Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_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: 5469637
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 25
Found at i:743769 original size:14 final size:14
Alignment explanation
Indices: 743750--743783 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
743740 ATTTTAATTT
743750 ATTTAA-TTTTAGTA
1 ATTTAATTTTTAG-A
743764 ATTTAATTTTTAGA
1 ATTTAATTTTTAGA
743778 ATTTAA
1 ATTTAA
743784 AATTTTAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
ATTTAATTTTTAGA
Found at i:743789 original size:15 final size:15
Alignment explanation
Indices: 743750--743792 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
743740 ATTTTAATTT
743750 ATTT-AATTTTAGTA
1 ATTTAAATTTTAGTA
*
743764 ATTTAATTTTTAG-A
1 ATTTAAATTTTAGTA
743778 ATTTAAAATTTTAGT
1 ATTT-AAATTTTAGT
743793 CTTAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (15 bp):
ATTTAAATTTTAGTA
Found at i:753322 original size:21 final size:21
Alignment explanation
Indices: 753296--753338 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
753286 TTTTTTAACT
*
753296 AATATAATTTAATATTAATTA
1 AATATAATTTAACATTAATTA
*
753317 AATATAATTTTACATTAATTA
1 AATATAATTTAACATTAATTA
753338 A
1 A
753339 GAATGAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATAATTTAACATTAATTA
Found at i:762545 original size:11 final size:10
Alignment explanation
Indices: 762530--762558 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
762520 ATTAAAATAA
762530 CAAAAAAATT
1 CAAAAAAATT
762540 CAAAAAAATT
1 CAAAAAAATT
762550 CAAAAAAAT
1 CAAAAAAAT
762559 CGAATAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.17
Consensus pattern (10 bp):
CAAAAAAATT
Found at i:764690 original size:20 final size:20
Alignment explanation
Indices: 764667--764706 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
764657 TTCTAATTTA
764667 ATTTTTTTAATAATAAAAAT
1 ATTTTTTTAATAATAAAAAT
* *
764687 ATTTTTTTATTATTAAAAAT
1 ATTTTTTTAATAATAAAAAT
764707 TAATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTTTTAATAATAAAAAT
Found at i:768030 original size:170 final size:178
Alignment explanation
Indices: 767739--768110 Score: 559
Period size: 170 Copynumber: 2.1 Consensus size: 178
767729 ATTTTCTAAT
* * * *
767739 TTATATAA-AAATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAA
1 TTATATAATATATTTAATA-TTTTTAATTCAAAAAAAGTTTACAAATAATTTAAATAATATATAA
767803 TTATAAAAAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
65 TTATAAAAAAAAATTTTA-AT-AATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
* *
767868 GGAT-TTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTT-AGGCCATATG
128 GGATCTTAAATTATTAATTGGGTTTTAAATGATTTGGG-TTGAGCCCATATG
767918 -TATATAATATATTTAATATTTTTAATT-AAAAAACAGTTTACAAATAATTT-AATAATATAT-A
1 TTATATAATATATTTAATATTTTTAATTCAAAAAA-AGTTTACAAATAATTTAAATAATATATAA
*
767979 TTAT-AATAAAAA-TTT-AT-ATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGG
65 TTATAAAAAAAAATTTTAATAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGG
768040 ATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAGCCCATATG
130 ATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAGCCCATATG
768089 TTATATAATATATTTAATATTT
1 TTATATAATATATTTAATATTT
768111 AAAATTTAAT
Statistics
Matches: 181, Mismatches: 7, Indels: 17
0.88 0.03 0.08
Matches are distributed among these distances:
170 48 0.27
171 41 0.23
172 23 0.13
174 3 0.02
175 7 0.04
176 5 0.03
177 16 0.09
178 30 0.17
179 8 0.04
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (178 bp):
TTATATAATATATTTAATATTTTTAATTCAAAAAAAGTTTACAAATAATTTAAATAATATATAAT
TATAAAAAAAAATTTTAATAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGA
TCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAGCCCATATG
Found at i:769161 original size:13 final size:13
Alignment explanation
Indices: 769143--769184 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
769133 AGAATAGAAA
*
769143 AAAAGCATGCCAC
1 AAAAGCATGACAC
* *
769156 AAAAGCA-GAAAA
1 AAAAGCATGACAC
769168 AAAAGCATGACAC
1 AAAAGCATGACAC
769181 AAAA
1 AAAA
769185 ATATAGAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.62, C:0.19, G:0.14, T:0.05
Consensus pattern (13 bp):
AAAAGCATGACAC
Found at i:769194 original size:25 final size:25
Alignment explanation
Indices: 769136--769195 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
769126 TGCCACAAGA
* *
769136 ATAGAAAAAAAGCATGCCACAAAAGC
1 ATAG-AAAAAAGCATGACACAAAAAC
* * *
769162 AGAAAAAAAAGCATGACACAAAAAT
1 ATAGAAAAAAGCATGACACAAAAAC
769187 ATAGAAAAA
1 ATAGAAAAA
769196 CATGCACAAG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.65, C:0.13, G:0.13, T:0.08
Consensus pattern (25 bp):
ATAGAAAAAAGCATGACACAAAAAC
Found at i:769286 original size:24 final size:25
Alignment explanation
Indices: 769241--769288 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
769231 AAAAACTCAA
769241 GAAAAAAGAAACAAAGATATAATAT
1 GAAAAAAGAAACAAAGATATAATAT
*
769266 GAAAAAGGAAA-AAA-ATAATAATA
1 GAAAAAAGAAACAAAGAT-ATAATA
769289 ATCACCGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 9 0.43
25 10 0.48
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.15
Consensus pattern (25 bp):
GAAAAAAGAAACAAAGATATAATAT
Found at i:773155 original size:19 final size:19
Alignment explanation
Indices: 773131--773169 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
773121 AACTTATGAA
773131 ATTTTAGAAGAA-AAAACAT
1 ATTTTA-AAGAAGAAAACAT
*
773150 ATTTTAAATAAGAAAACAT
1 ATTTTAAAGAAGAAAACAT
773169 A
1 A
773170 AAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (19 bp):
ATTTTAAAGAAGAAAACAT
Found at i:781980 original size:21 final size:21
Alignment explanation
Indices: 781956--782022 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
781946 TTTCACGTAA
781956 ATTTGTGTCTCTTTCATCTTC
1 ATTTGTGTCTCTTTCATCTTC
** * *
781977 ATTT-TAGGGGT-TTTCA-CGTA
1 ATTTGT--GTCTCTTTCATCTTC
781997 AGTTTGTGTCTCTTTCATCTTC
1 A-TTTGTGTCTCTTTCATCTTC
782019 ATTT
1 ATTT
782023 TTATTTTCTC
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
20 6 0.19
21 20 0.62
22 6 0.19
ACGTcount: A:0.13, C:0.18, G:0.15, T:0.54
Consensus pattern (21 bp):
ATTTGTGTCTCTTTCATCTTC
Found at i:781995 original size:42 final size:42
Alignment explanation
Indices: 781937--782023 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
781927 TACCCTTTTA
781937 TTTAGGGGTTTTCACGTAAATTTGTGTCTCTTTCATCTTCAT
1 TTTAGGGGTTTTCACGTAAATTTGTGTCTCTTTCATCTTCAT
*
781979 TTTAGGGGTTTTCACGTAAGTTTGTGTCTCTTTCATCTTCAT
1 TTTAGGGGTTTTCACGTAAATTTGTGTCTCTTTCATCTTCAT
782021 TTT
1 TTT
782024 TATTTTCTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.15, C:0.16, G:0.17, T:0.52
Consensus pattern (42 bp):
TTTAGGGGTTTTCACGTAAATTTGTGTCTCTTTCATCTTCAT
Found at i:783207 original size:26 final size:27
Alignment explanation
Indices: 783178--783271 Score: 72
Period size: 26 Copynumber: 3.6 Consensus size: 27
783168 AGATAAGAAA
783178 AAAAAAGATA-AAATAGTAAGTAATAT
1 AAAAAAGATATAAATAGTAAGTAATAT
* * * * *
783204 AAAAAATATATAAAAAG-AAGAAAAAG
1 AAAAAAGATATAAATAGTAAGTAATAT
* *
783230 AAGAAAA-ATATAAATAATAAATAATAAT
1 AA-AAAAGATATAAATAGTAAGTAAT-AT
783258 AAAAAAG-TA-AAATA
1 AAAAAAGATATAAATA
783272 ATATATATAT
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
26 30 0.58
27 19 0.37
28 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (27 bp):
AAAAAAGATATAAATAGTAAGTAATAT
Found at i:783272 original size:26 final size:28
Alignment explanation
Indices: 783233--783317 Score: 77
Period size: 31 Copynumber: 2.9 Consensus size: 28
783223 GAAAAAGAAG
783233 AAAAATATAAATAATAAATA-ATA-ATA
1 AAAAATATAAATAATAAATATATATATA
783259 AAAAAGTA-AAATAATATATATATATATAATA
1 AAAAA-TATAAATAATA-A-ATATATAT-ATA
* *
783290 AAAACATAAAAAATAGTAAATATATATA
1 AAAA-AT-ATAAATAATAAATATATATA
783318 AATTAATAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
26 13 0.27
27 3 0.06
28 3 0.06
29 3 0.06
30 1 0.02
31 16 0.33
32 3 0.06
33 7 0.14
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.28
Consensus pattern (28 bp):
AAAAATATAAATAATAAATATATATATA
Found at i:783282 original size:41 final size:37
Alignment explanation
Indices: 783237--783381 Score: 132
Period size: 40 Copynumber: 3.7 Consensus size: 37
783227 AAGAAGAAAA
783237 ATATAAATAATAAATAATAATAAAAAAGTAAAATAATATAT
1 ATATAAATAATAAA-AA-AATAAAAAA-TAAAATAA-ATAT
* * *
783278 ATATATATAATAAAAACATAAAAAAT--AGTAAATAT
1 ATATAAATAATAAAAAAATAAAAAATAAAATAAATAT
* *
783313 ATATAAATTAATAAAACGAATAAAAAATAACATAAAATAT
1 ATATAAA-TAATAAAA-AAATAAAAAATAAAAT-AAATAT
**
783353 ATATATGTAATCTAAAAAAATAAAAAATA
1 ATATAAATAA--TAAAAAAATAAAAAATA
783382 TATACTAAAG
Statistics
Matches: 86, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
35 10 0.12
36 12 0.14
37 9 0.10
38 1 0.01
39 12 0.14
40 24 0.28
41 18 0.21
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (37 bp):
ATATAAATAATAAAAAAATAAAAAATAAAATAAATAT
Found at i:783291 original size:31 final size:31
Alignment explanation
Indices: 783253--783318 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
783243 ATAATAAATA
*
783253 ATAATAAAAA-AGTAAAATAATA-TATATATAT
1 ATAATAAAAACA-TAAAA-AATAGTAAATATAT
783284 ATAATAAAAACATAAAAAATAGTAAATATAT
1 ATAATAAAAACATAAAAAATAGTAAATATAT
783315 ATAA
1 ATAA
783319 ATTAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 4 0.12
31 27 0.84
32 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (31 bp):
ATAATAAAAACATAAAAAATAGTAAATATAT
Found at i:783299 original size:39 final size:38
Alignment explanation
Indices: 783237--783381 Score: 141
Period size: 37 Copynumber: 3.7 Consensus size: 38
783227 AAGAAGAAAA
*
783237 ATATAAATAATAAATAATAATAAAAAAGTAAAATAATATAT
1 ATATATATAATAAA-AA-AATAAAAAA-TAAAATAATATAT
* **
783278 ATATATATAATAAAAACATAAAAAATAGTA-AATATAT
1 ATATATATAATAAAAAAATAAAAAATAAAATAATATAT
* * * *
783315 ATAAAT-TAATAAAACGAATAAAAAATAACATAAAATAT
1 ATATATATAATAAAA-AAATAAAAAATAAAATAATATAT
*
783353 ATATATGTAATCTAAAAAAATAAAAAATA
1 ATATATATAA--TAAAAAAATAAAAAATA
783382 TATACTAAAG
Statistics
Matches: 87, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
36 8 0.09
37 23 0.26
38 14 0.16
39 11 0.13
40 13 0.15
41 18 0.21
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (38 bp):
ATATATATAATAAAAAAATAAAAAATAAAATAATATAT
Found at i:783329 original size:35 final size:38
Alignment explanation
Indices: 783187--783381 Score: 108
Period size: 37 Copynumber: 5.2 Consensus size: 38
783177 AAAAAAAGAT
* * * *
783187 AAAATAGTAAGTA-ATATAAAAAATATATAAAAAGAAGAA
1 AAAATAGTAAATATATAT-AAATATA-ATAAAAACAATAA
*
783226 AAAGA-AG-AAA-A-ATAT-AA-ATAATAAATAATAATAA
1 AAA-ATAGTAAATATATATAAATATAATAAA-AACAATAA
** *
783260 AAAAGTAAAATAATATATATATATATAATAAAAAC-ATAA
1 AAAA-TAGTA-AATATATATAAATATAATAAAAACAATAA
783299 AAAATAGTAAATATATATAAAT-TAAT-AAAACGAATAA
1 AAAATAGTAAATATATATAAATATAATAAAAAC-AATAA
* * *
783336 AAAATAACATAAA-ATATATATATGTAATCTAAAAA-AATAA
1 AAAAT-A-GTAAATATATATAAATATAA--TAAAAACAATAA
783376 AAAATA
1 AAAATA
783382 TATACTAAAG
Statistics
Matches: 127, Mismatches: 11, Indels: 36
0.73 0.06 0.21
Matches are distributed among these distances:
33 6 0.05
34 12 0.09
35 8 0.06
36 5 0.04
37 28 0.22
38 16 0.13
39 25 0.20
40 14 0.11
41 9 0.07
42 4 0.03
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (38 bp):
AAAATAGTAAATATATATAAATATAATAAAAACAATAA
Found at i:783369 original size:77 final size:76
Alignment explanation
Indices: 783237--783381 Score: 195
Period size: 77 Copynumber: 1.9 Consensus size: 76
783227 AAGAAGAAAA
* * *
783237 ATATAAATAATAAATAATAATAAAAAAGTAAAATAATATATATATATATAATAAAAACATAAAAA
1 ATATAAATAATAAATAAGAATAAAAAAGTAAAATAAAATATATATATATAATAAAAAAATAAAAA
783302 ATAGTAAATAT
66 ATAGTAAATAT
* * *
783313 ATATAAATTAATAAA-ACGAATAAAAAA-TAACATAAAATATATATATGTAATCTAAAAAAATAA
1 ATATAAA-TAATAAATAAGAATAAAAAAGTAAAATAAAATATATATATATAA--TAAAAAAATAA
783376 AAAATA
63 AAAATA
783382 TATACTAAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
75 20 0.33
76 17 0.28
77 23 0.38
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (76 bp):
ATATAAATAATAAATAAGAATAAAAAAGTAAAATAAAATATATATATATAATAAAAAAATAAAAA
ATAGTAAATAT
Found at i:783941 original size:36 final size:37
Alignment explanation
Indices: 783880--783987 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
783870 TGCTTGTGAA
783880 CCTATTTTTAGGAG-TTGAATCATAGTAAAACT-TAT
1 CCTATTTTTAGGAGTTTGAATCATAGTAAAACTCTAT
*
783915 CTTATTTTTAGGAGTTTGAATCATAGTAAAACTCTAT
1 CCTATTTTTAGGAGTTTGAATCATAGTAAAACTCTAT
* * *
783952 CCTATTTTTAGGAATTTGAATCCTACTAAAACTCTA
1 CCTATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
783988 ACGATTGTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 13 0.20
36 18 0.27
37 35 0.53
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (37 bp):
CCTATTTTTAGGAGTTTGAATCATAGTAAAACTCTAT
Found at i:786520 original size:21 final size:22
Alignment explanation
Indices: 786486--786527 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
786476 CCGAAAATGT
*
786486 TAAAAATCATTAATATTTTAGG
1 TAAAAATCAATAATATTTTAGG
786508 TAAAAAT-AATAATATTTTAG
1 TAAAAATCAATAATATTTTAG
786528 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
TAAAAATCAATAATATTTTAGG
Found at i:786666 original size:2 final size:2
Alignment explanation
Indices: 786659--786739 Score: 146
Period size: 2 Copynumber: 41.0 Consensus size: 2
786649 CTTTTGCATT
786659 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
*
786701 TC TA TA TA TA TA TA TA T- 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
786740 ATTGTTATCT
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 75 0.99
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:787878 original size:3 final size:3
Alignment explanation
Indices: 787861--787924 Score: 69
Period size: 3 Copynumber: 21.7 Consensus size: 3
787851 ATTTTGTTTA
* *
787861 TAT T-T TAT CTAT TAT TAT TAT AAT TAT TAT TAC TAT TAT T-T TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
787905 TAT TCT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TA
787925 CATTTTACAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:790163 original size:2 final size:2
Alignment explanation
Indices: 790112--790150 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
790102 CATATGCATG
*
790112 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
790151 TTATGCCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:793855 original size:25 final size:24
Alignment explanation
Indices: 793794--793890 Score: 76
Period size: 25 Copynumber: 4.0 Consensus size: 24
793784 GCGAAGATCC
*
793794 AATCAAAACAAAGAGAAAAGAGCAAA
1 AATCAAAACAAAGAG-CAAGAG-AAA
*
793820 AA-AAAAACAAAGAGCAGAGAGAAA
1 AATCAAAACAAAGAGCA-AGAGAAA
* *
793844 AATCAAAGCAAA-AACAA-AGAAA
1 AATCAAAACAAAGAGCAAGAGAAA
* *
793866 AATCAAAGAAAAAGATCAA-AGAAA
1 AATCAAA-ACAAAGAGCAAGAGAAA
793890 A
1 A
793891 GCAAAGAACA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
22 12 0.20
23 4 0.07
24 19 0.32
25 22 0.37
26 2 0.03
ACGTcount: A:0.71, C:0.10, G:0.14, T:0.04
Consensus pattern (24 bp):
AATCAAAACAAAGAGCAAGAGAAA
Found at i:793861 original size:11 final size:11
Alignment explanation
Indices: 793839--793890 Score: 70
Period size: 12 Copynumber: 4.5 Consensus size: 11
793829 AAGAGCAGAG
793839 AGAAAAATCAA
1 AGAAAAATCAA
793850 AGCAAAAA-CAA
1 AG-AAAAATCAA
793861 AGAAAAATCAA
1 AGAAAAATCAA
793872 AGAAAAAGATCAA
1 AG-AAAA-ATCAA
793885 AGAAAA
1 AGAAAA
793891 GCAAAGAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 5 0.14
11 12 0.32
12 13 0.35
13 7 0.19
ACGTcount: A:0.73, C:0.10, G:0.12, T:0.06
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:793864 original size:22 final size:24
Alignment explanation
Indices: 793839--793898 Score: 81
Period size: 22 Copynumber: 2.6 Consensus size: 24
793829 AAGAGCAGAG
*
793839 AGAAAAATCAAAGCAAAA-A-CAA
1 AGAAAAATCAAAGAAAAAGATCAA
793861 AGAAAAATCAAAGAAAAAGATCAA
1 AGAAAAATCAAAGAAAAAGATCAA
*
793885 AG-AAAAGCAAAGAA
1 AGAAAAATCAAAGAA
793899 CAAAAAGAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 17 0.50
23 12 0.35
24 5 0.15
ACGTcount: A:0.72, C:0.10, G:0.13, T:0.05
Consensus pattern (24 bp):
AGAAAAATCAAAGAAAAAGATCAA
Found at i:795086 original size:4 final size:4
Alignment explanation
Indices: 795077--795114 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
795067 AAAAGTATAC
795077 ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
795115 GATACATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
4 30 0.94
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:795106 original size:22 final size:21
Alignment explanation
Indices: 795081--795122 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
795071 GTATACACAT
795081 ACATACATACATACATACATAC
1 ACATACATACAT-CATACATAC
*
795103 ACATACATACATGATACATA
1 ACATACATACATCATACATA
795123 AAATTTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (21 bp):
ACATACATACATCATACATAC
Found at i:795109 original size:26 final size:25
Alignment explanation
Indices: 795073--795122 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
795063 CGAGAAAAGT
795073 ATACACATACATACATACATACATAC
1 ATACACATACATACAT-CATACATAC
*
795099 ATACACATACATACATGATACATA
1 ATACACATACATACATCATACATA
795123 AAATTTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (25 bp):
ATACACATACATACATCATACATAC
Found at i:795760 original size:105 final size:102
Alignment explanation
Indices: 795573--795811 Score: 306
Period size: 105 Copynumber: 2.3 Consensus size: 102
795563 TGAGAATTTT
* *
795573 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
795638 TAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TAAAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
795678 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCAC-
* *
795743 TT-AAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
65 TTAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
795780 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
795812 TCTAAAAACA
Statistics
Matches: 120, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 79 0.66
106 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
TAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:795802 original size:36 final size:36
Alignment explanation
Indices: 795757--795876 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
795747 ACAAAGTTGA
**
795757 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
795793 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
795829 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
795863 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
795877 TCATTTTCTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 40 0.57
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:796161 original size:27 final size:27
Alignment explanation
Indices: 796117--796294 Score: 259
Period size: 27 Copynumber: 6.4 Consensus size: 27
796107 AAGACAACTT
796117 CTTTTGAAAAAAATCTTTGAGTTTGTTC
1 CTTTTG-AAAAAATCTTTGAGTTTGTTC
*
796145 CTCTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
*
796172 CTTTTGAATAAAAATCTTGGAGTTTGTTC
1 CTTTTG-A-AAAAATCTTTGAGTTTGTTC
796201 CTTTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
*
796228 CTCTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
*
796255 CTTTTGAATAAAAATCTTTGAG-TTGTTT
1 CTTTTG-A-AAAAATCTTTGAGTTTGTTC
*
796283 CGTTTGAAAAAA
1 CTTTTGAAAAAA
796295 AAATCTTTGA
Statistics
Matches: 138, Mismatches: 8, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
26 5 0.04
27 77 0.56
28 18 0.13
29 38 0.28
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (27 bp):
CTTTTGAAAAAATCTTTGAGTTTGTTC
Found at i:796202 original size:56 final size:55
Alignment explanation
Indices: 796117--796306 Score: 276
Period size: 56 Copynumber: 3.4 Consensus size: 55
796107 AAGACAACTT
*
796117 CTTTTGAAAAAAATCTTTGAGTTTGTTCCTCTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTC
*
796172 CTTTTGAATAAAAATCTTGGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAA-AAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTC
* *
796228 CTCTTG-AAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTTGAG-TTGTTT
1 CTTTTGAAAAAAATCTTTGAGTTTGTTCCTTTTG-A-AAAAATCTTTGAGTTTGTTC
*
796283 CGTTTGAAAAAAAAATCTTTGAGT
1 CTTTTG--AAAAAAATCTTTGAGT
796307 CTATTTATTT
Statistics
Matches: 122, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
54 25 0.20
55 19 0.16
56 63 0.52
58 15 0.12
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (55 bp):
CTTTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTC
Found at i:796295 original size:83 final size:84
Alignment explanation
Indices: 796119--796306 Score: 317
Period size: 83 Copynumber: 2.2 Consensus size: 84
796109 GACAACTTCT
796119 TTTGAAAAAAATCTTTGAGTTTGTTCCTCTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAA
1 TTTGAAAAAAATCTTTGAGTTTGTTCCTCTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAA
*
796184 AATCTTGGAGTTTGTTCCT
66 AATCTTGGAGTTTGTTCCG
796203 TTTG-AAAAAATCTTTGAGTTTGTTCCTCTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAA
1 TTTGAAAAAAATCTTTGAGTTTGTTCCTCTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAA
* *
796267 AATCTTTGAG-TTGTTTCG
66 AATCTTGGAGTTTGTTCCG
796285 TTTGAAAAAAAAATCTTTGAGT
1 TTTG--AAAAAAATCTTTGAGT
796307 CTATTTATTT
Statistics
Matches: 98, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
82 10 0.10
83 69 0.70
84 4 0.04
85 15 0.15
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (84 bp):
TTTGAAAAAAATCTTTGAGTTTGTTCCTCTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAA
AATCTTGGAGTTTGTTCCG
Found at i:796442 original size:30 final size:30
Alignment explanation
Indices: 796408--796648 Score: 124
Period size: 30 Copynumber: 7.3 Consensus size: 30
796398 ATTTTGTGAA
796408 AAAAATCTTTAAGATAATTTCTTTTGAAAC
1 AAAAATCTTTAAGATAATTTCTTTTGAAAC
* * ** *
796438 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTAAGATAATTTCTTTTGAAAC
*
796468 AAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
1 AAAA------ATCT-TTAAGATAATTTCTTTTGAAAC
* * ** *
796505 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTAAGATAATTTCTTTTGAAAC
*
796535 AAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
1 AAAA------ATCT-TTAAGATAATTTCTTTTGAAAC
* ** *
796572 AAAAATCTTTGAG-TCTGTTTCTTTGGAAAC
1 AAAAATCTTTAAGAT-AATTTCTTTTGAAAC
*
796602 AAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
1 AAAA------ATCT-TTAAGATAATTTCTTTTGAAAC
796639 AAAAATCTTT
1 AAAAATCTTT
796649 GAGTCTGTTT
Statistics
Matches: 154, Mismatches: 34, Indels: 46
0.66 0.15 0.20
Matches are distributed among these distances:
29 1 0.01
30 72 0.47
31 9 0.06
36 9 0.06
37 62 0.40
38 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.44
Consensus pattern (30 bp):
AAAAATCTTTAAGATAATTTCTTTTGAAAC
Found at i:796491 original size:67 final size:67
Alignment explanation
Indices: 796416--796696 Score: 510
Period size: 67 Copynumber: 4.2 Consensus size: 67
796406 AAAAAAATCT
*
796416 TTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTC
1 TTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTC
796481 TC
66 TC
*
796483 TTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTC
1 TTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTC
796548 TC
66 TC
796550 TTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTC
1 TTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTC
796615 TC
66 TC
796617 TTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGT-TG
1 TTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCT-
796681 CTC
65 CTC
*
796684 TTAAAATGAATTT
1 TTAAGAT-AATTT
796697 TGTATCTCTT
Statistics
Matches: 210, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
66 1 0.00
67 204 0.97
68 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (67 bp):
TTAAGATAATTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTC
TC
Found at i:796505 original size:37 final size:37
Alignment explanation
Indices: 796455--796642 Score: 156
Period size: 37 Copynumber: 5.5 Consensus size: 37
796445 TTTGAGTTTG
796455 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
* * * * **
796492 TTTCTTTTGAAACAAAA------ATCT-TTGAGTTTG
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
796522 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
* **
796559 TTTCTTTTGAAACAAAAATCTTTG--AGTC-T--G----
1 TTTCTTTGGAAAC-AAAAT-TTTGTCTCTCTTAAGATAA
796589 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
*
796626 TTTCTTTTGAAACAAAA
1 TTTCTTTGGAAACAAAA
796643 ATCTTTGAGT
Statistics
Matches: 114, Mismatches: 19, Indels: 36
0.67 0.11 0.21
Matches are distributed among these distances:
28 4 0.04
29 5 0.04
30 35 0.31
31 4 0.04
33 1 0.01
34 1 0.01
36 4 0.04
37 51 0.45
38 5 0.04
39 4 0.04
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (37 bp):
TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
Found at i:796920 original size:120 final size:121
Alignment explanation
Indices: 796782--797007 Score: 271
Period size: 120 Copynumber: 1.9 Consensus size: 121
796772 TTAACAAAAT
* * * *
796782 CATCTTTGAGTTTATTTCTTTAAAAAC-AAATGTTGTCTCTCTT-GAGACAGTTTCTAATGAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAACAAAAT-TT-TATCTCTTAAAGACAATTTCTAATGAAAA
**
796845 ACTAA-CTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTCACTTAAGATGTGATC
64 AAAAATC-TTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGATC
* ** **
796902 CATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAACAAAATTTTATCTCTTAAAGACAATTTCTAATGAAAAAA
* * *
796967 AAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC
66 AAATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTC
797008 TCGAGACAAC
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
119 7 0.08
120 65 0.74
121 16 0.18
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.42
Consensus pattern (121 bp):
CATCTTTGAGTCTATTTCTTTAAAAACAAAATTTTATCTCTTAAAGACAATTTCTAATGAAAAAA
AAATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGATC
Found at i:796984 original size:66 final size:65
Alignment explanation
Indices: 796903--797029 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 65
796893 GATGTGATCC
* *
796903 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTC-TAAAGACAACTTCTTTTGAAAAAAA
796968 A
65 A
* * **
796969 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAA
797030 TACCCACCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
65 19 0.35
66 36 0.65
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (65 bp):
ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAAAAAA
Found at i:797041 original size:66 final size:66
Alignment explanation
Indices: 796905--797072 Score: 180
Period size: 66 Copynumber: 2.6 Consensus size: 66
796895 TGTGATCCAT
* * * *
796905 CTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAAAAA
1 CTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTTAAAGACAACTTCTTTTGAAAAAAAAA
*
796970 T
66 C
** ***
796971 CTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC-TCGAGACAACTTCTTTTGAAAATACCC
1 CTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTTAAAGACAACTTCTTTTGAAAA-AAAA
797035 AC
65 AC
* * *
797037 CTTTGAGATCGTTT-CTATTAAAAC-AAATTTTGTCTC
1 CTTTGAGTTTGTTTCCT-TTGAAACAAAATTTTGTCTC
797073 GCATGAGACA
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 33 0.38
66 54 0.62
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (66 bp):
CTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTTAAAGACAACTTCTTTTGAAAAAAAAA
C
Found at i:797693 original size:28 final size:28
Alignment explanation
Indices: 797647--797723 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 28
797637 GAGACAGTTG
797647 CTTTTGAAACACATTATCTTTGAGCTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGCTTGTTT
* *
797678 -TTCTTGAAACAAATCTTTGGGTTTGTTT
1 CTT-TTGAAACAAATCTTTGAGCTTGTTT
797706 CTTTTGAAACAAATCTTT
1 CTTTTGAAACAAATCTTT
797724 AATTTGGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 29 0.69
29 2 0.05
30 3 0.07
31 8 0.19
ACGTcount: A:0.25, C:0.14, G:0.13, T:0.48
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGCTTGTTT
Found at i:797733 original size:28 final size:28
Alignment explanation
Indices: 797662--797743 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
797652 GAAACACATT
** *
797662 ATCTTTGAGCTTGTTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
797690 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
797718 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
797744 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:797824 original size:40 final size:41
Alignment explanation
Indices: 797769--797966 Score: 161
Period size: 40 Copynumber: 4.7 Consensus size: 41
797759 TGGCCAGCCG
* *
797769 TCCTCATCATGTAGGAACCGTGTCATCCCCA-AACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCCAGAACCAGATC
* ** *
797809 TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCCAG--AACCAGATC
* * * *
797851 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCATC-CC--CAGA--ACCAGATC
* * *
797898 TCTTCATCACGTATGAGCCGTGTCATCCCCCG-ACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCCAGAACCAGATC
* *
797938 TCTTCATCACGTATGAGCCGTGTCA-CCCC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCC
797967 TAGATAACAA
Statistics
Matches: 130, Mismatches: 18, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
39 4 0.03
40 58 0.45
42 1 0.01
43 31 0.24
44 2 0.02
45 2 0.02
46 31 0.24
47 1 0.01
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.24
Consensus pattern (41 bp):
TCCTCATCACGTAGGAGCCGTGTCATCCCCAGAACCAGATC
Found at i:797986 original size:129 final size:132
Alignment explanation
Indices: 797772--798056 Score: 416
Period size: 129 Copynumber: 2.2 Consensus size: 132
797762 CCAGCCGTCC
* * *
797772 TCATCATGTAGGAACCGTGTCATCCCCAAACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATCCCCAAACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
* *
797837 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCG-TGTTATCA-CCTT-T-AGATGACCAGAAC
66 ATAGATAACAAGCCGTCCTCATCACGTAGGAA-CGAAGTTATCACCCTTCTAAGATGACCAGAAC
797898 TCT
130 TCT
** * * *
797901 TCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCC
1 TCATCACGTATGAGCCGTGTCATCCCCAAACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
*
797966 CTAGATAACAAGCCGTCCTCATCACGTAGGAACGAAGTTATCACCCTTCCTAAAGATGACCAGAA
66 ATAGATAACAAGCCGTCCTCATCACGTAGGAACGAAGTTATCACCCTT-CT-AAGATGACCAGAA
798031 CTCT
129 CTCT
798035 TCATCACGTATGAGCCGTGTCA
1 TCATCACGTATGAGCCGTGTCA
798057 CCCTTAGTTG
Statistics
Matches: 139, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
128 2 0.01
129 94 0.68
130 4 0.03
132 1 0.01
134 38 0.27
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (132 bp):
TCATCACGTATGAGCCGTGTCATCCCCAAACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
ATAGATAACAAGCCGTCCTCATCACGTAGGAACGAAGTTATCACCCTTCTAAGATGACCAGAACT
CT
Found at i:798280 original size:3 final size:3
Alignment explanation
Indices: 798263--798326 Score: 69
Period size: 3 Copynumber: 21.7 Consensus size: 3
798253 ATTTTGTTTA
* *
798263 TAT T-T TAT CTAT TAT TAT TAT AAT TAT TAT TAC TAT TAT T-T TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
798307 TAT TCT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TA
798327 CATTTTACAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:801408 original size:34 final size:34
Alignment explanation
Indices: 801365--801441 Score: 136
Period size: 34 Copynumber: 2.3 Consensus size: 34
801355 TGGTTATGAC
*
801365 ACATTAAACGATCGTTAAATGAACATATTTGTGA
1 ACATTAAACGATCGTTAAATGAACATATTTGTCA
*
801399 ACATTAAACGATCGTTAAATGAATATATTTGTCA
1 ACATTAAACGATCGTTAAATGAACATATTTGTCA
801433 ACATTAAAC
1 ACATTAAAC
801442 AAATATGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (34 bp):
ACATTAAACGATCGTTAAATGAACATATTTGTCA
Found at i:801439 original size:23 final size:23
Alignment explanation
Indices: 801413--801476 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
801403 TAAACGATCG
*
801413 TTAAATGAATATATTTGTCAACA
1 TTAAATGAATATGTTTGTCAACA
** * **
801436 TTAAACAAATATGTTTGTGAATG
1 TTAAATGAATATGTTTGTCAACA
*
801459 TTAAATGAACATGTTTGT
1 TTAAATGAATATGTTTGT
801477 GCATGTTAAG
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (23 bp):
TTAAATGAATATGTTTGTCAACA
Found at i:801477 original size:23 final size:23
Alignment explanation
Indices: 801446--801492 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
801436 TTAAACAAAT
801446 ATGTTTGTGAATGTTAAATGAAC
1 ATGTTTGTGAATGTTAAATGAAC
* *
801469 ATGTTTGTGCATGTTAAGTGAAC
1 ATGTTTGTGAATGTTAAATGAAC
801492 A
1 A
801493 CCATAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (23 bp):
ATGTTTGTGAATGTTAAATGAAC
Found at i:803081 original size:66 final size:66
Alignment explanation
Indices: 802975--803107 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
802965 ATTTTTTCAG
802975 AAAGTAAGAATTTTTCTTAATTTTTTTCATAACAATGGATGATAAAAAACACAAACCTTAATTTA
1 AAAGTAAGAATTTTTCTTAATTTTTTTCATAACAATGGATGATAAAAAACACAAACCTTAATTTA
803040 T
66 T
803041 AAAGTAAGAATTTTTCTTAATTTTTTTCATAACAATGGATGATAAAAAACACAAACCTTAATTTA
1 AAAGTAAGAATTTTTCTTAATTTTTTTCATAACAATGGATGATAAAAAACACAAACCTTAATTTA
803106 T
66 T
803107 A
1 A
803108 GCCCCAATCC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.38
Consensus pattern (66 bp):
AAAGTAAGAATTTTTCTTAATTTTTTTCATAACAATGGATGATAAAAAACACAAACCTTAATTTA
T
Found at i:803205 original size:14 final size:15
Alignment explanation
Indices: 803179--803208 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
803169 AAGTGATGAG
803179 TTCCATGGTGACCGT
1 TTCCATGGTGACCGT
803194 TTCCAT-GTGACCGT
1 TTCCATGGTGACCGT
803208 T
1 T
803209 GCTGTTGCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.13, C:0.27, G:0.23, T:0.37
Consensus pattern (15 bp):
TTCCATGGTGACCGT
Found at i:804303 original size:18 final size:18
Alignment explanation
Indices: 804280--804318 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
804270 TGATGTATAT
804280 TTTATTATTCTTGAAATG
1 TTTATTATTCTTGAAATG
* *
804298 TTTATTATTGTTGATATG
1 TTTATTATTCTTGAAATG
804316 TTT
1 TTT
804319 TTACGACACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.62
Consensus pattern (18 bp):
TTTATTATTCTTGAAATG
Found at i:806979 original size:115 final size:114
Alignment explanation
Indices: 806773--807119 Score: 633
Period size: 115 Copynumber: 3.0 Consensus size: 114
806763 TTAGAAGTTT
806773 GATATGTTTAAATATGTCTGGAGCTTGAGTAATTGTATATACAAAAAATTCTAGTTGAGAGACTC
1 GATATGTTTAAATATGTCTGGAGCTTGAGTAATTGTATATACAAAAAATTCTAGTTGAGAGACTC
*
806838 ACCTACCAAAACTAAATATGTGTCGCAAATCGATCCGAATTAATCATGAC
66 ACCTACCAAAACTAAATATG-ATCGCAAATCGATCCGAATTAATCATGAC
806888 GATATGTTTAAATATGTCTGGAGCTTGAGTAATTGTATATACAAAAAATTCTAGTTGAGAGACTC
1 GATATGTTTAAATATGTCTGGAGCTTGAGTAATTGTATATACAAAAAATTCTAGTTGAGAGACTC
806953 ACCTACCAAAACTAAATATGCATCGCAAATCGATCCGAATTAATCATGAC
66 ACCTACCAAAACTAAATATG-ATCGCAAATCGATCCGAATTAATCATGAC
*
807003 GATATGTTTAAATATGTTTGGAGCTTGAGTAATTGTATATACAAAAAATTCTAGTTGAGAGACTC
1 GATATGTTTAAATATGTCTGGAGCTTGAGTAATTGTATATACAAAAAATTCTAGTTGAGAGACTC
807068 ACCTACCAAAACTAAATAT-ATGACGCAAATCGATCCGAATTAATCATGAC
66 ACCTACCAAAACTAAATATGAT--CGCAAATCGATCCGAATTAATCATGAC
807118 GA
1 GA
807120 AGTTTTAGAA
Statistics
Matches: 227, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
113 2 0.01
115 225 0.99
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (114 bp):
GATATGTTTAAATATGTCTGGAGCTTGAGTAATTGTATATACAAAAAATTCTAGTTGAGAGACTC
ACCTACCAAAACTAAATATGATCGCAAATCGATCCGAATTAATCATGAC
Found at i:807379 original size:18 final size:18
Alignment explanation
Indices: 807338--807385 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
807328 TTTCTTGATG
*
807338 TATGTTTTATTATTCTTGA
1 TATG-TTTATTATTCTTCA
* *
807357 AATGTTTATTATTGTTCA
1 TATGTTTATTATTCTTCA
807375 TATGTTT-TTAT
1 TATGTTTATTAT
807386 GACAGGGCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 4 0.16
18 18 0.72
19 3 0.12
ACGTcount: A:0.23, C:0.04, G:0.10, T:0.62
Consensus pattern (18 bp):
TATGTTTATTATTCTTCA
Found at i:810386 original size:27 final size:27
Alignment explanation
Indices: 810348--810408 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
810338 CAAATGCTCC
*
810348 CAAGTTCCTCTATATAATCCTCTCACT
1 CAAGCTCCTCTATATAATCCTCTCACT
810375 CAAGCTCCTCTATATAATCCTCTCACT
1 CAAGCTCCTCTATATAATCCTCTCACT
810402 CAAGCTC
1 CAAGCTC
810409 TTTTCAGCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.36, G:0.05, T:0.33
Consensus pattern (27 bp):
CAAGCTCCTCTATATAATCCTCTCACT
Found at i:831166 original size:23 final size:23
Alignment explanation
Indices: 831116--831173 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
831106 CACCACAGCT
*
831116 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
831139 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
831162 TGTAGAAATGCA
1 CGTAGAAATGCA
831174 TATATAATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:833465 original size:17 final size:16
Alignment explanation
Indices: 833443--833484 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
833433 TCATCAGTTC
833443 TTATCAATCAAAATCA
1 TTATCAATCAAAATCA
* *
833459 TTAATCAATCAAATTCC
1 TT-ATCAATCAAAATCA
833476 TTATCAATC
1 TTATCAATC
833485 TTTAATTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (16 bp):
TTATCAATCAAAATCA
Found at i:836153 original size:23 final size:23
Alignment explanation
Indices: 836127--836192 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
836117 CACCACAGCT
*
836127 CGTATAAATACACCGAAGTGCCA
1 CGTAGAAATACACCGAAGTGCCA
* * *
836150 CGTAGAATTACACCGTAGTGCCG
1 CGTAGAAATACACCGAAGTGCCA
* *
836173 TGTAGAAATGCACCGAAGTG
1 CGTAGAAATACACCGAAGTG
836193 TCATATAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCA
Found at i:838549 original size:17 final size:16
Alignment explanation
Indices: 838527--838568 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
838517 TCATCAGTTC
838527 TTATCAATCAAAATCA
1 TTATCAATCAAAATCA
* *
838543 TTAATCAATCAAATTCC
1 TT-ATCAATCAAAATCA
838560 TTATCAATC
1 TTATCAATC
838569 TTTAATTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (16 bp):
TTATCAATCAAAATCA
Found at i:841238 original size:23 final size:23
Alignment explanation
Indices: 841204--841272 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
841194 CACCACAGCT
*
841204 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
841227 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
841250 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
841273 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:849194 original size:172 final size:175
Alignment explanation
Indices: 848900--849245 Score: 671
Period size: 172 Copynumber: 2.0 Consensus size: 175
848890 GACAAGGCCA
848900 CTGTAGATTTTAATGTAGACTTCCAACTTACAGGGGCTTTAGCAAGAGTAAACAAATACCCAGTA
1 CTGTAGATTTTAATGTAGACTTCCAACTTACAGGGGCTTTAGCAAGAGTAAACAAATACCCAGTA
848965 GTTGATCGACGCTTATCCAAATCACCAGCATAATCGGAATCAACATATCCAACCATAC-CTGACC
66 GTTGATCGACGCTTATCCAAATCACCAGCATAATCGGAATCAACATATCCAACCATACACTGACC
849029 AAGTGCTTCATCCTGTTC-AAAACTAAACCAACATCCACGGTTTT
131 AAGTGCTTCATCCTGTTCAAAAACTAAACCAACATCCACGGTTTT
849073 CTGTAGA-TTTAATGTAGACTTCCAACTTACAGGGGCTTTAGCAAGAGTAAACAAATACCCAGTA
1 CTGTAGATTTTAATGTAGACTTCCAACTTACAGGGGCTTTAGCAAGAGTAAACAAATACCCAGTA
849137 GTTGATCGACGCTTATCCAAATCACCAGCATAATCGGAATCAACATATCCAACCATACACTGACC
66 GTTGATCGACGCTTATCCAAATCACCAGCATAATCGGAATCAACATATCCAACCATACACTGACC
849202 AAGTGCTTCATCCTGTTCAAAAACTAAACCAACATCCACGGTTT
131 AAGTGCTTCATCCTGTTCAAAAACTAAACCAACATCCACGGTTT
849246 GTTGGAGATA
Statistics
Matches: 171, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
172 115 0.67
173 31 0.18
174 25 0.15
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.25
Consensus pattern (175 bp):
CTGTAGATTTTAATGTAGACTTCCAACTTACAGGGGCTTTAGCAAGAGTAAACAAATACCCAGTA
GTTGATCGACGCTTATCCAAATCACCAGCATAATCGGAATCAACATATCCAACCATACACTGACC
AAGTGCTTCATCCTGTTCAAAAACTAAACCAACATCCACGGTTTT
Found at i:850009 original size:21 final size:21
Alignment explanation
Indices: 849985--850029 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
849975 GCTCCAAATT
849985 CAACTGTGCTACCAAGGCCAA
1 CAACTGTGCTACCAAGGCCAA
850006 CAACTGTGCTACCAAGGCCAA
1 CAACTGTGCTACCAAGGCCAA
850027 CAA
1 CAA
850030 TATTCTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.33, G:0.18, T:0.13
Consensus pattern (21 bp):
CAACTGTGCTACCAAGGCCAA
Found at i:876823 original size:13 final size:14
Alignment explanation
Indices: 876805--876839 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
876795 TCTATACTTT
*
876805 ACCCTAACTTA-AA
1 ACCCTAAATTATAA
876818 ACCCTAAATTATAA
1 ACCCTAAATTATAA
876832 ACCCTAAA
1 ACCCTAAA
876840 CCCTAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.23
Consensus pattern (14 bp):
ACCCTAAATTATAA
Found at i:887894 original size:19 final size:19
Alignment explanation
Indices: 887850--887895 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
887840 ACTTTTGATA
* * *
887850 TTTATTATAAAGTTTATTT
1 TTTATTTTAAAGTCTAATT
887869 TTTATTTTAAAGTCTAATT
1 TTTATTTTAAAGTCTAATT
887888 TTTATTTT
1 TTTATTTT
887896 TGAAATCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTATTTTAAAGTCTAATT
Found at i:889897 original size:12 final size:12
Alignment explanation
Indices: 889880--889913 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
889870 GAAAATAAAG
889880 AAAACTTAATGT
1 AAAACTTAATGT
*
889892 AAAACTTGATGT
1 AAAACTTAATGT
889904 AAAAC-TAATG
1 AAAACTTAATG
889914 GCCCTAGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (12 bp):
AAAACTTAATGT
Found at i:891018 original size:9 final size:9
Alignment explanation
Indices: 890999--891028 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
890989 CAATTTTTGC
890999 TTCTCTTTTT
1 TTCT-TTTTT
891009 TTCTTTTTT
1 TTCTTTTTT
891018 TTCTTTTTT
1 TTCTTTTTT
891027 TT
1 TT
891029 TCAATGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:892155 original size:15 final size:15
Alignment explanation
Indices: 892109--892157 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
892099 AAAATAATAT
*
892109 AAAAATAAAAAGAAC
1 AAAAATAAAAAGAAA
*
892124 GAAAATAAAAATTGAAA
1 AAAAATAAAAA--GAAA
*
892141 AAAAAGAAAAAGAAA
1 AAAAATAAAAAGAAA
892156 AA
1 AA
892158 TTGGGTTGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 16 0.57
17 12 0.43
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (15 bp):
AAAAATAAAAAGAAA
Found at i:895812 original size:12 final size:12
Alignment explanation
Indices: 895795--895828 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
895785 AAAATAAAGA
895795 AAAACTTAATGT
1 AAAACTTAATGT
*
895807 AAAACTTGATGT
1 AAAACTTAATGT
895819 AAAAC-TAATG
1 AAAACTTAATG
895829 GCCCTAGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (12 bp):
AAAACTTAATGT
Found at i:901589 original size:25 final size:25
Alignment explanation
Indices: 901540--901589 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
901530 ATTAAGTCAT
*
901540 TTCGATTATAGATAAGGAGATCGAG
1 TTCGATTATAGATAAGGAGACCGAG
*
901565 TTCGATTATAGATAAGGAGGCCGAG
1 TTCGATTATAGATAAGGAGACCGAG
901590 GTTGGCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (25 bp):
TTCGATTATAGATAAGGAGACCGAG
Found at i:903373 original size:156 final size:157
Alignment explanation
Indices: 903120--903492 Score: 459
Period size: 157 Copynumber: 2.4 Consensus size: 157
903110 GTGGTATATA
* * * *
903120 AGCAGGTGGTTCAAATTT-GATAAAAAAAAAGGACTTAAAATAAATCAAAAATTGAAGGAATAAG
1 AGCATGTGGTTCAAATTTAG-T-AAAAAAAA-GACTTAAAATAAATGAAGAATTGAAGAAATAAG
* * * * ** *
903184 GAGGTTATGAAAATTGAATGATTAAATTGGAAAATA-AAAATTTCTTATCAAAAAGAGGAATTGA
63 AAGATTATGAAAATTGAAGGACTAAATTGGAAAATACAAAAAATCTTATCAAAAAGAGAAATTGA
* *
903248 AAGTACACATGTATTCT-TCTATGGTTTAGG
128 AAGCACACATGTATTCTAT-TATAGTTTAGG
* * *
903278 ATCATGTGGCTCAAATTTAGTAAAAAAAAGACTTAAAATAAATGACGAATTGAAGAAATAAGAAG
1 AGCATGTGGTTCAAATTTAGTAAAAAAAAGACTTAAAATAAATGAAGAATTGAAGAAATAAGAAG
*
903343 ATTATGAAAAATTGAAGGACTAAATT-GAAAATACAAAAAATGTTATCAAAAAGAGAAATTGAAA
66 ATTATG-AAAATTGAAGGACTAAATTGGAAAATACAAAAAATCTTATCAAAAAGAGAAATTGAAA
903407 GCACACATGTATTCTATTATAGTTTAGG
130 GCACACATGTATTCTATTATAGTTTAGG
* ** * * *
903435 AGCATGTAGTTCAAATTTAGT-AAAAATGGACTTAAAATGAAGGAGGAATTGAAGAAAT
1 AGCATGTGGTTCAAATTTAGTAAAAAAAAGACTTAAAATAAATGAAGAATTGAAGAAAT
903493 TATGAAATCG
Statistics
Matches: 186, Mismatches: 25, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
156 75 0.40
157 93 0.50
158 17 0.09
159 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (157 bp):
AGCATGTGGTTCAAATTTAGTAAAAAAAAGACTTAAAATAAATGAAGAATTGAAGAAATAAGAAG
ATTATGAAAATTGAAGGACTAAATTGGAAAATACAAAAAATCTTATCAAAAAGAGAAATTGAAAG
CACACATGTATTCTATTATAGTTTAGG
Found at i:918348 original size:60 final size:60
Alignment explanation
Indices: 918238--918393 Score: 174
Period size: 60 Copynumber: 2.6 Consensus size: 60
918228 AGAAATTAGG
* * * * *
918238 GAAATTGAAATATTCAAAAAGTTTGGGGACCAATTTAGGATGAATATCATAGCTT-GGGAAT
1 GAAATTGAAATGTTC-AAAAGTTTGAGGACTAATTTAGAATGAATATCATAGCTTAAGG-AT
* *
918299 GAAATTGAAATGTTCAAAAGTTTGAGGACTAATTTAGAAT-AATAGTCATAGTTTAATGAT
1 GAAATTGAAATGTTCAAAAGTTTGAGGACTAATTTAGAATGAATA-TCATAGCTTAAGGAT
* *
918359 GAAATTGAAGTGTTTAAAAGTTT-AGGGACTAATTT
1 GAAATTGAAATGTTCAAAAGTTTGA-GGACTAATTT
918394 GAAATGAGGT
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
59 5 0.06
60 63 0.76
61 15 0.18
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (60 bp):
GAAATTGAAATGTTCAAAAGTTTGAGGACTAATTTAGAATGAATATCATAGCTTAAGGAT
Found at i:920299 original size:89 final size:89
Alignment explanation
Indices: 920148--920326 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
920138 GATGACCTTT
920148 TTCTTCTTAACCAATAGCAGGGATAAAGGGACCAAAGAGGGAAGAATGTTCTTAAAAAGTGAATG
1 TTCTTCTTAACCAATAGCAGGGATAAAGGGACCAAAGAGGGAAGAATGTTCTTAAAAAGTGAATG
920213 AGAGGACCACAATTATCTTGTGTG
66 AGAGGACCACAATTATCTTGTGTG
920237 TTCTTCTTAACCAATAGCAGGGATAAAGGGACCAAAGAGGGAAGAATGTTCTTAAAAAGTGAATG
1 TTCTTCTTAACCAATAGCAGGGATAAAGGGACCAAAGAGGGAAGAATGTTCTTAAAAAGTGAATG
920302 AGAGGACCACAATTATCTTGTGTG
66 AGAGGACCACAATTATCTTGTGTG
920326 T
1 T
920327 GTGTGTCGGG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (89 bp):
TTCTTCTTAACCAATAGCAGGGATAAAGGGACCAAAGAGGGAAGAATGTTCTTAAAAAGTGAATG
AGAGGACCACAATTATCTTGTGTG
Found at i:925455 original size:21 final size:22
Alignment explanation
Indices: 925430--925483 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
925420 TTAGAAAAAG
*
925430 GATCGATCCCTTTGACCAA-A-T
1 GATCGATCCCTTGGA-CAACAGT
*
925451 GATCGATACCTTGGACAACAGT
1 GATCGATCCCTTGGACAACAGT
925473 G-TCGATCCCTT
1 GATCGATCCCTT
925484 CACCAAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 23 0.82
22 2 0.07
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (22 bp):
GATCGATCCCTTGGACAACAGT
Found at i:927543 original size:23 final size:23
Alignment explanation
Indices: 927517--927561 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
927507 CACCACAGCT
*
927517 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
927540 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
927562 ATATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:929298 original size:21 final size:21
Alignment explanation
Indices: 929274--929314 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
929264 AATTGTTCGT
* *
929274 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
929295 TTGAATGGGTACCGATTCCC
1 TTGAAGGGGTACCGATTCCC
929315 TTGCCCAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.29
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:933806 original size:21 final size:21
Alignment explanation
Indices: 933755--933807 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
933745 ATTATGACTA
933755 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
933776 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
933797 TCGCAATGCGA
1 TCGCAATGCGA
933808 ATATGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:933822 original size:20 final size:21
Alignment explanation
Indices: 933797--933848 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
933787 TTTTCCCAAT
*
933797 TCGCAATGCGAATAT-GTAAA
1 TCGCAATGCGAATATGGAAAA
*
933817 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATATGGAAAA
*
933838 TCGCAACGCGA
1 TCGCAATGCGA
933849 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATATGGAAAA
Found at i:933861 original size:41 final size:41
Alignment explanation
Indices: 933834--933971 Score: 136
Period size: 41 Copynumber: 3.4 Consensus size: 41
933824 GCGAATTTGG
933834 AAAATCGCAACGCGATACTGACTATCGCAACACGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACACGATAATAC
* * * * *
933875 AAAATCGCAATGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACTATCGCAACACGATAATAC
** * * * *
933915 AATTTTGCAACTCAATACTGACTTTCGCAACGA-GATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAAC-ACGATAATAC
* *
933956 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
933972 TTTCAAAGCG
Statistics
Matches: 74, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
40 30 0.41
41 44 0.59
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACACGATAATAC
Found at i:933862 original size:20 final size:20
Alignment explanation
Indices: 933837--933951 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
933827 AATTTGGAAA
933837 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
933857 ATCGCAACACGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
933878 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
933898 TTCGCAACTCGATACTTAAT
1 ATCGCAACGCGATACTGACT
* * * *
933918 TTTGCAACTCAATACTGACT
1 ATCGCAACGCGATACTGACT
* *
933938 TTCGCAACGAGATA
1 ATCGCAACGCGATA
933952 ATACATAATC
Statistics
Matches: 72, Mismatches: 20, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
19 2 0.03
20 55 0.76
21 13 0.18
22 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:934172 original size:22 final size:22
Alignment explanation
Indices: 934144--934187 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
934134 CACTCTCTCA
934144 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
934166 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
934188 TATCTCCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:934500 original size:20 final size:20
Alignment explanation
Indices: 934451--934509 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
934441 TTTATTCTCT
* **
934451 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
934471 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
934491 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
934510 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:935727 original size:18 final size:18
Alignment explanation
Indices: 935706--935753 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
935696 TCCACTTCGG
935706 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
935724 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
935742 GAGCCATCACCT
1 GAGCCATCACCT
935754 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:936146 original size:18 final size:18
Alignment explanation
Indices: 936123--936172 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
936113 TTTACTCGTA
*
936123 ATTTCACTTATATTAACC
1 ATTTCACTTAGATTAACC
936141 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
936159 ATTTCACTTAGATT
1 ATTTCACTTAGATT
936173 GCTTAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:936366 original size:19 final size:20
Alignment explanation
Indices: 936323--936378 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
936313 CGCAACATGA
936323 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* * *
936343 AAATGGCTATCTCAATGC-G
1 AAATGACTATCGCAACGCGG
**
936362 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
936379 ACAAATCGCA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:936502 original size:19 final size:19
Alignment explanation
Indices: 936469--936573 Score: 113
Period size: 20 Copynumber: 5.4 Consensus size: 19
936459 GCGATTTTGT
*
936469 CGTTGCGAT-TTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
936487 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
*
936507 CGTTGCGATAGTCATTCCG
1 CGTTGCGATAGTCATTTCG
936526 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
* *
936546 CGTTGCGAAAGTAAGTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
936566 TGTTGCGA
1 CGTTGCGA
936574 AAGTAAACTA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
18 8 0.11
19 21 0.29
20 44 0.60
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:936532 original size:39 final size:38
Alignment explanation
Indices: 936469--936553 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 38
936459 GCGATTTTGT
* *
936469 CGTTGCGATTTCATTTCGCATTGCGATAGCCATTTCCG
1 CGTTGCGATGTCATTCCGCATTGCGATAGCCATTTCCG
* * *
936507 CGTTGCGATAGTCATTCCGCGTTGCGATAGTCATTTTCG
1 CGTTGCGAT-GTCATTCCGCATTGCGATAGCCATTTCCG
936546 CGTTGCGA
1 CGTTGCGA
936554 AAGTAAGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 9 0.22
39 32 0.78
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (38 bp):
CGTTGCGATGTCATTCCGCATTGCGATAGCCATTTCCG
Found at i:936977 original size:21 final size:21
Alignment explanation
Indices: 936921--936977 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
936911 CACTTGTCAT
936921 TCCTCAAGAGTCCCCTCCAATCA
1 TCCTCAAGAGT-CCC-CCAATCA
* *
936944 T--TCAAGAG-GCCCCTATCA
1 TCCTCAAGAGTCCCCCAATCA
936962 TCCTCAAGAGTCCCCC
1 TCCTCAAGAGTCCCCC
936978 CCACCGTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
18 7 0.25
19 2 0.07
20 7 0.25
21 11 0.39
23 1 0.04
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.21
Consensus pattern (21 bp):
TCCTCAAGAGTCCCCCAATCA
Found at i:937003 original size:40 final size:41
Alignment explanation
Indices: 936915--937003 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 41
936905 CCGACTCACT
* *
936915 TGTCATTCCTCAAGAGTCCCCTCCAATCATTCAAGAGGCCCC
1 TGTCA-TCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCAC
* * *
936957 TATCATCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCAC
1 TGTCATCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCAC
936997 TGTCATC
1 TGTCATC
937004 GTTGAAGAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 22 0.54
41 15 0.37
42 4 0.10
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.22
Consensus pattern (41 bp):
TGTCATCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCAC
Found at i:938546 original size:14 final size:14
Alignment explanation
Indices: 938527--938580 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
938517 CGAAATGACT
938527 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
938541 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
938560 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
*
938574 ATTGCAA
1 ATCGCAA
938581 TGCGATTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 17 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.32
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:938554 original size:33 final size:33
Alignment explanation
Indices: 938508--938585 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
938498 AAAACAGACT
** **
938508 ATCGCAACACGAAATGACTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
938541 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
938574 ATTGCAATGCGA
1 ATCGCAATGCGA
938586 TTCATTTCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:938573 original size:19 final size:19
Alignment explanation
Indices: 938537--938573 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
938527 ATCGCAACGA
* *
938537 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAACGAGAAAT
938556 GAAAATCGCAACGAGAAA
1 GAAAATCGCAACGAGAAA
938574 ATTGCAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.11
Consensus pattern (19 bp):
GAAAATCGCAACGAGAAAT
Found at i:939672 original size:23 final size:23
Alignment explanation
Indices: 939635--939679 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
939625 AATTTGATCT
939635 TGGTCAATACCCGGACTTTGATA
1 TGGTCAATACCCGGACTTTGATA
* * *
939658 TGGTCATTACTCGGATTTTGAT
1 TGGTCAATACCCGGACTTTGAT
939680 GATGTTTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (23 bp):
TGGTCAATACCCGGACTTTGATA
Found at i:939870 original size:12 final size:12
Alignment explanation
Indices: 939853--939877 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
939843 ATATAATCCT
939853 GAAGAAGAAAAA
1 GAAGAAGAAAAA
939865 GAAGAAGAAAAA
1 GAAGAAGAAAAA
939877 G
1 G
939878 TCTCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:942248 original size:33 final size:33
Alignment explanation
Indices: 942206--942332 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
942196 GGAAATTACT
* *
942206 ATCGCAATGCGAAATGAAAATCACAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
942239 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
942272 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
942305 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
942333 TAAATTTAGT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:942262 original size:19 final size:18
Alignment explanation
Indices: 942206--942330 Score: 85
Period size: 19 Copynumber: 7.4 Consensus size: 18
942196 GGAAATTACT
942206 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
* *
942225 ATCACAA-CG--A-GATA
1 ATCGCAAGCGAAATGAAA
942239 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
942258 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
942272 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
942291 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
942305 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
942324 ATCGCAA
1 ATCGCAA
942331 CGTAAATTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 31
0.66 0.08 0.25
Matches are distributed among these distances:
14 26 0.32
15 5 0.06
16 6 0.07
17 6 0.07
18 5 0.06
19 33 0.41
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:942361 original size:19 final size:19
Alignment explanation
Indices: 942337--942408 Score: 75
Period size: 19 Copynumber: 4.1 Consensus size: 19
942327 GCAACGTAAA
*
942337 TTTAGTTTCGTGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
942356 TTTAGTTTCGCGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
942375 TTT-G--T--CGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
*
942389 TTTCA-TTTCGCATTGCGAT
1 TTT-AGTTTCGCGTTGCGAT
942408 T
1 T
942409 CTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
14 12 0.27
16 1 0.02
17 1 0.02
18 1 0.02
19 30 0.67
ACGTcount: A:0.11, C:0.15, G:0.24, T:0.50
Consensus pattern (19 bp):
TTTAGTTTCGCGTTGCGAT
Found at i:942390 original size:33 final size:33
Alignment explanation
Indices: 942348--942472 Score: 180
Period size: 33 Copynumber: 3.8 Consensus size: 33
942338 TTAGTTTCGT
* * *
942348 GTTGCGATTTT-AGTTTCGCGTTGCGATTTTGTC
1 GTTGCGATTTTCA-TTTCGCATTGCGATTATATC
* *
942381 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTATATC
942414 GTTGCGATTTTCATTTCGCATTGCGATTATATC
1 GTTGCGATTTTCATTTCGCATTGCGATTATATC
*
942447 GTTGCGCTTTTCATTTCGCATTGCGA
1 GTTGCGATTTTCATTTCGCATTGCGA
942473 CAGTAATTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
33 84 0.99
34 1 0.01
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.46
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTATATC
Found at i:942439 original size:19 final size:19
Alignment explanation
Indices: 942382--942472 Score: 85
Period size: 19 Copynumber: 5.3 Consensus size: 19
942372 GATTTTGTCG
942382 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
942401 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
942415 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
942434 TTGCGA--TT-ATATCG--
1 TTGCGATTTTCATTTCGCA
*
942448 TTGCGCTTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
942467 TTGCGA
1 TTGCGA
942473 CAGTAATTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
14 11 0.20
16 14 0.25
17 14 0.25
19 17 0.30
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:942601 original size:14 final size:14
Alignment explanation
Indices: 942582--942616 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
942572 TCAATTAAAG
942582 AAATCAACTTTTAC
1 AAATCAACTTTTAC
*
942596 AAATCACCTTTTAC
1 AAATCAACTTTTAC
942610 AAATCAA
1 AAATCAA
942617 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATCAACTTTTAC
Found at i:944029 original size:21 final size:21
Alignment explanation
Indices: 943964--944029 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
943954 TGAATCGGGT
*
943964 TCTTGAATGGTGGGA-GGGACC
1 TCTTGAACGGTGGGAGGGGA-C
* * ** * *
943985 TCTTCAACGATGACAGTGGCC
1 TCTTGAACGGTGGGAGGGGAC
944006 TCTTGAACGGTGGGAGGGGAC
1 TCTTGAACGGTGGGAGGGGAC
944027 TCT
1 TCT
944030 CGAGGAATGA
Statistics
Matches: 31, Mismatches: 13, Indels: 2
0.67 0.28 0.04
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (21 bp):
TCTTGAACGGTGGGAGGGGAC
Found at i:944048 original size:42 final size:42
Alignment explanation
Indices: 944002--944081 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
943992 CGATGACAGT
* * *
944002 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
944044 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
944082 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:944478 original size:91 final size:90
Alignment explanation
Indices: 944303--944487 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
944293 ATTTCAAACT
*
944303 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
944368 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
944396 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
944460 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
944487 T
1 T
944488 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:946222 original size:14 final size:14
Alignment explanation
Indices: 946203--946258 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
946193 GGAAATGACT
946203 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
946217 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
946234 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
946250 ATCGCAACG
1 ATCGCAACG
946259 TGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:946234 original size:33 final size:33
Alignment explanation
Indices: 946182--946277 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 33
946172 AAATAATGAA
*
946182 AATCTCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGACTATCGCAACGAGAG
946216 AATCGCAACGCGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGAAATGACTATCGCAACGAGAG
* **
946249 AATCGCAACGTGAAATGAAAATCGCAACG
1 AATCGCAACGCGAAATGACTATCGCAACG
946278 CGAAATGAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 48 0.83
34 10 0.17
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAACGCGAAATGACTATCGCAACGAGAG
Found at i:946277 original size:52 final size:52
Alignment explanation
Indices: 946216--946332 Score: 189
Period size: 52 Copynumber: 2.2 Consensus size: 52
946206 GCAACGAGAG
** **
946216 AATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCAACGTGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCAAAATGAA
946268 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCAAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCAAAATGAA
*
946320 AATCGCAATGCGA
1 AATCGCAACGCGA
946333 TTTTGGTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.12
Consensus pattern (52 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCAAAATGAA
Found at i:946323 original size:19 final size:19
Alignment explanation
Indices: 946216--946332 Score: 101
Period size: 19 Copynumber: 6.7 Consensus size: 19
946206 GCAACGAGAG
*
946216 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
* *
946235 TATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
946249 AATCGCAACGTGAAATGAA
1 AATCGCAACGCGAAATGAA
946268 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
946287 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
946301 AATCGCAACGCAAAATGAA
1 AATCGCAACGCGAAATGAA
*
946320 AATCGCAATGCGA
1 AATCGCAACGCGA
946333 TTTTGGTTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 2 0.03
17 4 0.05
18 2 0.03
19 48 0.62
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:947652 original size:21 final size:21
Alignment explanation
Indices: 947610--947652 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
947600 TTTCTGTGCT
* *
947610 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
947631 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
947652 A
1 A
947653 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:948385 original size:23 final size:23
Alignment explanation
Indices: 948341--948385 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
948331 ATTATTATAT
*
948341 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
948364 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
948386 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:954464 original size:21 final size:21
Alignment explanation
Indices: 954422--954464 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
954412 TTTCTGGGCT
* *
954422 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
954443 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
954464 A
1 A
954465 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:954858 original size:14 final size:15
Alignment explanation
Indices: 954821--954860 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
954811 ATTATGAGAC
954821 ATGACATGAATTCAT
1 ATGACATGAATTCAT
* *
954836 ATAAAATGAATT-AT
1 ATGACATGAATTCAT
954850 ATGACATGAAT
1 ATGACATGAAT
954861 ATGCAGGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (15 bp):
ATGACATGAATTCAT
Found at i:955197 original size:23 final size:23
Alignment explanation
Indices: 955153--955197 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
955143 ATTATTATAT
* *
955153 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
955176 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
955198 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:955852 original size:21 final size:20
Alignment explanation
Indices: 955788--955879 Score: 123
Period size: 20 Copynumber: 4.5 Consensus size: 20
955778 GCTATGTAAA
* *
955788 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
955808 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
955828 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
955849 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
955869 TCGCATTGCGA
1 TCGCATTGCGA
955880 AATATGAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
19 3 0.05
20 43 0.67
21 18 0.28
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:955858 original size:41 final size:41
Alignment explanation
Indices: 955806--956002 Score: 170
Period size: 41 Copynumber: 4.8 Consensus size: 41
955796 CGATAGTAAG
* *
955806 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAA
* *
955847 ATTCGCATTGCGATTTACGTATTCGCATTGCGAAATAT-GAA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCCAA
* ** * * * ***
955888 AATCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAAA
1 ATTCGCATTGCGATTTACGT-ATTCGCATTGCG-ATTATCCAA
* *
955930 ATT-GCATTGCGATAGT-CAGTA-TCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGAT-TTAC-GTATTCGCATTGCGATTATCCAA
*
955970 ATTCGCATTGCGATTTACTTATTCGCATTGCGA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGA
956003 ATTGGGAAAA
Statistics
Matches: 123, Mismatches: 24, Indels: 18
0.75 0.15 0.11
Matches are distributed among these distances:
40 16 0.13
41 95 0.77
42 9 0.07
43 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAA
Found at i:955900 original size:21 final size:21
Alignment explanation
Indices: 955876--955931 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
955866 TATTCGCATT
*
955876 GCGAAATATGAAAATCGCAAC
1 GCGAAATACGAAAATCGCAAC
* *
955897 GCG-AATACGTAAATCGCAAT
1 GCGAAATACGAAAATCGCAAC
* *
955917 GCGAATTAGGAAAAT
1 GCGAAATACGAAAAT
955932 TGCATTGCGA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (21 bp):
GCGAAATACGAAAATCGCAAC
Found at i:955940 original size:21 final size:20
Alignment explanation
Indices: 955869--955941 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
955859 ATTTACGTAT
* *
955869 TCGCATTGCGAAATATGAAAA
1 TCGCAATGCG-AATACGAAAA
* *
955890 TCGCAACGCGAATACGTAAA
1 TCGCAATGCGAATACGAAAA
*
955910 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGAAAA
* *
955931 TTGCATTGCGA
1 TCGCAATGCGA
955942 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGAAAA
Found at i:955995 original size:20 final size:21
Alignment explanation
Indices: 955951--956025 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
955941 ATAGTCAGTA
*
955951 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
955972 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
* *** *
955992 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGATTTTACAAAT
956013 TCGCATTGCGATT
1 TCGCATTGCGATT
956026 GTCATAATCG
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 17 0.40
21 26 0.60
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:956017 original size:41 final size:41
Alignment explanation
Indices: 955808--956025 Score: 163
Period size: 41 Copynumber: 5.3 Consensus size: 41
955798 ATAGTAAGAT
* * * ** *
955808 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACTTATTCGCATTGCGAATTACGAAAA
* * *
955849 TCGCATTGCGATTTACGTATTCGCATTGCGAAATATGAAAA
1 TCGCATTGCGATTTACTTATTCGCATTGCGAATTACGAAAA
** * * * * *
955890 TCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCATTGCGATTTAC-TTATTCGCATTGCGAATTACGAAAA
* * * * * * *
955931 TTGCATTGCGA--TAGTCAGTATCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTACTTA-T-TCGCATTGCGAATTACGAAAA
**
955972 TCGCATTGCGATTTACTTATTCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGATTTACTTATTCGCATTGCGAATTACGAAAA
956013 TCGCATTGCGATT
1 TCGCATTGCGATT
956026 GTCATAATCG
Statistics
Matches: 136, Mismatches: 36, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
39 2 0.01
40 5 0.04
41 124 0.91
42 1 0.01
43 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (41 bp):
TCGCATTGCGATTTACTTATTCGCATTGCGAATTACGAAAA
Found at i:956034 original size:20 final size:20
Alignment explanation
Indices: 955933--956041 Score: 80
Period size: 20 Copynumber: 5.3 Consensus size: 20
955923 TAGGAAAATT
*
955933 GCATTGCGATAGTCAGT-ATC
1 GCATTGCGATTGTCA-TAATC
*
955953 GCATTGCGATTTTCCA-AATTC
1 GCATTGCGATTGT-CATAA-TC
* *
955974 GCATTGCGATT-TACTTATTC
1 GCATTGCGATTGT-CATAATC
** *
955994 GCATTGCGAATTGGGAAAATC
1 GCATTGCG-ATTGTCATAATC
956015 GCATTGCGATTGTCATAATC
1 GCATTGCGATTGTCATAATC
*
956035 GCGTTGC
1 GCATTGC
956042 AAATCTGGAA
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
20 39 0.57
21 30 0.43
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (20 bp):
GCATTGCGATTGTCATAATC
Found at i:956693 original size:2 final size:2
Alignment explanation
Indices: 956686--956729 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
956676 TCTATTTTCA
956686 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
956728 AT
1 AT
956730 GTTTGTGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:968013 original size:64 final size:64
Alignment explanation
Indices: 967912--968039 Score: 195
Period size: 64 Copynumber: 2.0 Consensus size: 64
967902 CGTTTTGCAA
*
967912 TAAAACTGTTTTGAAAGTTAGCCTCCATATGTCCAAGATTGAAGTCTAAAAACCCATATCAACT
1 TAAAACTGTTTTGAAAGTTAGCCTCCATATGTCCAAGATTGAAGTATAAAAACCCATATCAACT
* * * *
967976 TAAAACT-TTTTCGGAAGTTAGCGTCCATATGTCCAAGATTGAAGTATGAAAATCCATATCAACT
1 TAAAACTGTTTT-GAAAGTTAGCCTCCATATGTCCAAGATTGAAGTATAAAAACCCATATCAACT
968040 AGAGGCATGC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 4 0.07
64 54 0.93
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (64 bp):
TAAAACTGTTTTGAAAGTTAGCCTCCATATGTCCAAGATTGAAGTATAAAAACCCATATCAACT
Done.