGAATTAGAAAGCA
5033483 -AGAAT
1 TAGAAT
5033488 TTATAAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.43, C:0.03, G:0.28, T:0.26
Consensus pattern (27 bp):
TAGAATGGGTTAATGAATTAGAAAGCA
Found at i:5044226 original size:20 final size:20
Alignment explanation
Indices: 5044198--5044236 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5044188 CTCTTCTAGC
5044198 TTTCATCTTCT-TTTTCATCT
1 TTTCATCTT-TGTTTTCATCT
*
5044218 TTTCTTCTTTGTTTTCATC
1 TTTCATCTTTGTTTTCATC
5044237 CCCAATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTCATCTTTGTTTTCATCT
Found at i:5050674 original size:31 final size:31
Alignment explanation
Indices: 5050597--5050675 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
5050587 CTATGAAAAT
*
5050597 TTTCAATTTTATCACT-ATCGTTTTAGATCA
1 TTTCTATTTTATCACTCATCGTTTTAGATCA
* *
5050627 TTTCTATTTTGGTCACTCAT-GTTTTAGATCG
1 TTTCTATTTT-ATCACTCATCGTTTTAGATCA
*
5050658 TTTTTATTTTATTCACTC
1 TTTCTATTTTA-TCACTC
5050676 TTCAGTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 9 0.22
31 30 0.73
32 2 0.05
ACGTcount: A:0.20, C:0.16, G:0.09, T:0.54
Consensus pattern (31 bp):
TTTCTATTTTATCACTCATCGTTTTAGATCA
Found at i:5051789 original size:31 final size:31
Alignment explanation
Indices: 5051753--5051852 Score: 164
Period size: 31 Copynumber: 3.2 Consensus size: 31
5051743 ATGTAACGGA
5051753 GAGTGACCAAAATAGAAACAATCTAAAGTGT
1 GAGTGACCAAAATAGAAACAATCTAAAGTGT
5051784 GAGTGACCAAAATAGAAACAATCTAAAGTGT
1 GAGTGACCAAAATAGAAACAATCTAAAGTGT
* * *
5051815 GAGTGACCAAAATAGAAATAATATAAAATGT
1 GAGTGACCAAAATAGAAACAATCTAAAGTGT
*
5051846 AAGTGAC
1 GAGTGAC
5051853 TAAATAAAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.20
Consensus pattern (31 bp):
GAGTGACCAAAATAGAAACAATCTAAAGTGT
Found at i:5055701 original size:24 final size:24
Alignment explanation
Indices: 5055639--5055695 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
5055629 GAAACAAAAT
* *
5055639 AATATATATAGAACAATTTGAAGTA
1 AATA-ATATAAAACAATTTAAAGTA
* *
5055664 ACTAGTATAAAACAATTTAAAGTA
1 AATAATATAAAACAATTTAAAGTA
5055688 AATAATAT
1 AATAATAT
5055696 GCAACATAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.32
Consensus pattern (24 bp):
AATAATATAAAACAATTTAAAGTA
Found at i:5070709 original size:28 final size:31
Alignment explanation
Indices: 5070645--5070710 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 31
5070635 TGTTTAAAAG
*
5070645 AATT-AAAAAATATATAGAAAGTTATATAAA
1 AATTCAAAAAAAATATAGAAAGTTATATAAA
*
5070675 AATTCAAAAAAAATATA-AAAG-TGT-TAAA
1 AATTCAAAAAAAATATAGAAAGTTATATAAA
5070703 AATTCAAA
1 AATTCAAA
5070711 TATATATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 12 0.36
29 2 0.06
30 8 0.24
31 11 0.33
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (31 bp):
AATTCAAAAAAAATATAGAAAGTTATATAAA
Found at i:5070757 original size:54 final size:56
Alignment explanation
Indices: 5070652--5070759 Score: 134
Period size: 56 Copynumber: 2.0 Consensus size: 56
5070642 AAGAATTAAA
*
5070652 AAATATATAGAAAGTTATATAAAAATTCAAAAAAAATATAAAAGTGTTAAAAATTC
1 AAATATATAGAAAGTTATATAAAAATTCAAAAAAAATATAAAAGTGATAAAAATTC
* * *
5070708 AAATATATATAAA-TTAT-TAAAATTTCAAAAGGAATATATAAAA-T-ATAAAAAT
1 AAATATATAGAAAGTTATATAAAAATTCAAAA--AAAATATAAAAGTGATAAAAAT
5070760 AGTAAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
54 19 0.41
55 5 0.11
56 22 0.48
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (56 bp):
AAATATATAGAAAGTTATATAAAAATTCAAAAAAAATATAAAAGTGATAAAAATTC
Found at i:5075979 original size:31 final size:31
Alignment explanation
Indices: 5075941--5076002 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
5075931 TTTGGCATAG
5075941 ATGAAGTTGGAGTAAATGGCAAGCTGGGTTT
1 ATGAAGTTGGAGTAAATGGCAAGCTGGGTTT
5075972 ATGAAGTTGGAGTAAATGGCAAGCTGGGTTT
1 ATGAAGTTGGAGTAAATGGCAAGCTGGGTTT
5076003 GCTTGGTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.06, G:0.35, T:0.29
Consensus pattern (31 bp):
ATGAAGTTGGAGTAAATGGCAAGCTGGGTTT
Found at i:5079761 original size:6 final size:6
Alignment explanation
Indices: 5079752--5079777 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5079742 AGTGTTTAAA
5079752 TATATT TATATT TATATT TATATT TA
1 TATATT TATATT TATATT TATATT TA
5079778 ATTATATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATATT
Found at i:5090867 original size:21 final size:21
Alignment explanation
Indices: 5090812--5090869 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 21
5090802 CTCCAACTTA
5090812 AAGCAGAGGCTA-CAGCGAGGG
1 AAGCAGAGGC-AGCAGCGAGGG
5090833 AAGC--A-GCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
*
5090851 AAGCAGAGGCAGTAGCGAG
1 AAGCAGAGGCAGCAGCGAG
5090870 AAAAGCTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 1 0.03
18 15 0.47
19 1 0.03
20 1 0.03
21 14 0.44
ACGTcount: A:0.34, C:0.19, G:0.43, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:5090933 original size:105 final size:105
Alignment explanation
Indices: 5090746--5090943 Score: 254
Period size: 105 Copynumber: 1.9 Consensus size: 105
5090736 ACTCAACTTA
* * * * *
5090746 AAGCGGAGGCAGCATCGAGAGAAGCTGGGGTCCAAAGAAAATATGAAGAACTCCAACTCCAACTT
1 AAGCAGAGGCAGCAGCGAGAAAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTT
*
5090811 AAAGCAGAGGCTACAGCGAGGGAAGCAGCAGCAGCGAGGG
66 AAAGCAGAGGCTACAGCGAGAGAAGCAGCAGCAGCGAGGG
* * * * *
5090851 AAGCAGAGGCAGTAGCGAGAAAAGCTGAGGTTCAAAGAAAATATGAAGAATTCCAGCTATAACTT
1 AAGCAGAGGCAGCAGCGAGAAAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTT
* * *
5090916 AAATCTGATGC-AGCAGCGAGAGAAGCAG
66 AAAGCAGAGGCTA-CAGCGAGAGAAGCAG
5090944 AGGCTGTAGT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
104 1 0.01
105 77 0.99
ACGTcount: A:0.39, C:0.18, G:0.30, T:0.13
Consensus pattern (105 bp):
AAGCAGAGGCAGCAGCGAGAAAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTT
AAAGCAGAGGCTACAGCGAGAGAAGCAGCAGCAGCGAGGG
Found at i:5090976 original size:105 final size:104
Alignment explanation
Indices: 5090762--5090977 Score: 224
Period size: 105 Copynumber: 2.1 Consensus size: 104
5090752 AGGCAGCATC
* * *
5090762 GAGAGAAGCTGGGGTCCAAAGAAAATATGAAGAACTCCAACTCCAACTTAAAGCAGAGGCTACAG
1 GAGAAAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCTACAG
* **
5090827 CGAGGGAAGCAGCAGCAGCGAGGGAAGCAGAGGCAGTAGC
66 CGAGAGAAGCAGCAGCAGCGAGGGAAGCAGAGGCAG-AAA
* * * * * * *
5090867 GAGAAAAGCTGAGGTTCAAAGAAAATATGAAGAATTCCAGCTATAACTTAAATCTGATGC-AGCA
1 GAGAAAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCTA-CA
*
5090931 GCGAGAGAAGCAG-AGGCTGTAGTGAGGGAAGCAGA-GCA-AAA
65 GCGAGAGAAGCAGCA-GC---AGCGAGGGAAGCAGAGGCAGAAA
5090972 GAGAAA
1 GAGAAA
5090978 GTACGACGAC
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
104 2 0.02
105 73 0.79
107 3 0.03
108 14 0.15
ACGTcount: A:0.41, C:0.16, G:0.31, T:0.12
Consensus pattern (104 bp):
GAGAAAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCTACAG
CGAGAGAAGCAGCAGCAGCGAGGGAAGCAGAGGCAGAAA
Found at i:5091160 original size:26 final size:26
Alignment explanation
Indices: 5091110--5091160 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
5091100 AATAATATAA
*
5091110 ATTAAATATCATTTATTAATATTTAT
1 ATTAAATATCATTCATTAATATTTAT
*
5091136 ATTATATATCATTCATTTAAT-TTTA
1 ATTAAATATCATTCA-TTAATATTTA
5091161 AATATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTAAATATCATTCATTAATATTTAT
Found at i:5091388 original size:86 final size:86
Alignment explanation
Indices: 5091298--5091497 Score: 237
Period size: 86 Copynumber: 2.3 Consensus size: 86
5091288 GACCTATCGT
* * * *
5091298 GGCGTTTGTGGAAAAAGCTCCACTAAAGCTCCAGAG-CTCTAGCGGTGTTTGTGGAA-AAAGCGC
1 GGCGTTTGTGGAAAAAGCGCCACTAAAGCTCCAG-GTCTATAGCAGCGTTTGT-GAAGAAAGCGC
5091361 CGCTAAAGGTCCTGATCTATAGC
64 CGCTAAAGGTCCTGATCTATAGC
* * ** *
5091384 GGCGTTTATGGGAAAAA-CGCCACTAAAGGTCTTGGTCTATAGCAGCGTTTGTGAAGAAAGCGTC
1 GGCGTTTGT-GGAAAAAGCGCCACTAAAGCTCCAGGTCTATAGCAGCGTTTGTGAAGAAAGCGCC
5091448 GCTAAAGGTCCTGATCTATAGC
65 GCTAAAGGTCCTGATCTATAGC
* *
5091470 GGCGTTTGT-GAAGAAAGCGTCGCTAAAG
1 GGCGTTTGTGGAA-AAAGCGCCACTAAAG
5091498 GTCCCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
84 3 0.03
85 7 0.07
86 80 0.82
87 7 0.07
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (86 bp):
GGCGTTTGTGGAAAAAGCGCCACTAAAGCTCCAGGTCTATAGCAGCGTTTGTGAAGAAAGCGCCG
CTAAAGGTCCTGATCTATAGC
Done.