Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000858.1 Hibiscus syriacus cultivar Beakdansim tig00001663_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: 346567
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 1 of 2
Found at i:24145 original size:2 final size:2
Alignment explanation
Indices: 24138--24164 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24128 TGGTTTTTAT
24138 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
24165 TTTGTGCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27871 original size:13 final size:13
Alignment explanation
Indices: 27834--27873 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
27824 TCAATATTGA
27834 AAAATAAATA-TT
1 AAAATAAATATTT
*
27846 AAAATAATTTATTT
1 AAAATAA-ATATTT
27860 AAAATAAATATTT
1 AAAATAAATATTT
27873 A
1 A
27874 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:29273 original size:3 final size:3
Alignment explanation
Indices: 29267--29358 Score: 141
Period size: 3 Copynumber: 31.0 Consensus size: 3
29257 TTTAATAATT
*
29267 TAA TAA TAA TAA TAA TAA T-A TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
29314 TAA TAA TGA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
29359 ATCAATATGG
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
2 2 0.03
3 78 0.98
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:29810 original size:113 final size:113
Alignment explanation
Indices: 29612--30461 Score: 1233
Period size: 113 Copynumber: 7.5 Consensus size: 113
29602 TCTTGATGAG
* ****
29612 TTCTTCTCATTATGAACTTCTTCATCATTCTTTC-GATGAGTTCTTCTCATTATGAACTTTCTCT
1 TTCTTCTCATTATGAACTTCTTCATCCTTC-TTCAGATGAGTTCTTCTCATTATGAACTCGAACT
* * * * *
29676 AGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAA-ATCTGAACAAA
65 GGAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGT-TGAACAAA
*
29725 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
* *
29790 GAAAAGCTAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
29838 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
29903 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
*
29951 TTCTTCTCATTATGAACTTCTCCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
* *
30016 GAAAAGATAATCCATCAAGTGATAGATTTGAGTAAAAGGTTGAACAAG
66 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
*
30064 TTCTTCTTATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
30129 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
* ****
30177 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
* * * *
30242 GAAAAGCTGATCCATCAAGTGATAGATTTGGGCAAAAGGTTGAATAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
* ****
30290 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
** * * * ** *
30355 GTTATGTTGATCCATCGAA-TGAT-GAATTCAAGCGAAAA-GTTGAACAAG
66 GAAAAGATAATCCATC-AAGTGATAG-ATTTGAGC-AAAAGGTTGAACAAA
* ** *
30403 TTCTTCTCATTATGAACTTCTTCTTATTTCTTTAGATGAGTTCTTCTCATTATGAACTC
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
30462 TTCCAGAAAT
Statistics
Matches: 685, Mismatches: 47, Indels: 10
0.92 0.06 0.01
Matches are distributed among these distances:
112 4 0.01
113 674 0.98
114 7 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
Found at i:31441 original size:83 final size:83
Alignment explanation
Indices: 31283--31836 Score: 895
Period size: 83 Copynumber: 6.7 Consensus size: 83
31273 ATTATTTCTA
* *
31283 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTT-TACCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
31347 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
** * * *
31365 CTATGAGCACGTTCATCCTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
31430 GAACACTTCCAGAAGATA
66 GAACACTTCCAGAAGATG
*
31448 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATACCTCAAA
1 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
31513 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
31531 CTATCG-GCAAATTCATCTTCTAAATTCAATGATTGGATT-TGCCAAACCAGATTAGATAACTCA
1 CTAT-GAGCAAATTCATCTTCTAAATTCAATGATTGG-TTCTGCCAAACCAGATCAGATAACTCA
*
31594 AAGAACACTTCTAGAAGATG
64 AAGAACACTTCCAGAAGATG
* *
31614 CTATGAG-AACATTCATCTTCCAAGTTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAA
1 CTATGAGCAA-ATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAA
31678 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
31697 CTATTG-GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAA
1 CTA-TGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAA
31761 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
*
31780 CTATTG-GCAAATTCATCTTCTAAATTCAATGATGGGTTCTGCCAAACCAGATCAGAT
1 CTA-TGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGAT
31837 TTTCTCTTTA
Statistics
Matches: 441, Mismatches: 23, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
82 40 0.09
83 394 0.89
84 7 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:32861 original size:9 final size:9
Alignment explanation
Indices: 32847--32926 Score: 64
Period size: 9 Copynumber: 9.1 Consensus size: 9
32837 ACCCCCCCCC
32847 CTTTTTCTT
1 CTTTTTCTT
32856 CTTTTTC-T
1 CTTTTTCTT
32864 CTTTTT-TCT
1 CTTTTTCT-T
32873 CTTTTCTCTT
1 CTTTT-TCTT
*
32883 -TTTCTTTTT
1 CTTT-TTCTT
32892 CTTTTT-TT
1 CTTTTTCTT
*
32900 CTTTTTTTT
1 CTTTTTCTT
32909 C-TTTT-TT
1 CTTTTTCTT
32916 CTTTTTTCTT
1 C-TTTTTCTT
32926 C
1 C
32927 AAGCATAATA
Statistics
Matches: 60, Mismatches: 1, Indels: 19
0.75 0.01 0.24
Matches are distributed among these distances:
7 3 0.05
8 19 0.32
9 28 0.47
10 9 0.15
11 1 0.02
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
CTTTTTCTT
Found at i:32890 original size:30 final size:31
Alignment explanation
Indices: 32849--32925 Score: 106
Period size: 30 Copynumber: 2.5 Consensus size: 31
32839 CCCCCCCCCT
32849 TTTTCTTCTTTTTCTCTTTTTTCTCTTTTCTC
1 TTTT-TTCTTTTTCTCTTTTTTCTCTTTTCTC
* *
32881 -TTTTTCTTTTTCT-TTTTTTCTTTTTTTTC
1 TTTTTTCTTTTTCTCTTTTTTCTCTTTTCTC
32910 TTTTTTCTTTTT-TCTT
1 TTTTTTCTTTTTCTCTT
32926 CAAGCATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 15 0.37
30 23 0.56
31 3 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (31 bp):
TTTTTTCTTTTTCTCTTTTTTCTCTTTTCTC
Found at i:38736 original size:308 final size:303
Alignment explanation
Indices: 38184--38795 Score: 1088
Period size: 308 Copynumber: 2.0 Consensus size: 303
38174 GATTAGGTTT
*
38184 AGAATCCTCTGATGAGCAAACATCATCTTTTTTTTCCTGGTTTTTCTTTCAAAGAATTCTATTTC
1 AGAATCCTCTGATGAGCAAACATCATCTTCTTTTTCCTGGTTTTTCTTTCAAAGAATTCTATTTC
38249 TGTGTTCATCAATTTTTGCACCAAATCCCTAAACTCAGGACATAGTTGAATTTTATGCCCTTTCT
66 TGTGTTCATCAATTTTTGCACCAAATCCCTAAACTCAGGACATAGTTGAATTTTATGCCCTTTCT
38314 CGTGATGATATTCACAATAATCTTGCCTTCATTCTGCTTTGGCCTGAATGTTGTGGAATTATAAC
131 CGTGATGATATTCACAATAATCTTGCCTTCATTCTGCTTTGGCCTGAATGTTGTGGAATTATAAC
38379 GGCTAAAGAGAGTTGTTGGAATACCCAAACAAAAGGAGATTTAATTTCAGAAA-TCAGTTTTTGC
196 GGCTAAAGAGAGTTGTTGGAATACCCAAACAAAAGGAGATTTAATTTCAGAAAGTCAGTTTTTGC
38443 TTTCTTCTGTTCTCTTCCTGAATTGCATTCACGTTTTTATCTC
261 TTTCTTCTGTTCTCTTCCTGAATTGCATTCACGTTTTTATCTC
38486 AGAATCCTCTGATGAGCAAACATCATCTTCTTTTTCCTGGTTTTTC-TTCAAAGAATTCTATTTC
1 AGAATCCTCTGATGAGCAAACATCATCTTCTTTTTCCTGGTTTTTCTTTCAAAGAATTCTA----
38550 TCTGTCTGTTGTTCATCAATTTTTGCACCAAATCCCTAAACTCAGGACATAGTTGAATTTTATGC
62 T-T-TCTG-TGTTCATCAATTTTTGCACCAAATCCCTAAACTCAGGACATAGTTGAATTTTATGC
38615 CCTTTCTCGTGATGATATTCACAATAATTCTTG-CTTC-TTCTGCTTTGGCCTGAATTGTTGTGG
124 CCTTTCTCGTGATGATATTCACAATAA-TCTTGCCTTCATTCTGCTTTGGCCTGAA-TGTTGTGG
*
38678 AATTATACCGGCTAAAGAGAGTTGTTGGAATACCCAAACAAAAGGAGATTTAATTTCAGAAATGT
187 AATTATAACGGCTAAAGAGAGTTGTTGGAATACCCAAACAAAAGGAGATTTAATTTCAGAAA-GT
38743 CAGTTTTTGCTTTCTTCTGTTCTCTTCCTGAATTGCATTCACGTTTTTATCTC
251 CAGTTTTTGCTTTCTTCTGTTCTCTTCCTGAATTGCATTCACGTTTTTATCTC
38796 CATGATTTGG
Statistics
Matches: 297, Mismatches: 2, Indels: 14
0.95 0.01 0.04
Matches are distributed among these distances:
301 14 0.05
302 45 0.15
305 1 0.00
306 1 0.00
307 21 0.07
308 156 0.53
309 5 0.02
310 54 0.18
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (303 bp):
AGAATCCTCTGATGAGCAAACATCATCTTCTTTTTCCTGGTTTTTCTTTCAAAGAATTCTATTTC
TGTGTTCATCAATTTTTGCACCAAATCCCTAAACTCAGGACATAGTTGAATTTTATGCCCTTTCT
CGTGATGATATTCACAATAATCTTGCCTTCATTCTGCTTTGGCCTGAATGTTGTGGAATTATAAC
GGCTAAAGAGAGTTGTTGGAATACCCAAACAAAAGGAGATTTAATTTCAGAAAGTCAGTTTTTGC
TTTCTTCTGTTCTCTTCCTGAATTGCATTCACGTTTTTATCTC
Found at i:44513 original size:13 final size:13
Alignment explanation
Indices: 44476--44515 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
44466 TCGATATTGA
44476 AAAATAAATA-TT
1 AAAATAAATATTT
*
44488 AAAATAATTTATTT
1 AAAATAA-ATATTT
44502 AAAATAAATATTT
1 AAAATAAATATTT
44515 A
1 A
44516 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:44518 original size:21 final size:23
Alignment explanation
Indices: 44494--44539 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
44484 TATTAAAATA
44494 ATTTATT-TA-AAATAAATATTT
1 ATTTATTATATAAATAAATATTT
* *
44515 ATTTATTATATATATATATATTT
1 ATTTATTATATAAATAAATATTT
44538 AT
1 AT
44540 GACTACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTATTATATAAATAAATATTT
Found at i:45766 original size:3 final size:3
Alignment explanation
Indices: 45758--45841 Score: 141
Period size: 3 Copynumber: 28.0 Consensus size: 3
45748 TTAATATATT
*
45758 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
45806 TGA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45842 ATCAATATGG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:47154 original size:25 final size:24
Alignment explanation
Indices: 47122--47186 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
47112 AAAAAAATTA
*
47122 AATT-AATTAAATTAATAATTTTTT
1 AATTAAATTAAATTAA-AATTTTTC
* *
47146 AATTAAATTTTATTTAAAATTTTTC
1 AATTAAA-TTAAATTAAAATTTTTC
47171 AATTCAAATTAAATTA
1 AATT-AAATTAAATTA
47187 TTCAAATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 4 0.12
25 19 0.58
26 10 0.30
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (24 bp):
AATTAAATTAAATTAAAATTTTTC
Found at i:47182 original size:20 final size:20
Alignment explanation
Indices: 47162--47205 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
47152 ATTTTATTTA
*
47162 AAATTTTTC-AATTCAAATT
1 AAATTATTCAAATTCAAATT
47181 AAATTATTCAAATTCAAATTT
1 AAATTATTCAAATTCAAA-TT
47202 AAAT
1 AAAT
47206 ATAATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 8 0.36
21 6 0.27
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATTATTCAAATTCAAATT
Found at i:47189 original size:14 final size:15
Alignment explanation
Indices: 47172--47200 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47162 AAATTTTTCA
47172 ATTCAAATT-AAATT
1 ATTCAAATTCAAATT
47186 ATTCAAATTCAAATT
1 ATTCAAATTCAAATT
47201 TAAATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTCAAATTCAAATT
Found at i:61562 original size:53 final size:53
Alignment explanation
Indices: 61462--61774 Score: 405
Period size: 53 Copynumber: 5.9 Consensus size: 53
61452 TCTTCAAATG
* * * ****
61462 ACGGGTCCGCTCCCTCTTG-TTCCGGGATTAAGGAACTCGAACAATCTTCTAAAA
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCTGCCT
* * * *
61516 ATGGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * *
61569 ACGGGTTCGCTCCCTCTTGCTTCAGGGGGTAGAACTCGAATAATCTTCTACC-
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
** * *
61621 AGCGGGTTCGCTCCCTCTTGCTTCAATGAGTAGAACTCAAACAATCTTCTGTCT
1 A-CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* *
61675 ACGGGTTTGCTCCCTCTTGCTTCAGGGAGTAAAACTCGAACAATCTTCTGCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
61728 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
61775 ATGGTTTGAT
Statistics
Matches: 226, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
52 1 0.00
53 199 0.88
54 18 0.08
55 8 0.04
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (53 bp):
ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
Found at i:62452 original size:41 final size:40
Alignment explanation
Indices: 62356--62460 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 40
62346 CCCGAAGGTT
* * * * *
62356 TTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
1 TTATAGAT-GCCCGAAGGACTTAGCATCATGCTCGAAAGAC
* *
62397 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
1 TTATAGATG-CCCGAAGGACTT-AGCATCATGCTCGAAAGAC
*
62439 TTATTGATGCCCGAAGGACTTA
1 TTATAGATGCCCGAAGGACTTA
62461 TAAATTGTGA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.04
41 28 0.54
42 22 0.42
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (40 bp):
TTATAGATGCCCGAAGGACTTAGCATCATGCTCGAAAGAC
Found at i:62563 original size:213 final size:215
Alignment explanation
Indices: 62258--62792 Score: 918
Period size: 213 Copynumber: 2.5 Consensus size: 215
62248 ACTGATTATA
**
62258 AAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACAT-A-AGTTTCATT
1 AAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTCATT
* * * *
62321 TTCAAATTCATGTAAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTT
66 TTCAAATTCTTTTGAAAACATCTTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTT
*
62386 GCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGAT-GCC
131 GCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCC
62450 CGAAGGACTTATAAATTGTG
196 CGAAGGACTTATAAATTGTG
*
62470 AAATTTTGAAAATCACATTCTT-GTTTTCAAAAATTTCATCTTCTCAAAACATCATTTTTTCATT
1 AAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTCATT
*
62534 TTCAAATTCTTTTGAAAACATCTTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTT
66 TTCAAATTCTTTTGAAAACATCTTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTT
*
62599 GCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATTATGCTCGAAAGACTTACTGATGGCC
131 GCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCC
62664 CGAAGGACTTATAAATTGTG
196 CGAAGGACTTATAAATTGTG
* *
62684 AAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTT-ATT
1 AAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTCATT
*
62748 TTCAAATTCTTTTGAAAACATCTTACCCGAAGGTCTTATGGATGG
66 TTCAAATTCTTTTGAAAACATCTTACCCGAAGGTTTTATGGATGG
62793 TTTGCTTCAC
Statistics
Matches: 304, Mismatches: 15, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
211 29 0.10
212 23 0.08
213 126 0.41
214 90 0.30
215 36 0.12
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (215 bp):
AAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTCATT
TTCAAATTCTTTTGAAAACATCTTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTT
GCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCC
CGAAGGACTTATAAATTGTG
Found at i:62624 original size:41 final size:41
Alignment explanation
Indices: 62569--62675 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 41
62559 CCCGAAGGTT
* * *
62569 TTACGGATGGCCCGAAGGACTTATCATCT-TGCTCTAAAGGC
1 TTACAGATGGCCCGAAGGACTTATCAT-TATGCTCGAAAGAC
* * *
62610 TTACAGATGACCCGAAGGATTTAAGCATTATGCTCGAAAGAC
1 TTACAGATGGCCCGAAGGACTT-ATCATTATGCTCGAAAGAC
*
62652 TTACTGATGGCCCGAAGGACTTAT
1 TTACAGATGGCCCGAAGGACTTAT
62676 AAATTGTGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 21 0.39
42 33 0.61
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (41 bp):
TTACAGATGGCCCGAAGGACTTATCATTATGCTCGAAAGAC
Found at i:71470 original size:2 final size:2
Alignment explanation
Indices: 71463--71499 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
71453 ACTACACTAC
71463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71500 ACTAAGCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:74666 original size:19 final size:19
Alignment explanation
Indices: 74638--74675 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
74628 TTTGGATTAT
* *
74638 ATTACTCTTGAGATAAGAA
1 ATTACCCTTGAAATAAGAA
74657 ATTACCCTTGAAATAAGAA
1 ATTACCCTTGAAATAAGAA
74676 GTTTTGTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (19 bp):
ATTACCCTTGAAATAAGAA
Found at i:80883 original size:29 final size:27
Alignment explanation
Indices: 80841--80906 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
80831 CTTTATTTTA
* * * *
80841 AATTAATCCTTAAACGTTTGAATATACT
1 AATTCATCCCTAAAC-TATGAACATACT
*
80869 AATTTCATCCCTAAACTATGAACATTCT
1 AA-TTCATCCCTAAACTATGAACATACT
80897 AATTCATCCC
1 AATTCATCCC
80907 CCAAATTCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 8 0.25
28 13 0.41
29 11 0.34
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (27 bp):
AATTCATCCCTAAACTATGAACATACT
Found at i:83532 original size:14 final size:15
Alignment explanation
Indices: 83502--83531 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83492 TGATATGTTG
*
83502 ATAAATTTTAAAAAA
1 ATAAATGTTAAAAAA
83517 ATAAATGTTAAAAAA
1 ATAAATGTTAAAAAA
83532 TTAAGTATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
ATAAATGTTAAAAAA
Found at i:83638 original size:159 final size:156
Alignment explanation
Indices: 83344--83658 Score: 571
Period size: 159 Copynumber: 2.0 Consensus size: 156
83334 ATAGGTATTA
83344 GTTGATAAATTTTAAAAAAATAATGTTAAAAAATTAAGTATTGAATAATTGGTTCGATTTATGTT
1 GTTGATAAATTTTAAAAAAATAATGTTAAAAAATTAAGTATTGAATAATTGGTTCGATTTATGTT
83409 TAAATCTTAAAAGGGAAGGCGGTGAAAAGGGGCGGAGCTTAGTGAGGGGCCAAAGGAGCTCCGAC
66 TAAATCTTAAAAGGGAAGGCGGTGAAAAGGGGCGGAGCTTAGTGAGGGGCCAAAGGAGCTCCGAC
83474 TCTGTT-AAATGTATATA-TTGATAT
131 TCTGTTAAAATGTATATATTTGATAT
83498 GTTGATAAATTTTAAAAAAATAAATGTTAAAAAATTAAGTATTGAATAATTGGTTCGATTTTATG
1 GTTGATAAATTTTAAAAAAAT-AATGTTAAAAAATTAAGTATTGAATAATTGGTTCGA-TTTATG
83563 TTTAAATCTTAAAAGGGAAGGCGGTGACAATAAGGGGCGGAGCTTAGTGAGGGGCCAAAGGAGCT
64 TTTAAATCTTAAAAGGGAAGGCGGTG--AA-AAGGGGCGGAGCTTAGTGAGGGGCCAAAGGAGCT
83628 CCGACTCTGTTAAAATGTATATATTTGATAT
126 CCGACTCTGTTAAAATGTATATATTTGATAT
83659 AATTTTGGTC
Statistics
Matches: 154, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
154 21 0.14
155 36 0.23
156 32 0.21
158 2 0.01
159 45 0.29
160 11 0.07
161 7 0.05
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.31
Consensus pattern (156 bp):
GTTGATAAATTTTAAAAAAATAATGTTAAAAAATTAAGTATTGAATAATTGGTTCGATTTATGTT
TAAATCTTAAAAGGGAAGGCGGTGAAAAGGGGCGGAGCTTAGTGAGGGGCCAAAGGAGCTCCGAC
TCTGTTAAAATGTATATATTTGATAT
Found at i:84727 original size:3 final size:3
Alignment explanation
Indices: 84719--84759 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
84709 CTATTTAATT
84719 TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT
84760 TTGTTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:84742 original size:14 final size:14
Alignment explanation
Indices: 84723--84759 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
84713 TTAATTTTAT
84723 TATTATTATTATTA
1 TATTATTATTATTA
84737 TATTATTATTATTA
1 TATTATTATTATTA
84751 T-TTATTATT
1 TATTATTATT
84760 TTGTTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:84742 original size:17 final size:16
Alignment explanation
Indices: 84718--84759 Score: 75
Period size: 17 Copynumber: 2.6 Consensus size: 16
84708 TCTATTTAAT
84718 TTTATTATTATTATTA
1 TTTATTATTATTATTA
84734 TTATATTATTATTATTA
1 TT-TATTATTATTATTA
84751 TTTATTATT
1 TTTATTATT
84760 TTGTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:89534 original size:34 final size:34
Alignment explanation
Indices: 89496--89565 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
89486 CTCCCGCTTA
89496 AATTTAAGATGCCCGATTTTGAGAAGTACAATGG
1 AATTTAAGATGCCCGATTTTGAGAAGTACAATGG
89530 AATTTAAGATGCCCGATTTTGAGAAGTACAATGG
1 AATTTAAGATGCCCGATTTTGAGAAGTACAATGG
89564 AA
1 AA
89566 CCAGTTGCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (34 bp):
AATTTAAGATGCCCGATTTTGAGAAGTACAATGG
Found at i:90973 original size:2 final size:2
Alignment explanation
Indices: 90962--90991 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
90952 TATACCCAAA
90962 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90992 CAATAAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94250 original size:106 final size:102
Alignment explanation
Indices: 94134--94368 Score: 244
Period size: 105 Copynumber: 2.3 Consensus size: 102
94124 CTTGAGACAA
* * * * **
94134 TTTCTCTCAAAATAAATTTCGTCTTGCTTTAAACATTTTTTTC-TCTAAGATACAAATTTTGAAT
1 TTTCT-TCAAAATAAATTTCGTCTCGCTTGAAAC--CTTTTCCATCTAAGATACAAATTTCAAAT
*
94198 TTGTTTCAC-TTGAAACAAAATTAATCTCACCTT-AGATTGTT
63 TTGTTTCACATT-AAACAAAATTAATCTCA-CTTGAGATCG-T
* * * *
94239 GTTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCATTTGAGATACAAATTTCAAATT
1 -TTTC-TTCAAAATAAATTTCGTCTCGCTTGAAACCTTTTCCATCTAAGATACAAATTTCAAATT
* *
94304 TGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGT
64 TGTTTCACATTAAACAAAATTAATCTCACTTGAGATCGT
*
94343 TTTC-TCAAAATAAATTTTGTCTCGCT
1 TTTCTTCAAAATAAATTTCGTCTCGCT
94369 GAGACAATTT
Statistics
Matches: 110, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
101 20 0.18
103 4 0.04
104 9 0.08
105 46 0.42
106 30 0.27
107 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (102 bp):
TTTCTTCAAAATAAATTTCGTCTCGCTTGAAACCTTTTCCATCTAAGATACAAATTTCAAATTTG
TTTCACATTAAACAAAATTAATCTCACTTGAGATCGT
Found at i:94309 original size:105 final size:100
Alignment explanation
Indices: 94181--94373 Score: 246
Period size: 105 Copynumber: 1.9 Consensus size: 100
94171 TTTTTCTCTA
** *
94181 AGATACAAATTTTGAATTTGTTTCAC-TTGAAACAAAATTAATCTCACCTT-AGATTGTTGTTTC
1 AGATACAAATTTCAAATTTGTTTCACATT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC
94244 TTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCATTTG
62 --TCAAAACAAATTTCGTCTCGC-TGAGACCTTTTCCATTTG
* *
94286 AGATACAAATTTCAAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCAA
1 AGATACAAATTTCAAATTTGTTTCACATTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCAA
* *
94351 AATAAATTTTGTCTCGCTGAGAC
66 AACAAATTTCGTCTCGCTGAGAC
94374 AATTTCTCTA
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
100 6 0.08
101 19 0.24
103 4 0.05
104 4 0.05
105 44 0.56
106 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (100 bp):
AGATACAAATTTCAAATTTGTTTCACATTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCAA
AACAAATTTCGTCTCGCTGAGACCTTTTCCATTTG
Found at i:94398 original size:35 final size:33
Alignment explanation
Indices: 94343--94428 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 33
94333 TTGAGATCGT
*
94343 TTTCTCAAAATAAATTTTGTCTCGCTGAGACAA
1 TTTCTCAAAATAAATTTTGTCTAGCTGAGACAA
**
94376 TTTCTCTAAAATCAAATTTTGTCTATTTGAGACAA
1 TTTCTC-AAAAT-AAATTTTGTCTAGCTGAGACAA
*
94411 TTTATCTCAAAGTAAATT
1 -TT-TCTCAAAATAAATT
94429 CGTCTCTTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
33 6 0.13
34 5 0.11
35 24 0.53
36 6 0.13
37 4 0.09
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (33 bp):
TTTCTCAAAATAAATTTTGTCTAGCTGAGACAA
Found at i:94714 original size:26 final size:26
Alignment explanation
Indices: 94685--94734 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
94675 TTGAAACAAA
*
94685 TCTTTGAGTCTGTTTCTTTTGAAAAC
1 TCTTTGAGTCTGTTTCTTTAGAAAAC
*
94711 TCTTTGAGTTTGTTTCTTTAGAAA
1 TCTTTGAGTCTGTTTCTTTAGAAA
94735 CAAATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (26 bp):
TCTTTGAGTCTGTTTCTTTAGAAAAC
Found at i:94880 original size:66 final size:66
Alignment explanation
Indices: 94764--94887 Score: 162
Period size: 66 Copynumber: 1.9 Consensus size: 66
94754 AGATAATATC
* * * * * *
94764 TTTGAGTTTGTTTCTCTTGAAACAAATCTTATTTTCCTAGAGATTATTTCTTATGAAATAACCAT
1 TTTGAGATCGTTTCTCTTAAAACAAATCTTATTTCCCTAGAGACTATTTCTCATGAAATAACCAT
94829 T
66 T
94830 TTTGAGATCGTTTCTCTTAAAACAAATCTTATTTCCC-ATGAGACCT-TTTCTCATGAAA
1 TTTGAGATCGTTTCTCTTAAAACAAATCTTATTTCCCTA-GAGA-CTATTTCTCATGAAA
94888 CAATAAATCA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
65 1 0.02
66 48 0.96
67 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (66 bp):
TTTGAGATCGTTTCTCTTAAAACAAATCTTATTTCCCTAGAGACTATTTCTCATGAAATAACCAT
T
Found at i:95283 original size:29 final size:29
Alignment explanation
Indices: 95247--95330 Score: 150
Period size: 29 Copynumber: 2.9 Consensus size: 29
95237 TTTAAACGTC
**
95247 ATCTTTGAGTTATTTCTTTTGAAACAAAA
1 ATCTTTGAGTCGTTTCTTTTGAAACAAAA
95276 ATCTTTGAGTCGTTTCTTTTGAAACAAAA
1 ATCTTTGAGTCGTTTCTTTTGAAACAAAA
95305 ATCTTTGAGTCGTTTCTTTTGAAACA
1 ATCTTTGAGTCGTTTCTTTTGAAACA
95331 CCATCATCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (29 bp):
ATCTTTGAGTCGTTTCTTTTGAAACAAAA
Found at i:96605 original size:17 final size:18
Alignment explanation
Indices: 96567--96605 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
96557 GAAAAAGACG
**
96567 AAAAAACAGAGGGAGATG
1 AAAAAACAGAGGGAGAAC
96585 AAAAAACAGAGGGA-AAC
1 AAAAAACAGAGGGAGAAC
96602 AAAA
1 AAAA
96606 GAAAAAACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.64, C:0.08, G:0.26, T:0.03
Consensus pattern (18 bp):
AAAAAACAGAGGGAGAAC
Found at i:99224 original size:37 final size:37
Alignment explanation
Indices: 99172--99267 Score: 138
Period size: 37 Copynumber: 2.6 Consensus size: 37
99162 CTTTTCGTCA
* * *
99172 TACTAGGATTCAAACTCCTAAAAATAAGATAGAATTG
1 TACTAAGATTTAAACTCCTAAAAATAAGATAGAATTC
*
99209 TACTAAGATTTAAACTCCTAAAAATAAGATAGAGTTC
1 TACTAAGATTTAAACTCCTAAAAATAAGATAGAATTC
**
99246 TACTATTATTTAAACTCCTAAA
1 TACTAAGATTTAAACTCCTAAA
99268 GATAGGATCC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (37 bp):
TACTAAGATTTAAACTCCTAAAAATAAGATAGAATTC
Found at i:100081 original size:2 final size:2
Alignment explanation
Indices: 100074--100108 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
100064 TTTTACTCAT
100074 TA TA TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100109 TAATATTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:100091 original size:14 final size:14
Alignment explanation
Indices: 100072--100115 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
100062 TATTTTACTC
100072 ATTATATATATTAT
1 ATTATATATATTAT
100086 ATTATATATA-TAT
1 ATTATATATATTAT
100099 A-TATATATATTAAT
1 ATTATATATATT-AT
100113 ATT
1 ATT
100116 TCATTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.30
13 5 0.19
14 13 0.48
15 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTATATATATTAT
Found at i:104523 original size:16 final size:16
Alignment explanation
Indices: 104502--104565 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 16
104492 AATCAAGAAC
104502 AAAAAGAAAAGAAGCA
1 AAAAAGAAAAGAAGCA
104518 AAAAAGCAAAA-AAGCAAA
1 AAAAAG-AAAAGAAGC--A
104536 GAAAAAGAAACAGAA-CA
1 -AAAAAGAAA-AGAAGCA
104553 AAAACA-AAAAGAA
1 AAAA-AGAAAAGAA
104566 AAAGGGACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
15 4 0.10
16 17 0.41
17 6 0.15
18 4 0.10
19 8 0.20
20 2 0.05
ACGTcount: A:0.77, C:0.09, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAGAAGCA
Found at i:104526 original size:8 final size:8
Alignment explanation
Indices: 104502--104535 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
104492 AATCAAGAAC
104502 AAAAAG-A
1 AAAAAGCA
104509 AAAGAAGCA
1 AAA-AAGCA
104518 AAAAAGCA
1 AAAAAGCA
104526 AAAAAGCA
1 AAAAAGCA
104534 AA
1 AA
104536 GAAAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 3 0.12
8 18 0.72
9 4 0.16
ACGTcount: A:0.76, C:0.09, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAGCA
Found at i:104575 original size:22 final size:21
Alignment explanation
Indices: 104537--104578 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
104527 AAAAGCAAAG
*
104537 AAAAAGAAACAGAACAAAAAC
1 AAAAAGAAAAAGAACAAAAAC
*
104558 AAAAAGAAAAAGGGACAAAAA
1 AAAAAGAAAAA-GAACAAAAA
104579 ACACATGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.76, C:0.10, G:0.14, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAGAACAAAAAC
Found at i:104820 original size:34 final size:34
Alignment explanation
Indices: 104777--104849 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
104767 TGTTTGAAAT
104777 GGCACATCAAGCTTCAAACTATGAGATTGATCAA
1 GGCACATCAAGCTTCAAACTATGAGATTGATCAA
104811 GGCACATCAAGCTTCAAACTATGAGATTGATCAA
1 GGCACATCAAGCTTCAAACTATGAGATTGATCAA
104845 -GCACA
1 GGCACA
104850 ATCATTCCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
33 5 0.13
34 34 0.87
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (34 bp):
GGCACATCAAGCTTCAAACTATGAGATTGATCAA
Found at i:106495 original size:106 final size:106
Alignment explanation
Indices: 106366--108054 Score: 2533
Period size: 106 Copynumber: 16.0 Consensus size: 106
106356 ATATCGTGCC
* * * *
106366 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
106431 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
106472 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACGACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
106537 AATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
106578 ACTCCAGACAACGCAAATTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
106643 AATTTCAAAGCCAATTTCAATTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
106684 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
106749 AATTTCAGAGCCAATTTCAACTGCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
106790 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
106855 AATTTCAGAGCCAATTTCAACTTTACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
106896 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
106961 AATTTCAGAGCCAATTTCAACTTTACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * * *
107002 ACTTAAGACAACGCAAGTTCAATTTCACGACGATGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
107067 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
107108 ACT-CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
107172 AA-TTCATAGCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
107212 ACTCCAGACAACGCAAGTTCAA-TTCACGACGAA-GGACCACTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
107275 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
107316 ACT-CAGACAACGCAAGTTCAAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTC-AACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
107380 CAATTTCAGAGCCAATTTCAACTTCACA-CGAAGG--ATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
107419 ACT-CA-A-GA--CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTTGTCAATAAACAACTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG-TTGTCAACAAACAACTTCC
107479 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
107521 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAATTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
107586 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
107627 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATATACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
107692 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
107733 ACTCAAGACAACGCAAGTTCAACTTTACGACGAAGGGACCGTTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
107798 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
107839 AC-CCAAGATAACACAAGCTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCC
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
** * *
107903 CAATTTTGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *** * * * *
107945 ACTCGAGACAATATAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
108010 AGTTCCAGAGCCAATTTCAACTTCACAACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
108051 ACTC
1 ACTC
108055 AGAACAATGC
Statistics
Matches: 1447, Mismatches: 120, Indels: 32
0.90 0.08 0.02
Matches are distributed among these distances:
98 24 0.02
99 52 0.04
100 6 0.00
101 1 0.00
102 9 0.01
103 57 0.04
104 90 0.06
105 94 0.06
106 1082 0.75
107 32 0.02
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:108796 original size:37 final size:37
Alignment explanation
Indices: 108743--108847 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
108733 CCTTTTCGTC
*
108743 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
108780 TTGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
** *
108817 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
108848 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:119588 original size:17 final size:17
Alignment explanation
Indices: 119566--119599 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
119556 AAGGCGCGCC
119566 TTCAATCGTGCTTTATA
1 TTCAATCGTGCTTTATA
119583 TTCAATCGTGCTTTATA
1 TTCAATCGTGCTTTATA
119600 CATTCCGCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCAATCGTGCTTTATA
Found at i:129769 original size:16 final size:16
Alignment explanation
Indices: 129748--129779 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
129738 AAATCAAAGT
129748 GTTATTTTTTTATGCA
1 GTTATTTTTTTATGCA
129764 GTTATTTTTTTATGCA
1 GTTATTTTTTTATGCA
129780 AGTGTGGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (16 bp):
GTTATTTTTTTATGCA
Found at i:132172 original size:64 final size:64
Alignment explanation
Indices: 132087--132246 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 64
132077 TTGTTTAAGG
* * ** *
132087 TGCATCGATGCACATGCAGTGCATCGATGCAT-GATTTTAAATAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATA-AAAACATCGAAT-GCATTTT
132150 A
64 A
* * *
132151 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
* *
132215 TGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT
132247 ACATTCATTG
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 2 0.02
64 74 0.89
65 7 0.08
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
Found at i:132757 original size:17 final size:19
Alignment explanation
Indices: 132735--132770 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
132725 GATTTACATG
132735 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
132752 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
132771 GAGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:132944 original size:31 final size:30
Alignment explanation
Indices: 132905--132997 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
132895 TTCGAGGGTT
132905 TTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTATGTTCTTT-GAGACATATGGACAG
**
132935 TATACCTATGTTCTAAG-GAACATATGGACAG
1 T-TACCTATGTTCTTTGAG-ACATATGGACAG
* * *
132966 TTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTACCTATGTTCTTTGAGACATATGGACAG
132996 TT
1 TT
132998 TCCGAGGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 27 0.51
31 23 0.43
32 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (30 bp):
TTACCTATGTTCTTTGAGACATATGGACAG
Found at i:132978 original size:30 final size:30
Alignment explanation
Indices: 132923--133008 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
132913 GTCTTTCGAG
*
132923 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGT-TACCTAGGTTCTAAGGA
** *
132954 ACATATGGACAGTTACCTAGGTTCTTTGGG
1 ACATATGGACAGTTACCTAGGTTCTAAGGA
* * *
132984 ACCTATGGACAGTTTCCGAGGTTCT
1 ACATATGGACAGTTACCTAGGTTCT
133009 TTATGACCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 35 0.73
31 13 0.27
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (30 bp):
ACATATGGACAGTTACCTAGGTTCTAAGGA
Found at i:133017 original size:30 final size:30
Alignment explanation
Indices: 132926--133031 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 30
132916 TTTCGAGACA
* * * *
132926 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* *
132957 TATGGACAGTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
132987 TATGGACAGTTTCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
133017 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
133032 GGGTCTGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
30 50 0.79
31 13 0.21
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:136523 original size:64 final size:64
Alignment explanation
Indices: 136438--136597 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 64
136428 TTGTTTAAGG
* * ** *
136438 TGCATCGATGCACATGCAGTGCATCGATGCAT-GATTTTAAATAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATA-AAAACATCGAAT-GCATTTT
136501 A
64 A
* * *
136502 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
* *
136566 TGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT
136598 ACATTCATTG
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 2 0.02
64 74 0.89
65 7 0.08
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
Found at i:137104 original size:14 final size:16
Alignment explanation
Indices: 137083--137118 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
137073 AATGATTTAC
137083 ATGA-ATACATGT-AT
1 ATGATATACATGTGAT
137097 AT-ATATACATGTGAT
1 ATGATATACATGTGAT
137112 ATGATAT
1 ATGATAT
137119 GAGATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.05
14 10 0.53
15 4 0.21
16 4 0.21
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.39
Consensus pattern (16 bp):
ATGATATACATGTGAT
Found at i:137292 original size:31 final size:30
Alignment explanation
Indices: 137253--137345 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
137243 GTCGAGGGTT
137253 TTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTATGTTCTTT-GAGACATATGGACAG
**
137283 TATACCTATGTTCTAAG-GAACATATGGACAG
1 T-TACCTATGTTCTTTGAG-ACATATGGACAG
* * *
137314 TTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTACCTATGTTCTTTGAGACATATGGACAG
137344 TT
1 TT
137346 GCCGAGGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 27 0.51
31 23 0.43
32 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (30 bp):
TTACCTATGTTCTTTGAGACATATGGACAG
Found at i:137326 original size:30 final size:30
Alignment explanation
Indices: 137271--137356 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
137261 GTCTTTCGAG
*
137271 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGT-TACCTAGGTTCTAAGGA
** *
137302 ACATATGGACAGTTACCTAGGTTCTTTGGG
1 ACATATGGACAGTTACCTAGGTTCTAAGGA
* * *
137332 ACCTATGGACAGTTGCCGAGGTTCT
1 ACATATGGACAGTTACCTAGGTTCT
137357 TTATGACCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 35 0.73
31 13 0.27
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (30 bp):
ACATATGGACAGTTACCTAGGTTCTAAGGA
Found at i:137365 original size:30 final size:30
Alignment explanation
Indices: 137274--137379 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 30
137264 TTTCGAGACA
* * * *
137274 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* *
137305 TATGGACAGTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
137335 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
137365 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
137380 GGGTCTGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
30 50 0.79
31 13 0.21
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:172868 original size:122 final size:122
Alignment explanation
Indices: 172732--172976 Score: 490
Period size: 122 Copynumber: 2.0 Consensus size: 122
172722 ATATTAAGGT
172732 TAAAGATGATATAAATGAATATTAATGAGTTTAATTATGTATATGAAACTTAGGAATATGAAAGG
1 TAAAGATGATATAAATGAATATTAATGAGTTTAATTATGTATATGAAACTTAGGAATATGAAAGG
172797 GGTTGAAATATGAATGATTTAATCCAAAAAGAAGGATTTTTCGGGTTCAAAAAGAGG
66 GGTTGAAATATGAATGATTTAATCCAAAAAGAAGGATTTTTCGGGTTCAAAAAGAGG
172854 TAAAGATGATATAAATGAATATTAATGAGTTTAATTATGTATATGAAACTTAGGAATATGAAAGG
1 TAAAGATGATATAAATGAATATTAATGAGTTTAATTATGTATATGAAACTTAGGAATATGAAAGG
172919 GGTTGAAATATGAATGATTTAATCCAAAAAGAAGGATTTTTCGGGTTCAAAAAGAGG
66 GGTTGAAATATGAATGATTTAATCCAAAAAGAAGGATTTTTCGGGTTCAAAAAGAGG
172976 T
1 T
172977 TCTGGGCAGA
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.31
Consensus pattern (122 bp):
TAAAGATGATATAAATGAATATTAATGAGTTTAATTATGTATATGAAACTTAGGAATATGAAAGG
GGTTGAAATATGAATGATTTAATCCAAAAAGAAGGATTTTTCGGGTTCAAAAAGAGG
Found at i:173123 original size:64 final size:64
Alignment explanation
Indices: 173055--173211 Score: 178
Period size: 64 Copynumber: 2.5 Consensus size: 64
173045 TTGAAGGTGT
** *
173055 ATCGATGCATTGGTAGTGCATCGATGCACTCTT-TTAATAAGGA-AACATCGAATGCA-ATTAGT
1 ATCGATGCATAAGTAGTGCATCGATGCA-TCTTAGTAATAA-GACAACATCGAATGCATATTA-T
173117 GC
63 GC
* * *
173119 ATCGATGCATAATTCA-TGCATCGATGCATCTTAGTAATAATACAACATCGAATGCATTTTATGC
1 ATCGATGCATAAGT-AGTGCATCGATGCATCTTAGTAATAAGACAACATCGAATGCATATTATGC
* *
173183 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
173212 ACCTTCATTA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 6 0.08
64 69 0.87
65 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCTTAGTAATAAGACAACATCGAATGCATATTATGC
Found at i:174188 original size:103 final size:103
Alignment explanation
Indices: 173963--174180 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
173953 GTCGAGGGTC
173963 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
* *
174028 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
174066 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
*
174131 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
174169 TATGTGGTCCTT
1 TATGTGGTCCTT
174181 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:174233 original size:23 final size:23
Alignment explanation
Indices: 174197--174259 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
174187 ATTATTATAT
*
174197 GGCACTACGATGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
174220 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
174243 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
174260 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:179071 original size:19 final size:19
Alignment explanation
Indices: 179047--179097 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
179037 ATGCAATTAG
179047 TGCATCGATGCATAAGGTA
1 TGCATCGATGCATAAGGTA
179066 TGCATCGATGCATAAGGTA
1 TGCATCGATGCATAAGGTA
179085 TGCATCGATGCAT
1 TGCATCGATGCAT
179098 CTCAGTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (19 bp):
TGCATCGATGCATAAGGTA
Found at i:179091 original size:83 final size:84
Alignment explanation
Indices: 178997--179162 Score: 207
Period size: 83 Copynumber: 2.0 Consensus size: 84
178987 TCGATGTATT
** *
178997 GGTAGTGCATCGATGCA-CTCTTTTAATAAGGA-AACATCGAATGCA-ATTAGTGCATCGATGCA
1 GGTAGTGCATCGATGCATCTC-AGTAATAA-GACAACATCGAATGCATATTA-TGCACCGATGCA
179059 TAAGGTA-TGCATCGATGCATAA
63 TAA-GTAGTGCATCGATGCATAA
* * *
179081 GGTA-TGCATCGATGCATCTCAGTAATAATACAACATCGAATGCATTTTATGCACCGATGCATCA
1 GGTAGTGCATCGATGCATCTCAGTAATAAGACAACATCGAATGCATATTATGCACCGATGCATAA
179145 GTAGTGCATCGATGCATA
66 GTAGTGCATCGATGCATA
179163 CCTTCATTAA
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
82 4 0.06
83 58 0.81
84 10 0.14
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (84 bp):
GGTAGTGCATCGATGCATCTCAGTAATAAGACAACATCGAATGCATATTATGCACCGATGCATAA
GTAGTGCATCGATGCATAA
Found at i:180138 original size:103 final size:103
Alignment explanation
Indices: 179913--180130 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
179903 GTCGAGGGTC
179913 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
* *
179978 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
180016 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
*
180081 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
180119 TATGTGGTCCTT
1 TATGTGGTCCTT
180131 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:180180 original size:23 final size:23
Alignment explanation
Indices: 180147--180198 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
180137 ATTATTATAT
180147 GGCACTACGGTACAATTCTACGC
1 GGCACTACGGTACAATTCTACGC
* * *
180170 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTACAATTCTACGC
180193 GGCACT
1 GGCACT
180199 TCGATGCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (23 bp):
GGCACTACGGTACAATTCTACGC
Found at i:180206 original size:23 final size:23
Alignment explanation
Indices: 180159--180209 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
180149 CACTACGGTA
*
180159 CAATTCTACGCGGCACTCCGGTG
1 CAATTCTACGCGGCACTCCGATG
* *
180182 CAATTCTACGTGGCACTTCGATG
1 CAATTCTACGCGGCACTCCGATG
180205 CAATT
1 CAATT
180210 ATATGAGCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (23 bp):
CAATTCTACGCGGCACTCCGATG
Found at i:182282 original size:15 final size:15
Alignment explanation
Indices: 182262--182294 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
182252 GGACGCGTAT
182262 GGTATGGTGATTGGG
1 GGTATGGTGATTGGG
182277 GGTATGGTGATTGGG
1 GGTATGGTGATTGGG
182292 GGT
1 GGT
182295 TTTGCTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.55, T:0.33
Consensus pattern (15 bp):
GGTATGGTGATTGGG
Found at i:184842 original size:15 final size:15
Alignment explanation
Indices: 184822--184851 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
184812 TAAATGGCTC
*
184822 CTATGATCCGCCATT
1 CTATGATCCACCATT
184837 CTATGATCCACCATT
1 CTATGATCCACCATT
184852 GAAGCTGGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.33
Consensus pattern (15 bp):
CTATGATCCACCATT
Found at i:190040 original size:13 final size:13
Alignment explanation
Indices: 190019--190059 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
190009 AGGCACTTGA
*
190019 TTAAATGTGAGAT
1 TTAAGTGTGAGAT
190032 TTAAGTGTGAGAT
1 TTAAGTGTGAGAT
*
190045 TTAAGTGTGACAT
1 TTAAGTGTGAGAT
190058 TT
1 TT
190060 TAACTCTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.41
Consensus pattern (13 bp):
TTAAGTGTGAGAT
Found at i:198859 original size:23 final size:23
Alignment explanation
Indices: 198800--198870 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
198790 ATTATAAATT
*
198800 AATAATTATTTCAAAATTAATTATTA
1 AATAATTATTT--AAATT-ATTATAA
*
198826 AAT--TTA-CTAAATTATTATAA
1 AATAATTATTTAAATTATTATAA
* *
198846 AATAATTATTTAAAATGTTATAA
1 AATAATTATTTAAATTATTATAA
198869 AA
1 AA
198871 CAACCATTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
20 9 0.24
21 5 0.14
22 3 0.08
23 14 0.38
24 3 0.08
26 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (23 bp):
AATAATTATTTAAATTATTATAA
Found at i:205523 original size:3 final size:3
Alignment explanation
Indices: 205515--205541 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
205505 GAATAGGGTT
205515 TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG
205542 ATTATAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:206730 original size:2 final size:2
Alignment explanation
Indices: 206723--206751 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
206713 TTGATATTGC
206723 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
206752 CAGTATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:207053 original size:2 final size:2
Alignment explanation
Indices: 207046--207099 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
207036 TGTATTCACA
* *
207046 AT AT AT AT AC AT AC 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
207088 AT AT AT AT AT AT
1 AT AT AT AT AT AT
207100 TCATATGCGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:215105 original size:21 final size:20
Alignment explanation
Indices: 215065--215106 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
215055 CAAACTTACA
*
215065 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
215085 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
215106 A
1 A
215107 GTTGCATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:215133 original size:20 final size:20
Alignment explanation
Indices: 215108--215146 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
215098 CTATTATTAG
215108 TTGCATGACAACTAATAATT
1 TTGCATGACAACTAATAATT
215128 TTGCATGACAACTAATAAT
1 TTGCATGACAACTAATAAT
215147 CTCCCACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (20 bp):
TTGCATGACAACTAATAATT
Found at i:219703 original size:21 final size:20
Alignment explanation
Indices: 219663--219704 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
219653 CCAACTTACA
*
219663 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
219683 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
219704 A
1 A
219705 GTTGCATGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:219731 original size:20 final size:21
Alignment explanation
Indices: 219706--219748 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
219696 CTATTATTAG
*
219706 TTGCATGGCAACTAATA-ATT
1 TTGCATGACAACTAATAGATT
219726 TTGCATGACAACTAATAGATT
1 TTGCATGACAACTAATAGATT
219747 TT
1 TT
219749 TAAACAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (21 bp):
TTGCATGACAACTAATAGATT
Found at i:223073 original size:2 final size:2
Alignment explanation
Indices: 223066--223094 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
223056 TCCCCTACAA
223066 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
223095 AACAGTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:227171 original size:2 final size:2
Alignment explanation
Indices: 227123--227158 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
227113 AGAAATTATT
227123 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
227159 CCCACTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:228680 original size:35 final size:35
Alignment explanation
Indices: 228633--228708 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
228623 AAAACAGTCC
* *
228633 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
228668 TCAATTTTATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
228703 TCAATT
1 TCAATT
228709 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:229249 original size:130 final size:130
Alignment explanation
Indices: 229103--229350 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
229093 TATTTATATA
* **
229103 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
229168 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGTT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGTT
229233 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
229298 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
229351 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGTT
Found at i:229381 original size:130 final size:129
Alignment explanation
Indices: 229117--229381 Score: 318
Period size: 130 Copynumber: 2.0 Consensus size: 129
229107 ATTTGGTCCT
* ** *
229117 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
229182 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGTTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGTTATCAAAGAAGT-CA
229247 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * *
229312 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGTTATCAAAGAAGT
229376 -A
128 CA
229377 AAATT
1 AAATT
229382 TGGGTCTTGG
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 6 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGTTATCAAAGAAGTCA
Found at i:229843 original size:15 final size:17
Alignment explanation
Indices: 229818--229849 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
229808 ATTTCTTATT
229818 AAAAATAAAAT-ATTCA
1 AAAAATAAAATGATTCA
229834 AAAAAT-AAATGATTCA
1 AAAAATAAAATGATTCA
229850 TACATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAAATAAAATGATTCA
Found at i:230734 original size:35 final size:34
Alignment explanation
Indices: 230690--230802 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 34
230680 AAAACAATTC
*
230690 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
*
230725 TCAATTTCATTCTAAACTCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAAC-CCAAATTCCAAAATAAT
* * *
230760 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
230795 TCAATTTC
1 TCAATTTC
230803 TGTCTTTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
35 64 0.93
36 5 0.07
ACGTcount: A:0.42, C:0.22, G:0.01, T:0.35
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:231866 original size:35 final size:34
Alignment explanation
Indices: 231818--231929 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 34
231808 ATTTCTCCTT
*
231818 AAATTGAAGTATTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTGGGGTTTAGAATG
* *
231853 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTGGGGTTTAGAATG
* * *
231888 AAATTGAATTACTTTGAAATTTGGGATTTATAATG
1 AAATTGAATTATTTTG-AATTTGGGGTTTAGAATG
231923 AAATTGA
1 AAATTGA
231930 GGAATGTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
34 1 0.01
35 66 0.99
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTGAATTTGGGGTTTAGAATG
Found at i:241934 original size:22 final size:22
Alignment explanation
Indices: 241904--241959 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
241894 ACTCTCTACG
*
241904 GCGACATCCGTCCCCATCTCC-
1 GCGAAATCCGTCCCCATCTCCA
241925 GACGAAATCCGTCCCCATCTCCA
1 G-CGAAATCCGTCCCCATCTCCA
*
241948 GCGAAATTCGTC
1 GCGAAATCCGTC
241960 TATCTCCACC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
GCGAAATCCGTCCCCATCTCCA
Found at i:242383 original size:20 final size:20
Alignment explanation
Indices: 242355--242407 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
242345 CATGATTTAG
*
242355 TTTCGCGTTGTGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
*
242375 TTTCACGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
242395 TTTCGCGTTGCGA
1 TTTCGCGTTGCGA
242408 ATTTAAGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.11, C:0.19, G:0.21, T:0.49
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:242418 original size:20 final size:20
Alignment explanation
Indices: 242349--242418 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
242339 TCGCAACATG
*
242349 ATTT-AGTTTCGCGTTGTGA
1 ATTTCAGTTTCGCGTTGCGA
* * *
242368 TTTTCATTTTCACGTTGCGA
1 ATTTCAGTTTCGCGTTGCGA
* *
242388 TTTTCATTTTCGCGTTGCGA
1 ATTTCAGTTTCGCGTTGCGA
*
242408 ATTTAAGTTTC
1 ATTTCAGTTTC
242419 AGAAACTACT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 3 0.07
20 39 0.93
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (20 bp):
ATTTCAGTTTCGCGTTGCGA
Found at i:245797 original size:3 final size:3
Alignment explanation
Indices: 245789--245863 Score: 100
Period size: 3 Copynumber: 24.7 Consensus size: 3
245779 GGCATGTTTG
*
245789 TAA TAA TAA TAA TAA TAAA TAA -AA TAA TAA TAT TAA TAA TAA TATA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
245835 TAA -AA TAA TAA TAA TAA TAAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
245864 GAAAATGGAG
Statistics
Matches: 65, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
2 4 0.06
3 52 0.80
4 9 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:245827 original size:27 final size:27
Alignment explanation
Indices: 245789--245861 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
245779 GGCATGTTTG
245789 TAATAATAATAATAATAAATAAAATAA
1 TAATAATAATAATAATAAATAAAATAA
* *
245816 TAATATTAATAATAATATATAAAATAA
1 TAATAATAATAATAATAAATAAAATAA
245843 TAATAATAATAAATAATAA
1 TAATAATAAT-AATAATAA
245862 TAGAAAATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 34 0.83
28 7 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
TAATAATAATAATAATAAATAAAATAA
Found at i:246366 original size:124 final size:122
Alignment explanation
Indices: 246087--246397 Score: 462
Period size: 124 Copynumber: 2.5 Consensus size: 122
246077 ATGTAATTTG
* * *
246087 GAAAAGGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GAAAAAGGTTGAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
246152 ATTATGAACTTTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTATGATAGAGTCAT
66 ATTATGAACTTTCTGGAAAAGTTGATGCTGATCTATCTCATTCTATAATAGAATCAT
* * * *
246209 GAAAAAGGTTGAACAAAATTTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTATTCTC
1 GAAAAAGGTTGAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
246274 ATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTAAT-TCATTCTGTAATAGAATTAT
66 ATTATGAAC-TT-TCTGGAAAAGTTGATGCTGATCT-ATCTCATTCTATAATAGAATCAT
* *
246333 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GAAAAAGGTTGAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
246398 TATCTGGCAA
Statistics
Matches: 168, Mismatches: 18, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
122 67 0.40
123 2 0.01
124 97 0.58
125 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (122 bp):
GAAAAAGGTTGAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTGGAAAAGTTGATGCTGATCTATCTCATTCTATAATAGAATCAT
Found at i:246518 original size:113 final size:113
Alignment explanation
Indices: 246401--247331 Score: 1601
Period size: 113 Copynumber: 8.2 Consensus size: 113
246391 TCTTCTCTAT
* * * * *
246401 CTGGCAATGTTGATCCATAGAATGATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATG
1 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
*
246466 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAC
66 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
* * *
246514 CTGGCAGTGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
1 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
* *
246579 AACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAC
66 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
* * *
246627 ATGGCAATGCTGATCCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATG
1 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
246692 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
66 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
246740 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
1 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
*
246805 AACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
66 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
* *
246853 CTGGTAATGCTGATCCATCGAATGATGAATTCAATCGAAAAGTTGAACAAGTTTTTCTCATTATG
1 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
* *
246918 AACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAC
66 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
* * * *
246966 CTGGCAATACTGATCCATCGAATGATGAATTCAAGCAAAAAATTGAACAAGTTCTTCTCATTATG
1 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
*
247031 AACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTCGAC
66 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
247079 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
1 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
*
247144 AACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
66 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
*
247192 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTAAACAAGTTCTTCTCATTATG
1 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
* *
247257 AACTTCTTATTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
66 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
*
247305 CTGGTAATGCTGATCCATTGAATGATG
1 CTGGTAATGCTGATCCATCGAATGATG
247332 GATTTAAACT
Statistics
Matches: 778, Mismatches: 40, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 778 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (113 bp):
CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
Found at i:246756 original size:339 final size:339
Alignment explanation
Indices: 246098--247331 Score: 1721
Period size: 339 Copynumber: 3.6 Consensus size: 339
246088 AAAAGGGTTA
*
246098 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
1 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAAC--
*** * * * ** * * *
246163 TCTGGAAAAGTTGATGCTGATCTATCTCCTTCTATGAT-AGAGTCATG-AAAAAGGTTGAACAAA
64 TC--GACCTGGTAATGCTGATCCA--T-C--GAATGATGA-ATTCAAGCGAAAA-GTTGAAC-AA
* * * * *
246226 ATT-TTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTATTCTCATTATGAACTT-TCTC
119 GTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAC-C
* * * *
246289 TGGAAAAGTTGATGCTGATCTAATTCATTCTGTAAT-A-GAATT-ATGCAAAAGGTTGAACAAGC
183 TGG--CA----ATGCTGATC-----CA-TC-G-AATGATGAATTCAAGCAAAAAGTTGAACAAGT
246351 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC----T--A-T----CTGG
234 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGG
* * * *
246405 CAATGTTGATCCATAGAATGATGAATTCAAGCAAAAAGTTG
299 TAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTG
* * *
246446 AACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
1 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTC
* * *
246511 GACCTGGCAGTGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATT
66 GACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATT
*
246576 ATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACATGGCAATGCTGAT
131 ATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCAATGCTGAT
246641 CCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
196 CCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
246706 TCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATT
261 TCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATT
246771 CAAGCGAAAAGTTG
326 CAAGCGAAAAGTTG
246785 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTC
1 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTC
* *
246850 GACCTGGTAATGCTGATCCATCGAATGATGAATTCAATCGAAAAGTTGAACAAGTTTTTCTCATT
66 GACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATT
*
246915 ATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCAATACTGAT
131 ATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCAATGCTGAT
*
246980 CCATCGAATGATGAATTCAAGCAAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
196 CCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
*
247045 TCTTCAGACGAGTTCTTCTCATTATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATT
261 TCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATT
247110 CAAGCGAAAAGTTG
326 CAAGCGAAAAGTTG
247124 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTC
1 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTC
*
247189 GACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTAAACAAGTTCTTCTCATT
66 GACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATT
* * *
247254 ATGAACTTCTTATTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGTAATGCTGAT
131 ATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCAATGCTGAT
*
247319 CCATTGAATGATG
196 CCATCGAATGATG
247332 GATTTAAACT
Statistics
Matches: 818, Mismatches: 50, Indels: 45
0.90 0.05 0.05
Matches are distributed among these distances:
325 3 0.00
326 2 0.00
327 7 0.01
328 66 0.08
332 1 0.00
333 9 0.01
334 1 0.00
335 1 0.00
337 1 0.00
338 4 0.00
339 641 0.78
340 6 0.01
341 1 0.00
342 1 0.00
344 11 0.01
346 1 0.00
348 62 0.08
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (339 bp):
AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTC
GACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATT
ATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCAATGCTGAT
CCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
TCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATT
CAAGCGAAAAGTTG
Found at i:248248 original size:115 final size:114
Alignment explanation
Indices: 248047--248270 Score: 376
Period size: 115 Copynumber: 2.0 Consensus size: 114
248037 GATCATGCAG
* * *
248047 TTCATCTTTCAATTCTAATGATTGGTTCTAGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGGTTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
248112 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAA
* * *
248161 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTTATACCAAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCTAATGATTGGTTCTAGGGTTCATACC-AAACCAGATCAGATAACTCAAAG
248226 AACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
65 AACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
248271 TAACGTGGCA
Statistics
Matches: 102, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
114 36 0.35
115 66 0.65
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (114 bp):
TTCATCTTTCAAATCTAATGATTGGTTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAA
Found at i:249039 original size:21 final size:19
Alignment explanation
Indices: 249007--249065 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 19
248997 CCCCCTTTTT
249007 TTCTT-TTTTTTTCTTCTTA
1 TTCTTCTTTTTTT-TTCTTA
*
249026 TTCTTCTCTTTTTTTTTCTTT
1 TTC-T-TCTTTTTTTTTCTTA
249047 TTCTTCTTTTCTTTTTCTT
1 TTCTTCTTTT-TTTTTCTT
249066 CAAGCATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 9 0.26
20 10 0.29
21 9 0.26
22 7 0.20
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (19 bp):
TTCTTCTTTTTTTTTCTTA
Found at i:249040 original size:24 final size:24
Alignment explanation
Indices: 249008--249062 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
248998 CCCCTTTTTT
249008 TCTTTTTTTTTCTTCTTATTCTTC
1 TCTTTTTTTTTCTTCTTATTCTTC
* * *
249032 TCTTTTTTTTTCTTTTTCTTCTTT
1 TCTTTTTTTTTCTTCTTATTCTTC
249056 TCTTTTT
1 TCTTTTT
249063 CTTCAAGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (24 bp):
TCTTTTTTTTTCTTCTTATTCTTC
Found at i:256341 original size:15 final size:15
Alignment explanation
Indices: 256318--256349 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
256308 TGCAATGAAT
256318 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
256333 AATGCATGTATGCAA
1 AATGAATGTATGCAA
256348 AA
1 AA
256350 GGTATTGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:260109 original size:108 final size:108
Alignment explanation
Indices: 259997--260197 Score: 257
Period size: 109 Copynumber: 1.9 Consensus size: 108
259987 TATATATATT
* *
259997 TATAA-ATA-AAATATTTATTTATTTAGAAATATCAGAAAA-GGACTTCTAGGTACCTTAAGAC-
1 TATAATATATAAA-ATTTATTTATTTAAAAATATCAGAAAATGGACATCTAGGTACCTTAAGACT
* *
260058 AGCTCTTTTCTTCGATATTAAAAAATAAATAATTAAAACAATTAATA
65 A-C-CCTTTCTT-AATATTAAAAAATAAATAATTAAAACAATTAATA
* * ***
260105 TATAATTTATAAAATTTATTTATTTAAAAATATCAGAAAATGGACATCTAGTTGTTTTAAGACTA
1 TATAATATATAAAATTTATTTATTTAAAAATATCAGAAAATGGACATCTAGGTACCTTAAGACTA
260170 CCCTTTCTTAATATTAAAAAATAAATAA
66 CCCTTTCTTAATATTAAAAAATAAATAA
260198 ATATTAAAAC
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
108 23 0.29
109 35 0.44
110 21 0.26
111 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.37
Consensus pattern (108 bp):
TATAATATATAAAATTTATTTATTTAAAAATATCAGAAAATGGACATCTAGGTACCTTAAGACTA
CCCTTTCTTAATATTAAAAAATAAATAATTAAAACAATTAATA
Found at i:260291 original size:3 final size:3
Alignment explanation
Indices: 260283--260315 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
260273 TTTATGGCTA
*
260283 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
260316 TAAAAGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:261680 original size:3 final size:3
Alignment explanation
Indices: 261672--261742 Score: 110
Period size: 3 Copynumber: 23.7 Consensus size: 3
261662 GGCCTGTTTG
261672 TAA TAA TAA TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
261717 TATA TAA -AA TAA TAA TAA TAA TAA TA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TA
261743 GAAAATGGAG
Statistics
Matches: 64, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.06
3 54 0.84
4 6 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:261710 original size:27 final size:27
Alignment explanation
Indices: 261672--261742 Score: 133
Period size: 27 Copynumber: 2.6 Consensus size: 27
261662 GGCCTGTTTG
261672 TAATAATAATAATAATAATAAATAAAA
1 TAATAATAATAATAATAATAAATAAAA
*
261699 TAATAATAATAATAATAATATATAAAA
1 TAATAATAATAATAATAATAAATAAAA
261726 TAATAATAATAATAATA
1 TAATAATAATAATAATA
261743 GAAAATGGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (27 bp):
TAATAATAATAATAATAATAAATAAAA
Found at i:262722 original size:42 final size:42
Alignment explanation
Indices: 262676--262769 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
262666 CGTCTCCTAT
* *
262676 CGTTCAAGAGGCTCCTCTCATC-ATCGAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCTCATCGATC-AAGAGGCCCCGCCCAC
* * * *
262718 CGTTCAAGAGGCCCCTGTCATCGTTCAAGAGGTCCCGCCCGC
1 CGTTCAAGAGGCCCCTCTCATCGATCAAGAGGCCCCGCCCAC
262760 CGTTCAAGAG
1 CGTTCAAGAG
262770 CCCTATTCAC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.20, C:0.37, G:0.23, T:0.19
Consensus pattern (42 bp):
CGTTCAAGAGGCCCCTCTCATCGATCAAGAGGCCCCGCCCAC
Found at i:262726 original size:21 final size:21
Alignment explanation
Indices: 262657--262769 Score: 93
Period size: 21 Copynumber: 5.4 Consensus size: 21
262647 CCTATAATCA
** *
262657 TTCAAGAGGCGTCTCCTATCG
1 TTCAAGAGGCCCCTCCCATCG
* *
262678 TTCAAGAGGCTCCTCTCATC-
1 TTCAAGAGGCCCCTCCCATCG
* *
262698 ATCGAAGAGGCCCCTCCCACCG
1 TTC-AAGAGGCCCCTCCCATCG
**
262720 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGGCCCCTCCCATCG
* * **
262741 TTCAAGAGGTCCCGCCCGCCG
1 TTCAAGAGGCCCCTCCCATCG
262762 TTCAAGAG
1 TTCAAGAG
262770 CCCTATTCAC
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
20 2 0.03
21 68 0.94
22 2 0.03
ACGTcount: A:0.20, C:0.35, G:0.23, T:0.21
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCATCG
Found at i:264265 original size:67 final size:66
Alignment explanation
Indices: 264100--264274 Score: 237
Period size: 67 Copynumber: 2.6 Consensus size: 66
264090 TGGGGTACAC
* *
264100 TTTTTTTTGCTTGTTTAATTGAATTTTACATTGAAAGTTGATTTGTTTAATTGATGAGGAAATAA
1 TTTTTTTTGCTTGTTTAATTG-A--TT--AGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAA
264165 GAATTA
61 GAATTA
* * *
264171 --TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAAT
1 TTTTTTTTGCTTGTTTAATTGATTAGTAAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAAT
264234 TA
65 TA
264236 TTTTTTTTGCTTGTTTAATTGATTAGTAAAAGTTGATTT
1 TTTTTTTTGCTTGTTTAATTGATTAGTAAAAGTTGATTT
264275 ATTGTTTTAA
Statistics
Matches: 95, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
64 18 0.19
65 19 0.20
66 2 0.02
67 36 0.38
68 1 0.01
69 19 0.20
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.53
Consensus pattern (66 bp):
TTTTTTTTGCTTGTTTAATTGATTAGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATT
A
Found at i:267197 original size:12 final size:12
Alignment explanation
Indices: 267180--267207 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
267170 GGGTTTTAAG
267180 ATTGTGTTTGAT
1 ATTGTGTTTGAT
267192 ATTGTGTTTGAT
1 ATTGTGTTTGAT
267204 ATTG
1 ATTG
267208 GAAATGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (12 bp):
ATTGTGTTTGAT
Found at i:267824 original size:16 final size:15
Alignment explanation
Indices: 267802--267840 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
267792 GAAATCATTG
267802 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
267818 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
267833 AAAAATTA
1 AAAAATTA
267841 GAGATGGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:268020 original size:19 final size:18
Alignment explanation
Indices: 267977--268023 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
267967 CAAAACATTT
267977 GTGTTGCGAAACTAAAAC
1 GTGTTGCGAAACTAAAAC
* * *
267995 CTGTTGCGAAATTAAATTC
1 GTGTTGCGAAACTAAA-AC
268014 GTGTTGCGAA
1 GTGTTGCGAA
268024 TTCGAAAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (18 bp):
GTGTTGCGAAACTAAAAC
Found at i:268089 original size:20 final size:20
Alignment explanation
Indices: 268037--268090 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
268027 GAAAATCTAG
*
268037 TTGCGAATTTGAATATCGCA
1 TTGCGAATTTGACTATCGCA
*
268057 TTGCGAATTTGACTATCGCC
1 TTGCGAATTTGACTATCGCA
*
268077 TTGTGAATTTGACT
1 TTGCGAATTTGACT
268091 TCTGTGTTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCGAATTTGACTATCGCA
Found at i:268121 original size:20 final size:20
Alignment explanation
Indices: 268096--268162 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
268086 TGACTTCTGT
* *
268096 GTTGCGATTTACAAATTGGC
1 GTTGCGATTTACAGATTCGC
268116 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
268136 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
268156 GTTGCGA
1 GTTGCGA
268163 AATTGGAAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCGC
Found at i:268199 original size:20 final size:19
Alignment explanation
Indices: 268149--268203 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
268139 GCGATTTACA
268149 GATTCGCGTTGCGAAATTG
1 GATTCGCGTTGCGAAATTG
** *
268168 GAAACTGGGTTGCGAAATTG
1 GATTC-GCGTTGCGAAATTG
268188 GAGTTCGCGTTGCGAA
1 GA-TTCGCGTTGCGAA
268204 TTTGTTGGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.11
20 24 0.86
21 1 0.04
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.27
Consensus pattern (19 bp):
GATTCGCGTTGCGAAATTG
Found at i:272395 original size:2 final size:2
Alignment explanation
Indices: 272390--272422 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
272380 TATAAATTGT
272390 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
272423 CCTTCGACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:275258 original size:49 final size:49
Alignment explanation
Indices: 275185--275279 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
275175 AGGTGCTCAA
* **
275185 CAGGGGCGAACCTCCATGGAGCCCGGGGTATCCCGGGCAACCCCTCATC
1 CAGGGGCGAACCTCCATGGAGCCCGGGATATCCCAAGCAACCCCTCATC
* * *
275234 CAGGGGTGGACCTCCATGGTGCCCGGGATATCCCAAGCAACCCCTC
1 CAGGGGCGAACCTCCATGGAGCCCGGGATATCCCAAGCAACCCCTC
275280 CATAAGTGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.19, C:0.38, G:0.29, T:0.14
Consensus pattern (49 bp):
CAGGGGCGAACCTCCATGGAGCCCGGGATATCCCAAGCAACCCCTCATC
Found at i:275308 original size:16 final size:17
Alignment explanation
Indices: 275273--275311 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
275263 ATCCCAAGCA
*
275273 ACCCCTCCATAAGTGAC
1 ACCCCTCCAAAAGTGAC
*
275290 ACCCCT-CAAAAGTGTC
1 ACCCCTCCAAAAGTGAC
275306 ACCCCT
1 ACCCCT
275312 GGCTCTTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.28, C:0.44, G:0.10, T:0.18
Consensus pattern (17 bp):
ACCCCTCCAAAAGTGAC
Found at i:275729 original size:19 final size:18
Alignment explanation
Indices: 275694--275729 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
275684 TATAACAAGT
*
275694 ATATAAAAATTAGGTTTA
1 ATATAAAAATAAGGTTTA
275712 ATATAAAAATAAGTGTTT
1 ATATAAAAATAAG-GTTT
275730 GAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (18 bp):
ATATAAAAATAAGGTTTA
Found at i:279011 original size:2 final size:2
Alignment explanation
Indices: 279004--279083 Score: 144
Period size: 2 Copynumber: 40.5 Consensus size: 2
278994 GTTGAAAATA
*
279004 AT AT AT AT AC 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
279046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
279084 ACTTCTCACT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 74 0.99
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:283297 original size:27 final size:27
Alignment explanation
Indices: 283267--283427 Score: 160
Period size: 27 Copynumber: 6.3 Consensus size: 27
283257 GCATGCTCAC
* * *
283267 CAACAGCAGCAGCAGCAGCAGCAGCAG
1 CAACAGCAGCAGCAGCAGCAACAACAA
* * *
283294 CAACAACAACAGCAGC---AACAACAG
1 CAACAGCAGCAGCAGCAGCAACAACAA
* *
283318 CAGCAGCAGCAGCAGCAACAACAAC--
1 CAACAGCAGCAGCAGCAGCAACAACAA
283343 ----AGCAGCAGCAGCAGCAACAACAA
1 CAACAGCAGCAGCAGCAGCAACAACAA
283366 CAACAGCAGCAGCAGCAGCAACAACAA
1 CAACAGCAGCAGCAGCAGCAACAACAA
* *
283393 CAACAGCAGCAGCAGCAACAACAACAG
1 CAACAGCAGCAGCAGCAGCAACAACAA
*
283420 CAGCAGCA
1 CAACAGCA
283428 ACAACAGCCT
Statistics
Matches: 114, Mismatches: 11, Indels: 18
0.80 0.08 0.13
Matches are distributed among these distances:
21 20 0.18
24 19 0.17
27 75 0.66
ACGTcount: A:0.46, C:0.34, G:0.20, T:0.00
Consensus pattern (27 bp):
CAACAGCAGCAGCAGCAGCAACAACAA
Found at i:283318 original size:24 final size:24
Alignment explanation
Indices: 283268--283433 Score: 215
Period size: 24 Copynumber: 6.9 Consensus size: 24
283258 CATGCTCACC
* * *
283268 AACAGCAGCAGCAGCAGCAGCAGC
1 AACAACAGCAGCAGCAGCAACAAC
* * *
283292 AGCAACAACAACAGCAGCAACAAC
1 AACAACAGCAGCAGCAGCAACAAC
* *
283316 AGCAGCAGCAGCAGCAGCAACAAC
1 AACAACAGCAGCAGCAGCAACAAC
*
283340 AACAGCAGCAGCAGCAGCAACAAC
1 AACAACAGCAGCAGCAGCAACAAC
*
283364 AACAACAGCAGCAGCAGCAGCAAC
1 AACAACAGCAGCAGCAGCAACAAC
* *
283388 AACAACAACAGCAGCAGCAGCAAC
1 AACAACAGCAGCAGCAGCAACAAC
*
283412 AACAACAGCAGCAGCAACAACA
1 AACAACAGCAGCAGCAGCAACA
283434 GCCTCAACAA
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 126 1.00
ACGTcount: A:0.47, C:0.33, G:0.20, T:0.00
Consensus pattern (24 bp):
AACAACAGCAGCAGCAGCAACAAC
Found at i:283433 original size:3 final size:3
Alignment explanation
Indices: 283270--283427 Score: 145
Period size: 3 Copynumber: 52.7 Consensus size: 3
283260 TGCTCACCAA
* * * * *
283270 CAG CAG CAG CAG CAG CAG CAG CAG CAA CAA CAA CAG CAG CAA CAA CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * * * *
283318 CAG CAG CAG CAG CAG CAA CAA CAA CAG CAG CAG CAG CAG CAA CAA CAA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * * * * *
283366 CAA CAG CAG CAG CAG CAG CAA CAA CAA CAA CAG CAG CAG CAG CAA CAA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
*
283414 CAA CAG CAG CAG CA
1 CAG CAG CAG CAG CA
283428 ACAACAGCCT
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 143 1.00
ACGTcount: A:0.46, C:0.34, G:0.21, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:283435 original size:27 final size:27
Alignment explanation
Indices: 283309--283427 Score: 181
Period size: 27 Copynumber: 4.5 Consensus size: 27
283299 ACAACAGCAG
* *
283309 CAACAACAGCAGCAGCAGCAGCAGCAA
1 CAACAGCAGCAGCAGCAGCAGCAACAA
*
283336 CAACAACAGCAGCAGCAGCAGCAACAA
1 CAACAGCAGCAGCAGCAGCAGCAACAA
*
283363 CAACAACAGCAGCAGCAGCAGCAACAA
1 CAACAGCAGCAGCAGCAGCAGCAACAA
283390 CAACA--A-CAGCAGCAGCAGCAACAA
1 CAACAGCAGCAGCAGCAGCAGCAACAA
283414 CAACAGCAGCAGCA
1 CAACAGCAGCAGCA
283428 ACAACAGCCT
Statistics
Matches: 88, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
24 23 0.26
25 1 0.01
26 1 0.01
27 63 0.72
ACGTcount: A:0.47, C:0.34, G:0.19, T:0.00
Consensus pattern (27 bp):
CAACAGCAGCAGCAGCAGCAGCAACAA
Found at i:289890 original size:18 final size:18
Alignment explanation
Indices: 289851--289889 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
289841 CAAACTCGTG
*
289851 AAAA-TATTAATCATATA
1 AAAACTATTAATCACATA
289868 AAAACTATTAAGTCACATA
1 AAAACTATTAA-TCACATA
289887 AAA
1 AAA
289890 CAACCTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 6 0.32
19 9 0.47
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAACTATTAATCACATA
Found at i:292253 original size:21 final size:21
Alignment explanation
Indices: 292229--292291 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
292219 TTATTAATGC
292229 ATGCATGTATGTATAATATGT
1 ATGCATGTATGTATAATATGT
*
292250 ATGCATATATGTATAAT-T-T
1 ATGCATGTATGTATAATATGT
** * *
292269 ATTAATGCATGTATGATATGT
1 ATGCATGTATGTATAATATGT
292290 AT
1 AT
292292 ATTAATGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
21 19 0.56
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
ATGCATGTATGTATAATATGT
Done.