Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004786.1 Hibiscus syriacus cultivar Beakdansim tig00010790_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: 128271
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:20296 original size:28 final size:28
Alignment explanation
Indices: 20256--20313 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
20246 GTTTTTTTTT
*
20256 TTTTTTTTGATAAATCGAGATGGGTTTA
1 TTTTTTTTGATAAATCGAGACGGGTTTA
20284 TTTTTTTTGATAAATCGAGACGGGTTTA
1 TTTTTTTTGATAAATCGAGACGGGTTTA
20312 TT
1 TT
20314 GAGAGAAGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (28 bp):
TTTTTTTTGATAAATCGAGACGGGTTTA
Found at i:24389 original size:15 final size:15
Alignment explanation
Indices: 24369--24404 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
24359 CTATTGGCGA
24369 GTGAGTAAACTACTG
1 GTGAGTAAACTACTG
24384 GTGAGTAAACTACTG
1 GTGAGTAAACTACTG
24399 GTGAGT
1 GTGAGT
24405 CTCAGAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.28
Consensus pattern (15 bp):
GTGAGTAAACTACTG
Found at i:30135 original size:8 final size:8
Alignment explanation
Indices: 30122--30159 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
30112 ACAAAATGTG
30122 TACATATA
1 TACATATA
30130 TACATATA
1 TACATATA
*
30138 TATATATA
1 TACATATA
30146 TA-ATATA
1 TACATATA
30153 -ACATATA
1 TACATATA
30160 AGTGAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 1 0.04
7 10 0.36
8 17 0.61
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (8 bp):
TACATATA
Found at i:30277 original size:200 final size:199
Alignment explanation
Indices: 30059--30466 Score: 691
Period size: 200 Copynumber: 2.0 Consensus size: 199
30049 TAATAGAAAA
*
30059 AAAAATAATGTAAATAAATATAATAATAAAGAAGTAAAGAAATAGGGTAAAATACAAAATGTGTA
1 AAAACTAATGTAAATAAATATAATAATAAAGAAGTAAAGAAATAGGGTAAAATACAAAATGTGTA
30124 CATATATACATAT-ATATATATATAATATAACATATAAGTGAAATAATACTATACTAATAATAAA
66 CATATATACATATAATATATATATAATATAACATATAAGTGAAATAATACTATACT-A-AAT--A
*
30188 TGTATACGAATGTATAAAAACTAATAATAATAT-AAA-ATATAT-AATATTATAATGT-ATATAA
127 --TATACGAATGTAAAAAAACTAATAATAATATAAAACATATATAAATATTATAATGTAATATAA
30249 AAAGATAATT
190 AAAGATAATT
30259 AAAACTAATGTAAATAAATATAATAATAAAGAAGTAAAGAAATAGGGTAAAATACAAAATGTGTA
1 AAAACTAATGTAAATAAATATAATAATAAAGAAGTAAAGAAATAGGGTAAAATACAAAATGTGTA
*
30324 CGTATATACATATACATATATATATAATATAACATATAAGTGAAATAATACTATACTAAATATAT
66 CATATATACATATA-ATATATATATAATATAACATATAAGTGAAATAATACTATACTAAATATAT
30389 ACGAATGTAAAAAAACTAATAATAATATAAAACATATATAAATATTATAATGTAATATAAAAAGA
130 ACGAATGTAAAAAAACTAATAATAATATAAAACATATATAAATATTATAATGTAATATAAAAAGA
30454 TAATT
195 TAATT
30459 AAAACTAA
1 AAAACTAA
30467 AATCCAGAGA
Statistics
Matches: 199, Mismatches: 3, Indels: 12
0.93 0.01 0.06
Matches are distributed among these distances:
196 30 0.15
197 3 0.02
198 7 0.04
199 13 0.07
200 103 0.52
201 1 0.01
202 42 0.21
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (199 bp):
AAAACTAATGTAAATAAATATAATAATAAAGAAGTAAAGAAATAGGGTAAAATACAAAATGTGTA
CATATATACATATAATATATATATAATATAACATATAAGTGAAATAATACTATACTAAATATATA
CGAATGTAAAAAAACTAATAATAATATAAAACATATATAAATATTATAATGTAATATAAAAAGAT
AATT
Found at i:30349 original size:18 final size:18
Alignment explanation
Indices: 30326--30361 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
30316 AATGTGTACG
30326 TATATACATAT-ACATATA
1 TATATA-ATATAACATATA
30344 TATATAATATAACATATA
1 TATATAATATAACATATA
30362 AGTGAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (18 bp):
TATATAATATAACATATA
Found at i:32220 original size:105 final size:105
Alignment explanation
Indices: 31986--33108 Score: 1951
Period size: 105 Copynumber: 10.7 Consensus size: 105
31976 GTATATAGCT
* **** * * *
31986 CCTTCGTCGCGAAGTTGAACTTATACTGTCTTGAATCCAATATCCCTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* * * * *
32051 GGCTCTGAAGTTGGGAAGTTATTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTC
*
32092 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGCAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
32157 GGCTCTGGAATTGAGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
* *
32197 CCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
32262 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
32302 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* * *
32367 GGCTCTGAAATTGGGAAGT-TGTTGTTGACAAGCAGCGGTC
66 GGCTCTGAAATTGAGAAATGT-TTGTTGACAACCAGCGGTC
*
32407 CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
32472 GGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
*
32512 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
32577 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
*
32617 CCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
32682 GGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
32722 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
32787 GGCTCTGAAATTGAGAAACGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
*
32827 CCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
32892 GGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
32932 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
32997 GGCTCTGAAATTGAGAAACGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
*
33037 CCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
33102 GGCTCTG
66 GGCTCTG
33109 GGTAAAACCT
Statistics
Matches: 972, Mismatches: 43, Indels: 5
0.95 0.04 0.00
Matches are distributed among these distances:
104 1 0.00
105 900 0.93
106 71 0.07
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
Found at i:33912 original size:50 final size:50
Alignment explanation
Indices: 33836--33931 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
33826 TTCTTTCCTC
* * *
33836 TTTTTCTTTTTTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCTAAACGT
1 TTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGT
* * *
33886 TTTTTTTTTTTTTAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
33932 GCGAAGTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.48
Consensus pattern (50 bp):
TTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGT
Found at i:43348 original size:20 final size:20
Alignment explanation
Indices: 43310--43353 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
43300 ACGGTTAGTA
*
43310 AAATAAAAATAAATGGAAAT
1 AAATAAAAATAAATAGAAAT
43330 AAATAAAAATAACA-AGAAAT
1 AAATAAAAATAA-ATAGAAAT
43350 AAAT
1 AAAT
43354 GTTAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (20 bp):
AAATAAAAATAAATAGAAAT
Found at i:44497 original size:13 final size:13
Alignment explanation
Indices: 44469--44546 Score: 52
Period size: 13 Copynumber: 5.8 Consensus size: 13
44459 CATGTAAAAT
44469 AAAAAAAATAATG
1 AAAAAAAATAATG
44482 AAAATAAAATAA-G
1 AAAA-AAAATAATG
*
44495 AAAAAATATATAT-
1 AAAAAAAATA-ATG
* *
44508 ATATAACAATAATAG
1 A-AAAAAAATAAT-G
44523 AAAAAAAAATAATG
1 -AAAAAAAATAATG
* *
44537 TAAATAAATA
1 AAAAAAAATA
44547 TAATAATAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
12 5 0.10
13 21 0.42
14 14 0.28
15 9 0.18
16 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (13 bp):
AAAAAAAATAATG
Found at i:44603 original size:8 final size:8
Alignment explanation
Indices: 44590--44627 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
44580 ACAAAATGTG
44590 TACATATA
1 TACATATA
44598 TACATATA
1 TACATATA
*
44606 TATATATA
1 TACATATA
44614 TA-ATATA
1 TACATATA
44621 -ACATATA
1 TACATATA
44628 AGTGAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 1 0.04
7 10 0.36
8 17 0.61
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (8 bp):
TACATATA
Found at i:44757 original size:205 final size:199
Alignment explanation
Indices: 44527--44939 Score: 720
Period size: 205 Copynumber: 2.0 Consensus size: 199
44517 TAATAGAAAA
*
44527 AAAAATAATGTAAATAAATATAATAATAAAGAAGTAAAGAAATAGGGTAAAATACAAAATGTGTA
1 AAAACTAATGTAAATAAATATAATAATAAAGAAGTAAAGAAATAGGGTAAAATACAAAATGTGTA
44592 CATATATACATAT-ATATATATATAATATAACATATAAGTGAAATAATACTATACTAATAATAAA
66 CATATATACATATAATATATATATAATATAACATATAAGTGAAATAATACTATACT-A-AAT--A
*
44656 TGTATACGAATGTATAAAAAACTAATAATAATATAAAATATATATAAATATTATAATGTAATATA
127 --TATACGAATGTA-AAAAAACTAATAATAATATAAAACATATATAAATATTATAATGTAATATA
44721 AAAAGATAATT
189 AAAAGATAATT
44732 AAAACTAATGTAAATAAATATAATAATAAAGAAGTAAAGAAATAGGGTAAAATACAAAATGTGTA
1 AAAACTAATGTAAATAAATATAATAATAAAGAAGTAAAGAAATAGGGTAAAATACAAAATGTGTA
*
44797 CGTATATACATATACATATATATATAATATAACATATAAGTGAAATAATACTATACTAAATATAT
66 CATATATACATATA-ATATATATATAATATAACATATAAGTGAAATAATACTATACTAAATATAT
44862 ACGAATGTAAAAAAACTAATAATAATATAAAACATATATAAATATTATAATGTAATATAAAAAGA
130 ACGAATGTAAAAAAACTAATAATAATATAAAACATATATAAATATTATAATGTAATATAAAAAGA
44927 TAATT
195 TAATT
44932 AAAACTAA
1 AAAACTAA
44940 AATCCAGAGA
Statistics
Matches: 203, Mismatches: 3, Indels: 9
0.94 0.01 0.04
Matches are distributed among these distances:
200 68 0.33
201 12 0.06
203 1 0.00
205 79 0.39
206 1 0.00
207 42 0.21
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.30
Consensus pattern (199 bp):
AAAACTAATGTAAATAAATATAATAATAAAGAAGTAAAGAAATAGGGTAAAATACAAAATGTGTA
CATATATACATATAATATATATATAATATAACATATAAGTGAAATAATACTATACTAAATATATA
CGAATGTAAAAAAACTAATAATAATATAAAACATATATAAATATTATAATGTAATATAAAAAGAT
AATT
Found at i:44822 original size:18 final size:18
Alignment explanation
Indices: 44799--44834 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
44789 AATGTGTACG
44799 TATATACATAT-ACATATA
1 TATATA-ATATAACATATA
44817 TATATAATATAACATATA
1 TATATAATATAACATATA
44835 AGTGAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (18 bp):
TATATAATATAACATATA
Found at i:47412 original size:21 final size:23
Alignment explanation
Indices: 47388--47434 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
47378 ATTGAAATTT
47388 TATT-GAAAAAA-TATTATTAAA
1 TATTCGAAAAAATTATTATTAAA
*
47409 TATTCCTAAAAAATTATTATTAAA
1 TATT-CGAAAAAATTATTATTAAA
47433 TA
1 TA
47435 ATTTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
23 6 0.27
24 12 0.55
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
TATTCGAAAAAATTATTATTAAA
Found at i:52054 original size:21 final size:22
Alignment explanation
Indices: 52025--52066 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
52015 GTATAATATA
52025 TAAATAAATTTAAAATTAAAAT
1 TAAATAAATTTAAAATTAAAAT
**
52047 TAAA-AAATTTTTAATTAAAA
1 TAAATAAATTTAAAATTAAAA
52067 AAATGTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATAAATTTAAAATTAAAAT
Found at i:54498 original size:226 final size:226
Alignment explanation
Indices: 54104--54563 Score: 805
Period size: 226 Copynumber: 2.0 Consensus size: 226
54094 AAGAGTTGTG
*
54104 ATTTTCTTCCGCTTTTAGGGTTGTTTTGGTGATTTTGTGATTGAATTGGTGTCTTCAAATGCTTG
1 ATTTTCTTCCGCTTTTAGGGTTGTTTTGGTGATTTTGCGATTGAATTGGTGTCTTCAAATGCTTG
* * *
54169 TTCTTTGATTAAGGAAAATAGACTCTGTTGAAATATTCTGTTTAGATGTATGCGTTATTATTCAG
66 TTCTATGATTAAGGAAAATAGACTCTGTTGAAATATGCTGTCTAGATGTATGCGTTATTATTCAG
*
54234 GGAAATAGAATACAAAATTTTCCATCTTTTCTTTTAACCTGAAATTCAGGCTTTTCATAAATATT
131 GGAAATAGAATACAAAATTTTCCATCTTTTCTTTTAACCTGAAAATCAGGCTTTTCATAAATATT
* *
54299 TTTGAAAAGTTGGAGGCGTTTGTCATAGTAT
196 TTTCAAAAGCTGGAGGCGTTTGTCATAGTAT
** *
54330 ATTTTCTTCCGCTTTTAGTTTTGTTTTGGTGATTTTGCGATTGAATTGGCT-TCTTCGAATGCTT
1 ATTTTCTTCCGCTTTTAGGGTTGTTTTGGTGATTTTGCGATTGAATTGG-TGTCTTCAAATGCTT
54394 GTTCTATGATTAAGGAAAATAGACTCTGTTGAAATATGCTGTCTAGATGTATGCGTTATTATTCA
65 GTTCTATGATTAAGGAAAATAGACTCTGTTGAAATATGCTGTCTAGATGTATGCGTTATTATTCA
*
54459 GGGAAATAGAATGCAAAATTTTCCATCTTTTCTTTTAACCTGAAAATCAGGCTTTTCATAAATAT
130 GGGAAATAGAATACAAAATTTTCCATCTTTTCTTTTAACCTGAAAATCAGGCTTTTCATAAATAT
54524 TTTTCAAAAGCTGGAGGCGTTTGTCATAGTAT
195 TTTTCAAAAGCTGGAGGCGTTTGTCATAGTAT
54556 ATTTTCTT
1 ATTTTCTT
54564 GTAAATTTGG
Statistics
Matches: 222, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
226 221 1.00
227 1 0.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (226 bp):
ATTTTCTTCCGCTTTTAGGGTTGTTTTGGTGATTTTGCGATTGAATTGGTGTCTTCAAATGCTTG
TTCTATGATTAAGGAAAATAGACTCTGTTGAAATATGCTGTCTAGATGTATGCGTTATTATTCAG
GGAAATAGAATACAAAATTTTCCATCTTTTCTTTTAACCTGAAAATCAGGCTTTTCATAAATATT
TTTCAAAAGCTGGAGGCGTTTGTCATAGTAT
Found at i:59595 original size:173 final size:176
Alignment explanation
Indices: 59306--59657 Score: 548
Period size: 173 Copynumber: 2.0 Consensus size: 176
59296 TGGTTTGACA
* * *
59306 TCTGATATTTTATCTTTCAAAGTAACAACTTTATATGAAAATTTTGGCTCGCTGCAAAAGCATTT
1 TCTGATATTTTATCTTTCAAAGTAACAACTTTACATGAAAATTTTGACTCGCTGCAAAAGAATTT
* *
59371 CATCTGATATGAATATGCAGTTGAAGCTTTAGGTTGAACTCTGTGGAAAATCTTCAATGTAAATC
66 CATCTGATATGAATATGCAGTTGAAGCTTTAGATTGAACTCTGTGGAAAATCTTCAATATAAATC
*
59436 GTTC-AT-ATC-ATGCATTCATTTTATGTCAAAACCACTTTATATG
131 GTTCAATAATCTATGCAATCATTTTATGTCAAAACCACTTTATATG
* * * *
59479 TCTGATATTTTATCTTTTAAATTAACAGCTTTACATGAAAATTTTTACTCGCTGCAAAAGAATTT
1 TCTGATATTTTATCTTTCAAAGTAACAACTTTACATGAAAATTTTGACTCGCTGCAAAAGAATTT
59544 CATCTGATATGAATATGCAGTTGAAGCTTTAGATTGAACTCTGTGGAAAATCTTCAATATAAATC
66 CATCTGATATGAATATGCAGTTGAAGCTTTAGATTGAACTCTGTGGAAAATCTTCAATATAAATC
59609 GTTCATATAATCATATTATGCAATCATTTTATGTCAAAACCACTTTATA
131 GTTCA-ATAATC----TATGCAATCATTTTATGTCAAAACCACTTTATA
59658 CATAGCAAAA
Statistics
Matches: 161, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
173 125 0.78
175 2 0.01
176 3 0.02
181 31 0.19
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (176 bp):
TCTGATATTTTATCTTTCAAAGTAACAACTTTACATGAAAATTTTGACTCGCTGCAAAAGAATTT
CATCTGATATGAATATGCAGTTGAAGCTTTAGATTGAACTCTGTGGAAAATCTTCAATATAAATC
GTTCAATAATCTATGCAATCATTTTATGTCAAAACCACTTTATATG
Found at i:76478 original size:31 final size:31
Alignment explanation
Indices: 76415--76483 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
76405 TCTCCTAAAT
* *
76415 CCCTAAACTTAAAACCATAGATCTTTATGAA
1 CCCTAAACTTAAAACCATAAATCTCTATGAA
*
76446 CCCTAAACTTAAATCCATAAATCTACTA-GAA
1 CCCTAAACTTAAAACCATAAATCT-CTATGAA
*
76477 CCTTAAA
1 CCCTAAA
76484 TTCCTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.28
Consensus pattern (31 bp):
CCCTAAACTTAAAACCATAAATCTCTATGAA
Found at i:78618 original size:21 final size:20
Alignment explanation
Indices: 78532--78689 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
78522 AAAAGACCAA
**
78532 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
78551 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
78571 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
78591 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
78612 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
78633 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
78653 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
78674 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
78690 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:78699 original size:20 final size:20
Alignment explanation
Indices: 78656--78849 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
78646 CGATTTTCCA
* ** *
78656 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
78676 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
78696 AAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
78716 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
78736 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
78756 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
78776 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
78796 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
78816 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
78837 AAATCGCAACGCG
1 AAATCGCAACGCG
78850 ATATTTAAAG
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:78740 original size:60 final size:60
Alignment explanation
Indices: 78656--78849 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
78646 CGATTTTCCA
* ** * *
78656 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGT
* * ***
78716 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAA-TGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACT-CGTATCCGT
* ** *
78776 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACTCGTATCCGT
78837 AAATCGCAACGCG
1 AAATCGCAACGCG
78850 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
59 1 0.01
60 80 0.72
61 30 0.27
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGT
Found at i:79271 original size:33 final size:33
Alignment explanation
Indices: 79232--79302 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
79222 TTCACTTAGA
*
79232 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
79265 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
79298 TTTCA
1 TTTCA
79303 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:79439 original size:41 final size:41
Alignment explanation
Indices: 79381--79458 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
79371 TTGCAGAAGA
*
79381 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
79422 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
79459 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:79455 original size:21 final size:21
Alignment explanation
Indices: 79382--79457 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
79372 TGCAGAAGAG
*
79382 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
79403 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
79423 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
79444 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
79458 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:79461 original size:14 final size:14
Alignment explanation
Indices: 79442--79498 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
79432 GAGAAATGAA
79442 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
79456 AATCGCAACGCGATATAAA
1 AATCGCAA--CG--A-GAG
79475 AATCGCAACGAGAG
1 AATCGCAACGAGAG
79489 AATCGCAACG
1 AATCGCAACG
79499 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:79510 original size:33 final size:33
Alignment explanation
Indices: 79440--79514 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
79430 GAGAGAAATG
* *
79440 AAAATCGCAACGAGAGAATCGCAACGCGATATA
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACA
*
79473 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACA
79506 AAAATCGCA
1 AAAATCGCA
79515 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACA
Found at i:79532 original size:19 final size:19
Alignment explanation
Indices: 79510--79607 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
79500 GAAACCAAAA
*
79510 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
79529 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
79543 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
79562 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
79576 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
79595 TCGCGTTGCGATT
1 TCGCGTTGCGATT
79608 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:79551 original size:14 final size:14
Alignment explanation
Indices: 79532--79621 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
79522 TTTCATTTCG
79532 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
79546 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
79565 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
79579 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
79598 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
79612 CGTTGCGATT
1 CGTTGCGATT
79622 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:79557 original size:33 final size:33
Alignment explanation
Indices: 79515--79629 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
79505 CAAAATCGCA
79515 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
79548 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
79581 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
79614 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
79630 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:81484 original size:93 final size:93
Alignment explanation
Indices: 81325--82071 Score: 1462
Period size: 93 Copynumber: 8.1 Consensus size: 93
81315 TAGATTGCTT
*
81325 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81390 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81418 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81483 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81511 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81576 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81604 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81669 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81697 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81762 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81790 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81855 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
81883 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACAATGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81948 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81975 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
82040 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
82067 AGTAA
1 AGTAA
82072 TGCAATCCAT
Statistics
Matches: 650, Mismatches: 3, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
92 97 0.15
93 553 0.85
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:82143 original size:19 final size:19
Alignment explanation
Indices: 82119--82246 Score: 98
Period size: 19 Copynumber: 7.3 Consensus size: 19
82109 TAGTTTACTT
* *
82119 TCGCAACACGAAACTTAAA
1 TCGCAACGCGAAACTAAAA
*
82138 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
82157 TCGCAACGCGAAA-TAAAAA
1 TCGCAACGCGAAACT-AAAA
*
82176 TCGCAA--CG--AC-AGAA
1 TCGCAACGCGAAACTAAAA
*
82190 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
* *
82209 TCGCAA--TG--AC-AAGA
1 TCGCAACGCGAAACTAAAA
*
82223 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
82242 TCGCA
1 TCGCA
82247 TTGCGATTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 18 0.21
15 3 0.03
16 3 0.03
17 3 0.03
18 4 0.05
19 56 0.64
ACGTcount: A:0.46, C:0.28, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:82197 original size:33 final size:32
Alignment explanation
Indices: 82154--82246 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
82144 CGCGAAACCA
**
82154 AAATCGCAACGCGAAATAAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
*
82186 AGAATCGCAACGCGAAACCAAAATCGCAATGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
82219 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
82247 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.47, C:0.27, G:0.17, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:82244 original size:52 final size:51
Alignment explanation
Indices: 82119--82246 Score: 118
Period size: 52 Copynumber: 2.5 Consensus size: 51
82109 TAGTTTACTT
* **
82119 TCGCAACACGAAACTTAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACGCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
*** * *
82170 TAAAAATCGC--AACGACAGAATCGCAACGCGAAACCAAAATCGCAATGAC-AAGA
1 TCGCAA-CGCGAAAC--CAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
82223 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
82247 TTGCGATTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
50 3 0.05
51 3 0.05
52 44 0.76
53 5 0.09
54 3 0.05
ACGTcount: A:0.46, C:0.28, G:0.16, T:0.09
Consensus pattern (51 bp):
TCGCAACGCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:82280 original size:21 final size:19
Alignment explanation
Indices: 82242--82360 Score: 114
Period size: 19 Copynumber: 6.8 Consensus size: 19
82232 GAAACCAAAA
82242 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
82261 TCGCGTTGCGA--TTC-TT
1 TCGCATTGCGATTTTCATT
82277 T--CATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
82294 TCGCATTGCGA--TTC-TG
1 TCGCATTGCGATTTTCATT
82310 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* **
82327 TCGCGTTGCGATTTTGGTT
1 TCGCATTGCGATTTTCATT
*
82346 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
82361 AAGTTTCGTG
Statistics
Matches: 84, Mismatches: 6, Indels: 20
0.76 0.05 0.18
Matches are distributed among these distances:
14 13 0.15
16 13 0.15
17 13 0.15
19 45 0.54
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:82287 original size:33 final size:33
Alignment explanation
Indices: 82245--82339 Score: 163
Period size: 33 Copynumber: 2.9 Consensus size: 33
82235 ACCAAAATCG
*
82245 CATTGCGATTTTCATTTCGCGTTGCGATTCTTT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTGT
*
82278 CATTGCGATTTTCATTTCGCATTGCGATTCTGT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTGT
*
82311 CGTTGCGATTTTCATTTCGCGTTGCGATT
1 CATTGCGATTTTCATTTCGCGTTGCGATT
82340 TTGGTTTCGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.46
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCGTTGCGATTCTGT
Found at i:82368 original size:20 final size:19
Alignment explanation
Indices: 82311--82376 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
82301 GCGATTCTGT
82311 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTT-AGTTTCG
*
82330 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
82349 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
*
82369 TGTTGCGA
1 CGTTGCGA
82377 AAGTAAACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.11, C:0.17, G:0.27, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:84323 original size:14 final size:14
Alignment explanation
Indices: 84304--84339 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
84294 ATTGTTTAAT
84304 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
84318 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
84332 TGATTTGT
1 TGATTTGT
84340 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:84462 original size:19 final size:19
Alignment explanation
Indices: 84446--84490 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
84436 AAAAATGACT
84446 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
84465 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
84484 ATTGCAA
1 ATCGCAA
84491 CGAGAGAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:84555 original size:52 final size:52
Alignment explanation
Indices: 84515--84725 Score: 404
Period size: 52 Copynumber: 4.0 Consensus size: 52
84505 TGCGTTTATA
84515 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
84567 ATTTCGCATTGCGATTCTCTCTTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
84619 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
84671 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
84724 AT
1 AT
84726 GTTGGGATTT
Statistics
Matches: 156, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 139 0.89
53 17 0.11
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:84557 original size:33 final size:33
Alignment explanation
Indices: 84515--84667 Score: 161
Period size: 33 Copynumber: 4.5 Consensus size: 33
84505 TGCGTTTATA
84515 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
84548 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * *
84588 -TTT-GCGATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGC-A-TTGCGATTCTCTCGTTGCGATTTTC
84619 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
84652 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
84668 TTCATTTCGC
Statistics
Matches: 99, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
31 5 0.05
32 8 0.08
33 54 0.55
35 5 0.05
36 4 0.04
37 2 0.02
38 10 0.10
39 6 0.06
40 5 0.05
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:84561 original size:19 final size:19
Alignment explanation
Indices: 84537--84753 Score: 231
Period size: 19 Copynumber: 12.4 Consensus size: 19
84527 GATTCTCTCG
84537 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
84556 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
84575 TTGCGA--TTC---TCTCT
1 TTGCGATTTTCATTTCGCA
84589 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
84608 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
84627 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
84641 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
84660 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
84679 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
84693 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
84713 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
84727 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
84746 TTGCGATT
1 TTGCGATT
84754 GTAATTTCCG
Statistics
Matches: 167, Mismatches: 10, Indels: 42
0.76 0.05 0.19
Matches are distributed among these distances:
14 32 0.19
16 19 0.11
17 16 0.10
18 3 0.02
19 85 0.51
20 12 0.07
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:84697 original size:33 final size:33
Alignment explanation
Indices: 84556--84753 Score: 188
Period size: 33 Copynumber: 5.8 Consensus size: 33
84546 TCATTTCGCA
*
84556 TTGCGATTTTCATTTCGCATTGCGATTCTCTCT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
84589 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
84625 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
84660 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
84693 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
84727 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
84754 GTAATTTCCG
Statistics
Matches: 136, Mismatches: 16, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
31 9 0.07
32 5 0.04
33 62 0.46
34 29 0.21
35 6 0.04
36 3 0.02
37 2 0.01
38 8 0.06
39 3 0.02
40 9 0.07
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:87977 original size:20 final size:20
Alignment explanation
Indices: 87949--88178 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 20
87939 AAATTTCAGT
* * *
87949 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
87969 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
87989 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
88009 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
88029 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
88049 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
88069 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
88089 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
88109 GTTGCGATTTACGGATACGA
1 GTTGCGATTTACGGATTCGC
*
88129 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
88149 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
88169 GTTGCGATTT
1 GTTGCGATTT
88179 TGGAAAATCG
Statistics
Matches: 180, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 179 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:88172 original size:60 final size:59
Alignment explanation
Indices: 88028--88300 Score: 169
Period size: 60 Copynumber: 4.5 Consensus size: 59
88018 TACGGATTAT
* * * * **** *
88028 CGTTGCGATTTACGGATACGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACG
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTTACGGATACG-ATTGCGATTTATGTGTTCG
* * * *
88088 CGTTGCGATTTACGGATACACGTTGCGATTTACGGATACGAGTTGCGATTTATGTGTTCG
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTTACGGATACGA-TTGCGATTTATGTGTTCG
* * * * * *
88148 CGTTGCGATTTTCATATTCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TGTACTATCG
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTTACGG-ATA-CG-ATTGCGATTTATGT-GT-TCG
* * * * * *
88210 CATTGCGATTTTCAAGAATCGCGTTGCGATTT-TGGAAACTGATTTGCGA-TTATGGGGATCG
1 CGTTGCGATTTTC-AGATTCGCGTTGCGATTTACGGATAC-GA-TTGCGATTTAT-GTGTTCG
* *
88271 CGTTGCGATTTTTA-TTTCGCGTTGCGATTT
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTT
88301 TTATTTCGCG
Statistics
Matches: 174, Mismatches: 28, Indels: 23
0.77 0.12 0.10
Matches are distributed among these distances:
59 17 0.10
60 83 0.48
61 28 0.16
62 26 0.15
63 20 0.11
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36
Consensus pattern (59 bp):
CGTTGCGATTTTCAGATTCGCGTTGCGATTTACGGATACGATTGCGATTTATGTGTTCG
Found at i:88179 original size:20 final size:20
Alignment explanation
Indices: 88129--88321 Score: 101
Period size: 20 Copynumber: 9.6 Consensus size: 20
88119 ACGGATACGA
*
88129 GTTGCGATTTATG-TGTTCGC
1 GTTGCGATTT-TGATATTCGC
*
88149 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTTGATATTCGC
* *
88169 GTTGCGATTTTGGAAAATCGC
1 GTTGCGATTTT-GATATTCGC
** *
88190 AATGCGAATTTG-TACTATCGC
1 GTTGCGATTTTGATA-T-TCGC
* * * *
88211 ATTGCGATTTTCAAGAATCGC
1 GTTGCGATTTT-GATATTCGC
* * *
88232 GTTGCGATTTTGGAAACT-GA
1 GTTGCGATTTT-GATATTCGC
* * **
88252 TTTGCGATTATGGGGA-TCGC
1 GTTGCGATT-TTGATATTCGC
*
88272 GTTGCGATTTTTAT-TTCGC
1 GTTGCGATTTTGATATTCGC
*
88291 GTTGCGATTTTTAT-TTCGC
1 GTTGCGATTTTGATATTCGC
88310 GTTGCGATTTTG
1 GTTGCGATTTTG
88322 TTGGTCATTT
Statistics
Matches: 132, Mismatches: 32, Indels: 19
0.72 0.17 0.10
Matches are distributed among these distances:
19 38 0.29
20 48 0.36
21 45 0.34
23 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (20 bp):
GTTGCGATTTTGATATTCGC
Found at i:88195 original size:21 final size:21
Alignment explanation
Indices: 88165--88247 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
88155 ATTTTCATAT
*
88165 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
88186 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
88207 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
88228 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
88248 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:88238 original size:42 final size:43
Alignment explanation
Indices: 88145--88243 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
88135 ATTTATGTGT
* *
88145 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
88186 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
88228 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
88244 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:88292 original size:19 final size:19
Alignment explanation
Indices: 88268--88320 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
88258 ATTATGGGGA
88268 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
88287 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
88306 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
88321 GTTGGTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.09, C:0.17, G:0.23, T:0.51
Consensus pattern (19 bp):
TCGCGTTGCGATTTTTATT
Found at i:92096 original size:20 final size:22
Alignment explanation
Indices: 92056--92109 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
92046 CATGTTATAT
92056 TATTATATTT-TGATATATTAAA
1 TATTATATTTAT-ATATATTAAA
92078 -ATTATATTTATAT-TATTAAA
1 TATTATATTTATATATATTAAA
92098 TATTA-ATTTATA
1 TATTATATTTATA
92110 AATTTCAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 14 0.47
21 15 0.50
22 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATATTTATATATATTAAA
Found at i:102979 original size:14 final size:14
Alignment explanation
Indices: 102962--102992 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
102952 AATAATTATT
*
102962 TTATGTTCAAATAA
1 TTATGTTCAAACAA
102976 TTATGTTCAAACAA
1 TTATGTTCAAACAA
102990 TTA
1 TTA
102993 AATTAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (14 bp):
TTATGTTCAAACAA
Found at i:103019 original size:41 final size:42
Alignment explanation
Indices: 102974--103060 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 42
102964 ATGTTCAAAT
102974 AATTATGTTCAAACAATTAAATTAAT-CTTAGTTTATTTTTC
1 AATTATGTTCAAACAATTAAATTAATACTTAGTTTATTTTTC
** *
103015 AATTATGTTCAAACAATTATGTTCATCACTTAGTTTATTTTTC
1 AATTATGTTCAAACAATTAAATTAAT-ACTTAGTTTATTTTTC
103058 AAT
1 AAT
103061 AATTATTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 23 0.56
43 18 0.44
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.48
Consensus pattern (42 bp):
AATTATGTTCAAACAATTAAATTAATACTTAGTTTATTTTTC
Found at i:103085 original size:14 final size:14
Alignment explanation
Indices: 103068--103098 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
103058 AATAATTATT
*
103068 TTATGTTCAAATAA
1 TTATGTTCAAACAA
103082 TTATGTTCAAACAA
1 TTATGTTCAAACAA
103096 TTA
1 TTA
103099 AATTAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (14 bp):
TTATGTTCAAACAA
Found at i:105916 original size:12 final size:12
Alignment explanation
Indices: 105889--105958 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
105879 ATGGAGATAT
* *
105889 CAGAAATCAAAA
1 CAGAATTCAGAA
*
105901 CAGAATTCAGAT
1 CAGAATTCAGAA
105913 CAGATATT-AGAA
1 CAGA-ATTCAGAA
* *
105925 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
105937 CAGAAATCATAA
1 CAGAATTCAGAA
105949 CAGAATTCAG
1 CAGAATTCAG
105959 GTAATGTATC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 39 0.89
13 3 0.07
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:105926 original size:24 final size:24
Alignment explanation
Indices: 105887--105958 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
105877 AAATGGAGAT
*
105887 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
105911 ATCAGATATTAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
105935 ATCAGAAATCATAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
105959 GTAATGTATC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:105975 original size:48 final size:48
Alignment explanation
Indices: 105887--105978 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
105877 AAATGGAGAT
* * *
105887 ATCAGAAATCAAAACAGAATTCAGATCAGATATTAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGATAAGATATCAAAACAGAATCCAG
* *
105935 ATCAGAAATCATAACAGAATTCAGGTAATG-TATCAAAACAGAAT
1 ATCAGAAATCAAAACAGAATTCAGATAA-GATATCAAAACAGAAT
105979 TCAAGTCGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 37 0.97
49 1 0.03
ACGTcount: A:0.50, C:0.15, G:0.14, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGATAAGATATCAAAACAGAATCCAG
Found at i:105991 original size:48 final size:48
Alignment explanation
Indices: 105887--105993 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 48
105877 AAATGGAGAT
* * * *
105887 ATCAGAAATCAAAACAGAATTCAGATCAGATATTAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGATAAGATATCAAAACAGAATCAAG
* *
105935 ATCAGAAATCATAACAGAATTCAGGTAATG-TATCAAAACAGAATTCAAG
1 ATCAGAAATCAAAACAGAATTCAGATAA-GATATCAAAACAGAA-TCAAG
*
105984 -TCGGAAATCA
1 ATCAGAAATCA
105994 GATAAAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 45 0.90
49 5 0.10
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGATAAGATATCAAAACAGAATCAAG
Found at i:105993 original size:24 final size:25
Alignment explanation
Indices: 105887--105993 Score: 89
Period size: 24 Copynumber: 4.4 Consensus size: 25
105877 AAATGGAGAT
105887 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAAAACAGAATTCAAG
* * * *
105911 ATCAGATATTAGAACAGAA-TCCAG
1 ATCAGAAATCAAAACAGAATTCAAG
*
105935 ATCAGAAATCATAACAGAATTC-AG
1 ATCAGAAATCAAAACAGAATTCAAG
* * *
105959 GTAATG-TATCAAAACAGAATTCAAG
1 ATCA-GAAATCAAAACAGAATTCAAG
*
105984 -TCGGAAATCA
1 ATCAGAAATCA
105994 GATAAAATAT
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
23 3 0.05
24 57 0.88
25 5 0.08
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.21
Consensus pattern (25 bp):
ATCAGAAATCAAAACAGAATTCAAG
Found at i:110608 original size:12 final size:12
Alignment explanation
Indices: 110583--110640 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
110573 ACGGAGATAT
* *
110583 CAGAAATCAAAA
1 CAGAATTCAGAA
110595 CAGAATTCAGAA
1 CAGAATTCAGAA
* *
110607 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
110619 CAGAAATCATAA
1 CAGAATTCAGAA
110631 CAGAATTCAG
1 CAGAATTCAG
110641 GTAATGTATC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.52, C:0.19, G:0.14, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:127188 original size:17 final size:18
Alignment explanation
Indices: 127166--127200 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
127156 TAGGGTGTAC
127166 ATATTA-TTGTCATACAA
1 ATATTAGTTGTCATACAA
127183 ATATTAGTTGTCATACAA
1 ATATTAGTTGTCATACAA
127201 CTAATAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (18 bp):
ATATTAGTTGTCATACAA
Done.