Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1928
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: 404355
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 2 of 3
Found at i:168377 original size:19 final size:20
Alignment explanation
Indices: 168349--168405 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
168339 TTATATCGAT
*
168349 ACATTATATCCATACATGT-
1 ACATTGTATCCATACATGTC
* *
168368 TCATTGTATCGATACAT-TC
1 ACATTGTATCCATACATGTC
168387 ACAATTGTATCCATACATG
1 AC-ATTGTATCCATACATG
168406 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.03
19 15 0.50
20 14 0.47
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (20 bp):
ACATTGTATCCATACATGTC
Found at i:171807 original size:19 final size:19
Alignment explanation
Indices: 171783--171850 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
171773 AATTCAACGA
171783 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
171802 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
171817 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
171834 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
171851 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:171821 original size:32 final size:32
Alignment explanation
Indices: 171785--171847 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
171775 TTCAACGATT
*
171785 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
171817 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
171848 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:171822 original size:13 final size:13
Alignment explanation
Indices: 171804--171828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171794 ACATAAGTTT
171804 TGTATCGATACAA
1 TGTATCGATACAA
171817 TGTATCGATACA
1 TGTATCGATACA
171829 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:171908 original size:13 final size:13
Alignment explanation
Indices: 171890--171915 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
171880 CATTTTTCTG
171890 TGTATCGATACAT
1 TGTATCGATACAT
171903 TGTATCGATACAT
1 TGTATCGATACAT
171916 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:171914 original size:33 final size:33
Alignment explanation
Indices: 171872--171936 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
171862 CAAGGAAATA
***
171872 TATCGATACATTTTTCTGTGTATCGATACATTG
1 TATCGATACATGGATCTGTGTATCGATACATTG
*
171905 TATCGATACATGGATCTTTGTATCGATACATT
1 TATCGATACATGGATCTGTGTATCGATACATT
171937 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TATCGATACATGGATCTGTGTATCGATACATTG
Found at i:174469 original size:28 final size:27
Alignment explanation
Indices: 174402--174474 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
174392 CTTCACAATC
* *
174402 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
174429 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
174457 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
174475 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:174519 original size:51 final size:51
Alignment explanation
Indices: 174457--174627 Score: 207
Period size: 51 Copynumber: 3.3 Consensus size: 51
174447 TTATTTCTGA
* * *
174457 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * *
174508 GGGGATACTCCAACCCCGATTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
174561 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
174613 GAGGATACTCCAACC
1 GGGGATACTCCAACC
174628 TCGTTATTTC
Statistics
Matches: 99, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
51 37 0.37
52 18 0.18
53 33 0.33
54 11 0.11
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:174646 original size:28 final size:28
Alignment explanation
Indices: 174610--174691 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
174600 ATTTTTCACA
*
174610 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
174638 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
174666 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
174692 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:175850 original size:34 final size:33
Alignment explanation
Indices: 175775--175853 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
175765 GTAGCTACAC
* *
175775 TATCAATA-TTTGTATCGATACATGGGACAATG
1 TATCAATACATTGTATCAATACATGGGACAATG
*
175807 TATCGATACATTGTATCAATACATGAGGA-AATTG
1 TATCAATACATTGTATCAATACATG-GGACAA-TG
175841 TATCAATACATTG
1 TATCAATACATTG
175854 CTTGTAACGA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
32 7 0.17
33 16 0.40
34 17 0.43
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (33 bp):
TATCAATACATTGTATCAATACATGGGACAATG
Found at i:177444 original size:3 final size:3
Alignment explanation
Indices: 177436--177469 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
177426 TGAAGGGGAA
*
177436 GAT GAT GAT GAT GAT GAT GAT GAT GGT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
177470 GTGACTTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:178111 original size:21 final size:21
Alignment explanation
Indices: 178061--178111 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
178051 AAGTTGATAT
* *
178061 TAAAAAACTGGCTAATGAAAA
1 TAAAAAATTAGCTAATGAAAA
**
178082 TAATGAATTAGCTAA-GAAAAA
1 TAAAAAATTAGCTAATG-AAAA
178103 TAAAAAATT
1 TAAAAAATT
178112 GCATGATTCA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (21 bp):
TAAAAAATTAGCTAATGAAAA
Found at i:184559 original size:13 final size:13
Alignment explanation
Indices: 184541--184589 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
184531 CATGGGACAA
184541 TGTATCGATACAT
1 TGTATCGATACAT
184554 TGTATCGATACA-
1 TGTATCGATACAT
*
184566 TG-A-GGA-A-AT
1 TGTATCGATACAT
184575 TGTATCGATACAT
1 TGTATCGATACAT
184588 TG
1 TG
184590 CTTGTAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:184584 original size:34 final size:33
Alignment explanation
Indices: 184520--184589 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 33
184510 CTATCACTAT
184520 TTGTATCGATACATGGGACAATGTATCGATACA
1 TTGTATCGATACATGGGACAATGTATCGATACA
184553 TTGTATCGATACATGAGGA-AATTGTATCGATACA
1 TTGTATCGATACATG-GGACAA-TGTATCGATACA
184587 TTG
1 TTG
184590 CTTGTAACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 17 0.49
34 18 0.51
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGGGACAATGTATCGATACA
Found at i:186548 original size:19 final size:20
Alignment explanation
Indices: 186488--186558 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
186478 CAGTTTCATA
186488 TATCGATACAATTATGCATG
1 TATCGATACAATTATGCATG
186508 TATCGATACAATTATGCATG
1 TATCGATACAATTATGCATG
* *
186528 TATCGATACAATGA-ACATG
1 TATCGATACAATTATGCATG
186547 TATCGATACAAT
1 TATCGATACAAT
186559 ATATCAATAC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 16 0.33
20 33 0.67
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACAATTATGCATG
Found at i:193918 original size:11 final size:11
Alignment explanation
Indices: 193887--193962 Score: 50
Period size: 11 Copynumber: 6.9 Consensus size: 11
193877 ATTCTCTTCG
*
193887 AAAAAAAAAAC
1 AAAAAAAAAGC
*
193898 AAGAACAAAAGC
1 AA-AAAAAAAGC
*
193910 AAAAAAAAAAAC
1 -AAAAAAAAAGC
*
193922 AAAAAAAAAAC
1 AAAAAAAAAGC
*
193933 -AAAACAAAG-
1 AAAAAAAAAGC
*
193942 AAAAAAGAGAG-
1 AAAAAA-AAAGC
193953 AAAAAAAAAG
1 AAAAAAAAAG
193963 AACCTGCTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
10 14 0.27
11 22 0.42
12 14 0.27
13 2 0.04
ACGTcount: A:0.83, C:0.08, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGC
Found at i:193919 original size:24 final size:24
Alignment explanation
Indices: 193887--193959 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 24
193877 ATTCTCTTCG
* *
193887 AAAAAAAAAACAAGAACAAAAGCA
1 AAAAAAAAAACAAGAAAAAAAACA
193911 AAAAAAAAAACAA-AAAAAAAACA
1 AAAAAAAAAACAAGAAAAAAAACA
*
193934 AAACAAAGAAAAAAGAGAGAAAAAAA
1 AAA-AAA-AAAACA-AGA-AAAAAAA
193960 AAGAACCTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 11 0.27
24 16 0.39
25 5 0.12
26 1 0.02
27 1 0.02
28 7 0.17
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAACAAGAAAAAAAACA
Found at i:193920 original size:29 final size:28
Alignment explanation
Indices: 193887--193961 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
193877 ATTCTCTTCG
* *
193887 AAAAAA-AAAACAAGAACAAAAGCAAAAA
1 AAAAAACAAAAAAAAAACAAAA-CAAAAA
193915 AAAAAACAAAAAAAAAACAAAACAAAGAA
1 AAAAAACAAAAAAAAAACAAAACAAA-AA
* *
193944 AAAAGAGAGAAAAAAAAA
1 AAAAAACA-AAAAAAAAA
193962 GAACCTGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 10 0.25
29 21 0.52
30 9 0.22
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (28 bp):
AAAAAACAAAAAAAAAACAAAACAAAAA
Found at i:195013 original size:62 final size:61
Alignment explanation
Indices: 194917--195120 Score: 271
Period size: 62 Copynumber: 3.4 Consensus size: 61
194907 CTTCTCCTTC
* *
194917 CACTTTTC-AGTCTTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGA-CCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
194978 CACTTTTCTAGTCCTCAAAGAGCGGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGAC-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
195040 CA-TTTTCCAGTCCTCAAAGAGCAGGACGC---T--TTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
195095 CAC-TTCCTAGTCCTCAAAGAGCAGGA
1 CACTTTTCTAGTCCTCAAAGAGCAGGA
195121 TGCTCTCTCC
Statistics
Matches: 130, Mismatches: 10, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
55 47 0.36
57 1 0.01
60 1 0.01
61 31 0.24
62 50 0.38
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (61 bp):
CACTTTTCTAGTCCTCAAAGAGCAGGACCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:195107 original size:55 final size:57
Alignment explanation
Indices: 194953--195120 Score: 225
Period size: 55 Copynumber: 2.9 Consensus size: 57
194943 TGCCTTTTCC
* *
194953 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCGGGACACCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAGCAGGACACC-TT
* *
195012 TCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGAC-GC-T
1 T--TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACACCTT
195070 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
195121 TGCTCTCTCC
Statistics
Matches: 99, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
54 4 0.04
55 41 0.41
56 3 0.03
58 2 0.02
59 1 0.01
60 1 0.01
61 21 0.21
62 26 0.26
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (57 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACCTT
Found at i:195196 original size:211 final size:216
Alignment explanation
Indices: 194951--195560 Score: 780
Period size: 211 Copynumber: 2.8 Consensus size: 216
194941 GATGCCTTTT
*
194951 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCGGGACACCTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCGGGACGCCTTTTCCT
*
195016 TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTTAAAGCCC
66 TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCC
195081 ACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTC-C-TT-TCGC-CTT-
131 ACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGGATGCTCTCTCACATTGTCGCACTTC
*** *
195140 TTTGTCCTCAAAGAGCAGGATG
195 CCAGTCCTCAAAGAGCAGGACG
*
195162 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCGGGATGCCTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCGGGACGCCTTTTCCT
*
195227 TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCC
66 TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCC
* * * *
195292 ACACAAGTTAGG-GGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTT
131 ACACAAGTT-GGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-C---T----CTCTCAC-A-TT
*
195356 GGTGGCACTTCCCAGTCCTCAAAGAGCAGGACG
185 -GTCGCACTTCCCAGTCCTCAAAGAGCAGGACG
* * * * * *
195389 CCTTTCAAAGCCCATACGAGTTGGTGGCA-TTTTCCAGTCCTCAAAAAGCAGGACGCC---T-C-
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCGGGACGCCTTTTCCT
*
195448 TT-AAAGCCCACACTAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCC
66 TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCC
* ** * *
195512 GCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCTTTCTC
131 ACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTCTCTC
195561 TTTGCAAAGC
Statistics
Matches: 349, Mismatches: 31, Indels: 37
0.84 0.07 0.09
Matches are distributed among these distances:
211 158 0.45
212 9 0.03
215 1 0.00
216 1 0.00
219 6 0.02
220 94 0.27
221 2 0.01
222 1 0.00
223 3 0.01
225 3 0.01
226 27 0.08
227 44 0.13
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (216 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCGGGACGCCTTTTCCT
TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCC
ACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTCTCTCACATTGTCGCACTTCC
CAGTCCTCAAAGAGCAGGACG
Found at i:195317 original size:55 final size:55
Alignment explanation
Indices: 195143--195620 Score: 570
Period size: 55 Copynumber: 8.5 Consensus size: 55
195133 TCGCCTTTTT
* *
195143 GTCCTCAAAGAGCAGGATGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTA
1 GTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCA
* *
195199 GTCCTCAAAGAGCGGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGACG-C---T--TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* *
195260 GTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACACAAGTTAGG-GGCACCTTT-CA
1 GTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTT-GGTGGCA-TTTTCCA
* *
195315 GTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCCCA
1 GTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* * *
195370 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACGAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* * *
195425 GTCCTCAAAAAGCAGGACGCCTCTT-AAAGCCCACACTAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
*
195480 GTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* * * **
195535 GTCCTCAAAGAGCAAGATGCTTTCTCTTTGCAAAGCCCACACGAGTTGGTGGCACCTTCCA
1 GTCCTCAAAGAGCAGGA--C--GCT-TTT-CAAAGCCCACACAAGTTGGTGGCATTTTCCA
*
195596 GTCCTCAAAGAGCAGGACGCCTTTC
1 GTCCTCAAAGAGCAGGACGCTTTTC
195621 CTTTTCAAAT
Statistics
Matches: 371, Mismatches: 31, Indels: 41
0.84 0.07 0.09
Matches are distributed among these distances:
54 13 0.04
55 220 0.59
56 36 0.10
57 3 0.01
59 4 0.01
60 4 0.01
61 68 0.18
62 23 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (55 bp):
GTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
Found at i:195458 original size:165 final size:168
Alignment explanation
Indices: 195143--195670 Score: 647
Period size: 165 Copynumber: 3.1 Consensus size: 168
195133 TCGCCTTTTT
* *
195143 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCCAGTCCTCAAA
* *
195208 GAGCGGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
65 GAGCAGGA-G-C--TTCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* *
195273 AGGGCG-CTTTTCAAAGCCCACACAAGTTAGG-GGCACCTTT-CA
126 AGGACGCCTCTTCAAAGCCCACACAAGTT-GGTGGCA-CTTTCCA
*
195315 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAG
* * *
195380 AGCAGGA-C-GCCTTTCAAAGCCCATACGAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGAC
66 AGCAGGAGCTTCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC
* *
195443 GCCTCTT-AAAGCCCACACTAGTTGGTGGCATTTTCCA
131 GCCTCTTCAAAGCCCACACAAGTTGGTGGCACTTTCCA
* *
195480 GTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCAGTCCTCAAA
1 GTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAA
* **
195544 GAGCAAGATGCTTTCTCTTTGCAAAGCCCACACGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGC
65 GAGCAGGA-GC-TTC-CTTT-CAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* ** **
195609 AGGACGCCTTTCCTTTTCAAATCCCACATGAGTTGGTGGCACTTTTTA
126 AGGACGCC--T-C--TTCAAAGCCCACACAAGTTGGTGGCACTTTCCA
*
195657 GTCCTTAAAGAGCA
1 GTCCTCAAAGAGCA
195671 AGATGCACTT
Statistics
Matches: 312, Mismatches: 28, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
164 10 0.03
165 134 0.43
166 4 0.01
167 1 0.00
168 1 0.00
169 1 0.00
170 4 0.01
171 68 0.22
172 48 0.15
173 1 0.00
174 1 0.00
176 2 0.01
177 37 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (168 bp):
GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAG
AGCAGGAGCTTCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC
GCCTCTTCAAAGCCCACACAAGTTGGTGGCACTTTCCA
Found at i:195687 original size:61 final size:60
Alignment explanation
Indices: 195143--195687 Score: 424
Period size: 55 Copynumber: 9.5 Consensus size: 60
195133 TCGCCTTTTT
* *
195143 GTCCTCAAAGAGCAGGATG-C---CTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTA
1 GTCCTCAAAGAGCAAGATGCCTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTC-A
** * *
195199 GTCCTCAAAGAGCGGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCA
1 GTCCTCAAAGAGCAAGATGCC-TTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-CA
* * * *
195260 GTCCTCAAAGAGC-AG--GGC--GCTTTTCAAAGCCCACACAAGTTAGG-GGCACCTTTCA
1 GTCCTCAAAGAGCAAGATGCCTTTCTTTTCAAAGCCCACACGAGTT-GGTGGCACTTTTCA
* * * **
195315 GTCCTCAAAGAGCAGGACG-C---CTTTT-AAAGCCCACACAAGTTGGTGGCACTTCCCA
1 GTCCTCAAAGAGCAAGATGCCTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCA
* * *
195370 GTCCTCAAAGAGCAGGACG-C---C-TTTCAAAGCCCATACGAGTTGGTGGCA-TTTTCCA
1 GTCCTCAAAGAGCAAGATGCCTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-CA
* * * *
195425 GTCCTCAAAAAGCAGGACGCC--TC--TT-AAAGCCCACACTAGTTGGTGGCA-TTTTCCA
1 GTCCTCAAAGAGCAAGATGCCTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-CA
* * * *
195480 GTCCTCAAAGAGC-AG--GAC--GCTTTTCAAAGCCCGCACAAGTTGGTGGCA-TTTTCCA
1 GTCCTCAAAGAGCAAGATGCCTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-CA
* *
195535 GTCCTCAAAGAGCAAGATG-CTTTCTCTTTGCAAAGCCCACACGAGTTGGTGGCACCTTCCA
1 GTCCTCAAAGAGCAAGATGCCTTTCT-TTT-CAAAGCCCACACGAGTTGGTGGCACTTTTCA
* * * * *
195596 GTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAAATCCCACATGAGTTGGTGGCACTTTTTA
1 GTCCTCAAAGAGCAAGATGCCTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCA
* *
195657 GTCCTTAAAGAGCAAGATGCACTTTATTTTC
1 GTCCTCAAAGAGCAAGATGC-CTTTCTTTTC
195688 CTCTTTCTTT
Statistics
Matches: 418, Mismatches: 40, Indels: 57
0.81 0.08 0.11
Matches are distributed among these distances:
52 3 0.01
54 10 0.02
55 207 0.50
56 34 0.08
57 4 0.01
58 4 0.01
59 2 0.00
60 4 0.01
61 111 0.27
62 37 0.09
63 2 0.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (60 bp):
GTCCTCAAAGAGCAAGATGCCTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCA
Found at i:196586 original size:19 final size:21
Alignment explanation
Indices: 196538--196592 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
196528 AATTTCAATA
*
196538 ATTTGTATCGATACATTTAGT
1 ATTTGTATCGATACATTAAGT
**
196559 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
*
196579 -TTTGTATCAATACA
1 ATTTGTATCGATACA
196593 ATGTATCGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 11 0.39
20 4 0.14
21 13 0.46
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:199125 original size:28 final size:28
Alignment explanation
Indices: 199089--199162 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
199079 ATTTTTTACA
* **
199089 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACCTC
199117 ATCGGGGATACTCCAACCTCGTTACCTC
1 ATCGGGGATACTCCAACCTCGTTACCTC
*
199145 -TGAGGGGATACTCCAACC
1 AT-CGGGGATACTCCAACC
199163 CCGGCTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACCTC
Found at i:199324 original size:52 final size:51
Alignment explanation
Indices: 199148--199368 Score: 230
Period size: 51 Copynumber: 4.3 Consensus size: 51
199138 TTACCTCTGA
** * * ***
199148 GGGGATACTCCAACCCCGGCTTTATGTCAAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCAAAAACACCAATTTTC-CATAATC
* * * *
199199 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCAAAAACACCAATTTTCCATAATC
* *
199250 GGAGATACTCCAACCCCGATTTTATCTTC-AAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTAT-TTCAAAAACACCAATTTTCC-ATAATC
* * * *
199302 GGGGATACTTCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTT-CAAAAACACCAATTTTCCATAATC
*
199354 GAGGATACTCCAACC
1 GGGGATACTCCAACC
199369 TCGTTATTTC
Statistics
Matches: 144, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
51 79 0.55
52 50 0.35
53 15 0.10
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCAAAAACACCAATTTTCCATAATC
Found at i:199491 original size:79 final size:79
Alignment explanation
Indices: 199379--199583 Score: 216
Period size: 79 Copynumber: 2.6 Consensus size: 79
199369 TCGTTATTTC
* * ** * *
199379 ATCGGGGATGCTCCAACCCCATTACCTCTGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCC-AAAT
** *
199444 -ATTGATTTCTCATA
65 CATCAATTTCTCACA
* * * * *
199458 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTTCAATCCCGATTTTATTTCCTAATC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAATC
*
199523 ATCAATTTTTCACA
66 ATCAATTTCTCACA
* * *
199537 A-CTAGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCC
1 ATC-GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCC
199584 TGTTATTATC
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
78 4 0.04
79 99 0.96
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAATC
ATCAATTTCTCACA
Found at i:206454 original size:13 final size:13
Alignment explanation
Indices: 206433--206462 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
206423 CGATACATGG
*
206433 TACATTGTATCGA
1 TACAATGTATCGA
206446 TACAATGTATCGA
1 TACAATGTATCGA
206459 TACA
1 TACA
206463 TGAAGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:206460 original size:33 final size:32
Alignment explanation
Indices: 206418--206482 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
206408 TACCACTGTT
206418 TGTATCGATACATG-GTACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
206451 TGTATCGATACATGAAGAATTGTATCGATACA
1 TGTATCGATACATG-AGAATTGTATCGATACA
206483 TTGCCTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:211425 original size:20 final size:19
Alignment explanation
Indices: 211396--211465 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
211386 ATAAGAATGA
211396 AAGA-AGAAAAAAAGTTTTT
1 AAGAGAGAAAAAAAG-TTTT
*
211415 AAGAGAG-AAAAAAGTTTA
1 AAGAGAGAAAAAAAGTTTT
211433 AAGAGA-AAGAAAAAGGTTTT
1 AAGAGAGAA-AAAAA-GTTTT
*
211453 AGGTAGAGAAAAA
1 AAG-AGAGAAAAA
211466 TAAGAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
18 10 0.24
19 16 0.38
20 8 0.19
21 6 0.14
22 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.23, T:0.19
Consensus pattern (19 bp):
AAGAGAGAAAAAAAGTTTT
Found at i:211436 original size:18 final size:19
Alignment explanation
Indices: 211403--211453 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
211393 TGAAAGAAGA
*
211403 AAAAAAGTTTTTAAGAGAG
1 AAAAAAGTTTTAAAGAGAG
211422 AAAAAAG-TTTAAAGAGAAAG
1 AAAAAAGTTTTAAAGAG--AG
*
211442 AAAAAGGTTTTA
1 AAAAAAGTTTTA
211454 GGTAGAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 8 0.30
21 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.24
Consensus pattern (19 bp):
AAAAAAGTTTTAAAGAGAG
Found at i:212066 original size:7 final size:7
Alignment explanation
Indices: 212054--212078 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
212044 TATTACTTTG
212054 TATTTAT
1 TATTTAT
212061 TATTTAT
1 TATTTAT
212068 TATTTAT
1 TATTTAT
212075 TATT
1 TATT
212079 AAATGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTAT
Found at i:212094 original size:7 final size:7
Alignment explanation
Indices: 212084--212109 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
212074 TTATTAAATG
212084 TTTTATA
1 TTTTATA
212091 TTTTATA
1 TTTTATA
212098 TTTTATA
1 TTTTATA
212105 TTTTA
1 TTTTA
212110 ATAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTATA
Found at i:215087 original size:121 final size:124
Alignment explanation
Indices: 214891--215160 Score: 298
Period size: 125 Copynumber: 2.2 Consensus size: 124
214881 AGAAAAAAGG
* * * **
214891 GGTTAATGATGATTTTAAAATATTTTATAGCATTTTCTACGAAATACCCTGTTGCCATTGCTTTC
1 GGTTAATGATGATTTTAAAATATTTTATAGCATTTTCAACAAAAGACCCTGTTGCCAAAGCTTTC
* *
214956 ATGCA-ATTTTTGAGAGTTCGAGC-TATACCATTATAATAGAAAAGAAAAAAATAT-GAA
66 ATGCATATTTTTGAGAGTTCGAGCAAAT-CCATTATAATAGAAAAGAAAAAAAAATAGAA
**
215013 GGTTAATGATGATTTTAAAAT-TTTTATAGCATTTGT-AACAAAAGACTTTGTTGCCAAAGCTTT
1 GGTTAATGATGATTTTAAAATATTTTATAGCATTT-TCAACAAAAGACCCTGTTGCCAAAGCTTT
* * * * * **
215076 CATGCCTTTTTTTTTTTAGAGTTGGGGCAAATTTATTATAATAGAAAAGAAAAAAAAATAGAA
65 CATG-C--ATATTTTTGAGAGTTCGAGCAAATCCATTATAATAGAAAAGAAAAAAAAATAGAA
* *
215139 AGCTAATGATGATTTTAAAATA
1 GGTTAATGATGATTTTAAAATA
215161 AATTAAATAC
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
121 37 0.30
122 23 0.19
125 38 0.31
126 24 0.20
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (124 bp):
GGTTAATGATGATTTTAAAATATTTTATAGCATTTTCAACAAAAGACCCTGTTGCCAAAGCTTTC
ATGCATATTTTTGAGAGTTCGAGCAAATCCATTATAATAGAAAAGAAAAAAAAATAGAA
Found at i:215665 original size:20 final size:20
Alignment explanation
Indices: 215640--215696 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
215630 TTTTCACAAT
215640 TTGTATCGATACATTGTCCA
1 TTGTATCGATACATTGTCCA
*
215660 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTCCA
215680 TTGTATCGATACATTGT
1 TTGTATCGATACATTGT
215697 ATCGATACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGTCCA
Found at i:215674 original size:13 final size:13
Alignment explanation
Indices: 215658--215707 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
215648 ATACATTGTC
215658 CATTGTATCGATA
1 CATTGTATCGATA
215671 CATTGT-TC---A
1 CATTGTATCGATA
215680 --TTGTATCGATA
1 CATTGTATCGATA
215691 CATTGTATCGATA
1 CATTGTATCGATA
215704 CATT
1 CATT
215708 CTGGGTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
7 4 0.13
8 2 0.06
9 1 0.03
11 1 0.03
12 2 0.06
13 21 0.68
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:215748 original size:20 final size:20
Alignment explanation
Indices: 215723--215796 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
215713 TTTACCTAGA
*
215723 TGTATCGATACATTTTTTAT
1 TGTATCGATACATTTTTCAT
**
215743 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTTTTCAT
* *
215763 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTTTCAT
215783 TGTATCGATACATT
1 TGTATCGATACATT
215797 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTTTTCAT
Found at i:218178 original size:51 final size:48
Alignment explanation
Indices: 218110--218225 Score: 142
Period size: 51 Copynumber: 2.4 Consensus size: 48
218100 TTTCCTCTCT
* * *
218110 GGGATACTCCAATCCCGGTTCCATTTCCAAAACGTTAATTTTTCTTAATCG
1 GGGATACTCCAACCCCGGTTCCATTTCCAAAACATCAA-TTTT-TT-ATCG
* ** *
218161 GGGATACTGCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATCG
1 GGGATACTCCAACCCCGGTTCCATTTCCAAAACATCAATTTTTTATCG
218209 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
218226 TTATTTTCGA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 20 0.35
49 2 0.04
50 4 0.07
51 31 0.54
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (48 bp):
GGGATACTCCAACCCCGGTTCCATTTCCAAAACATCAATTTTTTATCG
Found at i:218321 original size:79 final size:79
Alignment explanation
Indices: 218160--218458 Score: 374
Period size: 79 Copynumber: 3.8 Consensus size: 79
218150 TTTCTTAATC
* *
218160 GGGGATACTGCAACCCCGGTTTTATTTCTAAAACATCAATTT-T--TTATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
218222 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * * * * *
218236 GAGGATACTCCAACCTCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATATTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
**
218301 CCCG-TCGTTTCTGA
66 CCCGTTATTTTC-GA
* *
218315 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
*
218380 CCTGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * * *
218394 GGGGATACTTCAACCCCGGTTTTATTTTTAAAACACCAA-TTCTCCACAATCGGGGATATTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCT-CATAATCGGGGATACTCCAA
218458 C
65 C
218459 TCCGATTTTA
Statistics
Matches: 187, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
76 36 0.19
77 1 0.01
78 8 0.04
79 137 0.73
80 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:218445 original size:158 final size:155
Alignment explanation
Indices: 218160--218454 Score: 439
Period size: 158 Copynumber: 1.9 Consensus size: 155
218150 TTTCTTAATC
*
218160 GGGGATACTGCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATCGGGGATACTCCAACCCC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATCGGGGATACTCCAACCCC
* * ** *
218225 GTTATTTTCGAGAGGATACTCCAACCTCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGG
66 GTTATTTTCGAGAGGATACTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCTCACAATCGGG
218290 GATATTCTAACCCCGTCGTTTCTGA
131 GATATTCTAACCCCGTCGTTTCTGA
*
218315 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTT--T-ATCGGGGATACTCCAAC
* * * * *
218380 CCTGTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTTTAAAACACCAA-TTCTCCACAAT
63 CCCGTTATTTTCGAGAGGATACTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCT-CACAAT
218444 CGGGGATATTC
127 CGGGGATATTC
218455 CAACTCCGAT
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
155 43 0.35
157 5 0.04
158 76 0.61
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (155 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATCGGGGATACTCCAACCCC
GTTATTTTCGAGAGGATACTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCTCACAATCGGG
GATATTCTAACCCCGTCGTTTCTGA
Found at i:218470 original size:51 final size:51
Alignment explanation
Indices: 218394--218513 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
218384 TTATTTTCGA
* *
218394 GGGGATACTTCAACCCCGGTTTTATTTTTAAAACACCAATTCTCCACAATC
1 GGGGATACTTCAACCCCGATTTTATTTTCAAAACACCAATTCTCCACAATC
* * * *
218445 GGGGATA-TTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCACAATC
1 GGGGATACTT-CAACCCCGATTTTATTTTCAAAACACCAATTCTCCACAATC
** *
218496 GACGATACTCCAACCCCG
1 GGGGATACTTCAACCCCG
218514 TTATTTCATC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 2 0.04
51 54 0.95
52 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTTCAACCCCGATTTTATTTTCAAAACACCAATTCTCCACAATC
Found at i:218531 original size:28 final size:28
Alignment explanation
Indices: 218499--218569 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
218489 CACAATCGAC
218499 GATACTCCAACCCCGTTATTTCATCA-GG
1 GATACTCCAACCCCGTTATTTCA-CAGGG
218527 GATACTCCAACCCCGTTATTTCACAGGG
1 GATACTCCAACCCCGTTATTTCACAGGG
*
218555 GATACTTCAACCCCG
1 GATACTCCAACCCCG
218570 GCTTTATTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 2 0.05
28 39 0.95
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.25
Consensus pattern (28 bp):
GATACTCCAACCCCGTTATTTCACAGGG
Found at i:218616 original size:51 final size:51
Alignment explanation
Indices: 218553--218670 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
218543 TATTTCACAG
*
218553 GGGATACTTCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCA
1 GGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
* * **
218604 GGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATTG
1 GGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
*
218655 GGGATACTCCAACCCC
1 GGGATACTTCAACCCC
218671 ATTATTTTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
GGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
Found at i:218630 original size:288 final size:287
Alignment explanation
Indices: 218316--218834 Score: 656
Period size: 288 Copynumber: 1.8 Consensus size: 287
218306 CGTTTCTGAG
** * *
218316 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCACC
1 GGGATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACC
** * *
218381 CTGTTATTTTCGA-GGGGATACTTCAACCCCGGTTTTATTTTTAAAACACCAATTCTCCACAATC
66 CCATTATTTTC-ACGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTCTCCACAATC
* *
218445 GGGGATA-TTCCAACTCC-GATTTTATTT-TCAAAACA-CTAATTTTTCACAATCGACGATACTC
130 GGGGACACTT-CAAC-CCTG-CTTTATTTCT-AAAACATC-AATTTTTCACAATCGACGATACTC
218506 CAACCCCGTTATTTCATC-A-GGGATACTCCAACCCCGTTATTTCACAGGGGATACTTCAACCCC
190 CAACCCCGTTATTT--TCGAGGGGATACTCCAACCCCGTTATTTCACAGGGGATACTTCAACCCC
218569 GGCTTTATTTCCAAAATATTGATTTCTCACAATCA
253 GGCTTTATTTCCAAAATATTGATTTCTCACAATCA
* * ** *
218604 GGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACC
* * * * * * *
218669 CCATTATTTTCACGGGGATACTCCAATCCCGATTTTATTTTTGAAACATCTATTTTCTATAATCG
66 CCATTATTTTCACGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTCTCCACAATCG
* * **
218734 GGGACACTTCAACCCTTGCTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAACC
131 GGGACACTTCAACCC-TGCTTTATTTCTAAAACATCAATTTTTCACAATCGACGATACTCCAACC
* *
218799 CCTTTATTTTCGAGGGGATACTCCAACCTCGTTATT
195 CCGTTATTTTCGAGGGGATACTCCAACCCCGTTATT
218835 ATCTCCAAAA
Statistics
Matches: 195, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
286 2 0.01
287 4 0.02
288 184 0.94
289 5 0.03
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (287 bp):
GGGATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACC
CCATTATTTTCACGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTCTCCACAATCG
GGGACACTTCAACCCTGCTTTATTTCTAAAACATCAATTTTTCACAATCGACGATACTCCAACCC
CGTTATTTTCGAGGGGATACTCCAACCCCGTTATTTCACAGGGGATACTTCAACCCCGGCTTTAT
TTCCAAAATATTGATTTCTCACAATCA
Found at i:218856 original size:130 final size:127
Alignment explanation
Indices: 218525--218857 Score: 346
Period size: 130 Copynumber: 2.5 Consensus size: 127
218515 TATTTCATCA
* * * * *
218525 GGGATACTCCAACCCCGTTATTTCACAGGGGATACTTCAACCCCGGCTTTATTTCCAAAATATTG
1 GGGATACTCCAACCCCATTATTT-TCAGGGGATACTCCAA-CCC-GTTTTATTTCCAAAATATTA
* * * *
218590 ATTTCTCACAATCAGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATTG
63 ATTTCTCACAATCAGGGACACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCACAATCG
*** *
218655 GGGATACTCCAACCCCATTATTTTCACGGGGATACTCCAATCCCGATTTTATTTTTGAAACATCT
1 GGGATACTCCAACCCCATTATTTTCA-GGGGATACTCCAA-CCCG-TTTTATTTCCAAAATAT-T
* * * ** * *
218720 ATTTTCT-ATAATCGGGGACACTTCAACCCTTGCTTTATTTCT-AAATCATCGATTTTTCACAAT
62 AATTTCTCACAATCAGGGACACTTCAACCCCGGCCTTATTTCTAAAAT-ATCGATTTCTCACAAT
218783 CG
126 CG
* *
218785 GGGATACTCCAACCCCTTTATTTTCGAGGGGATACTCCAACCTCGTTATTATCTCCAAAATATTA
1 GGGATACTCCAACCCCATTATTTTC-AGGGGATACTCCAACC-CGTT-TTATTTCCAAAATATT-
218850 AATTTCTC
62 AATTTCTC
218858 GTCGGGAGAT
Statistics
Matches: 166, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
129 12 0.07
130 147 0.89
131 7 0.04
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (127 bp):
GGGATACTCCAACCCCATTATTTTCAGGGGATACTCCAACCCGTTTTATTTCCAAAATATTAATT
TCTCACAATCAGGGACACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCACAATCG
Found at i:219478 original size:13 final size:13
Alignment explanation
Indices: 219460--219484 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
219450 CATAAAGTGT
219460 TGTATCGATACAA
1 TGTATCGATACAA
219473 TGTATCGATACA
1 TGTATCGATACA
219485 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:219482 original size:33 final size:33
Alignment explanation
Indices: 219440--219506 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
219430 TTCAACGATT
219440 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
219473 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
219506 T
1 T
219507 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:219566 original size:13 final size:13
Alignment explanation
Indices: 219548--219572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
219538 ATCACTTAAA
219548 TGTATCGATACAT
1 TGTATCGATACAT
219561 TGTATCGATACA
1 TGTATCGATACA
219573 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:219637 original size:52 final size:52
Alignment explanation
Indices: 219581--219761 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
219571 CACTGATCTT
*
219581 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
219633 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
219685 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
219737 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
219762 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:222948 original size:121 final size:124
Alignment explanation
Indices: 222752--223021 Score: 298
Period size: 125 Copynumber: 2.2 Consensus size: 124
222742 AGAAAAAAGG
* * * **
222752 GGTTAATGATGATTTTAAAATATTTTATAGCATTTTCTACGAAATACCCTGTTGCCATTGCTTTC
1 GGTTAATGATGATTTTAAAATATTTTATAGCATTTTCAACAAAAGACCCTGTTGCCAAAGCTTTC
* *
222817 ATGCA-ATTTTTGAGAGTTCGAGC-TATACCATTATAATAGAAAAGAAAAAAATAT-GAA
66 ATGCATATTTTTGAGAGTTCGAGCAAAT-CCATTATAATAGAAAAGAAAAAAAAATAGAA
**
222874 GGTTAATGATGATTTTAAAAT-TTTTATAGCATTTGT-AACAAAAGACTTTGTTGCCAAAGCTTT
1 GGTTAATGATGATTTTAAAATATTTTATAGCATTT-TCAACAAAAGACCCTGTTGCCAAAGCTTT
* * * * * **
222937 CATGCCTTTTTTTTTTTAGAGTTGGGGCAAATTTATTATAATAGAAAAGAAAAAAAAATAGAA
65 CATG-C--ATATTTTTGAGAGTTCGAGCAAATCCATTATAATAGAAAAGAAAAAAAAATAGAA
* *
223000 AGCTAATGATGATTTTAAAATA
1 GGTTAATGATGATTTTAAAATA
223022 AATTAAATAC
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
121 37 0.30
122 23 0.19
125 38 0.31
126 24 0.20
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (124 bp):
GGTTAATGATGATTTTAAAATATTTTATAGCATTTTCAACAAAAGACCCTGTTGCCAAAGCTTTC
ATGCATATTTTTGAGAGTTCGAGCAAATCCATTATAATAGAAAAGAAAAAAAAATAGAA
Found at i:223526 original size:20 final size:20
Alignment explanation
Indices: 223501--223557 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
223491 TTTTCACAAT
223501 TTGTATCGATACATTGTCCA
1 TTGTATCGATACATTGTCCA
*
223521 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTCCA
223541 TTGTATCGATACATTGT
1 TTGTATCGATACATTGT
223558 ATCGATAGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGTCCA
Found at i:223535 original size:13 final size:13
Alignment explanation
Indices: 223519--223564 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
223509 ATACATTGTC
223519 CATTGTATCGATA
1 CATTGTATCGATA
223532 CATTGT-TC---A
1 CATTGTATCGATA
223541 --TTGTATCGATA
1 CATTGTATCGATA
223552 CATTGTATCGATA
1 CATTGTATCGATA
223565 GATTCTGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
7 4 0.15
8 2 0.07
9 1 0.04
11 1 0.04
12 2 0.07
13 17 0.63
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:223609 original size:20 final size:20
Alignment explanation
Indices: 223584--223657 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
223574 TTTACCTAGA
*
223584 TGTATCGATACATTTTTTAT
1 TGTATCGATACATTTTTCAT
* **
223604 TGTATCGATATATTGCTCAT
1 TGTATCGATACATTTTTCAT
* *
223624 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTTTCAT
223644 TGTATCGATACATT
1 TGTATCGATACATT
223658 CAGGCATTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTTTTCAT
Found at i:226038 original size:51 final size:48
Alignment explanation
Indices: 225970--226085 Score: 142
Period size: 51 Copynumber: 2.4 Consensus size: 48
225960 TTTCCTCTCT
* * *
225970 GGGATACTCCAATCCCGGTTCCATTTCCAAAACGTTAATTTTTCTTAATCG
1 GGGATACTCCAACCCCGGTTCCATTTCCAAAACATCAA-TTTT-TT-ATCG
* ** *
226021 GGGATACTGCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATCG
1 GGGATACTCCAACCCCGGTTCCATTTCCAAAACATCAATTTTTTATCG
226069 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
226086 TTATTTTCGA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 20 0.35
49 2 0.04
50 4 0.07
51 31 0.54
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (48 bp):
GGGATACTCCAACCCCGGTTCCATTTCCAAAACATCAATTTTTTATCG
Found at i:226181 original size:79 final size:79
Alignment explanation
Indices: 226020--226318 Score: 374
Period size: 79 Copynumber: 3.8 Consensus size: 79
226010 TTTCTTAATC
* *
226020 GGGGATACTGCAACCCCGGTTTTATTTCTAAAACATCAATTT-T--TTATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
226082 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * * * * *
226096 GAGGATACTCCAACCTCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATATTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
**
226161 CCCG-TCGTTTCTGA
66 CCCGTTATTTTC-GA
* *
226175 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
*
226240 CCTGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * * *
226254 GGGGATACTTCAACCCCGGTTTTATTTTTAAAACACCAA-TTCTCCACAATCGGGGATATTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCT-CATAATCGGGGATACTCCAA
226318 C
65 C
226319 TCCGATTTTA
Statistics
Matches: 187, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
76 36 0.19
77 1 0.01
78 8 0.04
79 137 0.73
80 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:226305 original size:158 final size:155
Alignment explanation
Indices: 226020--226314 Score: 439
Period size: 158 Copynumber: 1.9 Consensus size: 155
226010 TTTCTTAATC
*
226020 GGGGATACTGCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATCGGGGATACTCCAACCCC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATCGGGGATACTCCAACCCC
* * ** *
226085 GTTATTTTCGAGAGGATACTCCAACCTCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGG
66 GTTATTTTCGAGAGGATACTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCTCACAATCGGG
226150 GATATTCTAACCCCGTCGTTTCTGA
131 GATATTCTAACCCCGTCGTTTCTGA
*
226175 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTT--T-ATCGGGGATACTCCAAC
* * * * *
226240 CCTGTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTTTAAAACACCAA-TTCTCCACAAT
63 CCCGTTATTTTCGAGAGGATACTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCT-CACAAT
226304 CGGGGATATTC
127 CGGGGATATTC
226315 CAACTCCGAT
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
155 43 0.35
157 5 0.04
158 76 0.61
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (155 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATCGGGGATACTCCAACCCC
GTTATTTTCGAGAGGATACTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCTCACAATCGGG
GATATTCTAACCCCGTCGTTTCTGA
Found at i:226330 original size:51 final size:51
Alignment explanation
Indices: 226254--226373 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
226244 TTATTTTCGA
* *
226254 GGGGATACTTCAACCCCGGTTTTATTTTTAAAACACCAATTCTCCACAATC
1 GGGGATACTTCAACCCCGATTTTATTTTCAAAACACCAATTCTCCACAATC
* * * *
226305 GGGGATA-TTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCACAATC
1 GGGGATACTT-CAACCCCGATTTTATTTTCAAAACACCAATTCTCCACAATC
** *
226356 GACGATACTCCAACCCCG
1 GGGGATACTTCAACCCCG
226374 TTATTTCATC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 2 0.04
51 54 0.95
52 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTTCAACCCCGATTTTATTTTCAAAACACCAATTCTCCACAATC
Found at i:226391 original size:28 final size:28
Alignment explanation
Indices: 226359--226429 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
226349 CACAATCGAC
226359 GATACTCCAACCCCGTTATTTCATCA-GG
1 GATACTCCAACCCCGTTATTTCA-CAGGG
226387 GATACTCCAACCCCGTTATTTCACAGGG
1 GATACTCCAACCCCGTTATTTCACAGGG
*
226415 GATACTTCAACCCCG
1 GATACTCCAACCCCG
226430 GCTTTATTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 2 0.05
28 39 0.95
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.25
Consensus pattern (28 bp):
GATACTCCAACCCCGTTATTTCACAGGG
Found at i:226476 original size:51 final size:51
Alignment explanation
Indices: 226413--226530 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
226403 TATTTCACAG
*
226413 GGGATACTTCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCA
1 GGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
* * **
226464 GGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATTG
1 GGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
*
226515 GGGATACTCCAACCCC
1 GGGATACTTCAACCCC
226531 ATTATTTTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
GGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
Found at i:226490 original size:288 final size:287
Alignment explanation
Indices: 226176--226694 Score: 656
Period size: 288 Copynumber: 1.8 Consensus size: 287
226166 CGTTTCTGAG
** * *
226176 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCACC
1 GGGATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACC
** * *
226241 CTGTTATTTTCGA-GGGGATACTTCAACCCCGGTTTTATTTTTAAAACACCAATTCTCCACAATC
66 CCATTATTTTC-ACGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTCTCCACAATC
* *
226305 GGGGATA-TTCCAACTCC-GATTTTATTT-TCAAAACA-CTAATTTTTCACAATCGACGATACTC
130 GGGGACACTT-CAAC-CCTG-CTTTATTTCT-AAAACATC-AATTTTTCACAATCGACGATACTC
226366 CAACCCCGTTATTTCATC-A-GGGATACTCCAACCCCGTTATTTCACAGGGGATACTTCAACCCC
190 CAACCCCGTTATTT--TCGAGGGGATACTCCAACCCCGTTATTTCACAGGGGATACTTCAACCCC
226429 GGCTTTATTTCCAAAATATTGATTTCTCACAATCA
253 GGCTTTATTTCCAAAATATTGATTTCTCACAATCA
* * ** *
226464 GGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACC
* * * * * * *
226529 CCATTATTTTCACGGGGATACTCCAATCCCGATTTTATTTTTGAAACATCTATTTTCTATAATCG
66 CCATTATTTTCACGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTCTCCACAATCG
* * **
226594 GGGACACTTCAACCCTTGCTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAACC
131 GGGACACTTCAACCC-TGCTTTATTTCTAAAACATCAATTTTTCACAATCGACGATACTCCAACC
* *
226659 CCTTTATTTTCGAGGGGATACTCCAACCTCGTTATT
195 CCGTTATTTTCGAGGGGATACTCCAACCCCGTTATT
226695 ATCTCCAAAA
Statistics
Matches: 195, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
286 2 0.01
287 4 0.02
288 184 0.94
289 5 0.03
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (287 bp):
GGGATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACC
CCATTATTTTCACGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTCTCCACAATCG
GGGACACTTCAACCCTGCTTTATTTCTAAAACATCAATTTTTCACAATCGACGATACTCCAACCC
CGTTATTTTCGAGGGGATACTCCAACCCCGTTATTTCACAGGGGATACTTCAACCCCGGCTTTAT
TTCCAAAATATTGATTTCTCACAATCA
Found at i:226716 original size:130 final size:127
Alignment explanation
Indices: 226385--226717 Score: 346
Period size: 130 Copynumber: 2.5 Consensus size: 127
226375 TATTTCATCA
* * * * *
226385 GGGATACTCCAACCCCGTTATTTCACAGGGGATACTTCAACCCCGGCTTTATTTCCAAAATATTG
1 GGGATACTCCAACCCCATTATTT-TCAGGGGATACTCCAA-CCC-GTTTTATTTCCAAAATATTA
* * * *
226450 ATTTCTCACAATCAGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATTG
63 ATTTCTCACAATCAGGGACACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCACAATCG
*** *
226515 GGGATACTCCAACCCCATTATTTTCACGGGGATACTCCAATCCCGATTTTATTTTTGAAACATCT
1 GGGATACTCCAACCCCATTATTTTCA-GGGGATACTCCAA-CCCG-TTTTATTTCCAAAATAT-T
* * * ** * *
226580 ATTTTCT-ATAATCGGGGACACTTCAACCCTTGCTTTATTTCT-AAATCATCGATTTTTCACAAT
62 AATTTCTCACAATCAGGGACACTTCAACCCCGGCCTTATTTCTAAAAT-ATCGATTTCTCACAAT
226643 CG
126 CG
* *
226645 GGGATACTCCAACCCCTTTATTTTCGAGGGGATACTCCAACCTCGTTATTATCTCCAAAATATTA
1 GGGATACTCCAACCCCATTATTTTC-AGGGGATACTCCAACC-CGTT-TTATTTCCAAAATATT-
226710 AATTTCTC
62 AATTTCTC
226718 GTCGGGAGAT
Statistics
Matches: 166, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
129 12 0.07
130 147 0.89
131 7 0.04
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (127 bp):
GGGATACTCCAACCCCATTATTTTCAGGGGATACTCCAACCCGTTTTATTTCCAAAATATTAATT
TCTCACAATCAGGGACACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCACAATCG
Found at i:227337 original size:13 final size:13
Alignment explanation
Indices: 227319--227343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
227309 CATAAAGTGT
227319 TGTATCGATACAA
1 TGTATCGATACAA
227332 TGTATCGATACA
1 TGTATCGATACA
227344 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:227341 original size:33 final size:33
Alignment explanation
Indices: 227299--227365 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
227289 TTCAACGATT
227299 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
227332 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
227365 T
1 T
227366 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:227425 original size:13 final size:13
Alignment explanation
Indices: 227407--227431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
227397 ATCACTTAAA
227407 TGTATCGATACAT
1 TGTATCGATACAT
227420 TGTATCGATACA
1 TGTATCGATACA
227432 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:227496 original size:52 final size:52
Alignment explanation
Indices: 227440--227620 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
227430 CACTGATCTT
*
227440 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
227492 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
227544 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
227596 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
227621 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:232096 original size:18 final size:18
Alignment explanation
Indices: 232073--232107 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
232063 AGATTTATCA
232073 CTTTATAAATCATTTTAT
1 CTTTATAAATCATTTTAT
232091 CTTTATAAATCATTTTA
1 CTTTATAAATCATTTTA
232108 ATTCAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (18 bp):
CTTTATAAATCATTTTAT
Found at i:235343 original size:52 final size:52
Alignment explanation
Indices: 235252--235382 Score: 217
Period size: 52 Copynumber: 2.5 Consensus size: 52
235242 CCCAAAATAT
* * *
235252 GAAAAGTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
* *
235304 GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
235356 GAAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
235383 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
Found at i:235395 original size:52 final size:51
Alignment explanation
Indices: 235252--235402 Score: 205
Period size: 52 Copynumber: 2.9 Consensus size: 51
235242 CCCAAAATAT
* *
235252 GAAAAGTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGG
* * *
235304 GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGG
*
235356 GAAAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
235403 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (51 bp):
GAAAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGG
Found at i:235409 original size:13 final size:13
Alignment explanation
Indices: 235391--235415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
235381 CAAAGATCAG
235391 TGTATCGATACAA
1 TGTATCGATACAA
235404 TGTATCGATACA
1 TGTATCGATACA
235416 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:235493 original size:33 final size:33
Alignment explanation
Indices: 235456--235522 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
235446 AGTAGCTTAA
235456 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
235489 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
235522 A
1 A
235523 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:235496 original size:13 final size:13
Alignment explanation
Indices: 235478--235502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
235468 CAAAAAAATA
235478 TGTATCGATACAT
1 TGTATCGATACAT
235491 TGTATCGATACA
1 TGTATCGATACA
235503 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:236285 original size:15 final size:15
Alignment explanation
Indices: 236239--236285 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
236229 AAGGTGTTTT
*
236239 TTGGCAAGATGTTCC
1 TTGGCGAGATGTTCC
* *
236254 TCGGTGAGATGTTCC
1 TTGGCGAGATGTTCC
236269 TTGGCGAGATGTTCC
1 TTGGCGAGATGTTCC
236284 TT
1 TT
236286 CAGAAGATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.30, T:0.36
Consensus pattern (15 bp):
TTGGCGAGATGTTCC
Found at i:236505 original size:15 final size:15
Alignment explanation
Indices: 236485--236529 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
236475 TGATTTCCAT
236485 CAAGATGTTCTTTAG
1 CAAGATGTTCTTTAG
* *
236500 CGAGATGTTCCTTAG
1 CAAGATGTTCTTTAG
*
236515 CAAGATGCTCTTTAG
1 CAAGATGTTCTTTAG
236530 AAAAATGGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (15 bp):
CAAGATGTTCTTTAG
Found at i:237587 original size:20 final size:20
Alignment explanation
Indices: 237564--237731 Score: 115
Period size: 20 Copynumber: 7.8 Consensus size: 20
237554 AGGTACCCAG
237564 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* *
237584 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
237604 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* *
237624 ATATATCGATATATTTTATCCTTTTACCTA
1 ATGTATCGATACA---T-T-C--TT--C-A
*
237654 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTCTTCA
* * * *
237675 ATATATCAATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
*
237695 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
237715 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
237732 ATCTTTTTAC
Statistics
Matches: 114, Mismatches: 19, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
19 2 0.02
20 86 0.75
21 3 0.03
22 1 0.01
23 1 0.01
24 3 0.03
25 1 0.01
27 3 0.03
28 1 0.01
29 1 0.01
30 1 0.01
31 11 0.10
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:237619 original size:40 final size:40
Alignment explanation
Indices: 237564--237728 Score: 159
Period size: 40 Copynumber: 3.9 Consensus size: 40
237554 AGGTACCCAG
*
237564 ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACATGTATGA
* * *
237604 ATGTATCGATACATTCTTCAATATATCGATATATTTTATCCTTTTACCTA
1 ATGTATCGATACATTCTTCAATATATCGATACA-TGTA------T---GA
* *
237654 GATGTATCGATACATTTTTCAATATATCAATACATGTATGA
1 -ATGTATCGATACATTCTTCAATATATCGATACATGTATGA
* *
237695 ATGTATTGATACATTCTTCAATGTATCGATACAT
1 ATGTATCGATACATTCTTCAATATATCGATACAT
237729 TCTATCTTTT
Statistics
Matches: 101, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
40 61 0.60
41 4 0.04
44 1 0.01
47 1 0.01
50 4 0.04
51 30 0.30
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (40 bp):
ATGTATCGATACATTCTTCAATATATCGATACATGTATGA
Found at i:237778 original size:91 final size:91
Alignment explanation
Indices: 237557--237779 Score: 331
Period size: 91 Copynumber: 2.5 Consensus size: 91
237547 TATGGAAAGG
* *
237557 TACCCAGATGTATCGATACATTCTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTT
1 TACCTAGATGTATCGATACATTATTCAATGTATCGATACATGTATGAATGTATCGATACATTCTT
* *
237622 CAATATATCGATATATTTTATCCTTT
66 CAATATATCGATACATTCTATCCTTT
* * * *
237648 TACCTAGATGTATCGATACATTTTTCAATATATCAATACATGTATGAATGTATTGATACATTCTT
1 TACCTAGATGTATCGATACATTATTCAATGTATCGATACATGTATGAATGTATCGATACATTCTT
* *
237713 CAATGTATCGATACATTCTATCTTTT
66 CAATATATCGATACATTCTATCCTTT
*
237739 TACCTAGATGTATCGATACATTGAAT-AATGTATCGATACAT
1 TACCTAGATGTATCGATACATT-ATTCAATGTATCGATACAT
237780 CTAGTTAAAA
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
91 117 0.99
92 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (91 bp):
TACCTAGATGTATCGATACATTATTCAATGTATCGATACATGTATGAATGTATCGATACATTCTT
CAATATATCGATACATTCTATCCTTT
Found at i:245279 original size:13 final size:13
Alignment explanation
Indices: 245261--245285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
245251 CATAAAATGT
245261 TGTATCGATACAA
1 TGTATCGATACAA
245274 TGTATCGATACA
1 TGTATCGATACA
245286 TACTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:245283 original size:33 final size:33
Alignment explanation
Indices: 245241--245310 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
245231 TTCAACGATT
245241 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
245274 TGTATCGATACATACTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
245307 TGTA
1 TGTA
245311 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:245441 original size:52 final size:52
Alignment explanation
Indices: 245385--245504 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
245375 CACCGATCTT
* *
245385 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
245437 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
245489 TGTATCGATACATGCA
1 TGTATCGATACATGCA
245505 AGTAACTTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:255340 original size:1 final size:1
Alignment explanation
Indices: 255334--255443 Score: 94
Period size: 1 Copynumber: 110.0 Consensus size: 1
255324 TCCTTTACAC
* * * * * * *
255334 AAAAAAAAAATAAAAAAAATAAAAAAAAAACAAAAAAAACAAAAAAAAACAAAAAAAATAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * ** *
255399 AAATAAAAATAAAACAAAAAACAAAAAAAAACCAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
255444 CATAAAGGGG
Statistics
Matches: 83, Mismatches: 26, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.87, C:0.07, G:0.01, T:0.05
Consensus pattern (1 bp):
A
Found at i:255395 original size:48 final size:48
Alignment explanation
Indices: 255336--255445 Score: 163
Period size: 47 Copynumber: 2.3 Consensus size: 48
255326 CTTTACACAA
255336 AAAAAAAATAAAA-AAAATAAAAAAAAAACAAAAAAAACAAAAAAAAA-C
1 AAAAAAAATAAAACAAAATAAAAAAAAAAC--AAAAAACAAAAAAAAACC
*
255384 AAAAAAAATAAAACAAAATAAAAATAAAACAAAAAACAAAAAAAAACC
1 AAAAAAAATAAAACAAAATAAAAAAAAAACAAAAAACAAAAAAAAACC
*
255432 AAGAAAAA-AAAACA
1 AAAAAAAATAAAACA
255446 TAAAGGGGTC
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
47 22 0.38
48 21 0.36
49 15 0.26
ACGTcount: A:0.86, C:0.08, G:0.01, T:0.05
Consensus pattern (48 bp):
AAAAAAAATAAAACAAAATAAAAAAAAAACAAAAAACAAAAAAAAACC
Found at i:255438 original size:11 final size:10
Alignment explanation
Indices: 255335--255445 Score: 104
Period size: 10 Copynumber: 11.1 Consensus size: 10
255325 CCTTTACACA
*
255335 AAAAAAAAAT
1 AAAAAAAAAC
255345 AAAAAAAATA-
1 AAAAAAAA-AC
255355 AAAAAAAAAC
1 AAAAAAAAAC
255365 -AAAAAAAAC
1 AAAAAAAAAC
255374 AAAAAAAAAC
1 AAAAAAAAAC
*
255384 -AAAAAAAAT
1 AAAAAAAAAC
* *
255393 AAAACAAAAT
1 AAAAAAAAAC
255403 AAAAATAAAAC
1 AAAAA-AAAAC
255414 AAAAAACAAA-
1 AAAAAA-AAAC
* *
255424 AAAAAACCAAG
1 AAAAAA-AAAC
255435 AAAAAAAAAC
1 AAAAAAAAAC
255445 A
1 A
255446 TAAAGGGGTC
Statistics
Matches: 87, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
9 18 0.21
10 50 0.57
11 19 0.22
ACGTcount: A:0.86, C:0.08, G:0.01, T:0.05
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:256778 original size:29 final size:29
Alignment explanation
Indices: 256669--257729 Score: 1426
Period size: 28 Copynumber: 36.9 Consensus size: 29
256659 AATGTTCATT
*
256669 TTTTCAAAGCCCACAAGTCCGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
256697 CTTTCAAAGCCCATGTAGGTCAGTGGCAC-C
1 TTTTCAAAGCCCA--CAAGTCAGTGGCACTC
*
256727 CTTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
256756 TTTTTAAAGCTCACAAGTTAGTGGCA-TC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
256784 TTTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
256813 TTTTCAAAGCCCACAAATCAGTGGCACAC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
256842 TTTTCAAAGCCCACAAGTCAGTGGCA-TC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
256870 TTTTCAAAGCCCACGAGTCAGTGGCACCC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
256899 TTTTCAAAGCCCACGAGTCAGGGGCACCC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
256928 TTTTCAAAGCCCACAAGTCAGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
256956 CTTTCAAAGCCCACAAGTCAGTGGCACTT
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
256985 TTTTTAAAGCTCACAAGTTAGTGGCA-TC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
257013 TTTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
*
257042 TTTTCAAAGCCCACAAATCAGTGGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
257071 TTTTCAAAGCCCACAAGTCAGTGGCA-TC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
257099 CTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
*
257128 TTTTCAAAGCCCACGAGTCAGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
257156 TTTTTCAAAGCCCACGAGTCAGTGGCACCC
1 -TTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
257186 TTTTCAAAGCCCACGAGTTAGTGGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
257215 TTTTCAAAGCCCACAAGTCAGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
257243 TTTTTAAAGCCCACAAGTCAGTAGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
*
257272 TTTTCAAAGCCCACAAGTTAGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
*
257300 CTTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
257329 -TTTCAAAGCCCACAAGTCAGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
*
257356 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
*
257384 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
*
257412 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
257440 CTTTCAAAGCCCACAAGTTAGTGGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
*
257469 TTTTCAAAGCCCATAAGTCAGTGGCA-TC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
257497 CTTTCAAAGCCCATAAGTCAGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
*
257525 CTTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
257554 TTTTCAAAGCCCACAAGTCAGTGGCA-TCC
1 TTTTCAAAGCCCACAAGTCAGTGGCACT-C
257583 TTTT-AAAGCCCACAAGTCAGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
257610 ATTTCAAAGCCCACAAGTTAGTGGCACGC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
257639 TTTTCAAAGCCCACAAGCCAGGGGTAACTC
1 TTTTCAAAGCCCACAAGTCAGTGG-CACTC
* *
257669 TTTTCAAAGACCATACAAGT-TGATGGCAACTC
1 TTTTCAAAG-CC-CACAAGTCAG-TGGC-ACTC
*
257701 TTTTCAAAGCCCGCACAAGTTAGTGGCAC
1 TTTTCAAAG-CC-CACAAGTCAGTGGCAC
257730 CATTTTTAAA
Statistics
Matches: 934, Mismatches: 73, Indels: 49
0.88 0.07 0.05
Matches are distributed among these distances:
27 5 0.01
28 438 0.47
29 415 0.44
30 38 0.04
31 5 0.01
32 32 0.03
33 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (29 bp):
TTTTCAAAGCCCACAAGTCAGTGGCACTC
Found at i:256802 original size:57 final size:57
Alignment explanation
Indices: 256669--257729 Score: 1451
Period size: 57 Copynumber: 18.5 Consensus size: 57
256659 AATGTTCATT
* * * *
256669 TTTTCAAAGCCCACAAGTCCGTGGCAC-CCTTTCAAAGCCCATGTAGGTCAGTGGCACC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCACC
* * * * *
256727 CTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCTCACAAGTTAGTGGCATC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
*
256784 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACAC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-C
*
256842 TTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACGAGTCAGTGGCACCC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-CC
* * *
256899 TTTTCAAAGCCCACGAGTCAGGGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
* * * * * *
256956 CTTTCAAAGCCCACAAGTCAGTGGCACTTTTTTTAAAGCTCACAAGTTAGTGGCATC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
*
257013 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-C
*
257071 TTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-CC
* *
257128 TTTTCAAAGCCCACGAGTCAGTGGCAC-CTTTTTCAAAGCCCACGAGTCAGTGGCACCC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTTCAAAGCCCACAAGTCAGTGGCA-CC
* *
257186 TTTTCAAAGCCCACGAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
* * *
257243 TTTTTAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
*
257300 CTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
* *
257356 CTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
* * *
257412 CTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-C
* * *
257469 TTTTCAAAGCCCATAAGTCAGTGGCA-TCCTTTCAAAGCCCATAAGTCAGTGGCACC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
*
257525 CTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-CC
* *
257583 TTTT-AAAGCCCACAAGTCAGTGGCAC-CATTTCAAAGCCCACAAGTTAGTGGCACGC
1 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-C
* * * * *
257639 TTTTCAAAGCCCACAAGCCAGGGGTAACTCTTTTCAAAGACCATACAAGT-TGATGGCAACTC
1 TTTTCAAAGCCCACAAGTCAGTGG-CACTCTTTTCAAAG-CC-CACAAGTCAG-TGGC-AC-C
*
257701 TTTTCAAAGCCCGCACAAGTTAGTGGCAC
1 TTTTCAAAG-CC-CACAAGTCAGTGGCAC
257730 CATTTTTAAA
Statistics
Matches: 903, Mismatches: 76, Indels: 43
0.88 0.07 0.04
Matches are distributed among these distances:
55 2 0.00
56 189 0.21
57 460 0.51
58 192 0.21
59 21 0.02
60 3 0.00
61 10 0.01
62 12 0.01
63 4 0.00
64 10 0.01
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (57 bp):
TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
Found at i:262652 original size:12 final size:13
Alignment explanation
Indices: 262609--262657 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
262599 TTTTATCTTA
262609 ATTTTTA-AATTTT
1 ATTTTTATAA-TTT
262622 ATTTTTATAATTT
1 ATTTTTATAATTT
262635 AATTTTT-T-ATTT
1 -ATTTTTATAATTT
262647 ATTTTTATAAT
1 ATTTTTATAAT
262658 ATAACTATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.19
12 5 0.16
13 13 0.41
14 8 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTATAATTT
Found at i:263286 original size:25 final size:25
Alignment explanation
Indices: 263172--263280 Score: 155
Period size: 25 Copynumber: 4.4 Consensus size: 25
263162 CGAGACAGCA
* * *
263172 AAGCAAGCAACGGCAACAGCTGAAA
1 AAGCAAGCAACGGCAGCTGCTGAAG
263197 AAGCAAGCAACGGCAGCTGCTGAAG
1 AAGCAAGCAACGGCAGCTGCTGAAG
263222 AAGCAAGCAACGGCAGCTGCTGAAG
1 AAGCAAGCAACGGCAGCTGCTGAAG
* * *
263247 AAGCAAGCAATGGCATCTGATGAAG
1 AAGCAAGCAACGGCAGCTGCTGAAG
*
263272 AAGGAAGCA
1 AAGCAAGCA
263281 GAGGCAAACA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 77 1.00
ACGTcount: A:0.41, C:0.21, G:0.29, T:0.08
Consensus pattern (25 bp):
AAGCAAGCAACGGCAGCTGCTGAAG
Found at i:263493 original size:37 final size:39
Alignment explanation
Indices: 263442--263514 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 39
263432 AAAGGAGAAG
263442 AAAAGCAATGTTG-TTTAAGCAAAGCATAAGAAGAAAGA
1 AAAAGCAATGTTGTTTTAAGCAAAGCATAAGAAGAAAGA
* * * *
263480 AAAAG-AATTTTGTTTTTAGCAAAGTATACGAAGAA
1 AAAAGCAATGTTGTTTTAAGCAAAGCATAAGAAGAA
263515 GTAAAGAGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 6 0.20
38 24 0.80
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.25
Consensus pattern (39 bp):
AAAAGCAATGTTGTTTTAAGCAAAGCATAAGAAGAAAGA
Found at i:263690 original size:33 final size:33
Alignment explanation
Indices: 263645--263717 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
263635 GGAGAGAAAC
* * * *
263645 AACAGCAGCACGACGGCA-CTTGGTGGAGGAAGA
1 AACAGCAACACGACAGCAGC-TGATGGAAGAAGA
*
263678 AATAGCAACACGACAGCAGCTGATGGAAGAAGA
1 AACAGCAACACGACAGCAGCTGATGGAAGAAGA
263711 AACAGCA
1 AACAGCA
263718 GTAGCTGATG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.41, C:0.21, G:0.30, T:0.08
Consensus pattern (33 bp):
AACAGCAACACGACAGCAGCTGATGGAAGAAGA
Found at i:263718 original size:22 final size:23
Alignment explanation
Indices: 263690--263737 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
263680 TAGCAACACG
263690 ACAGC-AGCTGATGGAAGAAGAA
1 ACAGCAAGCTGATGGAAGAAGAA
263712 ACAGCAGTAGCTGATGGAAGAAGAA
1 ACAGCA--AGCTGATGGAAGAAGAA
263737 A
1 A
263738 TAACAGCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.22
25 18 0.78
ACGTcount: A:0.46, C:0.12, G:0.31, T:0.10
Consensus pattern (23 bp):
ACAGCAAGCTGATGGAAGAAGAA
Found at i:263801 original size:33 final size:33
Alignment explanation
Indices: 263712--263813 Score: 105
Period size: 33 Copynumber: 3.0 Consensus size: 33
263702 GGAAGAAGAA
* * *
263712 ACAGCAGTAGCTGATGGAAGAAGAAATAACAGC
1 ACAGCAGCAGCTGATGGAGGAAGAAACAACAGC
* * * *
263745 AGCATGACAACAGTTGATAGAGGAAGAGACAACAGC
1 A-CA-G-CAGCAGCTGATGGAGGAAGAAACAACAGC
*
263781 ACAGCAGCAGCTGATGGAGGAAGAAACAGCAGC
1 ACAGCAGCAGCTGATGGAGGAAGAAACAACAGC
263814 TACTGTTCTT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
33 25 0.46
34 3 0.06
35 3 0.06
36 23 0.43
ACGTcount: A:0.43, C:0.18, G:0.29, T:0.10
Consensus pattern (33 bp):
ACAGCAGCAGCTGATGGAGGAAGAAACAACAGC
Found at i:264117 original size:186 final size:184
Alignment explanation
Indices: 263805--264174 Score: 573
Period size: 186 Copynumber: 2.0 Consensus size: 184
263795 TGGAGGAAGA
* ** *
263805 AACAGCAGCTACTGTTCTTCAAGTCTGGTCCTAAAATTAGCAAAAGAGCCCTCCAATTGAACCTG
1 AACAGCAGCTACTATTCTTCAAGTCTGGTCCTAAAACCAGCAAAAGAACCCTCCAATTGAACCTG
*
263870 CAAAATGACGAGAGAAAGAAAAAAAAGAGAAGAAAAGGAAAGAAAATATTTGGAACAAATCCGAC
66 CAAAATGACGAGAGAAAGAAAAAAAAGAGAAAAAAAGGAAAGAAAATATTTGGAACAAATCCGAC
* **
263935 CATTAAAGGTAAACCAATTCTTTTCTTTTTCATTCAATTTCTGTTTTTGATTTT
131 CATTAAAGGTAAACCAATTCCTTTCTTTTTCATTCAATTTCTAATTTTGATTTT
* *
263989 AACAGCAGCTGCTATTCTTCAGGTCTGGTCCTAAAAACCAGC-AAAGAAACCCTCCAATTGAACC
1 AACAGCAGCTACTATTCTTCAAGTCTGGTCCT-AAAACCAGCAAAAG-AACCCTCCAATTGAACC
* * *
264053 TGC-AAATGTTACGAGAGGAAGAAGAAAAAGAGAAAAAAAGGAAAGAAAATATTTTGAACAAATC
64 TGCAAAATG--ACGAGAGAAAGAAAAAAAAGAGAAAAAAAGGAAAGAAAATATTTGGAACAAATC
264117 CGACCATTAAAGGTAAACCAATTCCTTTCTTTTTCATTCAATTTCTAATTTTGATTTT
127 CGACCATTAAAGGTAAACCAATTCCTTTCTTTTTCATTCAATTTCTAATTTTGATTTT
264175 TCTTATTATT
Statistics
Matches: 169, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
184 38 0.22
185 26 0.15
186 105 0.62
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (184 bp):
AACAGCAGCTACTATTCTTCAAGTCTGGTCCTAAAACCAGCAAAAGAACCCTCCAATTGAACCTG
CAAAATGACGAGAGAAAGAAAAAAAAGAGAAAAAAAGGAAAGAAAATATTTGGAACAAATCCGAC
CATTAAAGGTAAACCAATTCCTTTCTTTTTCATTCAATTTCTAATTTTGATTTT
Found at i:265671 original size:157 final size:156
Alignment explanation
Indices: 265374--266391 Score: 1090
Period size: 157 Copynumber: 6.5 Consensus size: 156
265364 TTTCATCTAT
* * * * * * * * *
265374 AGTCTTTTTAAGTCTTTTAGGGTTGCAGGAATATTTTTACATCGAAGGTATACCCTTAGGGGTAT
1 AGTCTTTTTAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCCTAAGGGCA-
* * * * * *
265439 TTTTGGTAATTTTTTTGAACCAACT-CTGAGGTCTTCACCGGGTCCGTTTTTACGCCAAAAGTGG
65 TTTTCGTAATTTTTTAGAACCAACTCCT-AGGTCATCACC-GGTCTGTTTTTATGCCAAAGGTGG
265503 GCATTTAGGATAGGTTCATCCCTTTTATG
128 GCATTTAGGATAGGTTCATCCCTTTTATG
*
265532 AGT-TTTTTAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTAATACCCCTAGGGGCA
1 AGTCTTTTTAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGT-ATACCCCTAAGGGCA
* * * ***
265596 TTTTCATAATTTTTTAGAACCAACTTCTAGGTCATCACCGCGTCTATTTTTATGTGGAAGGTGGG
65 TTTTCGTAATTTTTTAGAACCAACTCCTAGGTCATCACCG-GTCTGTTTTTATGCCAAAGGTGGG
* *
265661 TATTTTGGATAGGTTCATCCCTTTTATG
129 CATTTAGGATAGGTTCATCCCTTTTATG
* * *
265689 AGTCTTTTTAAGTCCTTTAAGGG-TATC-GGATACTTTCACGTCAAAGGTAT-CCCCTAAGGGCA
1 AGTCTTTTTAAGTCCTTT-AGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCCTAAGGGCA
* ** ** **
265751 TTTTCGTAATTTTCTAGAACCAACTTTTAGGTCATCACCGAGT-TCACTTTTATGCTGAAGGTGG
65 TTTTCGTAATTTTTTAGAACCAACTCCTAGGTCATCACCG-GTCT-GTTTTTATGCCAAAGGTGG
*
265815 GTATTTAGGATAGGTTCATCCCTTTTATG
128 GCATTTAGGATAGGTTCATCCCTTTTATG
** * * * *
265844 AGTCTTTTTAAGTCCTTTAGGGTTGTCGAGATACTTTTATGTCGAAGATATACCCCTAAGGGTAT
1 AGTCTTTTTAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCCTAAGGGCAT
* * *
265909 TTTCGTAATTTTTTAGAACCAACGCCTAGGTCATCACTAGGTCCGTTTTTATGCCAAAGGTGGGC
66 TTTCGTAATTTTTTAGAACCAACTCCTAGGTCATCAC-CGGTCTGTTTTTATGCCAAAGGTGGGC
* *
265974 ACTTATGATAGGTTCATCCCTTTTATG
130 ATTTAGGATAGGTTCATCCCTTTTATG
* * * **
266001 AGTCTTTTTAAGTCCTTTAGGGTTGCCAGAATACTTTTACGTCGAAGGTATACCTTTAAGGGCAT
1 AGTCTTTTTAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCCTAAGGGCAT
* * * * * *
266066 TTTCATAATTTTTTTAGAACCGAGTCCTAGGTTATCATCAGGT-TCGTTTTTATGCCAAAGGTAG
66 TTTCGTAA-TTTTTTAGAACCAACTCCTAGGTCATCA-CCGGTCT-GTTTTTATGCCAAAGGTGG
* *
266130 GCATTTAGGAGAGGTTCATCCCTTTTA-A
128 GCATTTAGGATAGGTTCATCCCTTTTATG
** * * * *
266158 AACCTTTTTTAAGTCTTTTAGGGATACCGAGATACTTTCACGTCGAAGGTAT-CCCCTAAGGGCA
1 AGTC-TTTTTAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCCTAAGGGCA
* * * * * * *
266222 TTTTCATAATTTTTTAGAACTAAGTCCTAGATTATCACCGGGTCTGCTTTTATGCCAAATGTGGG
65 TTTTCGTAATTTTTTAGAACCAACTCCTAGGTCATCACC-GGTCTGTTTTTATGCCAAAGGTGGG
* *
266287 TATTTAGGATAGGTTCACCCCTTTTAT-
129 CATTTAGGATAGGTTCATCCCTTTTATG
* * * *
266314 AGTCTTTTTTAAGTCCTTTAGGAG-TACCGAGATACTTTCAAGTCGAAAGTAT-CCCCTAAGGGC
1 AGTC-TTTTTAAGTCCTTTAGG-GTTACCGGGATACTTTTACGTCGAAGGTATACCCCTAAGGGC
266377 ATCTTT-GTAATTTTT
64 AT-TTTCGTAATTTTT
266392 CTTGAACTTA
Statistics
Matches: 740, Mismatches: 100, Indels: 42
0.84 0.11 0.05
Matches are distributed among these distances:
154 5 0.01
155 116 0.16
156 155 0.21
157 313 0.42
158 146 0.20
159 5 0.01
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (156 bp):
AGTCTTTTTAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCCTAAGGGCAT
TTTCGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGTCTGTTTTTATGCCAAAGGTGGGCA
TTTAGGATAGGTTCATCCCTTTTATG
Found at i:266320 original size:470 final size:466
Alignment explanation
Indices: 265371--266391 Score: 1254
Period size: 470 Copynumber: 2.2 Consensus size: 466
265361 TCATTTCATC
* * * * *
265371 TATAGTCTTTTTAAGTCTTTTAGGGTTGC-AGGAATATTTTTACA-TCGAAGGTATACCCTTAGG
1 TATAGTCTTTTTAAGTCCTTTAGGGTTGCGA-G-ATACTTTTA-AGTCGAAGATATACCCCTAAG
* * * *
265434 GGTATTTTTGGTAATTTTTTTGAACCAACTCTGAGGTCTTCACCGGGTCCGTTTTTACGCCAAAA
63 GGTA-TTTT-GTAATTTTTTAGAACCAACCCTGAGGTCATCACCAGGTCCGTTTTTACGCCAAAA
* * *
265499 GTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTTTTTTAAGTCCTTTAGGGTTACCGGGATA
126 GTGGGCACTTAGGATAGGTTCATCCCTTTTATGAGTTTTTTAAGTCCTTTAGGGTTACCAGAATA
* *
265564 CTTTTACGTCGAAGGTAATACCCCTAGGGGCATTTTCATAATTTTTTAGAACCAACTTCTAGGTC
191 CTTTTACGTCGAAGGTAATACCCCTAAGGGCATTTTCATAATTTTTTAGAACCAACTCCTAGGTC
* *** * * * * ** *
265629 ATCACCGCGTCTATTTTTATGTGGAAGGTGGGTATTTTGGATAGGTTCATCCCTTTTATGAGTCT
256 ATCACAGCGTCTATTTTTATGCCAAAGGTAGGCATTTAGGAGAGGTTCATCCCTTTTAAAACTCT
* *
265694 TTTTAAGTCCTTTAAGGGTATCGGATACTTTCACGTCAAAGGTATCCCCTAAGGGCATTTTCGTA
321 TTTTAAGTCCTTTAAGGGTACCGGATACTTTCACGTCAAAGGTATCCCCTAAGGGCATTTTCATA
** * **
265759 ATTTTCTAGAACCAACTTTTAGGTCATCACCGAGTTCACTTTTATGCTGAAGGTGGGTATTTAGG
386 ATTTTCTAGAACCAACTCCTAGATCATCACCGAGTTCACTTTTATGCCAAAGGTGGGTATTTAGG
*
265824 ATAGGTTCATCCCTTT
451 ATAGGTTCACCCCTTT
*
265840 TATGAGTCTTTTTAAGTCCTTTAGGGTTGTCGAGATACTTTTATGTCGAAGATATACCCCTAAGG
1 TAT-AGTCTTTTTAAGTCCTTTAGGGTTG-CGAGATACTTTTAAGTCGAAGATATACCCCTAAGG
* * *
265905 GTATTTTCGTAATTTTTTAGAACCAACGCCT-AGGTCATCACTAGGTCCGTTTTTATGCCAAAGG
64 GTATTTT-GTAATTTTTTAGAACCAAC-CCTGAGGTCATCACCAGGTCCGTTTTTACGCCAAAAG
* *
265969 TGGGCACTTATGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTGCCAGAATA
127 TGGGCACTTAGGATAGGTTCATCCCTTTTATGAGT-TTTTTAAGTCCTTTAGGGTTACCAGAATA
** * *
266034 CTTTTACGTCGAAGGT-ATACCTTTAAGGGCATTTTCATAATTTTTTTAGAACCGAGTCCTAGGT
191 CTTTTACGTCGAAGGTAATACCCCTAAGGGCATTTTCATAA-TTTTTTAGAACCAACTCCTAGGT
* *
266098 TATCATCAG-GT-TCGTTTTTATGCCAAAGGTAGGCATTTAGGAGAGGTTCATCCCTTTTAAAAC
255 CATCA-CAGCGTCT-ATTTTTATGCCAAAGGTAGGCATTTAGGAGAGGTTCATCCCTTTTAAAAC
* *
266161 -CTTTTTTAAGT-CTTTTAGGGATACCGAGATACTTTCACGTCGAAGGTATCCCCTAAGGGCATT
318 TC-TTTTTAAGTCCTTTAAGGG-TACCG-GATACTTTCACGTCAAAGGTATCCCCTAAGGGCATT
* * * * * * *
266224 TTCATAATTTTTTAGAACTAAGTCCTAGATTATCACCG-GGTCTGCTTTTATGCCAAATGTGGGT
380 TTCATAATTTTCTAGAACCAACTCCTAGATCATCACCGAGTTC-ACTTTTATGCCAAAGGTGGGT
266288 ATTTAGGATAGGTTCACCCCTTT
444 ATTTAGGATAGGTTCACCCCTTT
** *
266311 TATAGTCTTTTTTAAGTCCTTTAGGAGTACCGAGATACTTTCAAGTCGAA-AGTAT-CCCCTAAG
1 TATAGTC-TTTTTAAGTCCTTTAGG-GTTGCGAGATACTTTTAAGTCGAAGA-TATACCCCTAAG
*
266374 GGCATCTTTGTAATTTTT
63 GGTAT-TTTGTAATTTTT
266392 CTTGAACTTA
Statistics
Matches: 475, Mismatches: 60, Indels: 33
0.84 0.11 0.06
Matches are distributed among these distances:
469 117 0.25
470 203 0.43
471 152 0.32
472 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (466 bp):
TATAGTCTTTTTAAGTCCTTTAGGGTTGCGAGATACTTTTAAGTCGAAGATATACCCCTAAGGGT
ATTTTGTAATTTTTTAGAACCAACCCTGAGGTCATCACCAGGTCCGTTTTTACGCCAAAAGTGGG
CACTTAGGATAGGTTCATCCCTTTTATGAGTTTTTTAAGTCCTTTAGGGTTACCAGAATACTTTT
ACGTCGAAGGTAATACCCCTAAGGGCATTTTCATAATTTTTTAGAACCAACTCCTAGGTCATCAC
AGCGTCTATTTTTATGCCAAAGGTAGGCATTTAGGAGAGGTTCATCCCTTTTAAAACTCTTTTTA
AGTCCTTTAAGGGTACCGGATACTTTCACGTCAAAGGTATCCCCTAAGGGCATTTTCATAATTTT
CTAGAACCAACTCCTAGATCATCACCGAGTTCACTTTTATGCCAAAGGTGGGTATTTAGGATAGG
TTCACCCCTTT
Found at i:267753 original size:73 final size:74
Alignment explanation
Indices: 267596--267757 Score: 195
Period size: 73 Copynumber: 2.2 Consensus size: 74
267586 ATTTAGCCAA
* * * *
267596 ATCATGTAGCCAACACATCTTTAACAATCATCTCAACATATGTTCAAGTATAATCTAGCAAAAGG
1 ATCATCTAGCC-A-ACATCTTCAACAATCATCTCAACATATATTCAAGCATAATCTAGCAAAAGG
*
267661 GCTCTTAAAGC
64 GCTCTCAAAGC
* *
267672 ATCTTCTAGCCAACATCTTCAA-AATCATCTCAACATATATTCAAGCATCATCTAGCCAAAA-GG
1 ATCATCTAGCCAACATCTTCAACAATCATCTCAACATATATTCAAGCATAATCTAG-CAAAAGGG
*
267735 CTCCTCATA-C
65 CT-CTCAAAGC
267745 ATCATCTAGCCAA
1 ATCATCTAGCCAA
267758 AAACCTTTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
73 47 0.63
74 18 0.24
75 1 0.01
76 9 0.12
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.27
Consensus pattern (74 bp):
ATCATCTAGCCAACATCTTCAACAATCATCTCAACATATATTCAAGCATAATCTAGCAAAAGGGC
TCTCAAAGC
Found at i:268001 original size:78 final size:77
Alignment explanation
Indices: 267866--268083 Score: 276
Period size: 78 Copynumber: 2.8 Consensus size: 77
267856 TGTTGTTACG
* * * * *
267866 CCTACCCATAGGCCTTAACCTTCACAAAGGTCCATAATGATTATTTTGCCTTCCCAAAGGCTTAA
1 CCTACCCATAGGCCTTGACCTTCCCAAAGGTCCATATTGATTATCTTG-CTTTCCAAAGGCTTAA
* *
267931 GATTATTGCTACA
65 GACTATGGCTACA
* **
267944 CCTACCCATAAGCCTTGACCTTCCCAAAGGTCCATATTGATTATCTTGCATTTCCAAAGGCTCGA
1 CCTACCCATAGGCCTTGACCTTCCCAAAGGTCCATATTGATTATCTTGC-TTTCCAAAGGCTTAA
268009 GACTATGGCTACA
65 GACTATGGCTACA
* * * *
268022 CCTAACCATAGGCCTTGACCTTCCCAAA-GTCCACATTAATTATCTCGTCTTTCCAAAGGCTT
1 CCTACCCATAGGCCTTGACCTTCCCAAAGGTCCATATTGATTATCTTG-CTTTCCAAAGGCTT
268084 GAAATTGTTG
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
77 29 0.24
78 93 0.76
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (77 bp):
CCTACCCATAGGCCTTGACCTTCCCAAAGGTCCATATTGATTATCTTGCTTTCCAAAGGCTTAAG
ACTATGGCTACA
Found at i:268276 original size:78 final size:77
Alignment explanation
Indices: 268191--268435 Score: 269
Period size: 78 Copynumber: 3.1 Consensus size: 77
268181 GTCTTAACCT
* * * *
268191 TTCCAAAGGCTCGAGACTATTGCTATACCTACCCATAGGCCTTAACCTTTTCAAAGGTCTATATT
1 TTCCAAAGGCTCGAAACTATTGCTATGCCTACCCATAGGCCTTGACCTTTCCAAAGGTCTATATT
268256 GATTATCTTGCC
66 GATTATCTTGCC
* * * * ** * *
268268 TTCTCAAAGGCTTGATACTGTTGCTACGCCTACTTATAGGCTTTGACC-TTCCTAAGGGTCTATA
1 TTC-CAAAGGCTCGAAACTATTGCTATGCCTACCCATAGGCCTTGACCTTTCC-AAAGGTCTATA
268332 TTGATTATCTTGCC
64 TTGATTATCTTGCC
* * * * *
268346 TTCCCAAAGGTTCGAAACTATTGCTATGCCTACCCTTAGGCCTTGGCCTTCCCAAATGT-TCATA
1 TT-CCAAAGGCTCGAAACTATTGCTATGCCTACCCATAGGCCTTGACCTTTCCAAAGGTCT-ATA
*
268410 TTGATTATCTTGCT
64 TTGATTATCTTGCC
268424 TTCCTAAAGGCT
1 TTCC-AAAGGCT
268436 TAAGATTGTT
Statistics
Matches: 136, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
77 9 0.07
78 123 0.90
79 4 0.03
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (77 bp):
TTCCAAAGGCTCGAAACTATTGCTATGCCTACCCATAGGCCTTGACCTTTCCAAAGGTCTATATT
GATTATCTTGCC
Found at i:269790 original size:3 final size:3
Alignment explanation
Indices: 269778--269818 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
269768 ATTAAAATGC
269778 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
269819 AGCACAAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:270041 original size:6 final size:6
Alignment explanation
Indices: 270030--270054 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
270020 TTCACACCAG
270030 CAGTCA CAGTCA CAGTCA CAGTCA C
1 CAGTCA CAGTCA CAGTCA CAGTCA C
270055 CATATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.16
Consensus pattern (6 bp):
CAGTCA
Found at i:272578 original size:2 final size:2
Alignment explanation
Indices: 272571--272598 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
272561 ATATGAGATA
272571 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
272599 CGCATGCGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:272626 original size:2 final size:2
Alignment explanation
Indices: 272621--272655 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
272611 TGCACGCGCT
272621 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
272656 TTGTACAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:279639 original size:2 final size:2
Alignment explanation
Indices: 279632--279679 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
279622 TGAAAAGATG
*
279632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT 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
*
279674 AC AT AT
1 AT AT AT
279680 GCACAGACAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:281389 original size:2 final size:2
Alignment explanation
Indices: 281382--281417 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
281372 AAGCTATGAT
281382 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
281418 CTTTTTTTTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:289487 original size:80 final size:79
Alignment explanation
Indices: 289383--289581 Score: 274
Period size: 79 Copynumber: 2.5 Consensus size: 79
289373 CTGACTATGG
** ** *
289383 AAAATCGGTGTTTTAGAAATAAAATCAGAGTTGGAGTATCTCCTTGAAAATAACGGGGTTGGAAT
1 AAAATCGGTGTTTTAGAAATAAAATTGGAGTTGGAGTATCT-CTAAAAAATAACGGGATTGGAAT
289448 ATCCCCGATTGCGAA
65 ATCCCCGATTGCGAA
* *
289463 AAAATCGGTGTTTT-GAAAATAAAATTGGTGTTGGAGTATCTCTAAAAAATAACGGGATTGGAGT
1 AAAATCGGTGTTTTAG-AAATAAAATTGGAGTTGGAGTATCTCTAAAAAATAACGGGATTGGAAT
*
289527 ATCCCCGATTGTGAA
65 ATCCCCGATTGCGAA
* * *
289542 AAGATTGGTGTTTTAGAAATAAAATTGGGGTTGGAGTATC
1 AAAATCGGTGTTTTAGAAATAAAATTGGAGTTGGAGTATC
289582 CTCGATTGTG
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 69 0.65
80 37 0.35
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (79 bp):
AAAATCGGTGTTTTAGAAATAAAATTGGAGTTGGAGTATCTCTAAAAAATAACGGGATTGGAATA
TCCCCGATTGCGAA
Found at i:289623 original size:51 final size:52
Alignment explanation
Indices: 289515--289634 Score: 161
Period size: 51 Copynumber: 2.3 Consensus size: 52
289505 TAAAAAATAA
* * *** *
289515 CGGGATTGGAGTATCCCCGATTGTGAAAAGATTGGTGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCTCGATTGTGAAAAGATCAATATTTTAGAAATAAAAT
* *
289567 TGGGGTTGGAGTATCCTCGATTGTGAGAA-ATCAATATTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCTCGATTGTGAAAAGATCAATATTTTAGAAATAAAAT
289618 CGGGGTTGGAGTATCCT
1 CGGGGTTGGAGTATCCT
289635 TTCAAAAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 34 0.58
52 25 0.42
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.32
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCTCGATTGTGAAAAGATCAATATTTTAGAAATAAAAT
Found at i:289712 original size:130 final size:130
Alignment explanation
Indices: 289479--289712 Score: 328
Period size: 130 Copynumber: 1.8 Consensus size: 130
289469 GGTGTTTTGA
* * * *
289479 AAATAAAATTGGTGTTGGAGTATCTCTAAAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAA
1 AAATAAAATCGGGGTTGGAGTATCTCTAAAAAATAACAGGATTGGAGTATCCCCGATTATGAAAA
* * *** *
289544 GATTGGTGTTTTAGAAATAAAATTGGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTAG
66 GATTGATGTTTCAGAAATAAAACCAGGGTTGGACTATCCTCGATTGTGAGAAATCAATATTTTAG
* *
289609 AAATAAAATCGGGGTTGGAGTATCCTTTCAAAAATAACAGGATTGGAGTATCCCCGATTATGAAA
1 AAATAAAATCGGGGTTGGAGTAT-CTCTAAAAAATAACAGGATTGGAGTATCCCCGATTATGAAA
289674 A-ATTGATGTTTGCA-AAATAAAACCAGGGTTGGACTATCC
65 AGATTGATGTTT-CAGAAATAAAACCAGGGTTGGACTATCC
289713 CCGAGATGAA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
130 51 0.57
131 39 0.43
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (130 bp):
AAATAAAATCGGGGTTGGAGTATCTCTAAAAAATAACAGGATTGGAGTATCCCCGATTATGAAAA
GATTGATGTTTCAGAAATAAAACCAGGGTTGGACTATCCTCGATTGTGAGAAATCAATATTTTAG
Found at i:294014 original size:157 final size:155
Alignment explanation
Indices: 293720--294075 Score: 436
Period size: 157 Copynumber: 2.3 Consensus size: 155
293710 TTACAAAAGG
* * * * * *
293720 GTCCTTACATAATTAAAACCCAAAATTAAGC-ATCAAGGAAATTAAAATCAGCTCAAACACATCC
1 GTCCTTACCTAATAAAAACACAAAATTAAACAATCAAAGAAATCAAAATCAGCTCAAACACATCC
* ** *
293784 AAAAGTTATAAGGAAGATTCGGCCAATCACCTTTGGCCTTAGAATAAAATTTACGAATAAACCCA
66 AAAAGTTACAAGGAAGATTCAACCAATCACCTTTGGCCTTAGAATAAAATTTACAAATAAACCCA
293849 ATAAACTTTCTAATTTTGCAACTTA
131 ATAAACTTTCTAATTTTGCAACTTA
*
293874 GTCCTTACCTAATAAAAACATAAAATTAAACAAT-AAAGAAATCAAAATCAGCATACAAAACACA
1 GTCCTTACCTAATAAAAACACAAAATTAAACAATCAAAGAAATCAAAATCAGC-T-C-AAACACA
* * * *
293938 TTCAAAAGTTACAAGGAAGATTCAACCAATTA-CTTTGGTCCTTAGAATAAGATTTTCAAATAAA
63 TCCAAAAGTTACAAGGAAGATTCAACCAATCACCTTTGG-CCTTAGAATAAAATTTACAAAT-AA
* * * *
294002 ACCC-TTACACTTTTTAATTTTGCAAGTTA
126 ACCCAATAAACTTTCTAATTTTGCAACTTA
*
294031 GTGCTTACCTAATAAAAACACAAAATTAAAC-ATCCAAA-AAATCAA
1 GTCCTTACCTAATAAAAACACAAAATTAAACAAT-CAAAGAAATCAA
294076 GAAACTACCA
Statistics
Matches: 173, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
154 42 0.24
155 3 0.02
156 9 0.05
157 110 0.64
158 9 0.05
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.27
Consensus pattern (155 bp):
GTCCTTACCTAATAAAAACACAAAATTAAACAATCAAAGAAATCAAAATCAGCTCAAACACATCC
AAAAGTTACAAGGAAGATTCAACCAATCACCTTTGGCCTTAGAATAAAATTTACAAATAAACCCA
ATAAACTTTCTAATTTTGCAACTTA
Found at i:295271 original size:74 final size:74
Alignment explanation
Indices: 295172--295520 Score: 366
Period size: 74 Copynumber: 4.9 Consensus size: 74
295162 AGAAAAAAAT
295172 GTCCTGCTCTTTGAGGACTAAAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTTTAAGAAAA
1 GTCCTGCTCTTTGAGGACTAAAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTTTAAGAAAA
*
295237 ATAAAAGGC
66 AGAAAAGGC
* * * * * * *
295246 ATCCTGCTCTTTGAGGACTAAAAAAGATAAAGGGTGCCACTAGCTTATATGGACTTTTAGGAAAA
1 GTCCTGCTCTTTGAGGACTAAAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTTTAAGAAAA
**
295311 AGAAAATAC
66 AGAAAAGGC
* * * * * *
295320 GTCATGGTCTTTGAGGACTGAAAAAGATAAAAGGTGCCACCAGCTTGTATTGGCTTTTAAGGAAA
1 GTCCTGCTCTTTGAGGACTAAAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTTTAAGAAAA
295385 A-AAAA--C
66 AGAAAAGGC
* *
295391 GTCCTGCTCTTTGA-G---------GATAAAAGGTGCTACCAGCTTGTGTGGGCTTGTAAGAAAA
1 GTCCTGCTCTTTGAGGACTAAAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTTTAAGAAAA
*
295446 AGAAAAAGC
66 AGAAAAGGC
* * * * *
295455 GT-CTGGCTCTTTAAAGACGGAAAAAAGATAAAAGGTACCACTAGCTTGTGTGGGCTTTTAAGAA
1 GTCCT-GCTCTTTGAGGAC-TAAAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTTTAAGAA
295519 AA
64 AA
295521 CTAAAAGGTG
Statistics
Matches: 227, Mismatches: 33, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
61 36 0.16
62 4 0.02
63 2 0.01
64 11 0.05
65 1 0.00
70 1 0.00
71 13 0.06
73 4 0.02
74 119 0.52
75 36 0.16
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (74 bp):
GTCCTGCTCTTTGAGGACTAAAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTTTAAGAAAA
AGAAAAGGC
Found at i:295728 original size:74 final size:74
Alignment explanation
Indices: 295559--295946 Score: 318
Period size: 74 Copynumber: 5.3 Consensus size: 74
295549 AAAAAGTGCC
* * * * * *
295559 CTTTGAAGACTAAAAAAGATAAAGGGTGCTACCAGCTTGTG-GGTGTTTTTAAGAAAAA-AAAGA
1 CTTTGAAGACTAAAAAAGATAAAAGGTGCCACCAACTTGTGTGG-GCTTTTAAAAAAAAGAAAAA
*
295622 -CATCTTGCT
65 GCATCATGCT
* * *
295631 CTTTAAAAACTGAAAAAGATAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAAGAAAAAG
1 CTTTGAAGACTAAAAAAGATAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAAGAAAAAG
295696 CATCATGCT
66 CATCATGCT
* * * * * * *
295705 CTTTTAAGACTTAAAAAGTTAAAAGGTGCCACCAACTTGTATGGGCTTTGAAGAAAGAGAAAAAG
1 CTTTGAAGACTAAAAAAGATAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAAGAAAAAG
*
295770 -ATGTCCTGCT
66 CA--TCATGCT
* * * * * *
295780 CTTTGAGGACTAAAAAAGTTAAAGGGTGCCACCAGCTTATGTGGGC-TTTGAAAAAAAG-AAAAG
1 CTTTGAAGACTAAAAAAGATAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAAGAAAAAG
*
295843 -ATTCCCA-GAT
66 CA-T--CATGCT
* * * *
295853 TTTTGAAGACT---AAAGATAAAGGGGTGCCACCAGCTTATGTGGGC-TTTAAAAAAAAGAAAAA
1 CTTTGAAGACTAAAAAAGATAAA-AGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAAGAAAAA
* * *
295914 ACATCCTACT
65 GCATCATGCT
295924 CTTTGATA-ACT-AAAAAGATAAAA
1 CTTTGA-AGACTAAAAAAGATAAAA
295947 TGTTAAGTTT
Statistics
Matches: 259, Mismatches: 43, Indels: 28
0.78 0.13 0.08
Matches are distributed among these distances:
70 9 0.03
71 43 0.17
72 54 0.21
73 34 0.13
74 74 0.29
75 45 0.17
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (74 bp):
CTTTGAAGACTAAAAAAGATAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAAGAAAAAG
CATCATGCT
Found at i:296611 original size:28 final size:28
Alignment explanation
Indices: 296578--296841 Score: 243
Period size: 28 Copynumber: 9.4 Consensus size: 28
296568 TCACCTTTTC
*
296578 AAAGCCCACAAGTCAGTGGAAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * * *
296606 AAAGCCCACAAATCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
*
296635 AAAGCCCACAAGTCAGTGGTAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * * *
296663 AAAGCCCACAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
*
296692 AAAGCCCACAAGTCAGTGGCAATCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
296720 AAAGCCCAAAAGTTAGTGGCACCCCTTTC-
1 AAAGCCCACAAGTCAGTGGCA-ACC-TTCA
* * *
296749 -AAGCCCATAAGTCAGTGGTATCCTTTC-
1 AAAGCCCACAAGTCAGTGGCAACC-TTCA
296776 AAAGCCCACAAGTCAGT-GCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
296803 AAAGCACACAAGT-TGAT-GCAACCCTTTCA
1 AAAGCCCACAAGTCAG-TGGCAA-CC-TTCA
296832 AAAGCCCACA
1 AAAGCCCACA
296842 CAAGTTGGTG
Statistics
Matches: 193, Mismatches: 34, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
26 4 0.02
27 27 0.14
28 99 0.51
29 60 0.31
30 3 0.02
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:296659 original size:57 final size:56
Alignment explanation
Indices: 296572--296793 Score: 279
Period size: 57 Copynumber: 3.9 Consensus size: 56
296562 CATTTCTCAC
*
296572 CTTTTCAAAGCCCACAAGTCAGTGGAAACCTTCAAAAGCCCACAAATCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGTAACCTTCAAAAGCCCACAAATCAGTGGCAT
* *
296628 CTTTTCCAAAGCCCACAAGTCAGTGGTAACCTTCAAAAGCCCACAAGTTAGTGGCAT
1 CTTTT-CAAAGCCCACAAGTCAGTGGTAACCTTCAAAAGCCCACAAATCAGTGGCAT
* * * *
296685 CTTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCAAAAGCCCA-AAAGTTAGTGGCACC
1 CTTTT-CAAAGCCCACAAGTCAGTGGTAACCTTCAAAAGCCCACAAA-TCAGTGGCA-T
* * * *
296743 CCTTTC-AAGCCCATAAGTCAGTGGTATCCTTTC-AAAGCCCACAAGTCAGTG
1 CTTTTCAAAGCCCACAAGTCAGTGGTAACC-TTCAAAAGCCCACAAATCAGTG
296794 CAACCTTCAA
Statistics
Matches: 147, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
56 39 0.27
57 104 0.71
58 4 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (56 bp):
CTTTTCAAAGCCCACAAGTCAGTGGTAACCTTCAAAAGCCCACAAATCAGTGGCAT
Found at i:296726 original size:85 final size:85
Alignment explanation
Indices: 296569--296815 Score: 263
Period size: 85 Copynumber: 2.9 Consensus size: 85
296559 AGACATTTCT
* * * *
296569 CACCTTTTCAAAGCCCACAAGTCAGTGGAAACCTTCAAAAGCCCACAAATCAGTGGC-ATCTTTT
1 CACC-TTTCAAAGCCCACAAGTCAGTGGAATCTTTCCAAAGCCCACAAGTCAGTGGCAATC--TT
* *
296633 CCAAAGCCCACAAGTCAGTGGTA
63 CAAAAGCCCACAAGTCAGTGGCA
* *
296656 -ACC-TTCAAAAGCCCACAAGTTAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATCTTC
1 CACCTTTC-AAAGCCCACAAGTCAGTGGAATC-TTTCCAAAGCCCACAAGTCAGTGGCAATCTTC
* *
296719 AAAAGCCCAAAAGTTAGTGGCA
64 AAAAGCCCACAAGTCAGTGGCA
* * * *
296741 CCCCTTTC-AAGCCCATAAGTCAGTGGTATCCTTT-CAAAGCCCACAAGTCAGT-GCAACCTTCA
1 CACCTTTCAAAGCCCACAAGTCAGTGGAAT-CTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCA
*
296803 AAAGCACACAAGT
65 AAAGCCCACAAGT
296816 TGATGCAACC
Statistics
Matches: 137, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
83 20 0.15
84 21 0.15
85 62 0.45
86 28 0.20
87 6 0.04
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (85 bp):
CACCTTTCAAAGCCCACAAGTCAGTGGAATCTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCAA
AAGCCCACAAGTCAGTGGCA
Found at i:296845 original size:31 final size:27
Alignment explanation
Indices: 296792--296848 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 27
296782 CACAAGTCAG
296792 TGCAACCTTCAAAAGCACACAAGTTGA
1 TGCAACCTTCAAAAGCACACAAGTTGA
296819 TGCAACCCTTTCAAAAGCCCACACAAGTTG
1 TGCAA-CC-TTCAAAAG--CACACAAGTTG
296849 GTGGCGTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 5 0.19
28 2 0.08
29 8 0.31
31 11 0.42
ACGTcount: A:0.37, C:0.30, G:0.14, T:0.19
Consensus pattern (27 bp):
TGCAACCTTCAAAAGCACACAAGTTGA
Found at i:296985 original size:48 final size:48
Alignment explanation
Indices: 296874--297415 Score: 351
Period size: 48 Copynumber: 11.5 Consensus size: 48
296864 AAGTTTAATA
* * * * *
296874 TCGCTAGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCA-CTTTGTCTTTAAGA-CCAATG
* *
296924 TCGCTGGCCTTGAATCAGCATACTGACACTTTGTCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATG
** * * *
296972 TCATTGGCCTTGAATCAACACATTGGCA---------TAAG-CCTAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACC-AATG
* *
297011 TCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATG
* ** *
297059 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAG-TCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCA-CTTTGTCTTTAAGACCAATG
**
297107 TCGCTGGCCTTGAATCAGCATATTGGCAC-CGGCATCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACTTTG--TCTTTAAGACCAATG
* * * * *
297156 TTGCTGGCCTTGAATCAGC--A----CA-TTAG-C-ATAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATG
* * * *
297195 TCGCTGGCTTTGAATCGGCATGTTGGCACCTTGTCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATG
* * * * * *
297243 TCGCTGGCCTTGAATCAGCACATTGGCATTTTCATCTTTAAGTCCGATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACTTT-GTCTTTAAGACCAATG
* * ** *
297292 TCGTTGGCCTTAAATCAGCATATTGGCATCTTTAGCATCCCTAAGCCCAATGG
1 TCGCTGGCCTTGAATCAGCATATTGGCA-CTTT-G--TCTTTAAGACCAAT-G
* ** * * *
297345 T-GCTGGCTTTGTCTCAACACATTGGCA-TTCT-TCTTTAA-ATCTAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACTT-TGTCTTTAAGA-CCAATG
* *
297391 TCGCTGGCCATGAATCAGCACATTG
1 TCGCTGGCCTTGAATCAGCATATTG
297416 TCATTCTTCG
Statistics
Matches: 376, Mismatches: 83, Indels: 69
0.71 0.16 0.13
Matches are distributed among these distances:
38 2 0.01
39 55 0.15
40 1 0.00
43 3 0.01
45 2 0.01
46 4 0.01
47 30 0.08
48 135 0.36
49 84 0.22
50 29 0.08
51 1 0.00
52 29 0.08
53 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (48 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATG
Found at i:297067 original size:87 final size:87
Alignment explanation
Indices: 296920--297271 Score: 445
Period size: 87 Copynumber: 3.9 Consensus size: 87
296910 TTTAAAACCC
* * * **
296920 AATATCGCTGGCCTTGAATCAGCATACTGACACTTTGTCTTTAAGACCAATGTCATTGGCCTTGA
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
*
296985 ATCAACACATTGGCATAAGCCT
66 ATCAGCACATTGGCATAAGCCT
*
297007 AATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
* * *
297072 ATCAGCACATTGGCACCTTCATCTTT
66 ATCAGCACATTGGCA---TAAGC-CT
* *
297098 AAGTCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-GGCATCTTTAAGACCAATGTTGCTG
1 AA-T--A--TCGCTGGCCTTGAATCAGCATATTGGCACCTTG--TCTTTAAGACCAATGTCGCTG
* *
297162 GCCTTGAATCAGCACATTAGCATAAGCCC
59 GCCTTGAATCAGCACATTGGCATAAGCCT
* * *
297191 AATATCGCTGGCTTTGAATCGGCATGTTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
297256 ATCAGCACATTGGCAT
66 ATCAGCACATTGGCAT
297272 TTTCATCTTT
Statistics
Matches: 229, Mismatches: 24, Indels: 24
0.83 0.09 0.09
Matches are distributed among these distances:
87 115 0.50
88 27 0.12
89 1 0.00
90 4 0.02
91 3 0.01
92 2 0.01
93 2 0.01
94 4 0.02
95 1 0.00
96 29 0.13
97 41 0.18
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (87 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
ATCAGCACATTGGCATAAGCCT
Found at i:297115 original size:135 final size:137
Alignment explanation
Indices: 296869--297134 Score: 376
Period size: 135 Copynumber: 2.0 Consensus size: 137
296859 CTTCTAAGTT
296869 TAATATCGCTAGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGCTGGCCT
1 TAATATCGCTAGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGCTGGCCT
* ** *
296934 TGAATCAGCATACTGACACTTTGTCTTTAAGACCAATGTCATTGGCCTTGAATCAACACATTGGC
66 TGAATCAGCACACTGACACTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAACACATTGGC
296999 ATAAGCC
131 ATAAGCC
* * * *
297006 TAATATCGCTAGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGA-CCAATGTCGCTGGCCT
1 TAATATCGCTAGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGCTGGCCT
* * * * * *
297069 TGAATCAGCACATTGGCACCTTCATCTTTAAG-TCAATGTCGCTGGCCTTGAATCAGCATATTGG
66 TGAATCAGCACACTGACA-CTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAACACATTGG
297133 CA
130 CA
297135 CCGGCATCTT
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
135 59 0.52
136 21 0.18
137 34 0.30
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (137 bp):
TAATATCGCTAGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGCTGGCCT
TGAATCAGCACACTGACACTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAACACATTGGC
ATAAGCC
Found at i:297197 original size:184 final size:183
Alignment explanation
Indices: 296874--297319 Score: 606
Period size: 184 Copynumber: 2.4 Consensus size: 183
296864 AAGTTTAATA
* * * * **
296874 TCGCTAGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGCTGGCCTTGAAT
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT--AAGTCAATATCGCTGGCCTTGAAT
* * ** * *
296939 CAGCATACTGACACTTTGTCTTTAAGACCAATGTCATTGGCCTTGAATCAACACATTGGCATAAG
64 CAGCATATTGGCACTCGGTCTTTAAGACCAATGTCACTGGCCTTGAATCAACACATTAGCATAAG
*
297004 CCTAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATG
129 CCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATG
*
297059 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCAATGTCGCTGGCCTTGAATCA
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCAATATCGCTGGCCTTGAATCA
** *
297124 GCATATTGGCAC-CGGCATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTAGCATAAG
66 GCATATTGGCACTCGG--TCTTTAAGACCAATGTCACTGGCCTTGAATCAACACATTAGCATAAG
* * * *
297188 CCCAATATCGCTGGCTTTGAATCGGCATGTTGGCACCTTGTCTTTAAGACCAATG
129 CCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATG
** * * *
297243 TCGCTGGCCTTGAATCAGCACATTGGCATTTTCATCTTTAAGTCCGATATCGTTGGCCTTAAATC
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT-CAATATCGCTGGCCTTGAATC
297308 AGCATATTGGCA
65 AGCATATTGGCA
297320 TCTTTAGCAT
Statistics
Matches: 231, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
182 1 0.00
183 33 0.14
184 133 0.58
185 64 0.28
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (183 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCAATATCGCTGGCCTTGAATCA
GCATATTGGCACTCGGTCTTTAAGACCAATGTCACTGGCCTTGAATCAACACATTAGCATAAGCC
CAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATG
Found at i:297300 original size:136 final size:136
Alignment explanation
Indices: 297048--297320 Score: 341
Period size: 136 Copynumber: 2.0 Consensus size: 136
297038 ACCTTGTCTT
* *
297048 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCAATGTCGCTG
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGCCAATGTCGCTG
* * * *
297113 GCCTTGAATCAGCATATTGGCACCGGCATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACA
66 GCCTTGAATCAGCACATTGGCACCGGCATCTTTAAGACCAATATCGCTGGCCTTAAATCAGCACA
297178 TTAGCA
131 TTAGCA
* * * ** *
297184 TAAGCCCAATATCGCTGGCTTTGAATCGGCATGTTGGCACCTT-GTCTTTAAGACCAATGTCGCT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAG-CCAATGTCGCT
**** * * * *
297248 GGCCTTGAATCAGCACATTGGCATTTTCATCTTTAAGTCCGATATCGTTGGCCTTAAATCAGCAT
65 GGCCTTGAATCAGCACATTGGCACCGGCATCTTTAAGACCAATATCGCTGGCCTTAAATCAGCAC
*
297313 ATTGGCA
130 ATTAGCA
297320 T
1 T
297321 CTTTAGCATC
Statistics
Matches: 115, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
135 8 0.07
136 107 0.93
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (136 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGCCAATGTCGCTG
GCCTTGAATCAGCACATTGGCACCGGCATCTTTAAGACCAATATCGCTGGCCTTAAATCAGCACA
TTAGCA
Found at i:298176 original size:21 final size:19
Alignment explanation
Indices: 298152--298205 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
298142 TTCAACAATT
298152 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAA-AGT-AA
* **
298173 TGTATCGATACATAAGTGT
1 TGTATCGATACAAAAGTAA
298192 TGTATCGATACAAA
1 TGTATCGATACAAA
298206 TTGTTGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAAAAGTAA
Found at i:298258 original size:19 final size:19
Alignment explanation
Indices: 298234--298300 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
298224 TTTGACCGTT
298234 GGGTTGTATCGATACATAA
1 GGGTTGTATCGATACATAA
298253 GGGTTGTATCGATAC--AA
1 GGGTTGTATCGATACATAA
298270 ----TGTATCGATACATAA
1 GGGTTGTATCGATACATAA
*
298285 GTGTTGTATCGATACA
1 GGGTTGTATCGATACA
298301 ATGTATCGCT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (19 bp):
GGGTTGTATCGATACATAA
Done.