Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000130.1 Hibiscus syriacus cultivar Beakdansim tig00000236_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: 113851
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:3897 original size:64 final size:65
Alignment explanation
Indices: 3813--3964 Score: 173
Period size: 65 Copynumber: 2.4 Consensus size: 65
3803 CTAGGGGTGT
* * * * *
3813 ATCGGTACACTAATTACATTCGATGTTT-TAAAGAGCCAGGAGTGCATCGATCCATGG-TCTGTG
1 ATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATCCATGGCT-TGTG
3876 C
65 C
* * ** * *
3877 ATCGGTACACAAAATGCATTCAATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTTGTGT
1 ATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATCCATGGCTTGTGC
*
3942 ATTGGTACACAAAATGCATTCGA
1 ATCGGTACACAAAATGCATTCGA
3965 AATGGGTGTG
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
64 24 0.33
65 48 0.66
66 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (65 bp):
ATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATCCATGGCTTGTGC
Found at i:11940 original size:30 final size:30
Alignment explanation
Indices: 11904--11980 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
11894 TTTTATGTCT
*
11904 ACATTTAAGATGTTCATGCATACAATCATC
1 ACATTTAAGATGTTCATACATACAATCATC
* *
11934 ACATTTAAGATGTTCATACATATAGTCATC
1 ACATTTAAGATGTTCATACATACAATCATC
*
11964 ATATTTAAGATGTTCAT
1 ACATTTAAGATGTTCAT
11981 CTTTATAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (30 bp):
ACATTTAAGATGTTCATACATACAATCATC
Found at i:16783 original size:21 final size:21
Alignment explanation
Indices: 16757--16797 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
16747 AATAAAAAAT
*
16757 TACCTAAAACATTATTATTTC
1 TACCTAAAACATTAATATTTC
16778 TACCTAAAACATTAATATTT
1 TACCTAAAACATTAATATTT
16798 TTTAACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (21 bp):
TACCTAAAACATTAATATTTC
Found at i:18125 original size:15 final size:16
Alignment explanation
Indices: 18105--18138 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18095 AAGCAAAGAT
18105 AAAACAAAGA-CAACA
1 AAAACAAAGATCAACA
*
18120 AAAACAAATATCAACA
1 AAAACAAAGATCAACA
18136 AAA
1 AAA
18139 TCATCCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.74, C:0.18, G:0.03, T:0.06
Consensus pattern (16 bp):
AAAACAAAGATCAACA
Found at i:20619 original size:16 final size:16
Alignment explanation
Indices: 20583--20626 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
20573 TAATTACTAT
20583 AGTTTTTTTTATTTGA
1 AGTTTTTTTTATTTGA
20599 A-TTTTATTTTATTT-A
1 AGTTTT-TTTTATTTGA
*
20614 AGTTTTTTATATT
1 AGTTTTTTTTATT
20627 ATTTGTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
AGTTTTTTTTATTTGA
Found at i:24196 original size:36 final size:35
Alignment explanation
Indices: 24167--24236 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 35
24157 TATGCCATAC
*
24167 ACAAATTTCTAGTCCCACGAACTTCATATGTCTCG
1 ACAAATTTCTAGTCCCACGAACTTCATATGCCTCG
* * *
24202 TGCGAATTTCTAGTCCCACGAATTTCATATGCCTC
1 -ACAAATTTCTAGTCCCACGAACTTCATATGCCTC
24237 ATGTGAATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33
Consensus pattern (35 bp):
ACAAATTTCTAGTCCCACGAACTTCATATGCCTCG
Found at i:24225 original size:16 final size:16
Alignment explanation
Indices: 24170--24227 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
24160 GCCATACACA
24170 AATTTCTAGTCCCACG
1 AATTTCTAGTCCCACG
* **
24186 AACTTCATATGTCTCGTGCG
1 AATTTC-TA-GTC-C-CACG
24206 AATTTCTAGTCCCACG
1 AATTTCTAGTCCCACG
24222 AATTTC
1 AATTTC
24228 ATATGCCTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 13 0.41
17 3 0.09
18 6 0.19
19 3 0.09
20 7 0.22
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (16 bp):
AATTTCTAGTCCCACG
Found at i:26192 original size:228 final size:227
Alignment explanation
Indices: 25783--26230 Score: 781
Period size: 228 Copynumber: 2.0 Consensus size: 227
25773 GTAAATTATC
* * *
25783 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
25848 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
25913 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
25978 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
26011 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
26076 TTAATATTGTTAAATTTAAATTCTAAATAATA-TTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
26140 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATT
26205 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
26231 GCAGTTTTAA
Statistics
Matches: 209, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
227 4 0.02
228 150 0.72
229 55 0.26
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:26319 original size:20 final size:20
Alignment explanation
Indices: 26296--26345 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
26286 CGATATACCA
26296 GGTAAAATTATGATAAAACC
1 GGTAAAATTATGATAAAACC
*
26316 GGTAACAA-AATGATAAAACC
1 GGTAA-AATTATGATAAAACC
26336 GGTAAAATTA
1 GGTAAAATTA
26346 AAAGTGTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (20 bp):
GGTAAAATTATGATAAAACC
Found at i:26485 original size:20 final size:19
Alignment explanation
Indices: 26462--26508 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
26452 CGATATAACA
*
26462 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
26482 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
26502 GGTAAAA
1 GGTAAAA
26509 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:28861 original size:33 final size:33
Alignment explanation
Indices: 28819--28884 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
28809 AAATAGATGG
*
28819 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
28852 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
28885 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:30738 original size:19 final size:19
Alignment explanation
Indices: 30675--30737 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
30665 AATGTCGAGT
*
30675 TAATTTTGTATAAGATTTA
1 TAATTTTGTATACGATTTA
30694 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
30713 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
30732 T-ATTTT
1 TAATTTT
30738 TTTATGTGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
18 5 0.12
19 38 0.88
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:31568 original size:200 final size:198
Alignment explanation
Indices: 30820--32831 Score: 3552
Period size: 200 Copynumber: 10.1 Consensus size: 198
30810 TTAAGGGTCA
* *** *
30820 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
30884 ATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 ATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
30949 TAATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
31013 AATG
195 AATG
31017 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
31082 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
31147 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
129 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
31212 TAATG
194 TAATG
* *** *
31217 TGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
31280 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
31345 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
31410 ATG
196 ATG
31413 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
31478 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
31543 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
129 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
31608 TAATG
194 TAATG
* *** *
31613 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
31678 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
31743 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
31808 ATG
196 ATG
31811 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
31876 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
31941 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
129 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
32006 TAATG
194 TAATG
* *** * *
32011 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGAATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
32076 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
32141 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
32206 ATG
196 ATG
32209 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
32274 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
32339 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
32404 AATG
195 AATG
32408 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
32473 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
32538 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
129 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
32603 TAATG
194 TAATG
*** * *
32608 TGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTTTTACAAGGTGAATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
32670 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
* *
32735 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
32800 ATG
196 ATG
*
32803 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
32832 CTAATTTAAA
Statistics
Matches: 1745, Mismatches: 57, Indels: 26
0.95 0.03 0.01
Matches are distributed among these distances:
195 121 0.07
196 153 0.09
197 95 0.05
198 424 0.24
199 450 0.26
200 502 0.29
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (198 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATG
Found at i:31898 original size:398 final size:398
Alignment explanation
Indices: 30820--32831 Score: 3747
Period size: 398 Copynumber: 5.1 Consensus size: 398
30810 TTAAGGGTCA
*
30820 TGTCGATACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
30884 ATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 ATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
30949 TAATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
31013 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTG
195 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTG
31078 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
260 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
31143 TAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
325 TAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
31208 TAAATAATG
390 TAAATAATG
31217 TGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
31280 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
31345 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
31410 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
31475 ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
261 ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
31540 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
326 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
31605 AAATAATG
391 AAATAATG
31613 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
31678 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
31743 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
31808 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
31873 ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
261 ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
*
31938 AATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
326 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
32003 AAATAATG
391 AAATAATG
*
32011 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGAATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
32076 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
32141 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
32206 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
32271 ACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
261 ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
32335 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
326 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
32400 AAATAATG
391 AAATAATG
* *** *
32408 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTGCATC
*
32473 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
32538 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
129 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
***
32603 TAATGTGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATT-TTTACAAGGT
194 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGT
* * *
32664 GAATCAATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
259 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
* *
32728 ATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGT
324 ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
32793 CTAAATAATG
389 CTAAATAATG
*
32803 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
32832 CTAATTTAAA
Statistics
Matches: 1587, Mismatches: 22, Indels: 14
0.98 0.01 0.01
Matches are distributed among these distances:
395 243 0.15
396 332 0.21
397 192 0.12
398 699 0.44
399 121 0.08
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (398 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
AAATAATG
Found at i:34315 original size:18 final size:18
Alignment explanation
Indices: 34292--34353 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
34282 ATCGGTCGCA
* * *
34292 GAAGATGAAGCTGACGAT
1 GAAGATGACGATGATGAT
34310 GAAGATGACGATGATGAT
1 GAAGATGACGATGATGAT
*
34328 GATGATGACGATGATGAT
1 GAAGATGACGATGATGAT
34346 GAAGATGA
1 GAAGATGA
34354 TGATCCAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (18 bp):
GAAGATGACGATGATGAT
Found at i:34316 original size:6 final size:6
Alignment explanation
Indices: 34292--34353 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
34282 ATCGGTCGCA
* * * * * *
34292 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
*
34340 GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA
34354 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:34327 original size:3 final size:3
Alignment explanation
Indices: 34307--34357 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
34297 TGAAGCTGAC
* * * *
34307 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAT GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
34355 GAT
1 GAT
34358 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:34354 original size:12 final size:12
Alignment explanation
Indices: 34295--34357 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
34285 GGTCGCAGAA
* *
34295 GATGAAGCTGAC
1 GATGAAGATGAT
*
34307 GATGAAGATGAC
1 GATGAAGATGAT
*
34319 GATGATGATGAT
1 GATGAAGATGAT
*
34331 GATGACGATGAT
1 GATGAAGATGAT
34343 GATGAAGATGAT
1 GATGAAGATGAT
34355 GAT
1 GAT
34358 CCAAACAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:36032 original size:184 final size:184
Alignment explanation
Indices: 35723--36760 Score: 1999
Period size: 184 Copynumber: 5.7 Consensus size: 184
35713 CTTTCAACAT
**
35723 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
35788 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
35853 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
35907 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
35972 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
36037 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
36091 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
36156 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
36221 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
36275 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
36340 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
36403 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
36457 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
36522 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
36587 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
36641 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
36706 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
36761 CCATTTAAAA
Statistics
Matches: 843, Mismatches: 9, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
182 143 0.17
183 78 0.09
184 622 0.74
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:36601 original size:366 final size:368
Alignment explanation
Indices: 35723--36760 Score: 2017
Period size: 366 Copynumber: 2.8 Consensus size: 368
35713 CTTTCAACAT
**
35723 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
35788 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
35853 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
35918 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
35983 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
36048 ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
326 ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
36091 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
36156 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
36221 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
* *
36286 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
36351 TATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AAAATGTGTCGAT
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
36414 ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
326 ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
36457 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
36522 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
36587 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
36652 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
36717 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
36761 CCATTTAAAA
Statistics
Matches: 662, Mismatches: 7, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
366 325 0.49
367 71 0.11
368 266 0.40
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (368 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:39348 original size:23 final size:23
Alignment explanation
Indices: 39317--39379 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
39307 ATAGGTAAAC
*
39317 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
39340 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
39363 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
39380 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:39387 original size:23 final size:23
Alignment explanation
Indices: 39317--39389 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
39307 ATAGGTAAAC
* * **
39317 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
39340 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
39363 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
39386 ATAT
1 ATAT
39390 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:39775 original size:23 final size:23
Alignment explanation
Indices: 39744--39806 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
39734 ATAGGTAAAC
*
39744 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
39767 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
39790 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
39807 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:39814 original size:23 final size:23
Alignment explanation
Indices: 39744--39816 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
39734 ATAGGTAAAC
* * **
39744 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
39767 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
39790 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
39813 ATAT
1 ATAT
39817 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:44946 original size:20 final size:20
Alignment explanation
Indices: 44921--44969 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
44911 AGAGATATAC
44921 CGATGCACTAGTCCAT-ACAT
1 CGATGCACTAGTCCATGA-AT
44941 CGATGCACTAGTCCATGAAT
1 CGATGCACTAGTCCATGAAT
44961 CGATGCACT
1 CGATGCACT
44970 CTCAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (20 bp):
CGATGCACTAGTCCATGAAT
Found at i:53686 original size:17 final size:17
Alignment explanation
Indices: 53664--53717 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
53654 ATTGCCATTC
53664 TATAAATTTTATTTATT
1 TATAAATTTTATTTATT
* **
53681 TATAAATATGCTTTATAGT
1 TATAAATTTTATTTAT--T
*
53700 TTTAAATTTTATTTATT
1 TATAAATTTTATTTATT
53717 T
1 T
53718 TATTAAATGA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 15 0.54
19 13 0.46
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
TATAAATTTTATTTATT
Found at i:53723 original size:19 final size:19
Alignment explanation
Indices: 53666--53725 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
53656 TGCCATTCTA
53666 TAAATTTTATTTA-TTTA-
1 TAAATTTTATTTATTTTAT
* ** *
53683 TAAATATGCTTTATAGTT-T
1 TAAATTTTATTTAT-TTTAT
53702 TAAATTTTATTTATTTTAT
1 TAAATTTTATTTATTTTAT
53721 TAAAT
1 TAAAT
53726 GACATTACAA
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 10 0.32
18 2 0.06
19 19 0.61
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (19 bp):
TAAATTTTATTTATTTTAT
Found at i:55103 original size:20 final size:20
Alignment explanation
Indices: 55070--55142 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
55060 AAAAGGTAAC
*
55070 AAATTTGACTAAACCGATTGG
1 AAATTTGACAAAACCGATT-G
* *
55091 AAA-TTGACAAAACTGGTTG
1 AAATTTGACAAAACCGATTG
*
55110 AAATTTGACAAAACC-AGTTT
1 AAATTTGACAAAACCGA-TTG
*
55130 CAATTTGACAAAA
1 AAATTTGACAAAA
55143 TCAATAAAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
19 4 0.09
20 36 0.84
21 3 0.07
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (20 bp):
AAATTTGACAAAACCGATTG
Found at i:55338 original size:20 final size:20
Alignment explanation
Indices: 55313--55369 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
55303 AACAATTTGA
*
55313 AATTTGACAAAATCAGTTTC
1 AATTTGACAAAACCAGTTTC
*
55333 AATTTGACAAAACCGGTTTC
1 AATTTGACAAAACCAGTTTC
55353 AATTTGACAAAACCAGT
1 AATTTGACAAAACCAGT
55370 AAAGAGCTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (20 bp):
AATTTGACAAAACCAGTTTC
Found at i:56261 original size:64 final size:63
Alignment explanation
Indices: 56175--56335 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
56165 ATTGTTTAAG
* * * *
56175 ATGCATAGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGA-TT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAAT-GCATTT
56238 T
63 T
* * *
56239 ATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATGCATTTT
* *
56303 ATGCACCGATGCACAAGTAGTGCATCGATGCAT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCAT
56336 ACATTCATTG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.02
64 74 0.88
65 7 0.08
66 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (63 bp):
ATGCATCGATGCACAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATGCATTTT
Found at i:60355 original size:64 final size:63
Alignment explanation
Indices: 60269--60429 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
60259 ATTGTTTAAG
* * *
60269 ATGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGA-TT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAAT-GCATTT
60332 T
63 T
* * * *
60333 ATGCATCGATGTATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATGCATTTT
* *
60397 ATGCACCGATGCACAAGTAGTGCATCGATGCAT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCAT
60430 ACATTCATTG
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 2 0.02
64 73 0.88
65 7 0.08
66 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (63 bp):
ATGCATCGATGCACAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATGCATTTT
Found at i:61144 original size:30 final size:30
Alignment explanation
Indices: 61108--61171 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
61098 AAGGAACATA
* *
61108 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
61138 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
61168 TGGA
1 TGGA
61172 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:66218 original size:25 final size:25
Alignment explanation
Indices: 66174--66231 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
66164 CACCACATCT
* *
66174 CGTATAAA-TTGCACCAAAGTGTCG
1 CGTAGAAATTTGCACCAAAGTGTCA
*
66198 CGTAGAAATTTGCACCGAAGTGTCA
1 CGTAGAAATTTGCACCAAAGTGTCA
*
66223 CATAGAAAT
1 CGTAGAAAT
66232 GTCTCGAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (25 bp):
CGTAGAAATTTGCACCAAAGTGTCA
Found at i:66267 original size:23 final size:23
Alignment explanation
Indices: 66241--66308 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
66231 TGTCTCGAAG
* *
66241 GACCACATAGTATTGTCCCAAAA
1 GACCACGTAGAATTGTCCCAAAA
* * *
66264 GACCGCGTAGAAATGTCCCGAATA
1 GACCACGTAGAATTGTCCC-AAAA
66288 -ACCACGTAGAATTGTCCCAAA
1 GACCACGTAGAATTGTCCCAAA
66309 TGACAGCGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 2 0.06
23 31 0.86
24 3 0.08
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (23 bp):
GACCACGTAGAATTGTCCCAAAA
Found at i:66292 original size:46 final size:46
Alignment explanation
Indices: 66225--66318 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
66215 AAGTGTCACA
* * * *
66225 TAGAAATGTCTCGAAGGACCACATAGTATTGTCCCAAAAGACCGCG
1 TAGAAATGTCCCGAAGAACCACATAGAATTGTCCCAAAAGACAGCG
* * *
66271 TAGAAATGTCCCGAATAACCACGTAGAATTGTCCCAAATGACAGCG
1 TAGAAATGTCCCGAAGAACCACATAGAATTGTCCCAAAAGACAGCG
66317 TA
1 TA
66319 AAACCCTCGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (46 bp):
TAGAAATGTCCCGAAGAACCACATAGAATTGTCCCAAAAGACAGCG
Found at i:66318 original size:23 final size:23
Alignment explanation
Indices: 66252--66318 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
66242 ACCACATAGT
* *
66252 ATTGTCCCAAAAGACCGCGTAGA
1 ATTGTCCCAAATGACAGCGTAGA
* * *
66275 AATGTCCCGAATAACCA-CGTAGA
1 ATTGTCCCAAATGA-CAGCGTAGA
66298 ATTGTCCCAAATGACAGCGTA
1 ATTGTCCCAAATGACAGCGTA
66319 AAACCCTCGA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 2 0.06
23 31 0.91
24 1 0.03
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.19
Consensus pattern (23 bp):
ATTGTCCCAAATGACAGCGTAGA
Found at i:66431 original size:16 final size:16
Alignment explanation
Indices: 66410--66449 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
66400 ACATAGCTTA
66410 TCACATAGA-CATTTAT
1 TCACATAGATCATTT-T
66426 TCACATAGATCATTTT
1 TCACATAGATCATTTT
66442 TCACATAG
1 TCACATAG
66450 CTTATGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (16 bp):
TCACATAGATCATTTT
Found at i:68860 original size:200 final size:200
Alignment explanation
Indices: 68317--69502 Score: 1304
Period size: 201 Copynumber: 6.0 Consensus size: 200
68307 TCTATATCTG
* * ** * * *
68317 TATCGATACTTTTATTCTA-TCATGGTTCTCAAACAATTTGTC-C-ATAACAAAGTATCAATACC
1 TATCGATACTATTATTCCAGT-ATGCATCTCAAACAATTTG-CACGACAA-AAAGTATCGATACA
* *
68379 CATATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTAC
63 CATATACAAAGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTAC
* * * *
68444 AATGTAAACGTTAAAAATCTACCGATTTAATGATAATAGGCGTAAACATAAAATATTGATACTTA
128 AATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTT-
*
68509 TTATATA-A
192 TAATATAGA
* * *
68517 GTATCGATACTTTTATTCTAGTATGCATCTCAAACAATTTGCACG-CAAAAATGTATCGATACAT
1 -TATCGATACTATTATTCCAGTATGCATCTCAAACAATTTGCACGACAAAAA-GTATCGATACAC
* * * *
68581 GTATA-ACAAGTATCGCTACTTAGAATTTTGAAACCTTTTACTTTAAAGTAATAGGTAAATTTAC
64 ATATACA-AAGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTAC
* *
68645 AATGTAAACGGTAAAAATCTACCGGTTTGATGATAATAGGCGTAAACATAAAGTATTGATACGTT
128 AATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATAC-TT
68710 TAATATAGA
192 TAATATAGA
* * * * *
68719 TATCGATACTATTAGTCCAATATGCTTCTCAAACAATTTGCACGTC-AAAAGCATCGATACACAT
1 TATCGATACTATTATTCCAGTATGCATCTCAAACAATTTGCACGACAAAAAGTATCGATACACAT
* *
68783 GTACAAAGTATCGATACTTAGAATTTCGAAACCTTTTACTTTAAAGTAATAGGTAAATTTACAAT
66 ATACAAAGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAAT
* * * *
68848 GTAAATGGTAAAAATCTATC-GTTTAATGATAATAGACGTAAACATAAAGTATCGATAC-TTATT
131 GTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTTAAT
68911 ATAGA
196 ATAGA
* * *
68916 GGTATCGATACTATTATTTCAGTATACGTCTCAAACAATTTGCAC-ACAAAAAGTATCGATACAC
1 --TATCGATACTATTATTCCAGTATGCATCTCAAACAATTTGCACGACAAAAAGTATCGATACAC
* * *
68980 ATATTAC-AAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTAC
64 ATA-TACAAAGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTAC
* * * *
69044 AATGTAAATGGTAAAAATCTACTGGTTTAATGATAATAGGCATAAATATAAAGTATCGATAC-TT
128 AATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTT
69108 --T-T---
193 AATATAGA
* *
69110 TAT---TAC-AATA-T---GTA---A-CTCAAACAATTTGTACG-CAAAAAGTATCGATACACAT
1 TATCGATACTATTATTCCAGTATGCATCTCAAACAATTTGCACGACAAAAAGTATCGATACACAT
* * * ** * * *
69162 ATATAATGT-TCCGATACTTGGAATTTAAAAACCTATTACATTAAAGTAATAGGTTAATTTATAA
66 ATACAAAGTAT-CGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAA
* * * *
69226 TGTAAACGATAAATATCTACTGGTATAATGATAATAGGCGTAAACATAAAGTATCGATA-TTTAT
130 TGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTTA-
*
69290 TATATAGG
194 -ATATAGA
* *
69298 TATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCAC-ACAAAAAAATATCGATACACA
1 TATCGATACTATTATTCCAGTATGCATCTCAAACAATTTGCACGAC-AAAAAGTATCGATACACA
* *
69362 TATA-ACAAGTATCG--A--T--AATTTTGAAACCTAGTACTTTAAAGTAATAGGTAAATTTACA
65 TATACA-AAGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACA
* * *
69420 ATGTAAACGGTAAAAGTCTACCGGTTTAATGATAATAGGCATAAA-TTACAAGTATCGATACTTT
129 ATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATA-AAGTATCGATAC-TT
* *
69484 TTATATAGG
192 TAATATAGA
69493 TATCGATACT
1 TATCGATACT
69503 TTCGATCTAA
Statistics
Matches: 855, Mismatches: 85, Indels: 96
0.83 0.08 0.09
Matches are distributed among these distances:
179 3 0.00
180 142 0.17
184 4 0.00
185 1 0.00
187 1 0.00
188 6 0.01
189 3 0.00
191 3 0.00
192 5 0.01
193 1 0.00
194 2 0.00
195 103 0.12
196 3 0.00
197 14 0.02
198 2 0.00
199 166 0.19
200 151 0.18
201 239 0.28
202 6 0.01
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (200 bp):
TATCGATACTATTATTCCAGTATGCATCTCAAACAATTTGCACGACAAAAAGTATCGATACACAT
ATACAAAGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAAT
GTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTTAAT
ATAGA
Found at i:68940 original size:20 final size:20
Alignment explanation
Indices: 68895--68932 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
68885 GTAAACATAA
*
68895 AGTATCGATACTTATTATAG
1 AGTATCGATACTTATTATAC
68915 AGGTATCGATAC-TATTAT
1 A-GTATCGATACTTATTAT
68933 TTCAGTATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (20 bp):
AGTATCGATACTTATTATAC
Found at i:69154 original size:180 final size:180
Alignment explanation
Indices: 68945--69292 Score: 522
Period size: 180 Copynumber: 1.9 Consensus size: 180
68935 CAGTATACGT
*
68945 CTCAAACAATTTGCACACAAAAAGTATCGATACACATAT-TACAAGTAT-CGATACTTGGACTTT
1 CTCAAACAATTTGCACACAAAAAGTATCGATACACATATATA-AAGT-TCCGATACTTGGAATTT
* * * * *
69008 CAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAATGGTAAAAATCTACTGGTTTA
64 AAAAACCTATTACATTAAAGTAATAGGTAAATTTACAATGTAAACGATAAAAATCTACTGGTATA
*
69073 ATGATAATAGGCATAAATATAAAGTATCGATACTTT-TTATTACAATATGTAA
129 ATGATAATAGGCATAAACATAAAGTATCGATA-TTTATTATTACAATATGTAA
* * *
69125 CTCAAACAATTTGTACGCAAAAAGTATCGATACACATATATAATGTTCCGATACTTGGAATTTAA
1 CTCAAACAATTTGCACACAAAAAGTATCGATACACATATATAAAGTTCCGATACTTGGAATTTAA
* * *
69190 AAACCTATTACATTAAAGTAATAGGTTAATTTATAATGTAAACGATAAATATCTACTGGTATAAT
66 AAACCTATTACATTAAAGTAATAGGTAAATTTACAATGTAAACGATAAAAATCTACTGGTATAAT
*
69255 GATAATAGGCGTAAACATAAAGTATCGATATTTATTAT
131 GATAATAGGCATAAACATAAAGTATCGATATTTATTAT
69293 ATAGGTATCG
Statistics
Matches: 151, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
179 4 0.03
180 145 0.96
181 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (180 bp):
CTCAAACAATTTGCACACAAAAAGTATCGATACACATATATAAAGTTCCGATACTTGGAATTTAA
AAACCTATTACATTAAAGTAATAGGTAAATTTACAATGTAAACGATAAAAATCTACTGGTATAAT
GATAATAGGCATAAACATAAAGTATCGATATTTATTATTACAATATGTAA
Found at i:70024 original size:18 final size:18
Alignment explanation
Indices: 69996--70041 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
69986 CGAGATGCAG
*
69996 TTCTACTCAACCAAGGTCA
1 TTCTTCTCAACCAAGGT-A
70015 -TCTTCTCAACCAAGGTA
1 TTCTTCTCAACCAAGGTA
70032 TTCTTCTCAA
1 TTCTTCTCAA
70042 GTAAGGGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (18 bp):
TTCTTCTCAACCAAGGTA
Found at i:70364 original size:2 final size:2
Alignment explanation
Indices: 70357--70382 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
70347 ATGAGGAAGG
70357 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
70383 CTGGAATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72669 original size:18 final size:19
Alignment explanation
Indices: 72640--72676 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
72630 AACAATTATG
*
72640 CATTTGTCAATTTTAATTT
1 CATTTGTCAATTTGAATTT
72659 CATTT-TCAATTTGAATTT
1 CATTTGTCAATTTGAATTT
72677 TGAGCTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (19 bp):
CATTTGTCAATTTGAATTT
Found at i:74794 original size:201 final size:199
Alignment explanation
Indices: 74120--75040 Score: 1203
Period size: 200 Copynumber: 4.6 Consensus size: 199
74110 CACCTACTCC
* * * * * *
74120 AAGTATCGCTCCACATATAACAAGTATCAATATTTAGACTTTCAAACCCTATTACTTTAAAGTAA
1 AAGTATCGATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
* * ** *
74185 TAGGTAAA-TTAAAATGAAAACGGTAAAAATCTACAAGTTTAATGATAATAGGCGTAAACATATA
66 TAGGTAAATTTACAATGTAAACGGTAAAAATCTACTGGTTTAATGATAATAGGCGTAAACATAAA
74249 GTA-CATATACTTATTATATAGGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGCA
131 GTATCA-ATACTTATTATATAGGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGCA
*
74313 CACAA
195 CGCAA
* *
74318 AAGGTATCGATACACATATAACAAGTATCGATACTTGGACTTTTAAAACTTATTACTTTAAAGTA
1 AA-GTATCGATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTA
* * * *
74383 ATAGGTAAATTTCCAATGTAAACGATAAAAATCTACTGGTTTAATGATAATGGGCATAAACATAA
65 ATAGGTAAATTTACAATGTAAACGGTAAAAATCTACTGGTTTAATGATAATAGGCGTAAACATAA
* * **
74448 ATTATCGATACTTATTATATAGGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGTT
130 AGTATCAATACTTATTATATAGGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGCA
74513 CGCAAA
195 CGC-AA
* *
74519 AAGTATCGCTACATATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
1 AAGTATCGATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
**
74584 TAGGTAAATTTACAATGTAAACGGTAAAAATCTACCAGTTTAATGATAATAGGCGTAAACATAAA
66 TAGGTAAATTTACAATGTAAACGGTAAAAATCTACTGGTTTAATGATAATAGGCGTAAACATAAA
* *
74649 GTACCAATACTTATTATATAAGTATCGATATTGTTATAAT-CAGTATGCATCTCAAACAATTTGC
131 GTATCAATACTTATTATATAGGTATCGATATTGTTAT--TCCAGTATGCATCTCAAACAATTTGC
74713 ACGCAA
194 ACGCAA
* * *
74719 AATGTCTCAATACACATATAACAAGTATCGATACTTGGACTTTCGAAACCTATTACTTTAAAGTA
1 AA-GTATCGATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTA
* ** * **
74784 ATAGGTAAATTAACAATGTAAATTGTAAAAATCTATTGGTTTAATGATAATAGATGTAAACATAA
65 ATAGGTAAATTTACAATGTAAACGGTAAAAATCTACTGGTTTAATGATAATAGGCGTAAACATAA
* * *
74849 AGTATCAATA-TGT-TTAATATAGGCATCGATACTT-TTATTCCAATATGCTTCTCAAACAATTT
130 AGTATCAATACT-TATT-ATATAGGTATCGATA-TTGTTATTCCAGTATGCATCTCAAACAATTT
74911 GCACGTCAA
192 GCACG-CAA
* * * * * **
74920 AA-TCATCGATACACATGT-ACAAAGTATCGATGCTTGGAATTTCGAAACTTATTACTACAAAGT
1 AAGT-ATCGATACACATATAAC-AAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGT
* * * * *
74983 AATAGGCAAATTAACAATGTAAACGGT-AAAGTTTACTGGTATAATGATAATAGGCGTA
64 AATAGGTAAATTTACAATGTAAACGGTAAAAATCTACTGGTTTAATGATAATAGGCGTA
75041 TATACTCCAA
Statistics
Matches: 636, Mismatches: 73, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
198 2 0.00
199 92 0.14
200 362 0.57
201 177 0.28
202 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (199 bp):
AAGTATCGATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
TAGGTAAATTTACAATGTAAACGGTAAAAATCTACTGGTTTAATGATAATAGGCGTAAACATAAA
GTATCAATACTTATTATATAGGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGCAC
GCAA
Found at i:74871 original size:401 final size:400
Alignment explanation
Indices: 74120--75040 Score: 1243
Period size: 401 Copynumber: 2.3 Consensus size: 400
74110 CACCTACTCC
* * * * *
74120 AAGTATCGCTCCACATATAACAAGTATCAATATTTAGACTTTCAAACCCTATTACTTTAAAGTAA
1 AAGTATCGCTACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
* * *
74185 TAGGTAAA-TTAAAATGAAAACGGTAAAAATCTACAAGTTTAATGATAATAGGCGTAAACATATA
66 TAGGTAAATTTACAATGTAAACGGTAAAAATCTACAAGTTTAATGATAATAGGCGTAAACATAAA
*
74249 GTACATATACTTATTATATAGGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGCAC
131 GTACATATACTTATTATATAAGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGCAC
* * *
74314 ACAAAAGGTATCGATACACATATAACAAGTATCGATACTTGGACTTTTAAAACTTATTACTTTAA
196 ACAAAAGGTATCAATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAA
** * *
74379 AGTAATAGGTAAATTTCCAATGTAAACGATAAAAATCTACTGGTTTAATGATAATGGGCATAAAC
261 AGTAATAGGTAAATTAACAATGTAAACGATAAAAATCTACTGGTTTAATGATAATAGACATAAAC
* * * *
74444 ATAAATTATCGATACTTATTATATAGGTATCGATA-TTGTTATTCCAGTATGCATCTCAAACAAT
326 ATAAAGTATCAATACTTATTATATAGGCATCGATACTT-TTATTCCAATATGCATCTCAAACAAT
**
74508 TTGTTCG-CAAA
390 TTGCACGTC-AA
*
74519 AAGTATCGCTACATATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
1 AAGTATCGCTACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
*
74584 TAGGTAAATTTACAATGTAAACGGTAAAAATCTACCAGTTTAATGATAATAGGCGTAAACATAAA
66 TAGGTAAATTTACAATGTAAACGGTAAAAATCTACAAGTTTAATGATAATAGGCGTAAACATAAA
74649 GTACCA-ATACTTATTATATAAGTATCGATATTGTTATAAT-CAGTATGCATCTCAAACAATTTG
131 GTA-CATATACTTATTATATAAGTATCGATATTGTTAT--TCCAGTATGCATCTCAAACAATTTG
* * * *
74712 CACGCAAAATGTCTCAATACACATATAACAAGTATCGATACTTGGACTTTCGAAACCTATTACTT
193 CACACAAAAGGTATCAATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTT
* * **
74777 TAAAGTAATAGGTAAATTAACAATGTAAATTG-TAAAAATCTATTGGTTTAATGATAATAGATGT
258 TAAAGTAATAGGTAAATTAACAATGTAAA-CGATAAAAATCTACTGGTTTAATGATAATAGACAT
*
74841 AAACATAAAGTATCAATA-TGT-TTAATATAGGCATCGATACTTTTATTCCAATATGCTTCTCAA
322 AAACATAAAGTATCAATACT-TATT-ATATAGGCATCGATACTTTTATTCCAATATGCATCTCAA
74904 ACAATTTGCACGTCAA
385 ACAATTTGCACGTCAA
* * * * * * **
74920 AA-TCATCGATACACATGT-ACAAAGTATCGATGCTTGGAATTTCGAAACTTATTACTACAAAGT
1 AAGT-ATCGCTACACATATAAC-AAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGT
* * * * ** *
74983 AATAGGCAAATTAACAATGTAAACGGT-AAAGTTTACTGGTATAATGATAATAGGCGTA
64 AATAGGTAAATTTACAATGTAAACGGTAAAAATCTACAAGTTTAATGATAATAGGCGTA
75041 TATACTCCAA
Statistics
Matches: 462, Mismatches: 49, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
399 67 0.15
400 117 0.25
401 273 0.59
402 5 0.01
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (400 bp):
AAGTATCGCTACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
TAGGTAAATTTACAATGTAAACGGTAAAAATCTACAAGTTTAATGATAATAGGCGTAAACATAAA
GTACATATACTTATTATATAAGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGCAC
ACAAAAGGTATCAATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAA
AGTAATAGGTAAATTAACAATGTAAACGATAAAAATCTACTGGTTTAATGATAATAGACATAAAC
ATAAAGTATCAATACTTATTATATAGGCATCGATACTTTTATTCCAATATGCATCTCAAACAATT
TGCACGTCAA
Found at i:75908 original size:226 final size:224
Alignment explanation
Indices: 75599--76133 Score: 795
Period size: 226 Copynumber: 2.4 Consensus size: 224
75589 ATGTACACGG
* * * *
75599 TAATATATTGATAATATTGAAAATAAATTAAGTAATTAACCTATTTTGTTATCGTTTGATTTCTA
1 TAATATGTTGATAATATTGATAA-AAATCAAGTAATTAACCTATTTTGTTATCG-TCGATTTCTA
*
75664 AGGCCCCATCAACTTTAAAC-TGGCGCTATC-TATTACATTAAATAAGCCCTACTTGTTATGTTA
64 AGGCCCTATCAACTTTAAACAT-GCGCTA-CATATTACATTAAATAAGCCCTACTTGTTATGTTA
* * * * *
75727 TTATGGTTGATAATGTTTCTAATAATTAACTTATTTTGTTATAGTCGGATTTCTAAGTCTTCATC
127 TTATGGGTGATAATGTTTCTAATAATTAACCTATTTTGTTATAGTCGGATTTATAAGGCTCCATC
*
75792 AGCTTAAACTTTGGTAACATTTTAGGCGCTACC
192 AACTTAAACTTTGGTAACATTTTAGGCGCTACC
* * *
75825 TAATATGTTGATAATATTGATAACGAATCAAGGAATTAACCTATTTTGTTATCATCAGATTTCTA
1 TAATATGTTGATAATATTGATAA-AAATCAAGTAATTAACCTATTTTGTTATCGTC-GATTTCTA
* * ** *
75890 AGGCTCTATCAGCTTTAAACATGCGCTACATATTACATTAAATAAGCGTTATTTGTTATGTTATT
64 AGGCCCTATCAACTTTAAACATGCGCTACATATTACATTAAATAAGCCCTACTTGTTATGTTATT
* *
75955 ATGGGTGATAATGTTTCTAGTAATTAACCTATTTTGTTATCGTCGGATTTATAAGGCTCCATCAA
129 ATGGGTGATAATGTTTCTAATAATTAACCTATTTTGTTATAGTCGGATTTATAAGGCTCCATCAA
*
76020 CTTAAACTTTGTTAACATTTTAGGCGCTACC
194 CTTAAACTTTGGTAACATTTTAGGCGCTACC
76051 TAATATGTTGATAATATTGATAAAAATCAAGTAATTAACCTATTTTGTTATCGTCGAATTTCTAA
1 TAATATGTTGATAATATTGATAAAAATCAAGTAATTAACCTATTTTGTTATCGTCG-ATTTCTAA
76116 GGCCCTATCAACTTTAAA
65 GGCCCTATCAACTTTAAA
76134 AATATGTTAC
Statistics
Matches: 277, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
224 1 0.00
225 55 0.20
226 220 0.79
227 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (224 bp):
TAATATGTTGATAATATTGATAAAAATCAAGTAATTAACCTATTTTGTTATCGTCGATTTCTAAG
GCCCTATCAACTTTAAACATGCGCTACATATTACATTAAATAAGCCCTACTTGTTATGTTATTAT
GGGTGATAATGTTTCTAATAATTAACCTATTTTGTTATAGTCGGATTTATAAGGCTCCATCAACT
TAAACTTTGGTAACATTTTAGGCGCTACC
Found at i:76160 original size:12 final size:12
Alignment explanation
Indices: 76139--76170 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
76129 TTAAAAATAT
*
76139 GTTACCTATTAC
1 GTTACATATTAC
76151 GTTACATATTAC
1 GTTACATATTAC
76163 GTTACATA
1 GTTACATA
76171 AGTGCTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (12 bp):
GTTACATATTAC
Found at i:78421 original size:2 final size:2
Alignment explanation
Indices: 78416--78470 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
78406 TTTACACACG
78416 TA TA TA TA TA TA TA TA TA TA TA TA TA 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 TA
78458 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
78471 TAAGCCTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:81118 original size:16 final size:16
Alignment explanation
Indices: 81099--81151 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
81089 CCATAACCCC
81099 TATCACACATATATCA
1 TATCACACATATATCA
** * *
81115 TATCATGCACACATCA
1 TATCACACATATATCA
81131 TATCACACATCATATACA
1 TATCACACAT-ATAT-CA
81149 TAT
1 TAT
81152 ATCACATACA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 19 0.70
17 3 0.11
18 5 0.19
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (16 bp):
TATCACACATATATCA
Found at i:81502 original size:23 final size:23
Alignment explanation
Indices: 81476--81544 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
81466 CACCACAGCT
*
81476 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
81499 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
81522 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
81545 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:81731 original size:103 final size:103
Alignment explanation
Indices: 81560--81772 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
81550 TAATGTCCAT
* * *
81560 AAGGACCACATATCATTCCTTAAGAATTATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
81625 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
*
81663 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
81728 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
*
81766 AAAGACC
1 AAGGACC
81773 GCGTAGACCC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATATTCCAAAGAATACATATATGTCCCG
Found at i:86798 original size:3 final size:3
Alignment explanation
Indices: 86790--86827 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
86780 GAATAGGGTT
86790 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
86828 TTAATATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:89630 original size:93 final size:93
Alignment explanation
Indices: 89520--89783 Score: 403
Period size: 88 Copynumber: 2.9 Consensus size: 93
89510 TCAACTATTG
* *
89520 TTTTAGCGTCGATCTTTATAAGTGTTCTTTTAAAAAATAAATTATGATCATAAAATTAATTTTAA
1 TTTTAGCGTCGGTCTTTACAAGTGTTCTTTTAAAAAATAAATTATGATCATAAAATTAATTTTAA
89585 TATAATTTAATTTTAAAATGATGTTAAA
66 TATAATTTAATTTTAAAATGATGTTAAA
* *
89613 TTTTAGCGTCGGTCTTTACAAGTGTTATTTTAAAAAATAAATTACGATCATAAAATTAA--TT--
1 TTTTAGCGTCGGTCTTTACAAGTGTTCTTTTAAAAAATAAATTATGATCATAAAATTAATTTTAA
* *
89674 T-TAATTTAATTTTAAGATGGTGTTAAA
66 TATAATTTAATTTTAAAATGATGTTAAA
* * *
89701 TTTTAGCGTCAGTCTTTACAAGTGTTCTTTTAAAAACTAAATTATGATCATAAAATCAATTTTAA
1 TTTTAGCGTCGGTCTTTACAAGTGTTCTTTTAAAAAATAAATTATGATCATAAAATTAATTTTAA
*
89766 TATAGTTTAATTTTAAAA
66 TATAATTTAATTTTAAAA
89784 GAAGATATTC
Statistics
Matches: 153, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
88 78 0.51
89 1 0.01
90 2 0.01
91 2 0.01
92 1 0.01
93 69 0.45
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (93 bp):
TTTTAGCGTCGGTCTTTACAAGTGTTCTTTTAAAAAATAAATTATGATCATAAAATTAATTTTAA
TATAATTTAATTTTAAAATGATGTTAAA
Found at i:91016 original size:38 final size:38
Alignment explanation
Indices: 90974--91049 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
90964 ATGAGTATAG
**
90974 TTGTATATTAACGGCAGGAGTTAAATGCATAAATCCAA
1 TTGTATATTAACGGCAAAAGTTAAATGCATAAATCCAA
* *
91012 TTGTATATTAATGGCAAAAGTTAAATGCATGAATCCAA
1 TTGTATATTAACGGCAAAAGTTAAATGCATAAATCCAA
91050 CACATAATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (38 bp):
TTGTATATTAACGGCAAAAGTTAAATGCATAAATCCAA
Found at i:93877 original size:12 final size:12
Alignment explanation
Indices: 93860--93893 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
93850 GTTGAGATGA
93860 CTTTTGCTTCGC
1 CTTTTGCTTCGC
93872 CTTTTGCTTCGC
1 CTTTTGCTTCGC
93884 CTTTTGCTTC
1 CTTTTGCTTC
93894 CATCGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.15, T:0.53
Consensus pattern (12 bp):
CTTTTGCTTCGC
Found at i:94461 original size:34 final size:31
Alignment explanation
Indices: 94379--94493 Score: 85
Period size: 34 Copynumber: 3.6 Consensus size: 31
94369 GTTATTATTT
* * *
94379 TTTAAATAGTTATTATATTTTATATTAATATA
1 TTTATATAATTATTAT-TTTTTTATTAATATA
*
94411 ATTATATAAATATATTATTTTTTTATTAAACTAATA
1 TTTATAT-AAT-TATTATTTTTTTATT-AA-T-ATA
* *
94447 TTTATATAATTATTATTTATTTA--AATTTA
1 TTTATATAATTATTATTTTTTTATTAATATA
*
94476 TTAAT-TAATTATT-TTTTT
1 TTTATATAATTATTATTTTT
94494 GCTAATTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
27 4 0.06
28 8 0.12
29 6 0.09
30 1 0.01
31 2 0.03
32 5 0.07
33 10 0.14
34 20 0.29
35 4 0.06
36 9 0.13
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (31 bp):
TTTATATAATTATTATTTTTTTATTAATATA
Found at i:94608 original size:23 final size:22
Alignment explanation
Indices: 94581--94654 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
94571 AGCGATATGG
94581 TAATATTTTTTTATAATTAATGT
1 TAATATTTTTTTATAATTAAT-T
**
94604 TAATATTTATTGTTATGTTTAATT
1 TAATATTT-TT-TTATAATTAATT
* *
94628 TAA-ATTTTATTATGAATTTATAT
1 TAATATTTTTTTAT-AATTAAT-T
94651 TAAT
1 TAAT
94655 TTTAATTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 4 0.10
22 5 0.12
23 16 0.40
24 6 0.15
25 9 0.22
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
TAATATTTTTTTATAATTAATT
Found at i:96296 original size:21 final size:22
Alignment explanation
Indices: 96270--96329 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
96260 GTCATCTCCA
*
96270 CAGGGTTACATTCCTAGCCTG-
1 CAGGGTTACATTCCTAGCCCGC
96291 CAGGGTTACATTCCTAGCCCGC
1 CAGGGTTACATTCCTAGCCCGC
*
96313 CA-GGTTACATGCCTAGC
1 CAGGGTTACATTCCTAGC
96330 TCACAGGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 34 0.94
22 2 0.06
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (22 bp):
CAGGGTTACATTCCTAGCCCGC
Found at i:96339 original size:21 final size:21
Alignment explanation
Indices: 96269--96339 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
96259 TGTCATCTCC
96269 ACAGGGTTACATTCCTAGCCTG
1 ACAGGGTTACATTCCTAGCC-G
96291 -CAGGGTTACATTCCTAGCCCG
1 ACAGGGTTACATTCCTAG-CCG
* *
96312 CCA-GGTTACATGCCTAGCTC-
1 ACAGGGTTACATTCCTAGC-CG
96332 ACAGGGTT
1 ACAGGGTT
96340 TTATACCATA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
20 3 0.07
21 36 0.84
22 4 0.09
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (21 bp):
ACAGGGTTACATTCCTAGCCG
Found at i:96903 original size:34 final size:34
Alignment explanation
Indices: 96860--96966 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
96850 ATAAATATTT
*
96860 TTAAAATACAATTTATAGTATTCGAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
* * * *
96894 TTAAAATACAAATAATATTATTCGAAACTTAAAT
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
* *
96928 TTAAAATATAAATTATAGTATTCGAAATTTAACA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
96962 TTAAA
1 TTAAA
96967 TTCAACTTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCGAAATTTAAAA
Found at i:97510 original size:62 final size:62
Alignment explanation
Indices: 97434--97552 Score: 220
Period size: 62 Copynumber: 1.9 Consensus size: 62
97424 TTCTCGGGGG
*
97434 ACATAAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGTT
1 ACATAAGTGACATAATAGGGCAATGATAACATATTCTCCGACAAAATAATGGAAGGCGCGTT
*
97496 ACATAAGTGACATAATAGGGCAATGATAATATATTCTCCGACAAAATAATGGAAGGC
1 ACATAAGTGACATAATAGGGCAATGATAACATATTCTCCGACAAAATAATGGAAGGC
97553 ACGCCCCCAG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (62 bp):
ACATAAGTGACATAATAGGGCAATGATAACATATTCTCCGACAAAATAATGGAAGGCGCGTT
Found at i:97722 original size:127 final size:127
Alignment explanation
Indices: 97496--97956 Score: 780
Period size: 127 Copynumber: 3.6 Consensus size: 127
97486 AAGGCGCGTT
* * *
97496 ACATAAGTGACATAATAGGGCAATGATAATATATTCTCCGACAAAATAATGGAAGGCACGCCCCC
1 ACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAATGGAAGGCACGCCCCC
*
97561 AGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCTGGGGG
66 GGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCTGGGGG
* *
97623 ACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAATGGAATGCGCGCCCCC
1 ACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAATGGAAGGCACGCCCCC
97688 GGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGACATGAATAGTT-CTCGGGGG
66 GGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCT-GGGGG
* * *
97750 ACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCGCCCCT
1 ACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAATGGAAGGCACGCCCCC
* * * *
97815 GGGAATGCGCCTTCACGGTCCCTTAAGGAATAATAGGTATTGACATGAATAGTTCGTGGGTG
66 GGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCTGGGGG
*
97877 ATATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAATGGAAGGCACGCCCCC
1 ACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAATGGAAGGCACGCCCCC
97942 GGGAACGCGCCTTCA
66 GGGAACGCGCCTTCA
97957 TGTGAATAGT
Statistics
Matches: 314, Mismatches: 18, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
126 2 0.01
127 311 0.99
128 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (127 bp):
ACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAATGGAAGGCACGCCCCC
GGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCTGGGGG
Found at i:104477 original size:38 final size:37
Alignment explanation
Indices: 104403--104478 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
104393 ACTATAAGAT
*
104403 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* * *
104440 ATTTATATAATTTTTTTTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
104478 A
1 A
104479 AGGTTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 8 0.24
38 21 0.64
39 4 0.12
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:112218 original size:15 final size:15
Alignment explanation
Indices: 112198--112226 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
112188 TGGCCGACCG
112198 AACCGAATTAACCAT
1 AACCGAATTAACCAT
112213 AACCGAATTAACCA
1 AACCGAATTAACCA
112227 AACTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (15 bp):
AACCGAATTAACCAT
Found at i:112665 original size:180 final size:178
Alignment explanation
Indices: 112308--112685 Score: 570
Period size: 181 Copynumber: 2.1 Consensus size: 178
112298 ATTTTCTAAT
* *
112308 TTATATAA-A-ATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATAATAAT
1 TTATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATAATAAT
* *
112371 TATAAAAAAAAATTTAGATAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGA
66 TATAAAAAAAAATTTAGATAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTATTAGA
* *
112436 TCTTAAATTATTAATTGTATTTTAAATAGTTTGGGCTTAGCCCATATG
131 TCTTAAATTATTAATTGGATTTTAAAGAGTTTGGGCTTAGCCCATATG
112484 TTATATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTACAATTAATTTAAATAATATA
1 -T-TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTACAATTAATTTAAATAATA-A
* *
112548 TAATTATAAATAAAAAA-TTATATAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTA
62 TAATTATAAA-AAAAAATTTAGATAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTA
* *
112612 TTAGATCTTAAATTATTAATTGGGTTTTTAAGA-TTTGGG-TTGAGCCCATATG
126 TTAGATCTTAAATTATTAATTGGATTTTAAAGAGTTTGGGCTT-AGCCCATATG
112664 TTATATAATATATTTAATATTT
1 TTATATAATATATTTAATATTT
112686 AAAATTTAAT
Statistics
Matches: 184, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
177 1 0.01
178 28 0.15
179 10 0.05
180 56 0.30
181 83 0.45
182 6 0.03
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (178 bp):
TTATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATAATAAT
TATAAAAAAAAATTTAGATAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTATTAGA
TCTTAAATTATTAATTGGATTTTAAAGAGTTTGGGCTTAGCCCATATG
Found at i:113319 original size:66 final size:64
Alignment explanation
Indices: 113213--113351 Score: 242
Period size: 66 Copynumber: 2.1 Consensus size: 64
113203 TGTCACATGA
113213 AAAACTGATGTATAAATACATTAAAGCCACATCATTATAACGTGGACGACAAGAAGTGTTAGGCT
1 AAAACTGATGTATAAATACATTAAAGCCACATCATTATAACGTGGACGACAAG-A-TGTTAGGCT
113278 C
64 C
* *
113279 AAAACTGATGTATAAATGCATTAAAGCTACATCATTATAACGTGGACGACAAGATGTTAGGCTC
1 AAAACTGATGTATAAATACATTAAAGCCACATCATTATAACGTGGACGACAAGATGTTAGGCTC
113343 AAAACTGAT
1 AAAACTGAT
113352 ATATTCTAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
64 19 0.27
65 1 0.01
66 51 0.72
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (64 bp):
AAAACTGATGTATAAATACATTAAAGCCACATCATTATAACGTGGACGACAAGATGTTAGGCTC
Done.