Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008937.1 Hibiscus syriacus cultivar Beakdansim tig00112255_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 635368
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 3 of 4
Found at i:312636 original size:7 final size:6
Alignment explanation
Indices: 312517--312647 Score: 105
Period size: 7 Copynumber: 21.7 Consensus size: 6
312507 TACTACGCCT
*
312517 AAAAAG AGAAAAG AAAAGAA AAGAAAG AAAAAG -AAAA- AAAAAG AAAAAG
1 AAAAAG A-AAAAG AAAA-AG AA-AAAG AAAAAG AAAAAG AAAAAG AAAAAG
*
312566 AAAAAAGG AAAAAG AAAAAAGG AAAAAG -AAAAG AAAAAAG AAAAAG AAGAA-
1 -AAAAA-G AAAAAG -AAAAA-G AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG
* *
312617 AAAAAG -GAAA- AAAATG AAAAAG -AAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
312648 TGAGAGTTTC
Statistics
Matches: 102, Mismatches: 8, Indels: 30
0.73 0.06 0.21
Matches are distributed among these distances:
5 27 0.26
6 34 0.33
7 37 0.36
8 4 0.04
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:312643 original size:64 final size:64
Alignment explanation
Indices: 312517--312647 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 64
312507 TACTACGCCT
*
312517 AAAAAGAGAAAAGAAAAGAAAAGAAAGAAAAAGAAAAAAAAAGAAAAAGAAAAAAGGAAAAAGA
1 AAAAAGAGAAAAGAAAAGAAAAGAAAGAAAAAGAAAAAAAAAGAAAAAGAAAAAAAGAAAAAGA
312581 AAAAAG-GAAAAAGAAAAG-AAA-AAAGAAAAAGAAGAAAAAAAGGAAAAA-AATGAAAAAG-AA
1 AAAAAGAG-AAAAGAAAAGAAAAGAAAGAAAAAGAA-AAAAAAA-GAAAAAGAA--AAAAAGAAA
312641 AAGA
61 AAGA
312645 AAA
1 AAA
312648 TGAGAGTTTC
Statistics
Matches: 61, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
62 12 0.20
63 13 0.21
64 31 0.51
65 5 0.08
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (64 bp):
AAAAAGAGAAAAGAAAAGAAAAGAAAGAAAAAGAAAAAAAAAGAAAAAGAAAAAAAGAAAAAGA
Found at i:313620 original size:20 final size:20
Alignment explanation
Indices: 313557--313621 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
313547 TCCAGTGGAG
313557 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* * * **
313577 CG-TC-CAACGAGGAAGAAGA
1 AGTTCATAATGA-GAAGAACT
313596 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
313616 TGTTCA
1 AGTTCA
313622 ACCTTGCATC
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
18 4 0.13
19 9 0.29
20 14 0.45
21 4 0.13
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:313707 original size:89 final size:91
Alignment explanation
Indices: 313539--313804 Score: 353
Period size: 89 Copynumber: 2.9 Consensus size: 91
313529 GATAAACCAG
* *
313539 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCGTCCAACGAGGAAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGG-AGAAAAAGTTCATA
*
313604 ATGAGAAGAACTTGTTCAACCTT-GCA
65 ATGAGAAGAACTTGTTCAACCTTAGAA
*
313630 TCAACATTTCCAGTGGAGAGTTCATAATGAG-A-AACTTATCCAACGAGAGAGAAAAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAG-GAGAAAAAGTTCATA
*
313693 ATGAGAAGAACTTGTTCAACTTTAGAA
65 ATGAGAAGAACTTGTTCAACCTTAGAA
* * * * * *
313720 T-AACATTTCCAATGGAGAGTTCATAATGAGAAGAAGTCATCCGATGAGGGAGAAGCAA-CTCAT
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGA-GGAGAA-AAAGTTCAT
*
313783 AATGAGAAGAAGTTGTTCAACC
64 AATGAGAAGAACTTGTTCAACC
313805 CAACACCTCA
Statistics
Matches: 155, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
89 76 0.49
90 6 0.04
91 70 0.45
92 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (91 bp):
TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAGAAAAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTAGAA
Found at i:314200 original size:3 final size:3
Alignment explanation
Indices: 314192--314263 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
314182 ATTTTTCAAA
314192 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
314239 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
314264 CAAACCGAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 66 0.97
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:329282 original size:42 final size:41
Alignment explanation
Indices: 329229--329337 Score: 182
Period size: 42 Copynumber: 2.6 Consensus size: 41
329219 TATAAGTCCT
*
329229 TTGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
1 TTGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
329270 TCTGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
1 T-TGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
*
329312 TTCGAGTCATCAGTAAGTCTTTCGAG
1 TT-GGGTCATCAGTAAGTCTTTCGAG
329338 TAAGATGATA
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
41 2 0.03
42 62 0.97
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (41 bp):
TTGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
Found at i:329337 original size:20 final size:20
Alignment explanation
Indices: 329275--329338 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
329265 AATCCTCTGG
329275 GTCATCAGTAAGTCTTTCGA
1 GTCATCAGTAAGTCTTTCGA
* * *
329295 G-CATGATGCTTAAATCCTTCGA
1 GTCATCA-G--TAAGTCTTTCGA
329317 GTCATCAGTAAGTCTTTCGA
1 GTCATCAGTAAGTCTTTCGA
329337 GT
1 GT
329339 AAGATGATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 4 0.12
20 14 0.41
22 12 0.35
23 4 0.12
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (20 bp):
GTCATCAGTAAGTCTTTCGA
Found at i:329813 original size:37 final size:37
Alignment explanation
Indices: 329764--330068 Score: 283
Period size: 37 Copynumber: 8.1 Consensus size: 37
329754 TCTCCGGGCC
*
329764 ATCTTAATCCTTCACCGAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
* *
329801 ATATTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
* ** * * *
329838 ATCTAAAGCCTTCAAGGAAGAATAGTGAAACAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
* * * * * *** *
329875 ATCAGTAAGCCTATTGAGC-ATGACG-A-TTAAGTCCTCTGGGCC
1 ATC-TTAAGCC--TTCACCGAAGA-GTAGTGAAG-CAAAT---CA
*
329917 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
*
329954 ATCTTAAGCATTCACCGAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
* * *
329991 ATCTTAAGCCTTCACCAAAAAGTAGTGAAACAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
* * *
330028 ATCTTAAGCCTTCTCCGAAGAGTAGTGAAGAAAATCG
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
330065 ATCT
1 ATCT
330069 CGAGTCCGAC
Statistics
Matches: 212, Mismatches: 45, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
37 170 0.80
38 8 0.04
39 11 0.05
40 8 0.04
41 10 0.05
42 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (37 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
Found at i:330001 original size:153 final size:153
Alignment explanation
Indices: 329737--330026 Score: 456
Period size: 153 Copynumber: 1.9 Consensus size: 153
329727 TAACTCTTCC
* *
329737 GAGCATGAAGATTAAGTTCTCCGGGCCATCTTAATCCTTCACCGAAGAGTAGTGAAGCAAATCAA
1 GAGCATGAAGATTAAGTCCTCCGGGCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAA
* ** *
329802 TATTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCAATCTAAAGCCTTCAAGGAAGAA-TAGTGA
66 TATTAAGCATTCACCAAAGAGTAGTGAAGCAAATCAATCTAAAGCCTTC-ACCAAAAAGTAGTGA
329866 AACAAATCCATCAGTAAGCCTATT
130 AACAAATCCATCAGTAAGCCTATT
* * *
329890 GAGCATGACGATTAAGTCCTCTGGGCCATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAAATCAA
1 GAGCATGAAGATTAAGTCCTCCGGGCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAA
* * *
329955 TCTTAAGCATTCACCGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACCAAAAAGTAGTGAA
66 TATTAAGCATTCACCAAAGAGTAGTGAAGCAAATCAATCTAAAGCCTTCACCAAAAAGTAGTGAA
330020 ACAAATC
131 ACAAATC
330027 AATCTTAAGC
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
152 5 0.04
153 119 0.96
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (153 bp):
GAGCATGAAGATTAAGTCCTCCGGGCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAA
TATTAAGCATTCACCAAAGAGTAGTGAAGCAAATCAATCTAAAGCCTTCACCAAAAAGTAGTGAA
ACAAATCCATCAGTAAGCCTATT
Found at i:334270 original size:212 final size:208
Alignment explanation
Indices: 333903--334553 Score: 898
Period size: 212 Copynumber: 3.1 Consensus size: 208
333893 AGTATTGTTC
*
333903 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGAGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCT--AA--GAGAAGTTGTTTATTGACAA
* ** * * *
333968 CCAGCCGTCATTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAA
62 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
* *
334033 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
127 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
334098 TGAACTTGCGTTGTCTG
192 TGAACTTGCGTTGTCTG
* *
334115 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCT--AA--GAGAAGTTGTTTATTGACAA
* * *
334180 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
62 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
*
334245 GTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
127 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
334310 TGAACTTGCATTGTCTG
192 TGAACTTGCGTTGTCTG
* *
334327 GAGTCCAATATCATTCG-C-T--A--TGAAATT-G------G-GAAGTTGTTTATTGACAACCAG
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTAAGAGAAGTTGTTTATTGACAACCAG
*
334378 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTG
* *
334443 AAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAA
131 AAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
334508 CTTGCGTTGTCTG
196 CTTGCGTTGTCTG
* *
334521 GAGTGGCACGATATCCTCCGTCGTGGAGTTGAA
1 GAGT--C-CAATATCCTCCGTCGTGAAGTTGAA
334554 TCGCGGATGG
Statistics
Matches: 398, Mismatches: 32, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
194 161 0.40
195 1 0.00
196 1 0.00
197 9 0.02
198 1 0.00
199 1 0.00
201 1 0.00
203 4 0.01
205 1 0.00
206 7 0.02
208 1 0.00
210 1 0.00
211 1 0.00
212 208 0.52
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (208 bp):
GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTAAGAGAAGTTGTTTATTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTG
AAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTG
Found at i:334344 original size:106 final size:106
Alignment explanation
Indices: 333903--334350 Score: 648
Period size: 106 Copynumber: 4.2 Consensus size: 106
333893 AGTATTGTTC
* * **
333903 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGAGAAATTGTTTATTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACA
* ** * * *
333967 ACCAGCCGTCATTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
334009 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
334074 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
334115 GAGTCCAATATCCTTCG-TCGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACA
* *
334179 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
334221 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
*
334286 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
334327 GAGTCCAATATCATTCGCTATGAA
1 GAGTCCAATATCCTTCGCTGTGAA
334351 ATTGGGAAGT
Statistics
Matches: 311, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
105 1 0.00
106 308 0.99
107 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:334412 original size:88 final size:88
Alignment explanation
Indices: 334259--334438 Score: 324
Period size: 88 Copynumber: 2.0 Consensus size: 88
334249 AAATTGGCTC
334259 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
1 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
334324 CTGGAGTCCAATATCATTCGCTA
66 CTGGAGTCCAATATCATTCGCTA
*
334347 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
* * *
334412 CTTGAGTCCAATATCCTTCGCTG
66 CTGGAGTCCAATATCATTCGCTA
334435 TGAA
1 TGAA
334439 GTTGAAATTG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (88 bp):
TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
CTGGAGTCCAATATCATTCGCTA
Found at i:334491 original size:194 final size:194
Alignment explanation
Indices: 334155--334524 Score: 659
Period size: 194 Copynumber: 1.9 Consensus size: 194
334145 ATTGGCTCTA
*
334155 AAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCT
1 AAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCT
*
334220 GGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
66 GGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACA
334285 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCATTCGCTATG
131 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCATTCGCTATG
* * *
334349 AAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 AAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCT
* *
334414 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACA
66 GGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACA
* *
334479 ACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
131 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGT
334525 GGCACGATAT
Statistics
Matches: 167, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
194 167 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (194 bp):
AAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCT
GGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCATTCGCTATG
Found at i:335484 original size:164 final size:165
Alignment explanation
Indices: 335213--335553 Score: 659
Period size: 164 Copynumber: 2.1 Consensus size: 165
335203 CCCCTTCGCC
335213 GTGAAGTTAAGCCAGGAATTGGATATCCTTCGTCGTGAAGTTGACATCCAACTTGAAAATGTGAA
1 GTGAAGTTAAGCCAGGAATTGGATATCCTTCGTCGTGAAGTTGACATCCAACTTGAAAATGTGAA
335278 CTGGATTGGTTCTGAATTAGCTCTCGAACTCACCTGAAGTTGATTCTAAGATCTGTCAATCTTTC
66 CTGGATTGGTTCTGAATTAGCTCTCGAACTCACCTGAAGTTGATTCTAAGATCTGTCAATCTTTC
335343 AATATGTC-AATTGGTTGAAGTGTAGCTTCTTGCT
131 AATATGTCAAATTGGTTGAAGTGTAGCTTCTTGCT
335377 GTGAAGTTAAGCCAGGAATTGGATATCCTTCGTCGTGAAGTTGACATCCAACTTGAAAATGTGAA
1 GTGAAGTTAAGCCAGGAATTGGATATCCTTCGTCGTGAAGTTGACATCCAACTTGAAAATGTGAA
335442 CTGGATTGGTTCTGAATTAGCTCTCGAACTCACCTGAAGTTGATTCTAAGATCTGTCAATCTTTC
66 CTGGATTGGTTCTGAATTAGCTCTCGAACTCACCTGAAGTTGATTCTAAGATCTGTCAATCTTTC
335507 AATATGTCAAATTGGTTGAAGTGTAGCTTCTTGCT
131 AATATGTCAAATTGGTTGAAGTGTAGCTTCTTGCT
335542 GCTG-AGTTAAGC
1 G-TGAAGTTAAGC
335554 AACCAACATC
Statistics
Matches: 175, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
164 138 0.79
165 35 0.20
166 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (165 bp):
GTGAAGTTAAGCCAGGAATTGGATATCCTTCGTCGTGAAGTTGACATCCAACTTGAAAATGTGAA
CTGGATTGGTTCTGAATTAGCTCTCGAACTCACCTGAAGTTGATTCTAAGATCTGTCAATCTTTC
AATATGTCAAATTGGTTGAAGTGTAGCTTCTTGCT
Found at i:336240 original size:22 final size:22
Alignment explanation
Indices: 336215--336256 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
336205 ATTTTTGTCC
*
336215 TTTGATGCTCAATGGTTTGACA
1 TTTGATGCTCAAAGGTTTGACA
*
336237 TTTGATGTTCAAAGGTTTGA
1 TTTGATGCTCAAAGGTTTGA
336257 TGGGGTAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (22 bp):
TTTGATGCTCAAAGGTTTGACA
Found at i:336902 original size:13 final size:13
Alignment explanation
Indices: 336880--336945 Score: 82
Period size: 13 Copynumber: 5.2 Consensus size: 13
336870 ATCTTTGTTC
336880 TTTC-TTTTTTCT
1 TTTCTTTTTTTCT
* *
336892 TTTGTTTTTTTCC
1 TTTCTTTTTTTCT
*
336905 TTT-TTTGTTTCT
1 TTTCTTTTTTTCT
*
336917 TTTCTTTTTTACT
1 TTTCTTTTTTTCT
336930 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
336943 TTT
1 TTT
336946 TTGCTTCTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
12 13 0.29
13 32 0.71
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:336908 original size:8 final size:7
Alignment explanation
Indices: 336880--336947 Score: 59
Period size: 7 Copynumber: 9.4 Consensus size: 7
336870 ATCTTTGTTC
336880 TTTCTTT
1 TTTCTTT
336887 TTTCTTT
1 TTTCTTT
336894 TGTT-TTT
1 T-TTCTTT
*
336901 TTCCTTT
1 TTTCTTT
*
336908 TTTGTTTCT
1 TTT-CTT-T
336917 TTTCTTT
1 TTTCTTT
336924 TTTACTTT
1 TTT-CTTT
*
336932 TCT-TTT
1 TTTCTTT
336938 TTTCTTT
1 TTTCTTT
336945 TTT
1 TTT
336948 GCTTCTTATT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
6 6 0.12
7 27 0.55
8 12 0.24
9 4 0.08
ACGTcount: A:0.01, C:0.13, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTCTTT
Found at i:336912 original size:16 final size:16
Alignment explanation
Indices: 336880--336926 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
336870 ATCTTTGTTC
336880 TTTCTTTT-TTCTTTTG
1 TTTCTTTTCTT-TTTTG
336896 TTT-TTTTCCTTTTTTG
1 TTTCTTTT-CTTTTTTG
336912 TTTCTTTTCTTTTTT
1 TTTCTTTTCTTTTTT
336927 ACTTTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.14
16 18 0.64
17 6 0.21
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (16 bp):
TTTCTTTTCTTTTTTG
Found at i:336921 original size:37 final size:36
Alignment explanation
Indices: 336873--336954 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 36
336863 CTTTTTGATC
*
336873 TTTGTTC-TTTCTTTTTT-CTTTTGTTTTTTTCCTTT
1 TTTGTTCTTTTCTTTTTTACTTTTCTTTTTTT-CTTT
336908 TTTGTTTCTTTTCTTTTTTACTTTTCTTTTTTTCTTT
1 TTTG-TTCTTTTCTTTTTTACTTTTCTTTTTTTCTTT
336945 TTTGCTTCTT
1 TTTG-TTCTT
336955 ATTGAATCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 4 0.10
36 3 0.07
37 23 0.55
38 12 0.29
ACGTcount: A:0.01, C:0.15, G:0.05, T:0.79
Consensus pattern (36 bp):
TTTGTTCTTTTCTTTTTTACTTTTCTTTTTTTCTTT
Found at i:336942 original size:21 final size:22
Alignment explanation
Indices: 336907--336947 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
336897 TTTTTTCCTT
*
336907 TTTTGTTTCTTTTCTTTTTTAC
1 TTTTCTTTCTTTTCTTTTTTAC
336929 TTTTCTTT-TTTTCTTTTTT
1 TTTTCTTTCTTTTCTTTTTT
336948 GCTTCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTCTTTCTTTTCTTTTTTAC
Found at i:337988 original size:22 final size:21
Alignment explanation
Indices: 337963--338004 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
337953 TTTCATGTTT
*
337963 ATGAAAATGCTTAAAAATGTAG
1 ATGAAAATGC-AAAAAATGTAG
*
337985 ATGAAGATGCAAAAAATGTA
1 ATGAAAATGCAAAAAATGTA
338005 AGAATGCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.24
Consensus pattern (21 bp):
ATGAAAATGCAAAAAATGTAG
Found at i:339845 original size:24 final size:23
Alignment explanation
Indices: 339800--339849 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
339790 AATAATGAAG
339800 TAAATAAAATAGATAAACAAAAA
1 TAAATAAAATAGATAAACAAAAA
*
339823 TAAATAAAAGTTAG-TAAAGAAAAA
1 TAAATAAAA--TAGATAAACAAAAA
339847 TAA
1 TAA
339850 TGAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 12 0.50
25 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (23 bp):
TAAATAAAATAGATAAACAAAAA
Found at i:340473 original size:115 final size:115
Alignment explanation
Indices: 340271--340500 Score: 433
Period size: 115 Copynumber: 2.0 Consensus size: 115
340261 GTGAGCGCTT
*
340271 GACGACGGCAGAAGCTGAAGTTCAAGAGCCCGAGTTGATTCTGATACCAGCAACGGTGATAAGCT
1 GACGACGGCAGAAGCTGAAGTTCAAGAGCCCGAGTTGATTCTGATACCAGCAACGGCGATAAGCT
*
340336 AAAGCTTGTATCGAGTGACGGAGTGGCGGTTGAATCTGTTTGAGCCTGGA
66 AAAGCTTGCATCGAGTGACGGAGTGGCGGTTGAATCTGTTTGAGCCTGGA
*
340386 GACGACGGCAGAAGCTGAAGTTCAAGAGCCCGAGTTGATTCTGGTACCAGCAACGGCGATAAGCT
1 GACGACGGCAGAAGCTGAAGTTCAAGAGCCCGAGTTGATTCTGATACCAGCAACGGCGATAAGCT
340451 AAAGCTTGCATCGAGTGACGGAGTGGCGGTTGAATCTGTTTGAGCCTGGA
66 AAAGCTTGCATCGAGTGACGGAGTGGCGGTTGAATCTGTTTGAGCCTGGA
340501 ATTGAGGTTG
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 112 1.00
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.22
Consensus pattern (115 bp):
GACGACGGCAGAAGCTGAAGTTCAAGAGCCCGAGTTGATTCTGATACCAGCAACGGCGATAAGCT
AAAGCTTGCATCGAGTGACGGAGTGGCGGTTGAATCTGTTTGAGCCTGGA
Found at i:341785 original size:17 final size:17
Alignment explanation
Indices: 341751--341788 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
341741 ATTAAAATTT
*
341751 AATTATAATTTTAATAG
1 AATTATAATTTAAATAG
341768 AATTATAA-TTAAATTAG
1 AATTATAATTTAAA-TAG
341785 AATT
1 AATT
341789 TTTTAGGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
AATTATAATTTAAATAG
Found at i:341963 original size:17 final size:18
Alignment explanation
Indices: 341918--341963 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
341908 TTTAATTTTA
* *
341918 TTTAAATTATAATTAAAT
1 TTTAAATAATTATTAAAT
341936 TTT-AATAAATTATT-AAT
1 TTTAAAT-AATTATTAAAT
341953 TTTAAATAATT
1 TTTAAATAATT
341964 TTTTACACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTAAATAATTATTAAAT
Found at i:345495 original size:18 final size:17
Alignment explanation
Indices: 345465--345498 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
345455 ATATTTATTT
*
345465 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
345482 ATATGAAAAAATAATAT
1 ATAT-AAAAAATAATAT
345499 TATGATATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:346417 original size:108 final size:108
Alignment explanation
Indices: 346284--346501 Score: 395
Period size: 108 Copynumber: 2.0 Consensus size: 108
346274 GATTTGCCCC
346284 ATGAAAATTCATATATTGGCTCATTAAGTAAGGGTAAACTAACC-TGGCCATTAAATTATTGGT-
1 ATGAAAATTCATATATTGGCTCATTAAGTAAGGGTAAACTAACCATGGCCATTAAATTA-TGGTG
346347 TGGATTCTATTTTTACCATTGAATTAATTTTTTGTCAAATAAATT
65 TGGATTCTATTTTTACCATTGAATTAA-TTTTTGTCAAATAAATT
346392 ATGAAAATTCATATATTGGCTCATTAAGTAAGGGTAAACTAACCATGGCCATTAAATTATGGTGG
1 ATGAAAATTCATATATTGGCTCATTAAGTAAGGGTAAACTAACCATGGCCATTAAATTATGGT-G
346457 TGGATTCTATTTTTACCATTGAATTAATTTTTGTCAAATAAATT
65 TGGATTCTATTTTTACCATTGAATTAATTTTTGTCAAATAAATT
346501 A
1 A
346502 AAAATTTTAA
Statistics
Matches: 107, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
108 48 0.45
109 32 0.30
110 27 0.25
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (108 bp):
ATGAAAATTCATATATTGGCTCATTAAGTAAGGGTAAACTAACCATGGCCATTAAATTATGGTGT
GGATTCTATTTTTACCATTGAATTAATTTTTGTCAAATAAATT
Found at i:346515 original size:6 final size:6
Alignment explanation
Indices: 346504--346528 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
346494 ATAAATTAAA
346504 AATTTT AATTTT AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT A
346529 TTCAATCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:349350 original size:2 final size:2
Alignment explanation
Indices: 349336--349419 Score: 61
Period size: 2 Copynumber: 42.0 Consensus size: 2
349326 TTATAATAAT
*
349336 TA TA TA GTA -A TA TA TA GTA TA -A TA TA AA TA TA TA TA -A TA -A
1 TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
349376 AA TA CTA TA TA TA TA GTA TA GTT TA -A TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA
349418 TA
1 TA
349420 ATTTAGCTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
1 5 0.07
2 53 0.79
3 9 0.13
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:349435 original size:29 final size:29
Alignment explanation
Indices: 349343--349436 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 29
349333 AATTATATAG
*
349343 TAATATATAGTATA-ATATA-AATATA-TA
1 TAATATATA-TATATATATATAATATAGTT
* *
349370 TAATA-AAATACTATATATATAGTATAGTT
1 TAATATATATA-TATATATATAATATAGTT
*
349399 TAATATATATATATATATATAATTTAGCTTT
1 TAATATATATATATATATATAATATAG--TT
349430 TAATATA
1 TAATATA
349437 GTTTTTAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
25 2 0.04
26 4 0.07
27 10 0.19
28 5 0.09
29 20 0.37
30 4 0.07
31 9 0.17
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (29 bp):
TAATATATATATATATATATAATATAGTT
Found at i:351957 original size:23 final size:23
Alignment explanation
Indices: 351931--351974 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
351921 ATGTTTTAAG
351931 TATTA-ATTTAATTTATTTTTATC
1 TATTAGATTTAA-TTATTTTTATC
351954 TATTAGATTTAATTATTTTTA
1 TATTAGATTTAATTATTTTTA
351975 ATGACTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTAGATTTAATTATTTTTATC
Found at i:355036 original size:20 final size:20
Alignment explanation
Indices: 355013--355059 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
355003 TTTGCATACA
* *
355013 CATTTTTACTTTTTGCGAT-G
1 CATTTTTAATTTCTGC-ATCG
355033 CA-TTTTAATTTCTGCATCG
1 CATTTTTAATTTCTGCATCG
355052 CATTTTTA
1 CATTTTTA
355060 TTCATTCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 14 0.61
20 7 0.30
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (20 bp):
CATTTTTAATTTCTGCATCG
Found at i:363302 original size:22 final size:22
Alignment explanation
Indices: 363274--363324 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
363264 AAATTGAATC
*
363274 TGTATACCCATAATGTATGATA
1 TGTATACCCATAATATATGATA
363296 TGTATACCCATAATATATGATA
1 TGTATACCCATAATATATGATA
363318 TGTATAC
1 TGTATAC
363325 AATAAAGCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (22 bp):
TGTATACCCATAATATATGATA
Found at i:365467 original size:45 final size:45
Alignment explanation
Indices: 365320--365486 Score: 140
Period size: 45 Copynumber: 3.7 Consensus size: 45
365310 ATATATGAGC
* *
365320 CAATATTTTATTGTTGTTTTCCTTGACTTTCTCGAGTAGAAGAGT
1 CAATATTTTAGTGTTGTTTTCCTTGACTTTCTAGAGTAGAAGAGT
* * * ** * * * * * * *
365365 CAATCTTTTAATATTGTCCTACTTAACTCTCTTGTGAAG-AGAAAT
1 CAATATTTTAGTGTTGTTTTCCTTGACTTTCTAGAGTAGAAG-AGT
** *
365410 CAACCTTTTAGTGTTGTTTTCCTTGACTTTCTAGCGTAGAAGAGT
1 CAATATTTTAGTGTTGTTTTCCTTGACTTTCTAGAGTAGAAGAGT
*
365455 CAATATTTTAGTGTTGTCATT-CTTGACTTTCT
1 CAATATTTTAGTGTTGT-TTTCCTTGACTTTCT
365487 CATCAAGAGA
Statistics
Matches: 92, Mismatches: 27, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
44 2 0.02
45 86 0.93
46 4 0.04
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (45 bp):
CAATATTTTAGTGTTGTTTTCCTTGACTTTCTAGAGTAGAAGAGT
Found at i:365495 original size:90 final size:90
Alignment explanation
Indices: 365325--365531 Score: 245
Period size: 90 Copynumber: 2.3 Consensus size: 90
365315 TGAGCCAATA
* * * *
365325 TTTTATTGTTGTTTTCCTTGACTTTCTCGAGTAGAAGAGTCAATCTTTTAATATTGTCCTACTTA
1 TTTTAGTGTTGTTTTCCTTGACTTTCTAGAGTAGAAGAGTCAATATTTTAATATTGTCATACTTA
** *
365390 ACTCTCTTGTGAAGAGAAATCAACC
66 ACTCTCTCATCAAGAGAAATCAACC
* * * * *
365415 TTTTAGTGTTGTTTTCCTTGACTTTCTAGCGTAGAAGAGTCAATATTTTAGTGTTGTCATTCTTG
1 TTTTAGTGTTGTTTTCCTTGACTTTCTAGAGTAGAAGAGTCAATATTTTAATATTGTCATACTTA
* * *
365480 ACTTTCTCATCAAGAGAATTCAATC
66 ACTCTCTCATCAAGAGAAATCAACC
* *
365505 TTTCAGTGTTGTGATT-CTTGACTTTCT
1 TTTTAGTGTTGT-TTTCCTTGACTTTCT
365532 CAGAAATGGA
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
90 97 0.98
91 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (90 bp):
TTTTAGTGTTGTTTTCCTTGACTTTCTAGAGTAGAAGAGTCAATATTTTAATATTGTCATACTTA
ACTCTCTCATCAAGAGAAATCAACC
Found at i:365503 original size:45 final size:45
Alignment explanation
Indices: 365452--365567 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 45
365442 AGCGTAGAAG
* **
365452 AGTCAATATTTTAGTGTTGTCATTCTTGACTTTCTCATCAA-GAGA
1 AGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCAGAAATG-GA
* * *
365497 ATTCAATCTTTCAGTGTTGTGATTCTTGACTTTCTCAGAAATGGA
1 AGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCAGAAATGGA
*
365542 AGTCAATCTTTTAGTGATGTCATTCT
1 AGTCAATCTTTTAGTGTTGTCATTCT
365568 CAACTTGACC
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 59 0.98
46 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (45 bp):
AGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCAGAAATGGA
Found at i:373146 original size:15 final size:15
Alignment explanation
Indices: 373123--373154 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
373113 CAACGTTAAT
*
373123 AAAGTACAAACAACC
1 AAAGCACAAACAACC
373138 AAAGCACAAACAACC
1 AAAGCACAAACAACC
373153 AA
1 AA
373155 CCAAGAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.28, G:0.06, T:0.03
Consensus pattern (15 bp):
AAAGCACAAACAACC
Found at i:373985 original size:18 final size:18
Alignment explanation
Indices: 373962--373998 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
373952 GTCAAAGCAA
373962 GTTAAAAAGCATCTCCTC
1 GTTAAAAAGCATCTCCTC
373980 GTTAAAAAGCATCTCCTC
1 GTTAAAAAGCATCTCCTC
373998 G
1 G
373999 GTACAAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (18 bp):
GTTAAAAAGCATCTCCTC
Found at i:380641 original size:56 final size:56
Alignment explanation
Indices: 380563--380680 Score: 209
Period size: 56 Copynumber: 2.1 Consensus size: 56
380553 TAAATATTTC
*
380563 TTAATAGAGTAGGTGGAATAGGTGGCAATAATGTATGGCTATGAATATTTCTCAAT
1 TTAATAGAGTAGGTGGAATAGGTGGCAATAATGTATGGCTAGGAATATTTCTCAAT
* *
380619 TTAATAGAGTAGGTGGAGTAGGTGGCAATAATGTATGGTTAGGAATATTTCTCAAT
1 TTAATAGAGTAGGTGGAATAGGTGGCAATAATGTATGGCTAGGAATATTTCTCAAT
380675 TTAATA
1 TTAATA
380681 TTTGTGTGGT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (56 bp):
TTAATAGAGTAGGTGGAATAGGTGGCAATAATGTATGGCTAGGAATATTTCTCAAT
Found at i:382728 original size:16 final size:16
Alignment explanation
Indices: 382703--382744 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
382693 GGTATTACCC
*
382703 GACCTGTTTTCAATCT
1 GACCTGTTTTCAACCT
*
382719 GACTTGTTTTCAACCT
1 GACCTGTTTTCAACCT
382735 GACCTGTTTT
1 GACCTGTTTT
382745 TAAAATGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.17, C:0.24, G:0.14, T:0.45
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:383256 original size:23 final size:24
Alignment explanation
Indices: 383218--383267 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
383208 ATGCAAAGGA
383218 AAATTAATACAGTTTAATTTATAT
1 AAATTAATACAGTTTAATTTATAT
*
383242 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATACAGTTTAATTTATAT
383265 AAA
1 AAA
383268 GAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
AAATTAATACAGTTTAATTTATAT
Found at i:384301 original size:20 final size:19
Alignment explanation
Indices: 384278--384382 Score: 88
Period size: 20 Copynumber: 5.1 Consensus size: 19
384268 AGTTACATAT
*
384278 ATAGTTTATATAACATATAA
1 ATAGTTTATAT-ACATATAC
384298 ATAGATTGTATATATACATATAC
1 ATAG--T-T-TATATACATATAC
*
384321 TATAGGTTATAT--ATATAC
1 -ATAGTTTATATACATATAC
384339 ATAGTTTATATACACTATAC
1 ATAGTTTATATACA-TATAC
384359 ATAGTTTATACATACATGATAC
1 ATAGTTTAT--ATACAT-ATAC
384381 AT
1 AT
384383 GTACTATAAG
Statistics
Matches: 71, Mismatches: 3, Indels: 20
0.76 0.03 0.21
Matches are distributed among these distances:
17 10 0.14
18 6 0.08
19 1 0.01
20 23 0.32
21 2 0.03
22 12 0.17
23 8 0.11
24 9 0.13
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (19 bp):
ATAGTTTATATACATATAC
Found at i:384313 original size:24 final size:24
Alignment explanation
Indices: 384284--384341 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
384274 ATATATAGTT
*
384284 TATATA-ACATATA-AATAGATTG
1 TATATATACATATACAATAGATTA
* *
384306 TATATATACATATACTATAGGTTA
1 TATATATACATATACAATAGATTA
384330 TATATATACATA
1 TATATATACATA
384342 GTTTATATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 6 0.19
23 7 0.23
24 18 0.58
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (24 bp):
TATATATACATATACAATAGATTA
Found at i:384668 original size:2 final size:2
Alignment explanation
Indices: 384661--384801 Score: 75
Period size: 2 Copynumber: 72.0 Consensus size: 2
384651 TGTTTCTTTA
*
384661 AT AT AT AT AT AT AT AT AT AT AT -T ACT -T AT AT -T AGT -T AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT
* * * * *
384701 AT AC AT AT AT AA AT AT -T A- AT AT AA AT -T AT A- AC AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
384739 ACT AT AT -T TT AT AT AGT TT AT AC AT AT AT AGT TT AT AT AT AT
1 A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT
384781 AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT A-T AT AT
384802 TAATATAAAT
Statistics
Matches: 106, Mismatches: 18, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
1 9 0.08
2 90 0.85
3 7 0.07
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:384766 original size:85 final size:88
Alignment explanation
Indices: 384664--384864 Score: 218
Period size: 85 Copynumber: 2.3 Consensus size: 88
384654 TTCTTTAATA
* *
384664 TATATA-TATATATATATATTACTTATAT-TAGT-TATACATACATATATA-AATATTAATATAA
1 TATATAGTTTATACATATATTACTTATATATA-TATATACATACATATATACAATATTAATATAA
*
384725 ATTATAACATATAAACTATAT-TT
65 ATAATAACATATAAACTATATATT
* * * *
384748 TATATAGTTTATACATATA-TAGTT-TATATATATATATATATATATATACTATATTAATATAAA
1 TATATAGTTTATACATATATTACTTATATATATATATACATACATATATACAATATTAATATAAA
***
384811 TAATATTTTATAAACTATATACTT
66 TAATAACATATAAACTATATA-TT
* * *
384835 TTTATAGTTTATACATATATAATTTATATA
1 TATATAGTTTATACATATATTACTTATATA
384865 CATAGTTTAG
Statistics
Matches: 96, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
83 4 0.04
84 26 0.27
85 39 0.41
87 20 0.21
88 3 0.03
89 4 0.04
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (88 bp):
TATATAGTTTATACATATATTACTTATATATATATATACATACATATATACAATATTAATATAAA
TAATAACATATAAACTATATATT
Found at i:384777 original size:17 final size:15
Alignment explanation
Indices: 384748--384783 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
384738 AACTATATTT
384748 TATATAGTTTATACA
1 TATATAGTTTATACA
*
384763 TATATAGTTTATATA
1 TATATAGTTTATACA
384778 TATATA
1 TATATA
384784 TATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:384791 original size:54 final size:54
Alignment explanation
Indices: 384631--384802 Score: 127
Period size: 56 Copynumber: 3.0 Consensus size: 54
384621 AATTTATTAC
* * * * *
384631 TTTATATAGTTTATGCATA-GT-GTTTCTTTAATATATATATATATATA-TATAT
1 TTTATATAGTTTATACATATATAGTTTATAT-ATATATATATATATAAACTATAT
* * *
384683 TACTTATATTAGTTATACATACATATATAAATATTA-ATATAAATTATAACATATAAACTATAT
1 T--TTATA-TAGTT-T--ATACATATAT-AGT-TTATATATATA-TAT-ATATATAAACTATAT
384746 TTTATATAGTTTATACATATATAGTTTATATATATATATATATATATATACTATAT
1 TTTATATAGTTTATACATATATAGTTTATATATATATATATATATA-A-ACTATAT
384802 T
1 T
384803 AATATAAATA
Statistics
Matches: 93, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
52 1 0.01
54 11 0.12
55 12 0.13
56 17 0.18
57 10 0.11
58 6 0.06
59 2 0.02
60 9 0.10
61 10 0.11
62 9 0.10
63 6 0.06
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (54 bp):
TTTATATAGTTTATACATATATAGTTTATATATATATATATATATAAACTATAT
Found at i:384808 original size:8 final size:9
Alignment explanation
Indices: 384659--384816 Score: 57
Period size: 8 Copynumber: 17.7 Consensus size: 9
384649 AGTGTTTCTT
384659 TAATATATA
1 TAATATATA
384668 T-ATATATA
1 TAATATATA
384676 T-ATATAT-
1 TAATATATA
*
384683 TACT-TATA
1 TAATATATA
* *
384691 TTAGTTATACA
1 -TA-ATATATA
384702 TACATATATA
1 TA-ATATATA
384712 -AATATTAATA
1 TAATA-T-ATA
384722 TAA-AT-TA
1 TAATATATA
*
384729 TAACATATA
1 TAATATATA
*
384738 -AACTATATT
1 TAA-TATATA
* *
384747 TTATATAGTT
1 TAATATA-TA
*
384757 TATACATATA
1 TA-ATATATA
* *
384767 TAGTTTATA
1 TAATATATA
384776 T-ATATATA
1 TAATATATA
384784 TATATATATA
1 TA-ATATATA
*
384794 TACTATAT-
1 TAATATATA
*
384802 TAATATAAA
1 TAATATATA
384811 TAATAT
1 TAATAT
384817 TTTATAAACT
Statistics
Matches: 112, Mismatches: 20, Indels: 34
0.67 0.12 0.20
Matches are distributed among these distances:
7 9 0.08
8 34 0.30
9 32 0.29
10 28 0.25
11 9 0.08
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (9 bp):
TAATATATA
Found at i:384864 original size:87 final size:84
Alignment explanation
Indices: 384696--384864 Score: 230
Period size: 87 Copynumber: 2.0 Consensus size: 84
384686 TTATATTAGT
*
384696 TATACATACATATATAAATATTAATATAAATTATAACATATAAACTATATTTTATATAGTTTATA
1 TATACATACATATATAAATATTAATATAAATAATAACATATAAACTATATTTTATATAGTTTATA
*
384761 CATATATAGTTTATATATA
66 CATATATAATTTATATATA
* * * *** *
384780 TATATATATATATATACTATATTAATATAAATAATATTTTATAAACTATATACTTTTTATAGTTT
1 TATACATACATATATA-AATATTAATATAAATAATAACATATAAACTATAT--TTTATATAGTTT
384845 ATACATATATAATTTATATA
63 ATACATATATAATTTATATA
384865 CATAGTTTAG
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 14 0.19
85 29 0.40
87 30 0.41
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (84 bp):
TATACATACATATATAAATATTAATATAAATAATAACATATAAACTATATTTTATATAGTTTATA
CATATATAATTTATATATA
Found at i:384866 original size:17 final size:17
Alignment explanation
Indices: 384757--384868 Score: 52
Period size: 17 Copynumber: 6.5 Consensus size: 17
384747 TTATATAGTT
*
384757 TATACATATATAGTTTA
1 TATACATATATAATTTA
* *
384774 TATATATATATATATATA
1 TATACATATATA-ATTTA
*
384792 TATAC-TATATTAATATA
1 TATACATATA-TAATTTA
* **
384809 AATA-ATATTTTATAAACTA
1 TATACATA---TATAATTTA
* * *
384828 TATAC-TTTTTATAGTT-
1 TATACATATATA-ATTTA
384844 TATACATATATAATTTA
1 TATACATATATAATTTA
384861 TATACATA
1 TATACATA
384869 GTTTAGATAT
Statistics
Matches: 70, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
16 11 0.16
17 39 0.56
18 9 0.13
19 9 0.13
20 2 0.03
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (17 bp):
TATACATATATAATTTA
Found at i:384878 original size:26 final size:26
Alignment explanation
Indices: 384849--384917 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 26
384839 TAGTTTATAC
* *
384849 ATATATAATTTATATACATAGTTTAG
1 ATATATAATTTATAAACATAATTTAG
* *
384875 ATATATAATTCACATAAACATAATTTAT
1 ATATATAATT--TATAAACATAATTTAG
*
384903 ATATATAACTTATAA
1 ATATATAATTTATAA
384918 TAATTATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 14 0.40
28 21 0.60
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (26 bp):
ATATATAATTTATAAACATAATTTAG
Found at i:384910 original size:87 final size:86
Alignment explanation
Indices: 384733--384939 Score: 217
Period size: 87 Copynumber: 2.4 Consensus size: 86
384723 AAATTATAAC
* * *
384733 ATATAAACTATAT-TTTATATAGTTTATACATATATAGTTTATATATATATATATATATATATAC
1 ATATAAACTATATATTTATATAGTTTATACATATATAATTTATATACATATATAGATATATATAC
* * *
384797 TATATTAATATAAATAATATT
66 TACATAAACATAAATAATATT
* * *
384818 TTATAAACTATATACTTTTTATAGTTTATACATATATAATTTATATACATAGTTTAGATATATA-
1 ATATAAACTATATA-TTTATATAGTTTATACATATATAATTTATATACATA-TATAGATATATAT
* * *
384882 ATTCACATAAACATAATTTATA-T
64 ACT-ACATAAACATAAATAATATT
*
384905 ATAT-AACTTATAATAATTATATAGTTTATA-ATATA
1 ATATAAAC-TAT-ATATTTATATAGTTTATACATATA
384940 AATATAGTTT
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
85 12 0.12
86 8 0.08
87 55 0.54
88 26 0.26
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (86 bp):
ATATAAACTATATATTTATATAGTTTATACATATATAATTTATATACATATATAGATATATATAC
TACATAAACATAAATAATATT
Found at i:384944 original size:18 final size:18
Alignment explanation
Indices: 384923--385055 Score: 74
Period size: 18 Copynumber: 7.0 Consensus size: 18
384913 TATAATAATT
384923 ATATAGTTTATAATATAA
1 ATATAGTTTATAATATAA
*
384941 ATATAGTTTATAATTTTATAT
1 ATATAGTTTATAA---TATAA
*
384962 ACATAGTTTAT-ATATATA
1 ATATAGTTTATAATATA-A
* ** * *
384980 GTGCACTTAAATATAATTTATAT
1 ATATAGTT---TATAA--TATAA
*
385003 ATATAGTTTATAATA-ATT
1 ATATAGTTTATAATATA-A
*
385021 ATATAGGTTATAATATAA
1 ATATAGTTTATAATATAA
385039 ATATAGTTTAT-ATATAA
1 ATATAGTTTATAATATAA
385056 TTTTATATTA
Statistics
Matches: 87, Mismatches: 16, Indels: 25
0.68 0.12 0.20
Matches are distributed among these distances:
17 11 0.13
18 43 0.49
19 1 0.01
20 6 0.07
21 17 0.20
22 1 0.01
23 4 0.05
24 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (18 bp):
ATATAGTTTATAATATAA
Found at i:384967 original size:98 final size:97
Alignment explanation
Indices: 384852--385050 Score: 317
Period size: 98 Copynumber: 2.0 Consensus size: 97
384842 TTTATACATA
*
384852 TATAATTTATATACATAGTTTAGATATATAATTCACATAAACATAATTTATATATATAACTTATA
1 TATAATTTATATACATAGTTTAGATATATAATGCACATAAACATAATTTATATATATAACTTATA
*
384917 ATAATTATATAGTTTATAATATAAATATAGTT
66 ATAATTATATAGGTTATAATATAAATATAGTT
* * * * **
384949 TATAATTTTATATACATAGTTTATATATATAGTGCACTTAAATATAATTTATATATATAGTTTAT
1 TATAA-TTTATATACATAGTTTAGATATATAATGCACATAAACATAATTTATATATATAACTTAT
385014 AATAATTATATAGGTTATAATATAAATATAGTT
65 AATAATTATATAGGTTATAATATAAATATAGTT
385047 TATA
1 TATA
385051 TATAATTTTA
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
97 5 0.05
98 88 0.95
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (97 bp):
TATAATTTATATACATAGTTTAGATATATAATGCACATAAACATAATTTATATATATAACTTATA
ATAATTATATAGGTTATAATATAAATATAGTT
Found at i:385073 original size:36 final size:35
Alignment explanation
Indices: 384998--385073 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 35
384988 AAATATAATT
*
384998 TATATATATAGTTTATAATAATTATATAGGTTATAA
1 TATAAATATAGTTTATAATAATTATATA-GTTATAA
*
385034 TATAAATATAGTTTATATATAATTTTATA-TTATATA
1 TATAAATATAGTTTATA-ATAATTATATAGTTATA-A
385070 TATA
1 TATA
385074 TTATATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
35 5 0.14
36 21 0.58
37 10 0.28
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TATAAATATAGTTTATAATAATTATATAGTTATAA
Found at i:387863 original size:20 final size:20
Alignment explanation
Indices: 387818--387875 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
387808 GCATGGGTAG
387818 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
387842 TGTATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
387862 TGCATCGATGCACT
1 TGCATCGATGCACT
387876 TCAAGGGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 17 0.53
22 1 0.03
23 2 0.06
24 12 0.38
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:388825 original size:31 final size:31
Alignment explanation
Indices: 388767--388861 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 31
388757 AGAGTAGAGG
* **
388767 GTTTACCTATG-TCTTTCGAGATATATGGATA
1 GTTTACCTAGGTTC-TTCGAGACCTATGGATA
*
388798 GTTTACCTAGGTTCTTCGAGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACCTATGGATA
* * * * *
388829 G-TTGCCGAGGTTCTTTGTGACCTCTGGATA
1 GTTTACCTAGGTTCTTCGAGACCTATGGATA
388859 GTT
1 GTT
388862 ACCGGGGTCT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
30 24 0.46
31 26 0.50
32 2 0.04
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACCTATGGATA
Found at i:388873 original size:29 final size:30
Alignment explanation
Indices: 388792--388888 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
388782 TCGAGATATA
* * * * *
388792 TGGATAGTTTACCTAGGTTCTTCGAGACCTA
1 TGGATAG-TTACCGAGGGTCTTTGTGACCTC
* * *
388823 TGGACAGTTGCCGAGGTTCTTTGTGACCTC
1 TGGATAGTTACCGAGGGTCTTTGTGACCTC
388853 TGGATAGTTACCG-GGGTCTTTGTGACCTC
1 TGGATAGTTACCGAGGGTCTTTGTGACCTC
388882 TGGATAG
1 TGGATAG
388889 GTCATTCGGG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 22 0.39
30 29 0.51
31 6 0.11
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGGTCTTTGTGACCTC
Found at i:392361 original size:24 final size:20
Alignment explanation
Indices: 392331--392386 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
392321 GCATGGGTAG
392331 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
392355 TGTATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
392375 TGCATCGATGCA
1 TGCATCGATGCA
392387 TTTCAAGGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 15 0.50
22 1 0.03
23 2 0.07
24 12 0.40
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:393705 original size:2 final size:2
Alignment explanation
Indices: 393670--393694 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
393660 GTATGCGTGG
393670 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
393695 GATGAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:394743 original size:60 final size:59
Alignment explanation
Indices: 394647--394758 Score: 152
Period size: 60 Copynumber: 1.9 Consensus size: 59
394637 TGACATGATA
* * * * *
394647 CCTTCAAGTTCCAGGGGAGGCATTCAACTGCGAGCTTCTTCGACCTCAATGTCGAGATG
1 CCTTCAAGTTCAAAGGAAGGCATTCAACTACGAGCTTCTTCGACCTAAATGTCGAGATG
* *
394706 CCTTCAAGTTCAAAAGGAAGGCATTCAACTACTAGCTTGTTCGACCTAAATGT
1 CCTTCAAGTTC-AAAGGAAGGCATTCAACTACGAGCTTCTTCGACCTAAATGT
394759 TGGCATCGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 11 0.24
60 34 0.76
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (59 bp):
CCTTCAAGTTCAAAGGAAGGCATTCAACTACGAGCTTCTTCGACCTAAATGTCGAGATG
Found at i:397715 original size:21 final size:21
Alignment explanation
Indices: 397690--397749 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
397680 CTGACCCGGA
397690 TGTGGTGCCATTTGAAATAGC
1 TGTGGTGCCATTTGAAATAGC
* * *
397711 TGTGGTTCCATTTGATATGGC
1 TGTGGTGCCATTTGAAATAGC
** *
397732 TACGGTGCCATATGAAAT
1 TGTGGTGCCATTTGAAAT
397750 GACTGTAAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTGGTGCCATTTGAAATAGC
Found at i:398558 original size:25 final size:21
Alignment explanation
Indices: 398500--398548 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
398490 AAATAAATCA
398500 TTATATACTCAATGAAATTAT
1 TTATATACTCAATGAAATTAT
398521 TTATATACTCAATGAAATTAT
1 TTATATACTCAATGAAATTAT
398542 TTATATA
1 TTATATA
398549 TGAATTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (21 bp):
TTATATACTCAATGAAATTAT
Found at i:399331 original size:18 final size:19
Alignment explanation
Indices: 399289--399335 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
399279 CTAATTTAAT
*
399289 AAATAAAATACATATTAAA
1 AAATAAAATACATAGTAAA
* *
399308 ATATAAACTA-ATAGTAAA
1 AAATAAAATACATAGTAAA
399326 AAATAAAATA
1 AAATAAAATA
399336 AATAAAGCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
AAATAAAATACATAGTAAA
Found at i:402229 original size:22 final size:22
Alignment explanation
Indices: 402204--402249 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
402194 ACTGGTTATT
*
402204 ATATATATGATTTTTATCATGA
1 ATATATATGATGTTTATCATGA
*
402226 ATATATATGATGTTTATTATGA
1 ATATATATGATGTTTATCATGA
402248 AT
1 AT
402250 GTTACTTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (22 bp):
ATATATATGATGTTTATCATGA
Found at i:402536 original size:61 final size:61
Alignment explanation
Indices: 402411--402541 Score: 174
Period size: 61 Copynumber: 2.1 Consensus size: 61
402401 AAGGACACTA
* **
402411 AGTGCAGGTGGAGGGCACAACCTTATGTGTCATATCTGCATTCACACTAGATTGTAAACCT
1 AGTGCAGGTGGAGGGCACAACCTTATGTGTCATATCCGCATTCACACTAGAGCGTAAACCT
* * * * *
402472 AGTGTAGGTGGTGGGCACAACCTTATGTGTCATATCCGGATT-AGCACTAGAGCGTAAGCTT
1 AGTGCAGGTGGAGGGCACAACCTTATGTGTCATATCCGCATTCA-CACTAGAGCGTAAACCT
402533 AGTGCAGGT
1 AGTGCAGGT
402542 TTAGCACTAC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
60 1 0.02
61 59 0.98
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (61 bp):
AGTGCAGGTGGAGGGCACAACCTTATGTGTCATATCCGCATTCACACTAGAGCGTAAACCT
Found at i:407413 original size:14 final size:14
Alignment explanation
Indices: 407394--407432 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
407384 CCATGCGTCT
*
407394 CTCCCCTACATGTA
1 CTCCCCCACATGTA
407408 CTCCCCCACATGTA
1 CTCCCCCACATGTA
407422 CTCCCCCACAT
1 CTCCCCCACAT
407433 ACGCCCGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.51, G:0.05, T:0.23
Consensus pattern (14 bp):
CTCCCCCACATGTA
Found at i:417356 original size:18 final size:18
Alignment explanation
Indices: 417333--417377 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
417323 TTGATTATTT
417333 CTTCTTCTTCATTTCTTC
1 CTTCTTCTTCATTTCTTC
* *
417351 CTTCTTCTTCCTTTCTTT
1 CTTCTTCTTCATTTCTTC
417369 CTTCCTTCT
1 CTT-CTTCT
417378 CTTGTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (18 bp):
CTTCTTCTTCATTTCTTC
Found at i:417372 original size:22 final size:21
Alignment explanation
Indices: 417331--417394 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
417321 ACTTGATTAT
417331 TTCTTCTTC-TTCATTTCTTCC
1 TTCTTCTTCTTTC-TTTCTTCC
417352 TTCTTCTTCCTTTCTTTCTTCC
1 TTCTTCTT-CTTTCTTTCTTCC
*
417374 TTC-TCTTGTTTTTCTTTCTTC
1 TTCTTC-T-TCTTTCTTTCTTC
417395 TCCCCGGTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.26
22 24 0.63
23 4 0.11
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.66
Consensus pattern (21 bp):
TTCTTCTTCTTTCTTTCTTCC
Found at i:417692 original size:41 final size:40
Alignment explanation
Indices: 417576--417694 Score: 141
Period size: 39 Copynumber: 3.0 Consensus size: 40
417566 GGGAGTGCAT
* * *
417576 GAAGGGGAGAGACGCATGGAGTGCAATACATCTTTAGGGG
1 GAAGGAGAGAGACGCATGGAGTGCAATGCATCTTTGGGGG
* * * * *
417616 GAAGGA-AGAGACGTATGAAGTACAATGCGTATTTGGGGG
1 GAAGGAGAGAGACGCATGGAGTGCAATGCATCTTTGGGGG
*
417655 GAAAGGAGAGGGACGCATGGAGTGCAATGCATCTTTGGGG
1 G-AAGGAGAGAGACGCATGGAGTGCAATGCATCTTTGGGG
417695 TGTATTGTAG
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
39 27 0.43
40 10 0.16
41 26 0.41
ACGTcount: A:0.30, C:0.11, G:0.40, T:0.18
Consensus pattern (40 bp):
GAAGGAGAGAGACGCATGGAGTGCAATGCATCTTTGGGGG
Found at i:419193 original size:26 final size:26
Alignment explanation
Indices: 419143--419193 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
419133 CACTTTAATA
* *
419143 TAAAAATTATATACATATTTTATAAC
1 TAAAAATTACATACATATTTCATAAC
419169 TAAAAATTACATAC-TATGTTCATAA
1 TAAAAATTACATACATAT-TTCATAA
419194 TAATATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (26 bp):
TAAAAATTACATACATATTTCATAAC
Found at i:421649 original size:42 final size:42
Alignment explanation
Indices: 421590--421687 Score: 178
Period size: 42 Copynumber: 2.3 Consensus size: 42
421580 AGGTCTTATG
*
421590 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACT
421632 GATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACT
*
421674 GATGGCCCGAAGGA
1 GATGACCCGAAGGA
421688 CTTATAAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (42 bp):
GATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACT
Found at i:421689 original size:20 final size:20
Alignment explanation
Indices: 421619--421691 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
421609 GCATCATGCT
*
421619 CGAAAGACTTACTGATGACC
1 CGAAAGACTTACTGATGGCC
* * * *
421639 CGAAGGATTTAAACATCAT-GCT
1 CGAAAGACTT--AC-TGATGGCC
421661 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
*
421681 CGAAGGACTTA
1 CGAAAGACTTA
421692 TAAATTGTGG
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
19 3 0.08
20 22 0.56
22 11 0.28
23 3 0.08
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (20 bp):
CGAAAGACTTACTGATGGCC
Found at i:421934 original size:214 final size:214
Alignment explanation
Indices: 421564--422228 Score: 1123
Period size: 214 Copynumber: 3.1 Consensus size: 214
421554 ATCCTGATGA
* * * * * *
421564 AAAACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTT
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATG-ATCTTGCTCTAAAGACTT
*
421629 ACTGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATA
65 ACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATA
421694 AATTGTGGGATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTT
130 AATTGTGGGATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTT
421759 TTTATTTTCAAATTCATTTG
195 TTTATTTTCAAATTCATTTG
*
421779 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATGATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATGATCTTGCTCTAAAGACTTA
421844 CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
421909 ATTGTGAGATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATTGTGGGATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
* * *
421974 TCATTTTCAAATTAATGTG
196 TTATTTTCAAATTCATTTG
* *
421993 AAAACATCCTACCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATGATCTTGCTCTAAAGACTTA
* * *
422058 CAGATGACCCGAATGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
422123 ATTGTGGGATTTTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATTGTGGGATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTT
422188 TTTCATTTTCAAATTCATTTG
195 TTT-ATTTTCAAATTCATTTG
* *
422209 AGAACATCTTACCCGAAGGT
1 AAAACATCCTACCCGAAGGT
422229 TTGGATTTGC
Statistics
Matches: 423, Mismatches: 25, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
214 343 0.81
215 47 0.11
216 33 0.08
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (214 bp):
AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATGATCTTGCTCTAAAGACTTA
CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
ATTGTGGGATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
TTATTTTCAAATTCATTTG
Found at i:423375 original size:125 final size:125
Alignment explanation
Indices: 423139--423509 Score: 420
Period size: 125 Copynumber: 3.0 Consensus size: 125
423129 TCTTCACTAG
* * * ** *
423139 TGCCCCAACATCATCTTGTACTGGCACGGATCTTCAAAATGCCCCAACACCTCAAATTGTAAGGC
1 TGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAATTTGTAAGGC
** * * * * *
423204 TCATTC-TCTATGCCTTTTTGGTTTGGATCTTGTCATCTCCATATGATGGGGGTTCAATCA
66 TCATTCTTC-ATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAATCA
* * * *
423264 TGCTCCAACATTATCTTATACGGGTACGGGCCTTCAAAATACCCCAACACCACAATTTGTAAGGC
1 TGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAATTTGTAAGGC
* * * * * * *
423329 TAATTCTTCATGCCTCCTTGGTCTGAATATTGTCATATCAACATGATCTGGGCTCAGTCG
66 TCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAATCA
* * * * * * *
423389 TGCCCCGACGTTATCTCATACTGGTATGGGCCTTCAAAATGCCTCATCACCTCAATTTTTAAGGC
1 TGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAATTTGTAAGGC
* * *
423454 TCATTGTTCATGCCTCCTTGATCTGAATCTCGTCATCTCAACATGATGTGGGTTCA
66 TCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCA
423510 GTCGTGTCCC
Statistics
Matches: 202, Mismatches: 43, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
125 200 0.99
126 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (125 bp):
TGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAATTTGTAAGGC
TCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAATCA
Found at i:426209 original size:15 final size:15
Alignment explanation
Indices: 426176--426212 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
426166 ATATTTAGCT
*
426176 GGGCGGGCGGATGTA
1 GGGCGGGCGGATGCA
*
426191 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCA
426206 GGGCGGG
1 GGGCGGG
426213 TAATGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.16, G:0.68, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATGCA
Found at i:430138 original size:26 final size:26
Alignment explanation
Indices: 430088--430138 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
430078 CACTTTAATA
* *
430088 TAAAAATTATATACATATTTTATAAC
1 TAAAAATTACATACATATTTCATAAC
430114 TAAAAATTACATAC-TATGTTCATAA
1 TAAAAATTACATACATAT-TTCATAA
430139 TAATATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (26 bp):
TAAAAATTACATACATATTTCATAAC
Found at i:442416 original size:41 final size:41
Alignment explanation
Indices: 442323--442435 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 41
442313 ACCGCCAGAG
* * *
442323 AATCTTACTTTAGTGGCTTTTCTAAACAAATGTCATATGAA
1 AATCTTACTTTAGTGGCATTTCTAAACAAACGTCAAATGAA
* *
442364 AATCTTACTTTAGTGGCGTTTCTAAACAAACGTCGAAAT-AT
1 AATCTTACTTTAGTGGCATTTCTAAACAAACGTC-AAATGAA
* *
442405 AATAGTT-CTTTAGTGG-ATTTTTAAACAAACG
1 AAT-CTTACTTTAGTGGCATTTCTAAACAAACG
442436 CCGCAATAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 13 0.21
41 45 0.71
42 5 0.08
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (41 bp):
AATCTTACTTTAGTGGCATTTCTAAACAAACGTCAAATGAA
Found at i:447144 original size:133 final size:133
Alignment explanation
Indices: 446821--447212 Score: 517
Period size: 133 Copynumber: 3.0 Consensus size: 133
446811 ACAATATTGA
* * * *
446821 TGATGCTGATCCAACTCCGTT-TGCGATGGA--TGAGCCAAATAAAAATGTCGATCCACATCATT
1 TGATGATGATCCAACTCC-TTATGCGATGGATTTGAGCGAAATAAAAATGTCGATCCACCTCCTT
* * * *
446883 CTGTGATGAAATCAAACT-AGATGTCGGTGCTGATCTACCTCCTTATATGATAGAAT-AGAGC-A
65 CTGTGATGGAATCGAA-TGAGATGTCGGTGCTGATCTACCTCATTATGTGATAGAATCA-AGCAA
446945 AAAAAT
128 AAAAAT
* * * *
446951 TGTTGTTGATCCAACTCTTTATGCGATGGATTTAAGCGAAATAAAAATGTCGATCCACCTCCTTC
1 TGATGATGATCCAACTCCTTATGCGATGGATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTC
* * *
447016 TGTGATGGAATCGAATGAGATGTTGGTGTTGATATACCTCATTATGTGATAGAATCAAGCAAAAA
66 TGTGATGGAATCGAATGAGATGTCGGTGCTGATCTACCTCATTATGTGATAGAATCAAGCAAAAA
447081 AAT
131 AAT
* * **
447084 TGATGATGATCCAACTCCTTATGCGATGGATTTGAGCGAAATTAAAACGTCGATATACCTCCTTC
1 TGATGATGATCCAACTCCTTATGCGATGGATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTC
* * *
447149 TGTGATGGAATCGAACGAGATGTCGGTGCTGATCTACCTCATTATGGGATAGAATCGAGCAAAA
66 TGTGATGGAATCGAATGAGATGTCGGTGCTGATCTACCTCATTATGTGATAGAATCAAGCAAAA
447213 TGTTTAACAA
Statistics
Matches: 228, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
129 2 0.01
130 24 0.11
131 1 0.00
132 78 0.34
133 123 0.54
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (133 bp):
TGATGATGATCCAACTCCTTATGCGATGGATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTC
TGTGATGGAATCGAATGAGATGTCGGTGCTGATCTACCTCATTATGTGATAGAATCAAGCAAAAA
AAT
Found at i:447721 original size:36 final size:37
Alignment explanation
Indices: 447681--447779 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 37
447671 TGGAAAATTG
447681 TCTCAAGCGAGACGAAGTTGGTTTTAAGA-AAAACCA
1 TCTCAAGCGAGACGAAGTTGGTTTTAAGAGAAAACCA
** * * * * * **
447717 TCTCAAATGAGATGCATTTTGTTTCAAGAGAAAACTG
1 TCTCAAGCGAGACGAAGTTGGTTTTAAGAGAAAACCA
* *
447754 CCTCAAGCAAGACGAAGTTGGTTTTA
1 TCTCAAGCGAGACGAAGTTGGTTTTA
447780 TTATAAGGGA
Statistics
Matches: 44, Mismatches: 18, Indels: 1
0.70 0.29 0.02
Matches are distributed among these distances:
36 22 0.50
37 22 0.50
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (37 bp):
TCTCAAGCGAGACGAAGTTGGTTTTAAGAGAAAACCA
Found at i:447883 original size:36 final size:36
Alignment explanation
Indices: 447831--448332 Score: 164
Period size: 36 Copynumber: 14.9 Consensus size: 36
447821 ACTGTCATAT
*
447831 GAGAGAAAATTCGTTTCAATG-GAAACAATCTCAAGA
1 GAGACAAAATTCGTTTCAA-GAGAAACAATCTCAAGA
*
447867 GAGACAAAATTTGTTTCAAGAGAAACAATCTC-A-A
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
*** ***
447901 -AG--TTTA-T-GTTTCAAGAGAAACTGCCTCAAGA
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
* * **
447932 -ATGACAAAATTCGTTTAAAGGGAAACGGTCTCAAGA
1 GA-GACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
* * *
447968 GAGACAAAATTTGTTTCAAAAGAAACAATATC-A-A
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
*** ** *
448002 -AG--TTTA-T-GTTTCAAGAGAAACTGTCTCAAGG
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
* * *
448033 GAGACAAAATTCGTTTCAAGGGAAACATTTTC-A-A
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
*** * **
448067 -AG--TTTA-T-GTTTTAAGAGAAACTGTCTCAAGA
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
** * **
448098 GAGACAAAATTATTTTCAAGGGAAACTGTCTCAAGA
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
* * **
448134 GAGAGAAATTTTTTTTCAAGAGAAACAATCTC-A-A
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
*** **
448168 -AG--TTTA-T-GTTTCAAGAGAAACTGTCTCAAG-
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
* *** *
448198 GTAGACAAAATTCGTTTCAAGGGAAATGTTTTC-A-A
1 G-AGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
*** * * *
448233 -AG--TTTA-T-GTTTCAAGAAAAACTATCTTAAGA
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
* * *
448264 GAGACAAAATTCGTTTCAAGGGAAACAGTCTCTAGA
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
* *
448300 GAGATAAATTTC-TTTCAAGAGAAACAATCTCAA
1 GAGACAAAATTCGTTTCAAGAGAAACAATCTCAA
448333 AGTTTATCAA
Statistics
Matches: 330, Mismatches: 97, Indels: 79
0.65 0.19 0.16
Matches are distributed among these distances:
29 78 0.24
30 10 0.03
31 8 0.02
32 9 0.03
33 10 0.03
34 8 0.02
35 29 0.09
36 177 0.54
37 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (36 bp):
GAGACAAAATTCGTTTCAAGAGAAACAATCTCAAGA
Found at i:447956 original size:101 final size:99
Alignment explanation
Indices: 447788--448059 Score: 384
Period size: 101 Copynumber: 2.7 Consensus size: 99
447778 TATTATAAGG
* * * * *
447788 GAAACGATCTCAAAGATTTGTGTTTCAAGAGAAACTG-TCATATGAGAGAAAATTCGTTTCAATG
1 GAAACAATCTCAAAG-TTTATGTTTCAAGAGAAACTGCTCA-AGGAGACAAAATTCGTTTCAAGG
*
447852 GAAACAATCTCAAGAGAGACAAAATTTGTTTCAAGA
64 GAAACAATCTCAAGAGAGACAAAATTTGTTTCAAAA
* *
447888 GAAACAATCTCAAAGTTTATGTTTCAAGAGAAACTGCCTCAAGAATGACAAAATTCGTTTAAAGG
1 GAAACAATCTCAAAGTTTATGTTTCAAGAGAAACTG-CTCAAGGA-GACAAAATTCGTTTCAAGG
**
447953 GAAACGGTCTCAAGAGAGACAAAATTTGTTTCAAAA
64 GAAACAATCTCAAGAGAGACAAAATTTGTTTCAAAA
*
447989 GAAACAATATCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACAATCTCAAAGTTTATGTTTCAAGAGAAACTG-CTCAA-GGAGACAAAATTCGTTTCAAGG
448054 GAAACA
64 GAAACA
448060 TTTTCAAAGT
Statistics
Matches: 153, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
99 20 0.13
100 16 0.10
101 115 0.75
102 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (99 bp):
GAAACAATCTCAAAGTTTATGTTTCAAGAGAAACTGCTCAAGGAGACAAAATTCGTTTCAAGGGA
AACAATCTCAAGAGAGACAAAATTTGTTTCAAAA
Found at i:448040 original size:166 final size:165
Alignment explanation
Indices: 447859--448339 Score: 703
Period size: 166 Copynumber: 2.9 Consensus size: 165
447849 ATGGAAACAA
* * * * *
447859 TCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGTTTATGTTTCAAGAGAAACTG
1 TCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTG
* * * * *
447924 CCTCAAGA-ATGACAAAATTCGTTTAAAGGGAAACGGTCTCAAGAGAGACAAAATTTGTTTCAAA
66 TCTCAAGAGA-GACAAAATTCGTTTCAAGGGAAACAGTCTCAAGAGAGA-AAAATTTCTTTCAAG
*
447988 AGAAACAATATCAAAGTTTATGTTTCAAGAGAAACTG
129 AGAAACAATCTCAAAGTTTATGTTTCAAGAGAAACTG
*
448025 TCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACATTTTCAAAGTTTATGTTTTAAGAGAAACTG
1 TCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTG
** * * *
448090 TCTCAAGAGAGACAAAATTATTTTCAAGGGAAACTGTCTCAAGAGAGAGAAATTTTTTTTCAAGA
66 TCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAGTCTCAAGAGAGA-AAAATTTCTTTCAAGA
448155 GAAACAATCTCAAAGTTTATGTTTCAAGAGAAACTG
130 GAAACAATCTCAAAGTTTATGTTTCAAGAGAAACTG
* ** * *
448191 TCTCAAGGTAGACAAAATTCGTTTCAAGGGAAATGTTTTCAAAGTTTATGTTTCAAGAAAAACTA
1 TCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTG
* * *
448256 TCTTAAGAGAGACAAAATTCGTTTCAAGGGAAACAGTCTCTAGAGAGATAAATTTCTTTCAAGAG
66 TCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAGTCTCAAGAGAGAAAAATTTCTTTCAAGAG
448321 AAACAATCTCAAAGTTTAT
131 AAACAATCTCAAAGTTTAT
448340 CAATTTTGTT
Statistics
Matches: 284, Mismatches: 30, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
165 33 0.12
166 250 0.88
167 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (165 bp):
TCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTG
TCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAGTCTCAAGAGAGAAAAATTTCTTTCAAGAG
AAACAATCTCAAAGTTTATGTTTCAAGAGAAACTG
Found at i:448058 original size:65 final size:65
Alignment explanation
Indices: 447944--448123 Score: 252
Period size: 65 Copynumber: 2.8 Consensus size: 65
447934 GACAAAATTC
* * * **
447944 GTTTAAAGGGAAACGGTCTCAAGAGAGACAAAATTTGTTTCAAAAGAAACAATATCAAAGTTTAT
1 GTTTAAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTTCAAGGGAAACAATATCAAAGTTTAT
* * * * *
448009 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACATTTTCAAAGTTTAT
1 GTTTAAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTTCAAGGGAAACAATATCAAAGTTTAT
* *
448074 GTTTTAAGAGAAACTGTCTCAAGAGAGACAAAATTATTTTCAAGGGAAAC
1 GTTTAAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTTCAAGGGAAAC
448124 TGTCTCAAGA
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 102 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.27
Consensus pattern (65 bp):
GTTTAAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTTCAAGGGAAACAATATCAAAGTTTAT
Found at i:448115 original size:101 final size:101
Alignment explanation
Indices: 448005--448223 Score: 305
Period size: 101 Copynumber: 2.2 Consensus size: 101
447995 ATATCAAAGT
* * * * *
448005 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACATTTTCAAAGT
1 TTAT-TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAACAATCTCAAAGT
*
448070 TTATGTTTTAAGAGAAACTGTCTCAAGAG-AGACAAAA
65 TTATGTTTCAAGAGAAACTGTCTCAAG-GTAGACAAAA
* * **
448107 TTATTTTCAAGGGAAACTGTCTCAAGAGAGAGAAATTTTTTTTCAAGAGAAACAATCTCAAAGTT
1 TTATTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAACAATCTCAAAGTT
448172 TATGTTTCAAGAGAAACTGTCTCAAGGTAGACAAAA
66 TATGTTTCAAGAGAAACTGTCTCAAGGTAGACAAAA
**
448208 TTCGTTTCAAGGGAAA
1 TTATTTTCAAGGGAAA
448224 TGTTTTCAAA
Statistics
Matches: 104, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 1 0.01
101 99 0.95
102 4 0.04
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (101 bp):
TTATTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAACAATCTCAAAGTT
TATGTTTCAAGAGAAACTGTCTCAAGGTAGACAAAA
Found at i:448216 original size:65 final size:65
Alignment explanation
Indices: 448107--448295 Score: 229
Period size: 65 Copynumber: 2.9 Consensus size: 65
448097 AGAGACAAAA
* * * ** *
448107 TTAT-TTTCAAGGGAAACTGTCTCAAGAGAGAGAAATTTTTTTTCAAGAGAAACAATCTCAAAGT
1 TTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGT
*** *
448171 TTATGTTTCAAGAGAAACTGTCTCAAG-GTAGACAAAATTCGTTTCAAGGGAAATGTTTTCAAAG
1 TTATGTTTCAAGAGAAACTGTCTCAAGAG-AGACAAAATTCGTTTCAAGGGAAACAATCTCAAAG
448235 T
65 T
* * * *
448236 TTATGTTTCAAGAAAAACTATCTTAAGAGAGACAAAATTCGTTTCAAGGGAAACAGTCTC
1 TTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTC
448296 TAGAGAGATA
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
64 5 0.05
65 99 0.94
66 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (65 bp):
TTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGT
Found at i:453449 original size:21 final size:21
Alignment explanation
Indices: 453435--453508 Score: 130
Period size: 21 Copynumber: 3.5 Consensus size: 21
453425 TCAATGAGCT
*
453435 TTACTTTAAAGTCAAGGCGCC
1 TTACTTCAAAGTCAAGGCGCC
453456 TTACTTCAAAGTCAAGGCGCC
1 TTACTTCAAAGTCAAGGCGCC
*
453477 TTACTTCAAAGTCAAGGCACC
1 TTACTTCAAAGTCAAGGCGCC
453498 TTACTTCAAAG
1 TTACTTCAAAG
453509 CCATAGCTCG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (21 bp):
TTACTTCAAAGTCAAGGCGCC
Found at i:453464 original size:47 final size:43
Alignment explanation
Indices: 453425--453507 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 43
453415 CAATTAAGAA
* * * *
453425 TCAATGAGCTTTACTTTAAAGTCAAGGCGCCTTACTTC-AAAG
1 TCAAGGAGCCTTACTTCAAAGTCAAGGCACCTTACTTCAAAAG
*
453467 TCAAGGCGCCTTACTTCAAAGTCAAGGCACCTTACTTCAAA
1 TCAAGGAGCCTTACTTCAAAGTCAAGGCACCTTACTTCAAA
453508 GCCATAGCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
TCAAGGAGCCTTACTTCAAAGTCAAGGCACCTTACTTCAAAAG
Found at i:463341 original size:21 final size:21
Alignment explanation
Indices: 463315--463376 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
463305 TTCATAACCC
463315 TTTTTTATTTTATTTTTAATT
1 TTTTTTATTTTATTTTTAATT
*
463336 TTTTTTACTTTT-TCTTTAATT
1 TTTTTTA-TTTTATTTTTAATT
*
463357 TGTTTCATTTTTTTATTTTT
1 T-TTT--TTATTTTATTTTT
463377 TCCCTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 16 0.48
22 7 0.21
23 4 0.12
24 6 0.18
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTTATTTTATTTTTAATT
Found at i:466229 original size:6 final size:6
Alignment explanation
Indices: 466214--466250 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
466204 GAACAAGAAG
* *
466214 ATATAT ATATAC ATATAC ATATAC ATATAC AAATAC A
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC A
466251 GGAGAATCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAC
Found at i:468233 original size:2 final size:2
Alignment explanation
Indices: 468217--468253 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
468207 ATTTTAGTGC
*
468217 AT AT -T AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
468254 TCGATTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:480981 original size:90 final size:91
Alignment explanation
Indices: 480826--481005 Score: 290
Period size: 90 Copynumber: 2.0 Consensus size: 91
480816 CCTAACACAC
* * *
480826 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTTTATTATTTCAAATTAATTAAATCT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGG-TATTTTATTATTTCAAATTAATTAAATCT
* *
480891 ATATTTAATTAATTGGAATTTAATAAT
65 ATATTTAATTAATTGAAATTAAATAAT
*
480918 CCTTTTATATCCAAGTTACCCTAATCATATCAGGG-ATTTTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGTATTTTATTATTTCAAATTAATTAAATCTA
480982 TATTTAATTAATTGAAATTAAATA
66 TATTTAATTAATTGAAATTAAATA
481006 TTCGGGATTA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
90 50 0.61
92 32 0.39
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (91 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGTATTTTATTATTTCAAATTAATTAAATCTA
TATTTAATTAATTGAAATTAAATAAT
Found at i:489508 original size:14 final size:14
Alignment explanation
Indices: 489444--489508 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
489434 CCCAATTAAT
489444 TTTATGTTCGTTTG
1 TTTATGTTCGTTTG
* *
489458 TTTACGTTCGTTCG
1 TTTATGTTCGTTTG
*
489472 TTTGTGTTC-TTT-
1 TTTATGTTCGTTTG
*
489484 TATAT-TT-GTTTG
1 TTTATGTTCGTTTG
*
489496 TTTTTGTTCGTTT
1 TTTATGTTCGTTT
489509 ATCATTTTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
11 5 0.13
12 6 0.16
13 4 0.11
14 23 0.61
ACGTcount: A:0.06, C:0.09, G:0.18, T:0.66
Consensus pattern (14 bp):
TTTATGTTCGTTTG
Found at i:490718 original size:31 final size:31
Alignment explanation
Indices: 490642--490707 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
490632 AGTTAAGCCG
* *
490642 GGGACCATATTGCAAACGGACTAAATGTTGA
1 GGGACCATATTACAAACGAACTAAATGTTGA
*
490673 GGGACCATATTACAAACGAACTAAATGTTGG
1 GGGACCATATTACAAACGAACTAAATGTTGA
490704 GGGA
1 GGGA
490708 TTGTATTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (31 bp):
GGGACCATATTACAAACGAACTAAATGTTGA
Found at i:495248 original size:48 final size:47
Alignment explanation
Indices: 495099--495255 Score: 154
Period size: 48 Copynumber: 3.3 Consensus size: 47
495089 GCATAGCCTG
* ** **
495099 GCCATAAATGTTGGCACTGAAATTGAAGAACAAAACACGCATGGATC
1 GCCATAAATGATGGTGCTGAAATTGAAGAACAAAACGTGCATGGATC
* * * * *
495146 GGCCATAAATGATGGTGCAGGAATTGAAGAACAACATGTGCAT-AAGTC
1 -GCCATAAATGATGGTGCTGAAATTGAAGAACAAAACGTGCATGGA-TC
* * *
495194 GACCATAAATGATGGTGCTGAAATTAAAGAACAATACGTGCGTGGATC
1 G-CCATAAATGATGGTGCTGAAATTGAAGAACAAAACGTGCATGGATC
495242 AGCCATAAATGATG
1 -GCCATAAATGATG
495256 ATACGAAAAT
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
47 2 0.02
48 84 0.95
49 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (47 bp):
GCCATAAATGATGGTGCTGAAATTGAAGAACAAAACGTGCATGGATC
Found at i:499724 original size:24 final size:23
Alignment explanation
Indices: 499695--499778 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 23
499685 ATAAATGTAT
499695 ACATTTTAAAATATAGTTAATATA
1 ACATTTTAAAATATA-TTAATATA
* * *
499719 AGA-TTTAAAATAATAATAAATTTA
1 ACATTTTAAAAT-AT-ATTAATATA
*
499743 ATATTTATAAAA-AT-TTAATATA
1 ACATTT-TAAAATATATTAATATA
499765 TACATTTTAAAATA
1 -ACATTTTAAAATA
499779 ATAATAAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
22 11 0.23
23 14 0.30
24 14 0.30
25 3 0.06
26 5 0.11
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ACATTTTAAAATATATTAATATA
Found at i:499741 original size:17 final size:17
Alignment explanation
Indices: 499712--499793 Score: 68
Period size: 17 Copynumber: 5.0 Consensus size: 17
499702 AAAATATAGT
499712 TAAT-ATAAGATTTAAAA
1 TAATAATAA-ATTTAAAA
*
499729 TAATAATAAATTTAATAT
1 TAATAATAAATTTAA-AA
*
499747 TTATAA-AAATTT--AA
1 TAATAATAAATTTAAAA
*
499761 T-AT-ATACATTTTAAAA
1 TAATAATA-AATTTAAAA
499777 TAATAATAAATTTAAAA
1 TAATAATAAATTTAAAA
499794 CAAATTTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
12 1 0.02
13 3 0.06
14 6 0.12
16 3 0.06
17 26 0.50
18 13 0.25
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (17 bp):
TAATAATAAATTTAAAA
Found at i:501273 original size:21 final size:21
Alignment explanation
Indices: 501228--501302 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
501218 CAACGTTAAC
* **
501228 TCCAATTTCGCAACAC-AGGT
1 TCCAAATTCGCAACACAATTT
* *
501248 TCCAAAATCGCAACACGATTT
1 TCCAAATTCGCAACACAATTT
* *
501269 TCCAAATTCACAACGCAATTT
1 TCCAAATTCGCAACACAATTT
501290 TCCAAATTCGCAA
1 TCCAAATTCGCAA
501303 TGCGAATATG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 14 0.31
21 31 0.69
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.25
Consensus pattern (21 bp):
TCCAAATTCGCAACACAATTT
Found at i:501322 original size:20 final size:20
Alignment explanation
Indices: 501297--501404 Score: 99
Period size: 20 Copynumber: 5.3 Consensus size: 20
501287 TTTTCCAAAT
*
501297 TCGCAATGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
** *
501317 TCGCAACGATAATACGTAAA
1 TCGCAACGCGAATATGTAAA
* * * *
501337 TCGCAACACGATTTTCTAAAA
1 TCGCAACGCGAATATGT-AAA
*
501358 TCACAACGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
* * *
501378 TCGTAACACGAATTTGTAAA
1 TCGCAACGCGAATATGTAAA
501398 TCGCAAC
1 TCGCAAC
501405 ACAGAAGTCA
Statistics
Matches: 66, Mismatches: 21, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
20 51 0.77
21 15 0.23
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:501359 original size:41 final size:40
Alignment explanation
Indices: 501313--501404 Score: 112
Period size: 41 Copynumber: 2.3 Consensus size: 40
501303 TGCGAATATG
* *
501313 TAAATCGCAACGATAATACGTAAATCGCAACACGATTTTC
1 TAAATCGCAACGAGAATACGTAAATCGCAACACGAATTTC
* * * * *
501353 TAAAATCACAACGCGAATATGTAAATCGTAACACGAATTTG
1 T-AAATCGCAACGAGAATACGTAAATCGCAACACGAATTTC
501394 TAAATCGCAAC
1 TAAATCGCAAC
501405 ACAGAAGTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 10 0.23
41 33 0.77
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (40 bp):
TAAATCGCAACGAGAATACGTAAATCGCAACACGAATTTC
Found at i:501369 original size:61 final size:61
Alignment explanation
Indices: 501286--501406 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 61
501276 TCACAACGCA
* * * *
501286 ATTTTCCAAATTCGCAATGCGAATATGTAAATCGCAACGA-TAATACGTAAATCGCAACACG
1 ATTTTCCAAAATCACAACGCGAATATGTAAATCGCAAC-ACGAATACGTAAATCGCAACACG
* * **
501347 ATTTTCTAAAATCACAACGCGAATATGTAAATCGTAACACGAATTTGTAAATCGCAACAC
1 ATTTTCCAAAATCACAACGCGAATATGTAAATCGCAACACGAATACGTAAATCGCAACAC
501407 AGAAGTCAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 1 0.02
61 50 0.98
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (61 bp):
ATTTTCCAAAATCACAACGCGAATATGTAAATCGCAACACGAATACGTAAATCGCAACACG
Found at i:501421 original size:20 final size:20
Alignment explanation
Indices: 501398--501443 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
501388 AATTTGTAAA
*
501398 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTAAAAT
501418 TCGCAACACAGAAGTAAAAT
1 TCGCAACACAGAAGTAAAAT
501438 TCGCAA
1 TCGCAA
501444 AGCGCGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.24, G:0.15, T:0.15
Consensus pattern (20 bp):
TCGCAACACAGAAGTAAAAT
Found at i:501921 original size:11 final size:11
Alignment explanation
Indices: 501902--501932 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
501892 GAAGTTAGTA
*
501902 TTTGCCTTTGT
1 TTTGTCTTTGT
501913 TTTGTCTTTGT
1 TTTGTCTTTGT
501924 TTTGTCTTT
1 TTTGTCTTT
501933 TGGTTGAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.16, T:0.71
Consensus pattern (11 bp):
TTTGTCTTTGT
Found at i:502046 original size:19 final size:20
Alignment explanation
Indices: 502024--502076 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
502014 AAATCGCAAC
*
502024 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTAAGTTTCGCATT
*
502043 GCGATTTTCA-TTTCGCATT
1 GCGATTTTAAGTTTCGCATT
502062 GCGATTTTAAGTTTC
1 GCGATTTTAAGTTTC
502077 AGAAACTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 25 0.83
20 5 0.17
ACGTcount: A:0.15, C:0.17, G:0.21, T:0.47
Consensus pattern (20 bp):
GCGATTTTAAGTTTCGCATT
Found at i:502777 original size:42 final size:42
Alignment explanation
Indices: 502718--502814 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
502708 CTCCACTTTG
* * * * *
502718 AGAGCCATCACCTGATCGAGCCGATTCTATAGCTCGACACCC
1 AGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAACC
*
502760 AGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAACG
1 AGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAACC
502802 AGAGCCATCACCT
1 AGAGCCATCACCT
502815 ATTCCATCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.18
Consensus pattern (42 bp):
AGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAACC
Found at i:503440 original size:21 final size:21
Alignment explanation
Indices: 503409--503502 Score: 143
Period size: 21 Copynumber: 4.5 Consensus size: 21
503399 GGCCCCCTAT
*
503409 CGTTTAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
*
503430 CATTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
* *
503451 CGTTCAAGAGGCCCCTCTCAT
1 CGTTCAAGAGGCCCCTCCCAC
*
503472 CGTTCAAGAGGCCCCTCCCAG
1 CGTTCAAGAGGCCCCTCCCAC
503493 CGTTCAAGAG
1 CGTTCAAGAG
503503 CTCGATTCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.21, C:0.40, G:0.20, T:0.18
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:504942 original size:22 final size:23
Alignment explanation
Indices: 504917--504959 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
504907 ATTGATTTGT
504917 AAAA-CTTGATTTGTTGTTTAAG
1 AAAATCTTGATTTGTTGTTTAAG
*
504939 AAAATTTTGATTTGTTGTTTA
1 AAAATCTTGATTTGTTGTTTA
504960 CGAATTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.51
Consensus pattern (23 bp):
AAAATCTTGATTTGTTGTTTAAG
Found at i:504983 original size:20 final size:20
Alignment explanation
Indices: 504960--505015 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
504950 TTGTTGTTTA
504960 CGAATTTGACTTTCGCGTTG
1 CGAATTTGACTTTCGCGTTG
*
504980 CGAATTTGACTTTCACGTTG
1 CGAATTTGACTTTCGCGTTG
*
505000 CGAATTTGTCTTTCGC
1 CGAATTTGACTTTCGC
505016 AACGCGAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.41
Consensus pattern (20 bp):
CGAATTTGACTTTCGCGTTG
Found at i:505151 original size:20 final size:20
Alignment explanation
Indices: 505062--505138 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
505052 GTATACTTTT
*
505062 GCAACGGGAAAGTCAAAATC
1 GCAACGCGAAAGTCAAAATC
* *
505082 ACAACGCGAAAATCAAAATC
1 GCAACGCGAAAGTCAAAATC
505102 GCAACGCGAAAGTCAAAATC
1 GCAACGCGAAAGTCAAAATC
505122 GCAACGCGAAAGTCAAA
1 GCAACGCGAAAGTCAAA
505139 TTCTCATTGC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.09
Consensus pattern (20 bp):
GCAACGCGAAAGTCAAAATC
Found at i:505365 original size:20 final size:19
Alignment explanation
Indices: 505340--505382 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
505330 AGGTACACTT
505340 TCGCAACACGAAAGTCAAAA
1 TCGCAACACGAAAGTC-AAA
**
505360 TCGCAATGCGAAAGTCAAA
1 TCGCAACACGAAAGTCAAA
505379 TCGC
1 TCGC
505383 GTTGCGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.42, C:0.26, G:0.19, T:0.14
Consensus pattern (19 bp):
TCGCAACACGAAAGTCAAA
Found at i:508060 original size:12 final size:12
Alignment explanation
Indices: 508039--508072 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
508029 GGTTGTGGGT
*
508039 TTTGAGATTGTG
1 TTTGATATTGTG
508051 TTTGATATTGTG
1 TTTGATATTGTG
*
508063 TTTGGTATTG
1 TTTGATATTG
508073 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:508884 original size:20 final size:20
Alignment explanation
Indices: 508840--508948 Score: 93
Period size: 20 Copynumber: 5.5 Consensus size: 20
508830 TAAAACATTT
* *
508840 GTGTTGCGAAAATAAAAGT-
1 GTGTTGCGAAATTAAAATTC
508859 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAATTC
508878 GTGTTGCG-AATTCGAAAA-TC
1 GTGTTGCGAAATT--AAAATTC
* *
508898 GAGTTGCGAAATCAAAATTC
1 GTGTTGCGAAATTAAAATTC
* *
508918 GTGTTGCG-ATTTAGAAAATC
1 GTGTTGCGAAATTA-AAATTC
*
508938 TTGTTGCGAAA
1 GTGTTGCGAAA
508949 AGGAAACTTG
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
18 16 0.22
19 11 0.15
20 37 0.51
21 8 0.11
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (20 bp):
GTGTTGCGAAATTAAAATTC
Found at i:508904 original size:40 final size:40
Alignment explanation
Indices: 508860--508948 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
508850 AATAAAAGTT
* *
508860 GTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGA
1 GTTGCGAAATCAAAATTCGTGTTGCGAATTAGAAAATCGA
* **
508900 GTTGCGAAATCAAAATTCGTGTTGCGATTTAGAAAATCTT
1 GTTGCGAAATCAAAATTCGTGTTGCGAATTAGAAAATCGA
508940 GTTGCGAAA
1 GTTGCGAAA
508949 AGGAAACTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (40 bp):
GTTGCGAAATCAAAATTCGTGTTGCGAATTAGAAAATCGA
Found at i:509027 original size:20 final size:21
Alignment explanation
Indices: 508972--509013 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
508962 TATTAAAAAT
*
508972 AAATTT-GCGTTGCGAATTTG
1 AAATTTCGTGTTGCGAATTTG
508992 AAATTTCGTGTTGCGAATTTG
1 AAATTTCGTGTTGCGAATTTG
509013 A
1 A
509014 CTTCTGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (21 bp):
AAATTTCGTGTTGCGAATTTG
Found at i:509045 original size:20 final size:20
Alignment explanation
Indices: 509021--509104 Score: 132
Period size: 20 Copynumber: 4.2 Consensus size: 20
509011 TGACTTCTGT
509021 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
* *
509041 TTTGCGATGTACATATTCGC
1 GTTGCGATTTACATATTCGC
**
509061 GTTGCGATTTACATATTATC
1 GTTGCGATTTACATATTCGC
509081 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
509101 GTTG
1 GTTG
509105 TGAATTTGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:511483 original size:20 final size:20
Alignment explanation
Indices: 511467--511505 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
511457 AGCTAAATTA
511467 AAAAGAAAAAAAATAAAAAT
1 AAAAGAAAAAAAATAAAAAT
*
511487 AAAAGAAAAGAAATAAAAA
1 AAAAGAAAAAAAATAAAAA
511506 AATTAAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (20 bp):
AAAAGAAAAAAAATAAAAAT
Found at i:518380 original size:20 final size:20
Alignment explanation
Indices: 518341--518381 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
518331 CATTGCATAA
*
518341 ATTTATGGCCTCGACGAAAG
1 ATTTATGGCCTCCACGAAAG
518361 ATTTCATGGCCTCCAC-AAAG
1 ATTT-ATGGCCTCCACGAAAG
518381 A
1 A
518382 CCTTGATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (20 bp):
ATTTATGGCCTCCACGAAAG
Found at i:523477 original size:611 final size:604
Alignment explanation
Indices: 522120--523338 Score: 1879
Period size: 609 Copynumber: 2.0 Consensus size: 604
522110 CCGGGAAATT
* * * * *
522120 AAACAAATCCTTGAAAAAGTGGTCAACCCAAGTCAAAAGGACTGGTCGCTGAAGCTAGATGAAGC
1 AAACAAAT-CTTG-AAAAGTGGT-AACACAAATAAAAAGGACTGGTCGCTGAA-CTAAATGAAGA
* * * * **
522185 ACTATAGGCTTATCGCACAGCATTCAAGACACCGTTGGGAATGTCACCATTCAAACTGGTCTATG
62 ACTATAGGCTTATCGCACAACATACAAGACACCGTTGAGAATGGCA-CATTCAAACCAGTCTATG
* *
522250 GAAAAGAATGTCATCTACCTGTCGAACTTGAACATAAAGCCTATTGGGTCATCAAAAAGTTAAAT
126 GAAAAGAATGTCATCTACCTGTCGAACTTGAACATAAAGCCTATTGGGCCATCAAAAAGTTAAAC
522315 GTGGATGCTCAGCTTGATGGAGAAAGAAGGCTCTTGGAACTGAAATAGATGGATGAATTCAGGCA
191 GTGGATGCTCAGCTTGATGGAGAAAGAAGGCTCTTGGAACTGAAATAGATGGATGAATTCAGGCA
*
522380 CACGCATACGAGAATGCCCGCCTATACAAAGAAAAAACAAAATGATGGCATGACAGAAAAATATT
256 CACGCATACGAGAATGCCCGCCTATACAAAGAAAAAACAAAACGATGGCATGACAGAAAAATATT
* ** *
522445 GCCAAGGTAATTTTATATTGGATAACAAGTACTGCTCTATAATTCATGTCTTAAATTATTCCCAT
321 GCCAAGGTAATTTTATATTGGATAACAAGTACAGCTCTATAATTCACATCTTAAATTATGCCCAT
* *
522510 ACAAGTTAAAATCACGATGGTTAGGCCATTCATCGTACACCAAGTCTATGACAATGGAGCAATTG
386 ACAAGTTAAAATCACAATGGTTAGGCCATTCATCGTACACCAAGTCCATGACAATGGAGCAATTG
* *
522575 AAATCCAGAACCAAAATGATGGTTCAATCTTCAAGGTGAACGGCCAGAGACTCAATGAGTACAAA
451 AAATCCAGAACCAAAACGATGGTTCAATCTTCAAGGTGAACGGCCAGAGACTCAAGGAGTACAAA
* * *
522640 GGAACCCCAGTTATGCGCGACAAACCGGCATCGTTGGCACATGATGCCCAAGAGTTTGCTTTATT
516 GGAACCCCAGTCATGCGCGACAAACCGACATCATTGGCACATGATGCCCAAGAGTTTGCTTTATT
* * *
522705 TACTTGAACAAAATTTGTTGCCTT
581 TACTTGAACAAAATTCGTTACCTG
* * * * *
522729 AAACAGATCCTTGAAAAAGTGGTCAACCCAAGTCAAAAGGACTGGTCGCTGAAGCTAAATGAAGC
1 AAACAAAT-CTTG-AAAAGTGGT-AACACAAATAAAAAGGACTGGTCGCTGAA-CTAAATGAAGA
* * * *
522794 ACTATAGGCTTATCGCACAATATTCAAGACACCGTTGGGAATGTCACCATTCAAACCAGTCTATG
62 ACTATAGGCTTATCGCACAACATACAAGACACCGTTGAGAATGGCA-CATTCAAACCAGTCTATG
522859 GAAAAGAATGTCATCTACCTGTCGAACTTGAACATAAAGCCTATTGGGCCATCAAAAAGTTAAAC
126 GAAAAGAATGTCATCTACCTGTCGAACTTGAACATAAAGCCTATTGGGCCATCAAAAAGTTAAAC
*
522924 GTGGATGCTCAGCTTGATGGAGAAAGAAGGCTCTTGGAACTG-AATGAGATTGATGAATTCAGAG
191 GTGGATGCTCAGCTTGATGGAGAAAGAAGGCTCTTGGAACTGAAAT-AGATGGATGAATTCAG-G
*
522988 CACACGTATACGAGAATGCCCGCCTATACAAAGAAAAAACAAAACGATGGCATGACAGAAAAATA
254 CACACGCATACGAGAATGCCCGCCTATACAAAGAAAAAACAAAACGATGGCATGACAGAAAAATA
523053 TTGCCAAGGTAATTTTAT-TCTGGATAACAAGTACAGCTCTATAATTCACATCTTAAATTATGCC
319 TTGCCAAGGTAATTTTATAT-TGGATAACAAGTACAGCTCTATAATTCACATCTTAAATTATGCC
523117 CATGA-AAGTTAAAATCACAATGGTTAGGACCATTCATCGTACACCAAGTCCATGA-ATATGGAG
383 CAT-ACAAGTTAAAATCACAATGGTTAGG-CCATTCATCGTACACCAAGTCCATGACA-ATGGAG
*
523180 CAATTGAAATCCAGAACCAAAACGATGGTTCAATCTTCAAGGTGAACGTCCAGAGACTCAAGGAG
445 CAATTGAAATCCAGAACCAAAACGATGGTTCAATCTTCAAGGTGAACGGCCAGAGACTCAAGGAG
* * *
523245 TACAAAGGAGCCCCAGTCATGTGCGACAAACTGACATCATTGGCACATGATGCCCAAGAGTTTGC
510 TACAAAGGAACCCCAGTCATGCGCGACAAACCGACATCATTGGCACATGATGCCCAAGAGTTTGC
523310 TTTATTTACTTGAACAAAATTCGTTACCT
575 TTTATTTACTTGAACAAAATTCGTTACCT
523339 AGACAACGAA
Statistics
Matches: 576, Mismatches: 28, Indels: 10
0.94 0.05 0.02
Matches are distributed among these distances:
608 3 0.01
609 245 0.43
610 148 0.26
611 180 0.31
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (604 bp):
AAACAAATCTTGAAAAGTGGTAACACAAATAAAAAGGACTGGTCGCTGAACTAAATGAAGAACTA
TAGGCTTATCGCACAACATACAAGACACCGTTGAGAATGGCACATTCAAACCAGTCTATGGAAAA
GAATGTCATCTACCTGTCGAACTTGAACATAAAGCCTATTGGGCCATCAAAAAGTTAAACGTGGA
TGCTCAGCTTGATGGAGAAAGAAGGCTCTTGGAACTGAAATAGATGGATGAATTCAGGCACACGC
ATACGAGAATGCCCGCCTATACAAAGAAAAAACAAAACGATGGCATGACAGAAAAATATTGCCAA
GGTAATTTTATATTGGATAACAAGTACAGCTCTATAATTCACATCTTAAATTATGCCCATACAAG
TTAAAATCACAATGGTTAGGCCATTCATCGTACACCAAGTCCATGACAATGGAGCAATTGAAATC
CAGAACCAAAACGATGGTTCAATCTTCAAGGTGAACGGCCAGAGACTCAAGGAGTACAAAGGAAC
CCCAGTCATGCGCGACAAACCGACATCATTGGCACATGATGCCCAAGAGTTTGCTTTATTTACTT
GAACAAAATTCGTTACCTG
Found at i:537701 original size:2 final size:2
Alignment explanation
Indices: 537694--537727 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
537684 GTAAACAAAG
537694 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
537728 TGGGGAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:539511 original size:16 final size:17
Alignment explanation
Indices: 539478--539522 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
539468 AAAAGCTTAA
539478 TCAA-TTCTTTTCTCCT
1 TCAAGTTCTTTTCTCCT
539494 TC-AGTTCTTTTCGT-CT
1 TCAAGTTCTTTTC-TCCT
*
539510 TCAAGTTCATTTC
1 TCAAGTTCTTTTC
539523 ATATATTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.04
16 14 0.56
17 10 0.40
ACGTcount: A:0.13, C:0.27, G:0.07, T:0.53
Consensus pattern (17 bp):
TCAAGTTCTTTTCTCCT
Done.