Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009234.1 Hibiscus syriacus cultivar Beakdansim tig00112856_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 912649
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:662935 original size:14 final size:14
Alignment explanation
Indices: 662916--663005 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
662906 TTTCATTTCG
662916 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
662930 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
662949 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
662963 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
662980 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
662996 CGTTGCGATT
1 CGTTGCGATT
663006 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:662941 original size:33 final size:33
Alignment explanation
Indices: 662899--663013 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
662889 CAAAATCGCA
662899 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
662932 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
662965 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
662998 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
663014 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:664783 original size:92 final size:93
Alignment explanation
Indices: 664613--664986 Score: 665
Period size: 92 Copynumber: 4.1 Consensus size: 93
664603 TAGATTGCTT
*
664613 AGTAAATTTATTCGGTTGCTGCC-ATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
664677 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
664705 AGT-AATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
664768 TTTGTCTTTGTTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTG-TTTTGTCTTTTGGTTGAA
664797 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT-ACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
664860 TTTGTCTTTGTTTTGTCTTTT-GTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
664887 AGTAAATTTGTTC-GTTGCTGCCAATTCTGCT-AACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
664950 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
664978 AGTAAATTT
1 AGTAAATTT
664987 ATCCATTCAA
Statistics
Matches: 273, Mismatches: 3, Indels: 13
0.94 0.01 0.04
Matches are distributed among these distances:
88 15 0.05
89 31 0.11
90 42 0.15
91 55 0.20
92 87 0.32
93 43 0.16
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.48
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:665113 original size:33 final size:31
Alignment explanation
Indices: 665065--665156 Score: 114
Period size: 33 Copynumber: 2.9 Consensus size: 31
665055 CGCGAAACCA
**
665065 AAATCGCAAACGCGAAATGAAAATCGCAACGAC
1 AAATCGC-AACGCGAAACCAAAATCGCAACG-C
665098 AGAATCGCAACGCGAAACCAAAATCGCAACGC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGC
*
665130 AAGATCACAACGCG-AACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
665157 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
31 14 0.26
32 12 0.22
33 22 0.41
34 6 0.11
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (31 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGC
Found at i:665128 original size:19 final size:19
Alignment explanation
Indices: 665030--665129 Score: 102
Period size: 19 Copynumber: 5.5 Consensus size: 19
665020 TAGTTTACTT
* **
665030 TCGCAACACGAAACTTAAA
1 TCGCAACGCGAAACCAAAA
665049 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
665068 TCGCAAACGCGAAATGAAAA
1 TCGC-AACGCGAAACCAAAA
*
665088 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
665102 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
665121 TCGCAACGC
1 TCGCAACGC
665130 AAGATCACAA
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 35 0.52
20 17 0.25
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:665179 original size:19 final size:19
Alignment explanation
Indices: 665152--665268 Score: 119
Period size: 19 Copynumber: 6.7 Consensus size: 19
665142 CGAACCAAAA
*
665152 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
665171 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
665187 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
665204 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
665220 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
665237 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
665256 TCGCGTTGCGATT
1 TCGCGTTGCGATT
665269 GTAAGTTTCG
Statistics
Matches: 81, Mismatches: 7, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
14 15 0.19
16 11 0.14
17 11 0.14
19 44 0.54
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:665193 original size:14 final size:14
Alignment explanation
Indices: 665174--665230 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
665164 TTTCATTTCG
665174 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
665188 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
665205 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
665221 CGTTGCGATT
1 CGTTGCGATT
665231 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:665199 original size:33 final size:33
Alignment explanation
Indices: 665157--665249 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
665147 CAAAATCGCA
*
665157 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
665190 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
665223 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
665250 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:665278 original size:20 final size:19
Alignment explanation
Indices: 665221--665286 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
665211 GCGATTCTGT
*
665221 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGA-TTTAAGTTTCG
**
665240 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTAAGTTTCG
665259 CGTTGCGATTGTAAGTTTCG
1 CGTTGCGATT-TAAGTTTCG
*
665279 TGTTGCGA
1 CGTTGCGA
665287 AAGTAAACGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
18 3 0.08
19 23 0.57
20 14 0.35
ACGTcount: A:0.11, C:0.17, G:0.29, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTAAGTTTCG
Found at i:665292 original size:20 final size:20
Alignment explanation
Indices: 665253--665292 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
665243 TGCGATTTTG
**
665253 GTTTCGCGTTGCGATTGTAA
1 GTTTCGCGTTGCGAAAGTAA
*
665273 GTTTCGTGTTGCGAAAGTAA
1 GTTTCGCGTTGCGAAAGTAA
665293 ACGATTTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (20 bp):
GTTTCGCGTTGCGAAAGTAA
Found at i:667129 original size:13 final size:14
Alignment explanation
Indices: 667098--667133 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
667088 TGATTGTTTA
667098 ATGATTTGTAAAAG
1 ATGATTTGTAAAAG
667112 ATGATTTGT-AAAG
1 ATGATTTGTAAAAG
*
667125 TTGATTTGT
1 ATGATTTGT
667134 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
ATGATTTGTAAAAG
Found at i:667257 original size:19 final size:18
Alignment explanation
Indices: 667241--667322 Score: 100
Period size: 19 Copynumber: 4.6 Consensus size: 18
667231 AAAAATGACT
667241 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
667260 ATCGCAA--CGAGA-G-A
1 ATCGCAATGCGAAATGAA
667274 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
667293 ATCGCAATGCGGAAATGAA
1 ATCGCAATGC-GAAATGAA
667312 ATCGCAATGCG
1 ATCGCAATGCG
667323 TTTATAATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
14 8 0.15
16 5 0.09
17 5 0.09
18 1 0.02
19 30 0.55
20 6 0.11
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.15
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:667371 original size:33 final size:35
Alignment explanation
Indices: 667329--667624 Score: 223
Period size: 33 Copynumber: 8.5 Consensus size: 35
667319 TGCGTTTATA
667329 ATTTCGCATTGCGATT-ATCTCG-TTGCGATTTTC
1 ATTTCGCATTGCGATTCATCTCGATTGCGATTTTC
*
667362 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TTCATCTCG-ATTGCGATTTTC
*
667398 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTCATCTCG-ATTGCGATTTTC
*
667433 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-CATCTCG-ATTGCGATTTTC
*
667471 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TTCATCTCG-ATTGCGATTTTC
* *
667507 -TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTTC
1 ATTTCGCATTGCGA--TTCATCTCG-ATTGCGA-TTTTC
667543 ATTTCGCATTGCGATTC-TCTCG-TTGCGA-TTTC
1 ATTTCGCATTGCGATTCATCTCGATTGCGATTTTC
* *
667575 ATTTCCGCATTGCGATT-TTCAT-G-TTGGGATTTTC
1 ATTT-CGCATTGCGATTCATC-TCGATTGCGATTTTC
*
667609 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
667625 GTATTTTCCG
Statistics
Matches: 235, Mismatches: 6, Indels: 44
0.82 0.02 0.15
Matches are distributed among these distances:
32 8 0.03
33 95 0.40
34 15 0.06
35 14 0.06
36 23 0.10
37 10 0.04
38 61 0.26
39 9 0.04
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (35 bp):
ATTTCGCATTGCGATTCATCTCGATTGCGATTTTC
Found at i:667375 original size:19 final size:19
Alignment explanation
Indices: 667351--667624 Score: 338
Period size: 19 Copynumber: 15.4 Consensus size: 19
667341 GATTATCTCG
667351 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
667370 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
667389 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
667403 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
667422 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
667441 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
667460 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
667479 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
667498 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
667512 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
667531 TTGCGATTTTTCATTTCGCA
1 TTGCGA-TTTTCATTTCGCA
*
667551 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
667565 TTGCGA-TTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
667584 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
667598 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
667617 TTGCGATT
1 TTGCGATT
667625 GTATTTTCCG
Statistics
Matches: 225, Mismatches: 8, Indels: 44
0.81 0.03 0.16
Matches are distributed among these distances:
14 29 0.13
15 3 0.01
16 23 0.10
17 21 0.09
18 1 0.00
19 124 0.55
20 24 0.11
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:667624 original size:52 final size:52
Alignment explanation
Indices: 667329--667596 Score: 439
Period size: 52 Copynumber: 5.0 Consensus size: 52
667319 TGCGTTTATA
*
667329 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
667381 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
667433 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-C-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
667490 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGA-TTTTC
667543 ATTTCGCATTGCGATTCTCTCGTTGCGA-TTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
667595 AT
1 AT
667597 GTTGGGATTT
Statistics
Matches: 206, Mismatches: 3, Indels: 14
0.92 0.01 0.06
Matches are distributed among these distances:
52 104 0.50
53 45 0.22
54 5 0.02
55 6 0.03
56 2 0.01
57 44 0.21
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:667643 original size:86 final size:85
Alignment explanation
Indices: 667422--667624 Score: 248
Period size: 86 Copynumber: 2.3 Consensus size: 85
667412 TCATTTCGCA
** * *
667422 TTGCGATTTTCATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTTATTCCGCATTGCGA--TTC-TCTCG--TTGCGATT
667487 TTCATTTCGCATTGCGATTCTCTCG
61 TTCATTTCGCATTGCGATTCTCTCG
*
667512 TTGCGATTTTCATTTCGCATTGCGATTTTTCATTTCGCATTGCGATTCTCTCGTTGCGA-TTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTT-ATTCCGCATTGCGATTCTCTCGTTGCGATTTTCA
*
667576 TTTCCGCATTGCGATTTTCAT-G
65 TTT-CGCATTGCGATTCTC-TCG
* *
667598 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
667625 GTATTTTCCG
Statistics
Matches: 104, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
85 8 0.08
86 46 0.44
87 1 0.01
88 4 0.04
89 3 0.03
90 28 0.27
91 14 0.13
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (85 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTTATTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTCTCTCG
Found at i:669914 original size:12 final size:12
Alignment explanation
Indices: 669897--669921 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
669887 TCTTCGGGGA
669897 CTTTTTCTTCTT
1 CTTTTTCTTCTT
669909 CTTTTTCTTCTT
1 CTTTTTCTTCTT
669921 C
1 C
669922 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:670129 original size:23 final size:23
Alignment explanation
Indices: 670096--670140 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
670086 CTGAAACATC
670096 ATCAAAATCCGTG-TATTGACCAT
1 ATCAAAATCCG-GATATTGACCAT
*
670119 ATCAAAGTCCGGATATTGACCA
1 ATCAAAATCCGGATATTGACCA
670141 AGACCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (23 bp):
ATCAAAATCCGGATATTGACCAT
Found at i:670846 original size:20 final size:20
Alignment explanation
Indices: 670818--671207 Score: 457
Period size: 20 Copynumber: 19.4 Consensus size: 20
670808 AAATTTCAGT
* * * *
670818 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
670838 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
670858 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
670878 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
670898 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
670918 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
670938 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
670958 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
670978 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
670998 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
671018 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
671038 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
671059 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
671079 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
671099 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
671119 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
671139 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
671159 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
671179 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
671199 GTTGCGATT
1 GTTGCGATT
671208 ATTGAAAATC
Statistics
Matches: 323, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.02
20 295 0.91
21 19 0.06
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:672585 original size:3 final size:3
Alignment explanation
Indices: 672577--672647 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
672567 TCTTAACAGT
672577 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
672625 CTC CTC CT- CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC
672648 ATTTATATAT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:674181 original size:59 final size:59
Alignment explanation
Indices: 674096--674228 Score: 155
Period size: 59 Copynumber: 2.2 Consensus size: 59
674086 TAACATAGGG
*
674096 TAAAG-TACATAAATAATTCCCTGACTATAGGGTA-TTGCTTTATTAAGTCCACCGACTAT
1 TAAAGTTACA-AAATAATTCCCTGACTATAGGG-AGTTACTTTATTAAGTCCACCGACTAT
* * * **
674155 TAAAGTTACAAAATAGTTCTCC-GACTATAGGGAGTTACTTTGTTGAGTCCATTGACTAT
1 TAAAGTTACAAAATAATTC-CCTGACTATAGGGAGTTACTTTATTAAGTCCACCGACTAT
674214 TAAAAGTTACAAAAT
1 T-AAAGTTACAAAAT
674229 GATCACCCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
58 1 0.02
59 44 0.69
60 19 0.30
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (59 bp):
TAAAGTTACAAAATAATTCCCTGACTATAGGGAGTTACTTTATTAAGTCCACCGACTAT
Found at i:675722 original size:32 final size:29
Alignment explanation
Indices: 675661--675726 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 29
675651 CTTTTTTATT
*
675661 TAAGTACTTAAAGTATTTTTTGGTCAAAA
1 TAAGTACTGAAAGTATTTTTTGGTCAAAA
675690 TAAGTACTGAAAGTTATCTTTTATGGTCAAAA
1 TAAGTACTGAAAG-TAT-TTTT-TGGTCAAAA
675722 TAAGT
1 TAAGT
675727 GCCTAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 12 0.36
30 3 0.09
31 4 0.12
32 14 0.42
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (29 bp):
TAAGTACTGAAAGTATTTTTTGGTCAAAA
Found at i:684072 original size:32 final size:31
Alignment explanation
Indices: 684032--684115 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 31
684022 CCTAATGTTT
684032 ACTTTTTGTTTCATTTTAGTA-TACATCATTA
1 ACTTTTTGTTTCATTTTAGTACT-CATCATTA
684063 ACTTTTTTGTTTCA-TTTAGTACCTCATCATTA
1 AC-TTTTTGTTTCATTTTAGTA-CTCATCATTA
*
684095 ACTTTTT-TTTCATGTTAGTAC
1 ACTTTTTGTTTCATTTTAGTAC
684116 CCAAATTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
30 6 0.12
31 20 0.42
32 21 0.44
33 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.55
Consensus pattern (31 bp):
ACTTTTTGTTTCATTTTAGTACTCATCATTA
Found at i:684116 original size:31 final size:32
Alignment explanation
Indices: 684032--684116 Score: 115
Period size: 31 Copynumber: 2.7 Consensus size: 32
684022 CCTAATGTTT
684032 ACTTTTTGTTTCATTTTAGTA--TACATCATTA
1 ACTTTTTGTTTCA-TTTAGTACCTACATCATTA
684063 ACTTTTTTGTTTCATTTAGTACCT-CATCATTA
1 AC-TTTTTGTTTCATTTAGTACCTACATCATTA
684095 ACTTTTT-TTTCATGTTAGTACC
1 ACTTTTTGTTTCAT-TTAGTACC
684117 CAAATTTTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
30 6 0.12
31 22 0.44
32 21 0.42
33 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.54
Consensus pattern (32 bp):
ACTTTTTGTTTCATTTAGTACCTACATCATTA
Found at i:685883 original size:58 final size:58
Alignment explanation
Indices: 685776--685893 Score: 139
Period size: 58 Copynumber: 2.0 Consensus size: 58
685766 ACCTTTTGCA
*
685776 TAGTAACCGATACTTTTAACTTTTCATCGGTTGTTGGTCTCGATCAGTGTGCAAACTT
1 TAGTAACCAATACTTTTAACTTTTCATCGGTTGTTGGTCTCGATCAGTGTGCAAACTT
* * * * * * * *
685834 TAGTAACCAATATTTTTGATTTTTTATCGGTTGTCT-GTCTTGATTAGTGTGTAAATTT
1 TAGTAACCAATACTTTTAACTTTTCATCGGTTGT-TGGTCTCGATCAGTGTGCAAACTT
685892 TA
1 TA
685894 TTTTTTTGCG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 49 0.98
59 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.46
Consensus pattern (58 bp):
TAGTAACCAATACTTTTAACTTTTCATCGGTTGTTGGTCTCGATCAGTGTGCAAACTT
Found at i:686115 original size:334 final size:334
Alignment explanation
Indices: 685494--686172 Score: 1038
Period size: 334 Copynumber: 2.0 Consensus size: 334
685484 CTTATTCTTC
685494 TTAGTAACCAATACTTTAGATTTTTTATCGGTTGTTGGTCTTGATTAGTGTGTAAACTTTATTTT
1 TTAGTAACCAATACTTTAGATTTTTTATCGGTTGTTGGTCTTGATTAGTGTGTAAACTTTATTTT
* *
685559 TTGTGCTTATCGTTCTTAAAATAATATTTTTGGATCGAAAAATAATACCAAATGCACCTTTTTTT
66 TTGCGCTTATCGTTATTAAAATAATATTTTTGGATCG----A-AATACCAAATGCACCTTTTTTT
* * * * *
685624 TCTTTTGTTGCCCCTCCTTATATTTTATGGCTTTATCCTGACTAATCCAGACCAACTCGTGTTGC
126 TCTTTTATTGCCCCTCCTCATATTTTAGGGCTTTATCCTGACTAATCCAAACCAACTCATGTTGC
* *
685689 ACGCTTGATTTTTAGTGGGTAAGTCTCTCAATGGAGATATCTACATACACAAGGATTCGAGTTCA
191 ACGCTTGATTTTTAGGGGGTAAGTCTCTCAATAGAGATATCTACATACACAAGGATTCGAGTTCA
685754 AATATCAAATACACCTTTTGCATAGTAACCGATACTTTTAACTTTTCATCGGTTGTTGGTCTCGA
256 AATATCAAATACACCTTTTGCATAGTAACCGATACTTTTAACTTTTCATCGGTTGTTGGTCTCGA
685819 TCAGTGTGCAAACT
321 TCAGTGTGCAAACT
* * *
685833 TTAGTAACCAATATTTTTGATTTTTTATCGGTTGTCT-GTCTTGATTAGTGTGTAAATTTTATTT
1 TTAGTAACCAATACTTTAGATTTTTTATCGGTTGT-TGGTCTTGATTAGTGTGTAAACTTTA-TT
685897 TTTTGCGCTTATCGTTATTAAAATAATATTTTTGGATCG-AATACCAAATGCACCTTTTTTTTCT
64 TTTTGCGCTTATCGTTATTAAAATAATATTTTTGGATCGAAATACCAAATGCACCTTTTTTTTCT
* * * ** *
685961 TTTATTGTCCCTCCTCATATTTTAGGGTTTTATTCTGACTAATCCAAACCTGCTCATGTTGTACG
129 TTTATTGCCCCTCCTCATATTTTAGGGCTTTATCCTGACTAATCCAAACCAACTCATGTTGCACG
* * * *
686026 CTTGATTTTTAGGGGGTGAGTCTCTCAATAGAGATTTCTACATACACAATGATTCGAGTTCAAGT
194 CTTGATTTTTAGGGGGTAAGTCTCTCAATAGAGATATCTACATACACAAGGATTCGAGTTCAAAT
* * * *
686091 ATCAAATACACCTTTTGTATAGTAACCGATACTTTTAACTTTTCATTGGTTGTTGTTCTTGATCA
259 ATCAAATACACCTTTTGCATAGTAACCGATACTTTTAACTTTTCATCGGTTGTTGGTCTCGATCA
*
686156 GTGTGTAAACT
324 GTGTGCAAACT
686167 TTAGTA
1 TTAGTA
686173 TTTTGTACTT
Statistics
Matches: 311, Mismatches: 27, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
334 215 0.69
339 56 0.18
340 40 0.13
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (334 bp):
TTAGTAACCAATACTTTAGATTTTTTATCGGTTGTTGGTCTTGATTAGTGTGTAAACTTTATTTT
TTGCGCTTATCGTTATTAAAATAATATTTTTGGATCGAAATACCAAATGCACCTTTTTTTTCTTT
TATTGCCCCTCCTCATATTTTAGGGCTTTATCCTGACTAATCCAAACCAACTCATGTTGCACGCT
TGATTTTTAGGGGGTAAGTCTCTCAATAGAGATATCTACATACACAAGGATTCGAGTTCAAATAT
CAAATACACCTTTTGCATAGTAACCGATACTTTTAACTTTTCATCGGTTGTTGGTCTCGATCAGT
GTGCAAACT
Found at i:687904 original size:19 final size:19
Alignment explanation
Indices: 687855--687904 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
687845 GTATTAACTT
*
687855 TATTTGTGTTTTTTATATC
1 TATTTGTGATTTTTATATC
* *
687874 TATTTATAATTTTTATATC
1 TATTTGTGATTTTTATATC
687893 TATTTGTGATTT
1 TATTTGTGATTT
687905 ATATGCATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.04, G:0.08, T:0.66
Consensus pattern (19 bp):
TATTTGTGATTTTTATATC
Found at i:688728 original size:31 final size:31
Alignment explanation
Indices: 688690--688751 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
688680 AAGTGTTCTA
688690 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
*
688721 TACGAGCTGTGGTGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
688752 ATGCGCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (31 bp):
TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
Found at i:689276 original size:41 final size:37
Alignment explanation
Indices: 689230--689323 Score: 89
Period size: 37 Copynumber: 2.4 Consensus size: 37
689220 TTTCATAACC
* *
689230 AAAAATATTACAAAAAATGGTAATATTTTCATTTGTTAATA
1 AAAAATATTACAAAAAAT-GTAACATTTT--TAT-TTAATA
* * * *
689271 AAAAATGTTACGAAGAATGTAACATTTTTATTTAATT
1 AAAAATATTACAAAAAATGTAACATTTTTATTTAATA
*
689308 AAAAATATTAGAAAAA
1 AAAAATATTACAAAAA
689324 TTAATATTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
37 17 0.40
38 2 0.05
40 9 0.21
41 15 0.35
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (37 bp):
AAAAATATTACAAAAAATGTAACATTTTTATTTAATA
Found at i:699408 original size:31 final size:31
Alignment explanation
Indices: 699373--699440 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
699363 AGGAGGAATG
* * *
699373 GTCCCTAACGTTATCAATTCATT-GAATTTTA
1 GTCCCTAACATTATCAATCCATTAG-ACTTTA
*
699404 GTCCCTAATATTATCAATCCATTAGACTTTA
1 GTCCCTAACATTATCAATCCATTAGACTTTA
699435 GTCCCT
1 GTCCCT
699441 CAGTCGTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (31 bp):
GTCCCTAACATTATCAATCCATTAGACTTTA
Found at i:700047 original size:9 final size:9
Alignment explanation
Indices: 700033--700057 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
700023 TTTGTCGCAC
700033 ATAACAACA
1 ATAACAACA
700042 ATAACAACA
1 ATAACAACA
700051 ATAACAA
1 ATAACAA
700058 AACCCTGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.20, G:0.00, T:0.12
Consensus pattern (9 bp):
ATAACAACA
Found at i:703123 original size:6 final size:6
Alignment explanation
Indices: 703114--703143 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
703104 AATATAAATA
703114 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
703144 TTAAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTC
Found at i:706297 original size:5 final size:5
Alignment explanation
Indices: 706287--706312 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
706277 GTTTATTCAA
706287 ATTAT ATTAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT A
706313 ATTGATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:709174 original size:31 final size:31
Alignment explanation
Indices: 709116--709176 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
709106 AAACAATTAT
709116 AAAATACTCATTAAAATTTATCAAATTGTTGC
1 AAAATACTCATT-AAATTTATCAAATTGTTGC
* *
709148 AAAATAGTCATT-AATCTTATCGAATTGTT
1 AAAATACTCATTAAAT-TTATCAAATTGTT
709177 ATACAATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 3 0.12
31 12 0.46
32 11 0.42
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (31 bp):
AAAATACTCATTAAATTTATCAAATTGTTGC
Found at i:710754 original size:10 final size:10
Alignment explanation
Indices: 710735--710764 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
710725 TTGATGATCA
710735 TTTT-ATAAT
1 TTTTAATAAT
710744 TTTTAATAAT
1 TTTTAATAAT
710754 TTTTAATAAT
1 TTTTAATAAT
710764 T
1 T
710765 GATAAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:711260 original size:2 final size:2
Alignment explanation
Indices: 711253--711282 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
711243 AAACTAAATA
711253 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
711283 TAAATATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:711520 original size:2 final size:2
Alignment explanation
Indices: 711513--711538 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
711503 GCTTAAAGCA
711513 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
711539 TAAACATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:711823 original size:35 final size:34
Alignment explanation
Indices: 711784--711894 Score: 118
Period size: 35 Copynumber: 3.2 Consensus size: 34
711774 AACAATCCTC
*
711784 AATTTCATTATAAACCACAAATTCAAAAGTAATTA
1 AATTTCATTCTAAACCACAAATTCAAAA-TAATTA
*
711819 AATTTCATTCTAAA-CACTAAATTCCAAAATAATTC
1 AATTTCATTCTAAACCAC-AAATT-CAAAATAATTA
* * *
711854 AATTACATTCTAAAACC-CAAATTCTAAAATATTTC
1 AATTTCATTCT-AAACCACAAATTC-AAAATAATTA
711889 AATTTC
1 AATTTC
711895 TGTCTTTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
34 4 0.06
35 52 0.79
36 9 0.14
37 1 0.02
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (34 bp):
AATTTCATTCTAAACCACAAATTCAAAATAATTA
Found at i:713000 original size:35 final size:35
Alignment explanation
Indices: 712953--713063 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 35
712943 TTCCTCCTTA
*
712953 AATTGAAATATTTTAGAATTTGAGTTTTAGAATGT
1 AATTGAAATATTTTAGAATTTGAGGTTTAGAATGT
* *
712988 AATTGAACTATTTTAGAATTT-ATGGTTTAGAATGA
1 AATTGAAATATTTTAGAATTTGA-GGTTTAGAATGT
* * * *
713023 AATTTAATTATTTTGGAATTTGGGGTTTAGAATGT
1 AATTGAAATATTTTAGAATTTGAGGTTTAGAATGT
713058 AATTGA
1 AATTGA
713064 GGAATGTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.02
35 64 0.98
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (35 bp):
AATTGAAATATTTTAGAATTTGAGGTTTAGAATGT
Found at i:713621 original size:27 final size:30
Alignment explanation
Indices: 713591--713646 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 30
713581 CGAATTATTA
713591 TTAATTG-AATT-AACTAAA-TTTTTTTCT
1 TTAATTGTAATTGAACTAAACTTTTTTTCT
713618 TTAATTGTTAATTGAACTAAACTTTTTTT
1 TTAATTG-TAATTGAACTAAACTTTTTTT
713647 TGAAAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 7 0.28
29 4 0.16
30 7 0.28
31 7 0.28
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (30 bp):
TTAATTGTAATTGAACTAAACTTTTTTTCT
Found at i:713916 original size:16 final size:16
Alignment explanation
Indices: 713860--713921 Score: 71
Period size: 16 Copynumber: 4.2 Consensus size: 16
713850 AATTAATTTT
713860 TTTAATATATAATATA
1 TTTAATATATAATATA
713876 -TTAA-A-AT-ATATA
1 TTTAATATATAATATA
*
713888 TTTAATCTATAATATA
1 TTTAATATATAATATA
*
713904 TTTAATATTTAATA-A
1 TTTAATATATAATATA
713919 TTT
1 TTT
713922 CAGTTAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 5 0.13
13 6 0.15
14 1 0.03
15 10 0.26
16 17 0.44
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAATATATAATATA
Found at i:715733 original size:25 final size:23
Alignment explanation
Indices: 715705--715764 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
715695 CATAAGAAAC
*
715705 GTGTCACAAGAGCATATAAAAAAAT
1 GTGTCACAAGAACA-A-AAAAAAAT
* * *
715730 GTGTCACAAAAACAAAGAAATAT
1 GTGTCACAAGAACAAAAAAAAAT
715753 GTGTCACAAGAA
1 GTGTCACAAGAA
715765 TAAATATTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 17 0.57
24 1 0.03
25 12 0.40
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.18
Consensus pattern (23 bp):
GTGTCACAAGAACAAAAAAAAAT
Found at i:724901 original size:178 final size:173
Alignment explanation
Indices: 724673--725176 Score: 713
Period size: 174 Copynumber: 2.9 Consensus size: 173
724663 AATCTGGAAA
* * *
724673 TCGTCGAGAGAAATGACAACTTGTTTTGCTCGTAAGGTGTTGATTGACGAGAGATGTTAACTTTC
1 TCGTCGAGAGAAATCACAACTTGTTTTGCTCGTAAGGTTTTGATTGACGAGAGATTTTAACTTTC
*
724738 GAACGTTATTTCTCTTCGTTTTTCTTGTTTGTGGATCGGAATCTCATTCTTGTTTTGAAGATGAC
66 GAACGTTATTTCTCTTCGTTTTTCTTGTTTGTGGATCGGAATCTCATTCTTCTTTTGAAGATGAC
*
724803 ACTGAAAACTTGTGATTTCG-TGCCATTTCGAAATCAAATAACTCGAC
131 ACTGAAAACTTGTGATTTCGATGCCACTTCGAAATCAAAT-A----AC
*
724850 TCGTCGAGAGAAATCACAACTTGCTTTTGCTCGTAAGGTTTTGACTGACGAGAGATTTTAACTTT
1 TCGTCGAGAGAAATCACAACTTG-TTTTGCTCGTAAGGTTTTGATTGACGAGAGATTTTAACTTT
* * * * * * * *
724915 CGGACGTTATTTCTCTTCGTTTCTCTTATTTTTGGATCGGAATCTCATTGTTTTTTTGAGGACGA
65 CGAACGTTATTTCTCTTCGTTTTTCTTGTTTGTGGATCGGAATCTCATTCTTCTTTTGAAGATGA
*
724980 CGCTGAAAACTTGTGATTTCGATGCCACTTCGAAATCAAATAAC
130 CACTGAAAACTTGTGATTTCGATGCCACTTCGAAATCAAATAAC
* * * *
725024 TCGTCGAGAGAAATTACAACTTATTTTTGCTCGTAATGTTTTGATTGACGAGAGATTTTAGCTTT
1 TCGTCGAGAGAAATCACAACTT-GTTTTGCTCGTAAGGTTTTGATTGACGAGAGATTTTAACTTT
* * *
725089 CGAACGTTGTTTCTCTTCGTTTTTCTTGTTTGTTGATCTGAATCTCATTCTTCTTTTGAAGATGA
65 CGAACGTTATTTCTCTTCGTTTTTCTTGTTTGTGGATCGGAATCTCATTCTTCTTTTGAAGATGA
* * *
725154 CATTGAAAGCCTGTGATTTCGAT
130 CACTGAAAACTTGTGATTTCGAT
725177 TAGAGGTGCT
Statistics
Matches: 290, Mismatches: 34, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
174 134 0.46
177 22 0.08
178 116 0.40
179 18 0.06
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.40
Consensus pattern (173 bp):
TCGTCGAGAGAAATCACAACTTGTTTTGCTCGTAAGGTTTTGATTGACGAGAGATTTTAACTTTC
GAACGTTATTTCTCTTCGTTTTTCTTGTTTGTGGATCGGAATCTCATTCTTCTTTTGAAGATGAC
ACTGAAAACTTGTGATTTCGATGCCACTTCGAAATCAAATAAC
Found at i:725397 original size:18 final size:18
Alignment explanation
Indices: 725352--725401 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
725342 TTATAATCTT
*
725352 TTACTAATTATCTTAAAAA
1 TTACTAATT-TATTAAAAA
*
725371 -TA-TATTTTATTAAAAA
1 TTACTAATTTATTAAAAA
725387 TTACTAATTTATTAA
1 TTACTAATTTATTAA
725402 TATAGATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 8 0.31
17 6 0.23
18 12 0.46
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (18 bp):
TTACTAATTTATTAAAAA
Found at i:725455 original size:28 final size:28
Alignment explanation
Indices: 725372--725458 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
725362 TCTTAAAAAT
* *
725372 ATATTTTATTAAAAATTACTAATTTATTA
1 ATATTTTAATAAAAA-TACTAAATTATTA
** *
725401 ATATAGATGATAAACAAT--T-AATCTATTA
1 ATAT-TTTAATAAA-AATACTAAAT-TATTA
725429 ATATTTTAATAAAAATACTAAATTATTA
1 ATATTTTAATAAAAATACTAAATTATTA
725457 AT
1 AT
725459 TATTATTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 13
0.68 0.12 0.20
Matches are distributed among these distances:
26 3 0.07
27 8 0.18
28 18 0.41
29 7 0.16
30 6 0.14
31 2 0.05
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (28 bp):
ATATTTTAATAAAAATACTAAATTATTA
Found at i:726576 original size:130 final size:130
Alignment explanation
Indices: 726435--726682 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
726425 TATTTATATA
*
726435 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
726500 TTAGCACATGATCATGACACGTGTCATTGGTGACACTTGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
726565 ATCAATTTGGTCCTAAATTAAATAAATTTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
726630 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
726683 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:726713 original size:130 final size:129
Alignment explanation
Indices: 726449--726713 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
726439 ATTTGGTCCT
* *
726449 AAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * *** * * **** *
726514 TGACACGTGTCATTGGTGACACTTGTTACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
726579 AAATTAAATAAATTTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
726644 TGATATGTGTTATTGGTGACACATGTCACCTCCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
726708 -A
128 CA
726709 AAATT
1 AAATT
726714 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:727041 original size:28 final size:27
Alignment explanation
Indices: 727010--727072 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
727000 AGTTGATACA
*
727010 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
727038 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
727066 ATATTTT
1 ATATTTT
727073 CATATTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:727169 original size:16 final size:18
Alignment explanation
Indices: 727148--727181 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
727138 ATTTCTTATT
727148 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
727164 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
727182 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:727328 original size:21 final size:21
Alignment explanation
Indices: 727304--727346 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
727294 TATTACCTTA
727304 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
727325 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
727346 A
1 A
727347 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:727364 original size:35 final size:35
Alignment explanation
Indices: 727315--727400 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
727305 ATTGAAGTAT
** * *
727315 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
727350 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
727385 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
727401 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:729224 original size:29 final size:30
Alignment explanation
Indices: 729191--729254 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
729181 GAACATATTG
729191 AATAGTTATG-TC-ATGATTTTGTAACTTTT
1 AATAGTT-TGATCGATGATTTTGTAACTTTT
*
729220 AATAG-TTGATCGATTATTTTGTAACTTTT
1 AATAGTTTGATCGATGATTTTGTAACTTTT
*
729249 GATAGT
1 AATAGT
729255 ATATAGATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 2 0.07
28 3 0.10
29 25 0.83
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (30 bp):
AATAGTTTGATCGATGATTTTGTAACTTTT
Found at i:729263 original size:29 final size:29
Alignment explanation
Indices: 729206--729264 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
729196 TTATGTCATG
*
729206 ATTTTGTAACTTTTAATAGTTGATCGATT
1 ATTTTGTAACTTTTAATAGTTGATAGATT
*
729235 ATTTTGTAACTTTTGATAGTAT-ATAGATT
1 ATTTTGTAACTTTTAATAGT-TGATAGATT
729264 A
1 A
729265 AACAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.51
Consensus pattern (29 bp):
ATTTTGTAACTTTTAATAGTTGATAGATT
Found at i:730259 original size:102 final size:102
Alignment explanation
Indices: 730081--730883 Score: 1017
Period size: 102 Copynumber: 7.9 Consensus size: 102
730071 AGTGGCTGGA
* * * * ** * *
730081 GGAGTGTCTCCTCAGGGCCAGCATTCTGAACTGTTGAGCACTGCCTCTGGATTAATAAACCAGGT
1 GGAGGGTCTCCTCAGGGCCAACATTCTGGACTGTTGGGCACTGCCTCTGGATTCGTCAAGCAGGT
* *
730146 CTCATCTGATGCCTTCTCGGCTGCTCAAATGTCTCCG
66 CTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCG
* *
730183 GGAGTGTCTCCTCAGGGCCAGCATTCTGGACTGTTGGGCACTGCCTCTGGACTT-GTCAAGCAGG
1 GGAGGGTCTCCTCAGGGCCAACATTCTGGACTGTTGGGCACTGCCTCTGGA-TTCGTCAAGCAGG
*
730247 TCTCATCCGATGCCATATCGGCTG-TCCAAATGTCTCCG
65 TCTCATCCGATGCCATCTCGGCTGCT-CAAATGTCTCCG
* * * *
730285 GGAGGGTCGCCTCAGGGCCAA-ATTTCTGGACTGTTGGGCACTGCTTCTGGACTAGTCAAGCAGG
1 GGAGGGTCTCCTCAGGGCCAACA-TTCTGGACTGTTGGGCACTGCCTCTGGATTCGTCAAGCAGG
* *
730349 TCTCATCCGATGCCATCTCAGCTGCCCAAATGTCTCCG
65 TCTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCG
* * * *
730387 GGAGGGTCTCCTCAGGGCCAGCTTTCTGGAGTGGTT-GGCACTGCCTCTGGATTCGTCAAGCAGA
1 GGAGGGTCTCCTCAGGGCCAACATTCTGGACT-GTTGGGCACTGCCTCTGGATTCGTCAAGCAGG
730451 TCTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCG
65 TCTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCG
** * * * * * ** * *
730489 GGATTGTCTCCTCAGGGTCAATATTCTGGGCTGCTGGGCACTACCTCTGTTTTCATTAAGCAGGT
1 GGAGGGTCTCCTCAGGGCCAACATTCTGGACTGTTGGGCACTGCCTCTGGATTCGTCAAGCAGGT
* * *
730554 CTCATCCGATGCCATTTCAGCTGCCCAAATGTCTCCG
66 CTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCG
*
730591 GGAGGGTCTCCTCAGGGCCAA-ATTTCTGGAGTGGTT-GGCACTGCCTCTGGATTCGTCAAGCAG
1 GGAGGGTCTCCTCAGGGCCAACA-TTCTGGACT-GTTGGGCACTGCCTCTGGATTCGTCAAGCAG
* *
730654 ATCTCATCCGATGCCATCTCGGCTGCTCAAATGTTTCCG
64 GTCTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCG
* * *
730693 GGAGGGTCTCCTCAGGGCCAACTTTCTGGAGTGGTT-GGCACTGCCTCTGGATTCGTCAAGCAGA
1 GGAGGGTCTCCTCAGGGCCAACATTCTGGACT-GTTGGGCACTGCCTCTGGATTCGTCAAGCAGG
730757 TCTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCG
65 TCTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCG
*** * * * * * *
730795 GGATTATCTCCTCAGGGTCAACATTCTGGGCTGCTGGGCACTGCCTCTGGTTTCATTAAGCAGGT
1 GGAGGGTCTCCTCAGGGCCAACATTCTGGACTGTTGGGCACTGCCTCTGGATTCGTCAAGCAGGT
*
730860 CTCATCCGATGCCATTTCGGCTGC
66 CTCATCCGATGCCATCTCGGCTGC
730884 CCAAGGTGTG
Statistics
Matches: 614, Mismatches: 75, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
101 8 0.01
102 599 0.98
103 7 0.01
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.28
Consensus pattern (102 bp):
GGAGGGTCTCCTCAGGGCCAACATTCTGGACTGTTGGGCACTGCCTCTGGATTCGTCAAGCAGGT
CTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCG
Found at i:730651 original size:306 final size:306
Alignment explanation
Indices: 730081--730887 Score: 1233
Period size: 306 Copynumber: 2.6 Consensus size: 306
730071 AGTGGCTGGA
* * * * ** * * *
730081 GGAGTGTCTCCTCAGGGCCAGCATTCTGAACT-GTTGAGCACTGCCTCTGGATTAATAAACCAGG
1 GGAGGGTCTCCTCAGGGCCAGCTTTCTGGAGTGGTTG-GCACTGCCTCTGGATTCGTCAAGCAGA
* * * * *
730145 TCTCATCTGATGCCTTCTCGGCTGCTCAAATGTCTCCGGGAGTGTCTCCTCAGGGCCAGCATTCT
65 TCTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCGGGATTGTCTCCTCAGGGTCAACATTCT
* * * * * * *
730210 GGACTGTTGGGCACTGCCTCTGGACTT-GTCAAGCAGGTCTCATCCGATGCCATATCGGCTGTCC
130 GGGCTGCTGGGCACTGCCTCT-GATTTCATTAAGCAGGTCTCATCCGATGCCATTTCGGCTGCCC
*
730274 AAATGTCTCCGGGAGGGTCGCCTCAGGGCCAAATTTCTGGACTGTTGGGCACTGCTTCTGGACTA
194 AAATGTCTCCGGGAGGGTCGCCTCAGGGCCAAATTTCTGGACTGTTGGGCACTGCCTCTGGACTA
*
730339 GTCAAGCAGGTCTCATCCGATGCCATCTCAGCTGCCCAAATGTCTCCG
259 GTCAAGCAGATCTCATCCGATGCCATCTCAGCTGCCCAAATGTCTCCG
730387 GGAGGGTCTCCTCAGGGCCAGCTTTCTGGAGTGGTTGGCACTGCCTCTGGATTCGTCAAGCAGAT
1 GGAGGGTCTCCTCAGGGCCAGCTTTCTGGAGTGGTTGGCACTGCCTCTGGATTCGTCAAGCAGAT
*
730452 CTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCGGGATTGTCTCCTCAGGGTCAATATTCTG
66 CTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCGGGATTGTCTCCTCAGGGTCAACATTCTG
* * *
730517 GGCTGCTGGGCACTACCTCTGTTTTCATTAAGCAGGTCTCATCCGATGCCATTTCAGCTGCCCAA
131 GGCTGCTGGGCACTGCCTCTGATTTCATTAAGCAGGTCTCATCCGATGCCATTTCGGCTGCCCAA
* * * *
730582 ATGTCTCCGGGAGGGTCTCCTCAGGGCCAAATTTCTGGAGTGGTT-GGCACTGCCTCTGGATTCG
196 ATGTCTCCGGGAGGGTCGCCTCAGGGCCAAATTTCTGGACT-GTTGGGCACTGCCTCTGGACTAG
* * *
730646 TCAAGCAGATCTCATCCGATGCCATCTCGGCTGCTCAAATGTTTCCG
260 TCAAGCAGATCTCATCCGATGCCATCTCAGCTGCCCAAATGTCTCCG
*
730693 GGAGGGTCTCCTCAGGGCCAACTTTCTGGAGTGGTTGGCACTGCCTCTGGATTCGTCAAGCAGAT
1 GGAGGGTCTCCTCAGGGCCAGCTTTCTGGAGTGGTTGGCACTGCCTCTGGATTCGTCAAGCAGAT
*
730758 CTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCGGGATTATCTCCTCAGGGTCAACATTCTG
66 CTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCGGGATTGTCTCCTCAGGGTCAACATTCTG
*
730823 GGCTGCTGGGCACTGCCTCTGGTTTCATTAAGCAGGTCTCATCCGATGCCATTTCGGCTGCCCAA
131 GGCTGCTGGGCACTGCCTCTGATTTCATTAAGCAGGTCTCATCCGATGCCATTTCGGCTGCCCAA
730888 GGTGTGGCTA
Statistics
Matches: 458, Mismatches: 40, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
305 3 0.01
306 448 0.98
307 7 0.02
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.28
Consensus pattern (306 bp):
GGAGGGTCTCCTCAGGGCCAGCTTTCTGGAGTGGTTGGCACTGCCTCTGGATTCGTCAAGCAGAT
CTCATCCGATGCCATCTCGGCTGCTCAAATGTCTCCGGGATTGTCTCCTCAGGGTCAACATTCTG
GGCTGCTGGGCACTGCCTCTGATTTCATTAAGCAGGTCTCATCCGATGCCATTTCGGCTGCCCAA
ATGTCTCCGGGAGGGTCGCCTCAGGGCCAAATTTCTGGACTGTTGGGCACTGCCTCTGGACTAGT
CAAGCAGATCTCATCCGATGCCATCTCAGCTGCCCAAATGTCTCCG
Found at i:735067 original size:29 final size:29
Alignment explanation
Indices: 735035--735118 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 29
735025 ATTATTTTTA
735035 AAAATAATTAAAATAATATATTTTATAAT
1 AAAATAATTAAAATAATATATTTTATAAT
* * * * * *
735064 AAAATATTTATAATTATTTATTATAT-TT
1 AAAATAATTAAAATAATATATTTTATAAT
* ** *
735092 TAAATGGTTAAATTAATATATTTTATA
1 AAAATAATTAAAATAATATATTTTATA
735119 CTAATTTTAT
Statistics
Matches: 40, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
28 19 0.47
29 21 0.52
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
AAAATAATTAAAATAATATATTTTATAAT
Found at i:735075 original size:14 final size:14
Alignment explanation
Indices: 735035--735077 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
735025 ATTATTTTTA
* *
735035 AAAATAATTAAAAT
1 AAAATATTTATAAT
*
735049 AATATATTTTATAAT
1 AAAATA-TTTATAAT
735064 AAAATATTTATAAT
1 AAAATATTTATAAT
735078 TATTTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATATTTATAAT
Found at i:744261 original size:22 final size:22
Alignment explanation
Indices: 744233--744352 Score: 131
Period size: 22 Copynumber: 5.6 Consensus size: 22
744223 GAATTTGGAT
* *
744233 TTCGCAACACGAATTTGCCAAA
1 TTCGCAACTCGAATTTGTCAAA
*
744255 TTCGCAACTC-AGTTT-TCAAA
1 TTCGCAACTCGAATTTGTCAAA
* *
744275 TTCGCAACTCGAATTCGTCAAT
1 TTCGCAACTCGAATTTGTCAAA
* *
744297 TTCGCAACTCGAATTCGTCAAT
1 TTCGCAACTCGAATTTGTCAAA
744319 TTCGCAACTC-AATTT-TCAAA
1 TTCGCAACTCGAATTTGTCAAA
* *
744339 TTCGTAACTTGAAT
1 TTCGCAACTCGAAT
744353 ATGGATTTTG
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
20 26 0.31
21 14 0.16
22 45 0.53
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (22 bp):
TTCGCAACTCGAATTTGTCAAA
Found at i:744324 original size:64 final size:62
Alignment explanation
Indices: 744173--744352 Score: 202
Period size: 64 Copynumber: 2.9 Consensus size: 62
744163 AACCAACGAA
* * * * * **
744173 TTCGCAACACGAA--AGCCAATTTCGCAACACAGTTTCCGAATTCACAACTTGAATTTGGAT
1 TTCGCAACACGAATTCGCCAATTTCGCAACTCAGTTTTCAAATTCGCAACTTGAATTTCAAT
* * *
744233 TTCGCAACACGAATTTGCCAAATTCGCAACTCAGTTTTCAAATTCGCAACTCGAATTCGTCAAT
1 TTCGCAACACGAATTCGCCAATTTCGCAACTCAGTTTTCAAATTCGCAACTTGAATT--TCAAT
* * * *
744297 TTCGCAACTCGAATTCGTCAATTTCGCAACTCAATTTTCAAATTCGTAACTTGAAT
1 TTCGCAACACGAATTCGCCAATTTCGCAACTCAGTTTTCAAATTCGCAACTTGAAT
744353 ATGGATTTTG
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
60 13 0.13
62 35 0.35
64 52 0.52
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.31
Consensus pattern (62 bp):
TTCGCAACACGAATTCGCCAATTTCGCAACTCAGTTTTCAAATTCGCAACTTGAATTTCAAT
Found at i:744859 original size:22 final size:22
Alignment explanation
Indices: 744810--744887 Score: 117
Period size: 22 Copynumber: 3.7 Consensus size: 22
744800 AGTTTTCAAA
*
744810 TTCGCAACTCGAATTCG--GAT
1 TTCGCAACTCGAATTCGCCAAT
*
744830 TTCACAACTCGAATTCGCCAAT
1 TTCGCAACTCGAATTCGCCAAT
744852 TTCGCAACTCGAATTCGCCAAT
1 TTCGCAACTCGAATTCGCCAAT
744874 TTCGCAACTC-AATT
1 TTCGCAACTCGAATT
744888 TTCAAATTCG
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
20 16 0.30
21 4 0.08
22 33 0.62
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (22 bp):
TTCGCAACTCGAATTCGCCAAT
Found at i:748933 original size:20 final size:20
Alignment explanation
Indices: 748910--748956 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
748900 GAACACCAGT
*
748910 TTCGCAACATAGTTTTCAAA
1 TTCGCAACACAGTTTTCAAA
*
748930 TTCGCAACGCAGTTTTCAAA
1 TTCGCAACACAGTTTTCAAA
748950 TTCGCAA
1 TTCGCAA
748957 TACGAATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (20 bp):
TTCGCAACACAGTTTTCAAA
Found at i:749053 original size:70 final size:70
Alignment explanation
Indices: 748940--749132 Score: 215
Period size: 70 Copynumber: 2.6 Consensus size: 70
748930 TTCGCAACGC
* * ** *
748940 AGTTTTCAAATTCGCAATACGAATTTCGTTTTTGCAACGCTAATTACTGATGTAGGTAAACACAC
1 AGTTTTCAAATTCGCAACACGAATTTCGTTTTCGCAACGCTAATTACCAATATAGGTAAACACAC
749005 AACTT
66 AACTT
* *
749010 AGTTTTCAAATTCGCAACGCGAATTTCGTTTTCGCAATGCTAATTACCAATATAGGTAAACACAA
1 AGTTTTCAAATTCGCAACACGAATTTCGTTTTCGCAACGCTAATTACCAATATAGGT-AA-AC-A
*
749075 CTATTCGCAACTC
63 C-A----CAACTT
* * *
749088 AGTTTTCAAATTCGTAACACGAATTTCGTTTTCACAACGCGAATT
1 AGTTTTCAAATTCGCAACACGAATTTCGTTTTCGCAACGCTAATT
749133 TCACAACTCG
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
70 50 0.49
71 2 0.02
72 2 0.02
73 2 0.02
74 1 0.01
78 45 0.44
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (70 bp):
AGTTTTCAAATTCGCAACACGAATTTCGTTTTCGCAACGCTAATTACCAATATAGGTAAACACAC
AACTT
Found at i:749134 original size:14 final size:14
Alignment explanation
Indices: 749117--749146 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
749107 CGAATTTCGT
749117 TTTCACAACGCGAA
1 TTTCACAACGCGAA
*
749131 TTTCACAACTCGAA
1 TTTCACAACGCGAA
749145 TT
1 TT
749147 CGCAAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (14 bp):
TTTCACAACGCGAA
Found at i:749446 original size:79 final size:71
Alignment explanation
Indices: 749232--749405 Score: 236
Period size: 71 Copynumber: 2.5 Consensus size: 71
749222 TTGAAAACTG
** * *
749232 AGTTGTGTTTACCTATATCGGTAATTAGCGTTGCGAAA-----TT-CGAGTTACGA-AAACGAGT
1 AGTTGTGTTTACCTATATCGGTAATTAGCGTTGCGAAATCGCTTTGCGA-TTTTGAGAATCGCGT
*
749290 TGAGAAT
65 TGCGAAT
*
749297 AGTTGTGTTTACCTATATCGGTAATTAGTGTTGCGAAATCGCTTTGCGATTTTGAGAATCGCGTT
1 AGTTGTGTTTACCTATATCGGTAATTAGCGTTGCGAAATCGCTTTGCGATTTTGAGAATCGCGTT
749362 GCGAAT
66 GCGAAT
749368 AGTTGTGTTTACCTATATCGGTAATTAGCGTTGCGAAA
1 AGTTGTGTTTACCTATATCGGTAATTAGCGTTGCGAAA
749406 ACGAAATTCG
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
65 37 0.39
70 6 0.06
71 52 0.55
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (71 bp):
AGTTGTGTTTACCTATATCGGTAATTAGCGTTGCGAAATCGCTTTGCGATTTTGAGAATCGCGTT
GCGAAT
Found at i:752261 original size:31 final size:31
Alignment explanation
Indices: 752223--752281 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
752213 ATGACTTGGT
752223 CCACAAGCATAAAGAAATTGGC-TTACTTTTC
1 CCACAAGCATAAAGAAATT-GCTTTACTTTTC
752254 CCACAAGCATAAAGAAATTGCTTTACTT
1 CCACAAGCATAAAGAAATTGCTTTACTT
752282 GGTCAATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (31 bp):
CCACAAGCATAAAGAAATTGCTTTACTTTTC
Found at i:761901 original size:3 final size:3
Alignment explanation
Indices: 761895--761920 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
761885 AAAGGAGGGA
761895 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
761921 ACTAACCGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:763329 original size:22 final size:22
Alignment explanation
Indices: 763304--763359 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
763294 CGCAACAGGG
*
763304 AGTATCGATACTATAGAGTCCT
1 AGTAACGATACTATAGAGTCCT
763326 AGTAACGATACTATAGAGTCCT
1 AGTAACGATACTATAGAGTCCT
763348 AGTAACGATACT
1 AGTAACGATACT
763360 CCCCATCGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (22 bp):
AGTAACGATACTATAGAGTCCT
Found at i:767547 original size:42 final size:42
Alignment explanation
Indices: 767328--767576 Score: 206
Period size: 43 Copynumber: 5.9 Consensus size: 42
767318 AATTGAGGTC
* * *
767328 CTCAATTATAAA-AGTAAAAAGGTGAGATTGAGACAATTAGG-A
1 CTCAATTATAAAGA-TAAAAA-GTGAGATTAAAAAAATTAGGCA
* * * *
767370 GGCTTAATTATAAAGGTAAAAAATG-GAATTAAAAAAAGTAACGGC-
1 --CTCAATTATAAAGATAAAAAGTGAG-ATTAAAAAAA-TTA-GGCA
* * * * * *
767415 CTCAATCATAAAGGTAGAAAGTGAGATTGAAAAATTTTGGC-
1 CTCAATTATAAAGATAAAAAGTGAGATTAAAAAAATTAGGCA
*
767456 CTCAATTATAAAGGTAAAAAGTGAGATTACAAAAAATTAGGCA
1 CTCAATTATAAAGATAAAAAGTGAGATTA-AAAAAATTAGGCA
* *
767499 CTCAATTATAAAGATAAAAAGTGAGATTATAAAAATTAGGGA
1 CTCAATTATAAAGATAAAAAGTGAGATTAAAAAAATTAGGCA
*
767541 -TGCAATTATAAAGATAGAAAA-TGAAATTAAAAAAAT
1 CT-CAATTATAAAGATA-AAAAGTGAGATTAAAAAAAT
767577 CAAGGGCGTT
Statistics
Matches: 170, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
41 30 0.18
42 50 0.29
43 68 0.40
44 20 0.12
45 2 0.01
ACGTcount: A:0.51, C:0.07, G:0.18, T:0.24
Consensus pattern (42 bp):
CTCAATTATAAAGATAAAAAGTGAGATTAAAAAAATTAGGCA
Found at i:767568 original size:21 final size:21
Alignment explanation
Indices: 767502--767569 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
767492 TTAGGCACTC
767502 AATTATAAAGATA-AAAAGTGA
1 AATTATAAAGATAGAAAA-TGA
* * ** *
767523 GATTATAAAAATTAG-GGATGC
1 AATTATAAAGA-TAGAAAATGA
767544 AATTATAAAGATAGAAAATGA
1 AATTATAAAGATAGAAAATGA
767565 AATTA
1 AATTA
767570 AAAAAATCAA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
20 3 0.09
21 28 0.82
22 3 0.09
ACGTcount: A:0.56, C:0.01, G:0.16, T:0.26
Consensus pattern (21 bp):
AATTATAAAGATAGAAAATGA
Found at i:767591 original size:85 final size:81
Alignment explanation
Indices: 767327--767603 Score: 236
Period size: 84 Copynumber: 3.3 Consensus size: 81
767317 AAATTGAGGT
* * *
767327 CCTCAATTATAAA-AGTAAAAAGGTGAGATTGAGACAATTAGG-AGGCTTAATTATAAAGGTAAA
1 CCTCAATTATAAAGA-TAAAAA-GTGAGATTGAAAAAATTAGGCA---TCAATTATAAAGGT-AA
*
767390 AAATGGAATTAAAAAAAGTAACGG
60 AAATGAAATTAAAAAAA-TAA-GG
* * * * * *
767414 CCTCAATCATAAAGGTAGAAAGTGAGATTGAAAAATTTTGGCCTCAATTATAAAGGTAAAAAGTG
1 CCTCAATTATAAAGATAAAAAGTGAGATTGAAAAAATTAGGCATCAATTATAAAGGTAAAAA-TG
* *
767479 AGATTACAAAAAATTAGG
65 AAATTA-AAAAAATAAGG
* *
767497 CACTCAATTATAAAGATAAAAAGTGAGATT-ATAAAAATTAGGGATGCAATTATAAAGATAGAAA
1 C-CTCAATTATAAAGATAAAAAGTGAGATTGA-AAAAATTAGGCAT-CAATTATAAAGGTA-AAA
767561 ATGAAATTAAAAAAATCAAGGG
62 ATGAAATTAAAAAAAT-AA-GG
* * *
767583 CGTTAATTACAAAGATAAAAA
1 CCTCAATTATAAAGATAAAAA
767604 AATTTAATTA
Statistics
Matches: 155, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
83 9 0.06
84 62 0.40
85 44 0.28
86 23 0.15
87 17 0.11
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.24
Consensus pattern (81 bp):
CCTCAATTATAAAGATAAAAAGTGAGATTGAAAAAATTAGGCATCAATTATAAAGGTAAAAATGA
AATTAAAAAAATAAGG
Found at i:767842 original size:60 final size:61
Alignment explanation
Indices: 767768--767927 Score: 198
Period size: 60 Copynumber: 2.7 Consensus size: 61
767758 ATAGTCATGT
* * *
767768 GACCATTTTTTAACTTTTAATAGTTAGGGGACTCAACAAAA-TAATGCCCTATAATTAGAG
1 GACCATTTTGTAACTTTTAATAGTTAGAGGACTCAACAAAAGAAATGCCCTATAATTAGAG
* ** *
767828 GACCATTTTGTAACTTATAATAGTTAGAGGACTCAA-AAAAGAAATTTCCTATAGTTAGAG
1 GACCATTTTGTAACTTTTAATAGTTAGAGGACTCAACAAAAGAAATGCCCTATAATTAGAG
** ** *
767888 GAATATTTTGTATTTTTTAATAGTCAGAGGACTCAACAAA
1 GACCATTTTGTAACTTTTAATAGTTAGAGGACTCAACAAA
767928 GCAAAATCTG
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
59 4 0.05
60 78 0.92
61 3 0.04
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (61 bp):
GACCATTTTGTAACTTTTAATAGTTAGAGGACTCAACAAAAGAAATGCCCTATAATTAGAG
Found at i:768585 original size:31 final size:32
Alignment explanation
Indices: 768531--768615 Score: 82
Period size: 32 Copynumber: 2.7 Consensus size: 32
768521 TAATGTCTTG
* * * *
768531 GGGCCTTAGAGCCTATCTAAGGAA-TACCTTA
1 GGGCCTCAGAGCCTACCCAAGGAAGCACCTTA
* *
768562 GGGCCTCAGAGCCTACCCGAGGAAGCACCTTG
1 GGGCCTCAGAGCCTACCCAAGGAAGCACCTTA
* * *
768594 GGGCATGAGAGCCTACCTAAGG
1 GGGCCTCAGAGCCTACCCAAGG
768616 GAACATCTCG
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
31 20 0.47
32 23 0.53
ACGTcount: A:0.26, C:0.27, G:0.29, T:0.18
Consensus pattern (32 bp):
GGGCCTCAGAGCCTACCCAAGGAAGCACCTTA
Found at i:769481 original size:20 final size:20
Alignment explanation
Indices: 769458--769529 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
769448 TTAGTTCATA
769458 TTGACTCAGACCGATTCAAG
1 TTGACTCAGACCGATTCAAG
* * *
769478 TTGACT-TGATTCGATCCAAG
1 TTGACTCAGA-CCGATTCAAG
* * * *
769498 ATGACTCAGTCCGGTTCGAG
1 TTGACTCAGACCGATTCAAG
*
769518 TTGACTCGGACC
1 TTGACTCAGACC
769530 AGTTTTGAAA
Statistics
Matches: 37, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
19 2 0.05
20 34 0.92
21 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (20 bp):
TTGACTCAGACCGATTCAAG
Found at i:773682 original size:31 final size:31
Alignment explanation
Indices: 773633--773754 Score: 111
Period size: 31 Copynumber: 3.9 Consensus size: 31
773623 TAAGGTAATG
* * * *
773633 CCTTGGCGCCTCAAAGCCTACCCAAGGAATA
1 CCTTGGGGCCTTAGAGCCTACCCAAGGAACA
*
773664 CCTTGGGGCCTTAGAGCCTACCCAAGAAAGCA
1 CCTTGGGGCCTTAGAGCCTACCCAAGGAA-CA
* *
773696 CCTT-GGGTCTTGAGAGCCTACCGAAGGGAACA
1 CCTTGGGGCCTT-AGAGCCTACCCAA-GGAACA
* * * *
773728 TCTCGGGGTCTAAGAGCCTACCCAAGG
1 CCTTGGGGCCTTAGAGCCTACCCAAGG
773755 TTCACCTTAG
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
31 33 0.44
32 33 0.44
33 9 0.12
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.17
Consensus pattern (31 bp):
CCTTGGGGCCTTAGAGCCTACCCAAGGAACA
Found at i:773712 original size:32 final size:31
Alignment explanation
Indices: 773633--773753 Score: 100
Period size: 32 Copynumber: 3.8 Consensus size: 31
773623 TAAGGTAATG
* * * * *
773633 CCTTGGCGCCTCAAAGCCTACCCAAGGAATA
1 CCTTGGGGCCTTAGAGCCTACCCAAGAAACA
773664 CCTTGGGGCCTTAGAGCCTACCCAAGAAAGCA
1 CCTTGGGGCCTTAGAGCCTACCCAAGAAA-CA
* * *
773696 CCTT-GGGTCTTGAGAGCCTACCGAAGGGAACA
1 CCTTGGGGCCTT-AGAGCCTACCCAA-GAAACA
* * * *
773728 TCTCGGGGTCTAAGAGCCTACCCAAG
1 CCTTGGGGCCTTAGAGCCTACCCAAG
773754 GTTCACCTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
31 32 0.43
32 33 0.45
33 9 0.12
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (31 bp):
CCTTGGGGCCTTAGAGCCTACCCAAGAAACA
Found at i:775700 original size:2 final size:2
Alignment explanation
Indices: 775695--775719 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
775685 TTCATATGTG
775695 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
775720 CTCATACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:790303 original size:20 final size:20
Alignment explanation
Indices: 790266--790303 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
790256 AGAGGTTTTC
**
790266 AAAAAAGTCAACGGTCAACG
1 AAAAAAGTCAACAATCAACG
790286 AAAAAAGTCAACAATCAA
1 AAAAAAGTCAACAATCAA
790304 TGGTTAACGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.18, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAAAAGTCAACAATCAACG
Found at i:795128 original size:31 final size:31
Alignment explanation
Indices: 795078--795208 Score: 129
Period size: 31 Copynumber: 4.1 Consensus size: 31
795068 GAGCCAACAT
* *
795078 AAGGTAATGCCTTAGGGCCTTAGAGCCTACCC
1 AAGG-AATACCTTGGGGCCTTAGAGCCTACCC
*
795110 AAGGAATACCTTGGGGCCTTAGAGCCCACCC
1 AAGGAATACCTTGGGGCCTTAGAGCCTACCC
* * *
795141 AAGGAAGCACCTT-GGGTCTTGAGAGCCTACCG
1 AAGGAA-TACCTTGGGGCCTT-AGAGCCTACCC
* * * *
795173 AAGGGAATATCTCGGGGACTAAGAGCCTACCC
1 AA-GGAATACCTTGGGGCCTTAGAGCCTACCC
795205 AAGG
1 AAGG
795209 TTCACCTTAG
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
31 38 0.46
32 35 0.43
33 9 0.11
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (31 bp):
AAGGAATACCTTGGGGCCTTAGAGCCTACCC
Found at i:796152 original size:10 final size:10
Alignment explanation
Indices: 796137--796163 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
796127 CGCCACGGTG
796137 GCGCGTGGCA
1 GCGCGTGGCA
796147 GCGCGTGGCA
1 GCGCGTGGCA
796157 GCGCGTG
1 GCGCGTG
796164 CTAGGATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.52, T:0.11
Consensus pattern (10 bp):
GCGCGTGGCA
Found at i:797192 original size:2 final size:2
Alignment explanation
Indices: 797185--797236 Score: 54
Period size: 2 Copynumber: 26.0 Consensus size: 2
797175 TAAATAAGTG
* *
797185 TA TA TA TA TA TA TA TA T- TT TCA TA TG TGA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA T-A TA TA TA TA TA TA TA
797228 TA TA T- TA TA
1 TA TA TA TA TA
797237 AAGTTGAGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
1 2 0.05
2 39 0.91
3 2 0.05
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:801091 original size:17 final size:16
Alignment explanation
Indices: 801069--801113 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
801059 CAAAAGTGTA
801069 ATAATAATATTAATGAT
1 ATAATAATATTAAT-AT
*
801086 ATAATAATAATAATAT
1 ATAATAATATTAATAT
801102 ATAATTAATATT
1 ATAA-TAATATT
801114 TATAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
ATAATAATATTAATAT
Found at i:801110 original size:20 final size:21
Alignment explanation
Indices: 801067--801124 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
801057 AACAAAAGTG
* *
801067 TAATAATAATATTA-ATGATA
1 TAATAATAATAATATATAATA
801087 TAATAATAATAATATATAAT-
1 TAATAATAATAATATATAATA
* *
801107 TAATATTTATAATATATA
1 TAATAATAATAATATATA
801125 TTTTAATCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATAATAATAATATATAATA
Found at i:801969 original size:105 final size:106
Alignment explanation
Indices: 801749--802039 Score: 336
Period size: 105 Copynumber: 2.7 Consensus size: 106
801739 ATGCGAAGTT
*
801749 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAAC-T-TTCTCCC-T-TAGGATGAGTTCTTCTCATTATGAACTC
* * * * *
801814 TCAACTGGAAAT-CTTGAACCAAATCCTTTTGTGGTGGACTTAGAAG
62 T--TCTGGAAATGTTTGAACCAAATCCATCTGTGGTGAACTTAGAAG
* * *
801860 GAACATGTTTTTCTCATTATGAACTTTCTCCCTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCCTTAGGATGAGTTCTTCTCATTATGAACTCTTCT
** ** *
801925 GGAAATGTTTG-TTCACCTCCATCTGTGGTGAA-TTTGAAAG
66 GGAAATGTTTGAACCAAATCCATCTGTGGTGAACTTAG-AAG
* *
801965 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTATGATGAGTTCTTCTCATTATGAACTCTTCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCCTTAGGATGAGTTCTTCTCATTATGAACTCTTC-
802030 TTGGAAATGT
65 -TGGAAATGT
802040 CGATCCCTCA
Statistics
Matches: 157, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
104 3 0.02
105 84 0.54
106 3 0.02
107 36 0.23
108 1 0.01
109 7 0.04
110 1 0.01
111 22 0.14
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (106 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCCTTAGGATGAGTTCTTCTCATTATGAACTCTTCT
GGAAATGTTTGAACCAAATCCATCTGTGGTGAACTTAGAAG
Found at i:802027 original size:16 final size:16
Alignment explanation
Indices: 801973--802028 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
801963 AGGAACAAGT
801973 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
* *
801989 T-TTCTCCTTTATGATGAGT
1 TCTTCT-CATTATGA--A-C
802008 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
802024 TCTTC
1 TCTTC
802029 ATTGGAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
15 4 0.13
16 13 0.42
17 1 0.03
18 1 0.03
19 8 0.26
20 4 0.13
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (16 bp):
TCTTCTCATTATGAAC
Found at i:802354 original size:225 final size:223
Alignment explanation
Indices: 801965--802402 Score: 704
Period size: 225 Copynumber: 2.0 Consensus size: 223
801955 AATTTGAAAG
*
801965 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTATGATGAGTTCTTCTCATTATGAACTCTTCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCA
* * * *
802030 TTGGAAATGTCGATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCATGAATCAAGTGATAGGT
66 CTGAAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATGAATCAAGTGATAGGT
* *
802095 CAAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAAC
131 CAAACAAGCTCTTATCATTATGAACTTCTTCTCCCTCTGTCGAATGAGTTCTTCTCATTATGAAC
802160 TCTCCATT-GAACATGTTGATGCGAAGTT
196 TCTCCATTGGAA-ATGTTGATGCGAAGTT
802188 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTT-GGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAAC-T-TTC-TCCT--TTAGGATGAGTTCTTCTCATTATGAACT
* *
802252 C-TC-CTGAAAATGTCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGA
61 CTTCACTGAAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATGAATCAAGTGA
802315 TAGGTCAAACAAGCTCTTATCATTATGAACTTCTTCTCCCTCTGTCGAATGAGTTCTTCTCATTA
126 TAGGTCAAACAAGCTCTTATCATTATGAACTTCTTCTCCCTCTGTCGAATGAGTTCTTCTCATTA
*
802380 TGAACTCTCTATTGGAAATGTTG
191 TGAACTCTCCATTGGAAATGTTG
802403 GTTCACCTCC
Statistics
Matches: 199, Mismatches: 10, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
223 24 0.12
224 1 0.01
225 138 0.69
226 9 0.05
227 25 0.13
228 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (223 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCA
CTGAAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATGAATCAAGTGATAGGT
CAAACAAGCTCTTATCATTATGAACTTCTTCTCCCTCTGTCGAATGAGTTCTTCTCATTATGAAC
TCTCCATTGGAAATGTTGATGCGAAGTT
Found at i:803298 original size:20 final size:19
Alignment explanation
Indices: 803273--803335 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
803263 AACTCTCATT
803273 TTTCTCTCTTCATTTTTTCA
1 TTTCTCT-TTCATTTTTTCA
** **
803293 TTTCTCTTTTTTTTTCTTTT
1 TTTCTCTTTCATTTT-TTCA
*
803313 TTTTTCTTTTCATTTTTTCA
1 TTTCTC-TTTCATTTTTTCA
803333 TTT
1 TTT
803336 TTCATTTGTT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 6 0.19
20 19 0.59
21 7 0.22
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTCTCTTTCATTTTTTCA
Found at i:803308 original size:12 final size:11
Alignment explanation
Indices: 803293--803354 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 11
803283 CATTTTTTCA
803293 TTTCTCTTTTTT
1 TTTCT-TTTTTT
803305 TTTC-TTTTTT
1 TTTCTTTTTTT
803315 TTTCTTTTCATTT
1 TTTCTTTT--TTT
803328 TTTCATTTTTCATT
1 TTTC-TTTTT--TT
803342 TGTTCTTTTTTT
1 T-TTCTTTTTTT
803354 T
1 T
803355 CTTCAAGCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
10 10 0.23
11 3 0.07
12 8 0.19
13 7 0.16
14 12 0.28
15 3 0.07
ACGTcount: A:0.05, C:0.13, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:803312 original size:10 final size:10
Alignment explanation
Indices: 803297--803322 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
803287 TTTTCATTTC
803297 TCTTTTTTTT
1 TCTTTTTTTT
803307 TCTTTTTTTT
1 TCTTTTTTTT
803317 TCTTTT
1 TCTTTT
803323 CATTTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:803337 original size:15 final size:14
Alignment explanation
Indices: 803271--803351 Score: 62
Period size: 15 Copynumber: 5.8 Consensus size: 14
803261 CAAACTCTCA
*
803271 TTTTTCTCTCTTCAT
1 TTTTTCT-TTTTCAT
*
803286 TTTTTCATTTCTC-T
1 TTTTTC-TTTTTCAT
*
803300 TTTTT-TTTCTT-TT
1 TTTTTCTTT-TTCAT
803313 TTTTTC-TTTTCAT
1 TTTTTCTTTTTCAT
803326 TTTTTCATTTTTCAT
1 TTTTTC-TTTTTCAT
*
803341 TTGTTCTTTTT
1 TTTTTCTTTTT
803352 TTTCTTCAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
12 5 0.09
13 16 0.30
14 11 0.20
15 21 0.39
16 1 0.02
ACGTcount: A:0.06, C:0.16, G:0.01, T:0.77
Consensus pattern (14 bp):
TTTTTCTTTTTCAT
Found at i:803353 original size:40 final size:40
Alignment explanation
Indices: 803271--803354 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
803261 CAAACTCTCA
* *
803271 TTTTTCTCTCTTCATTTTTTCATTTCTCTTTTTTTTTCTT
1 TTTTTCTCTCTTCATTTTTTCATTTCTCTTTGTTCTTCTT
* * *
803311 TTTTTTTCTTTTCATTTTTTCATTTTTCATTTGTTCTT-TT
1 TTTTTCTCTCTTCATTTTTTCATTTCTC-TTTGTTCTTCTT
803351 TTTT
1 TTTT
803355 CTTCAAGCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 31 0.82
41 7 0.18
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.77
Consensus pattern (40 bp):
TTTTTCTCTCTTCATTTTTTCATTTCTCTTTGTTCTTCTT
Found at i:817103 original size:3 final size:3
Alignment explanation
Indices: 817095--817142 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
817085 AACAAAAGTG
* *
817095 TAA TAA TAA TAT TAA TGA T-A TAA TAA TAA TAA TAA TATA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -TAA
817141 TA
1 TA
817143 TTTATAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:817119 original size:17 final size:17
Alignment explanation
Indices: 817097--817142 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
817087 CAAAAGTGTA
* *
817097 ATAATAATATTAATGAT
1 ATAATAATAATAATAAT
817114 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
817131 AT-ATAATTAATA
1 ATAATAA-TAATA
817143 TTTATAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:817120 original size:20 final size:19
Alignment explanation
Indices: 817095--817154 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
817085 AACAAAAGTG
*
817095 TAATAATAATATTAATGATA
1 TAATAATAATAATAAT-ATA
817115 TAATAATAATAATAATATA
1 TAATAATAATAATAATATA
* *
817134 TAATTAATATTTATAATATA
1 TAA-TAATAATAATAATATA
817154 T
1 T
817155 TTTTTAATCC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 6 0.17
20 30 0.83
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TAATAATAATAATAATATA
Found at i:817141 original size:14 final size:14
Alignment explanation
Indices: 817098--817142 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
817088 AAAAGTGTAA
817098 TAATAATAT-TAAT
1 TAATAATATATAAT
*
817111 GATATAATA-ATAA-
1 TA-ATAATATATAAT
817124 TAATAATATATAAT
1 TAATAATATATAAT
817138 TAATA
1 TAATA
817143 TTTATAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.23
13 6 0.23
14 14 0.54
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TAATAATATATAAT
Found at i:817141 original size:23 final size:23
Alignment explanation
Indices: 817095--817151 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
817085 AACAAAAGTG
* *
817095 TAATAATAATATTAATGATATAA
1 TAATAATAATAATAATAATATAA
817118 TAATAATAATAATATATAAT-TAA
1 TAATAATAATAATA-ATAATATAA
* *
817141 TATTTATAATA
1 TAATAATAATA
817152 TATTTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAATAATAATAATAATATAA
Found at i:817714 original size:182 final size:182
Alignment explanation
Indices: 817407--817898 Score: 860
Period size: 182 Copynumber: 2.7 Consensus size: 182
817397 ATCATCACCA
* * *
817407 ATTAAAGTATCGACACTTTCAACATATCTGGTAGCGCTTTACTGGTTTTGTCATTTCGAGACTTG
1 ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTG
817472 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
66 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
817537 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTAT
131 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTAT
817589 ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTG
1 ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTG
*
817654 TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
66 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
*
817719 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTATGAAAGTTTCGATACTTAT
131 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTAT
* * * *
817771 ATTAAATTATCGACACTTTCAACATATTCGGTAGCGTTTTATCGGTTTTGTCATTTCGAGACCTG
1 ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTG
* * *
817836 TTTTGTCATATTCTTACCTGTTATATTGCTATGAATCGATACATTTAT-ATAAAGTATCGACAC
66 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTT-TCATAAAGTATCGACAC
817899 AAACCGAGAA
Statistics
Matches: 296, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
182 295 1.00
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTG
TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
TTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTAT
Found at i:836001 original size:301 final size:301
Alignment explanation
Indices: 835459--836057 Score: 1013
Period size: 301 Copynumber: 2.0 Consensus size: 301
835449 AGTTAAAAGA
** *
835459 TGTTTTATAACTAACAATCTCACTGCAGGCCATTTACAGTCGAGAATATTTGATAACCTATCTAA
1 TGTTTTATAACTAACAATCTCACAACAGGCCATCTACAGTCGAGAATATTTGATAACCTATCTAA
* * * * * *
835524 ATTGCAAGAATTAAGTTTGACTGGGAATCAGATTTCTGGTAGCATTCCTAATAGTTTATTCAAGT
66 ATTGCAAGAATTAAGTTGGACTGGGAATCAGATATCTGGTAGAATTCCCAATAGCTTATCCAAGT
835589 GCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCTATGGAAGGAAGTATACCCATAGAAATC
131 GCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCTATGGAAGGAAGTATACCCATAGAAATC
835654 GGAAATTTGACAATGCTCCAATCTTTGTATCTGGGTTACAACAACCTCAAAGGTAAACAATTCCT
196 GGAAATTTGACAATGCTCCAATCTTTGTATCTGGGTTACAACAACCTCAAAGGTAAACAATTCCT
*
835719 CATTTGTATTTTGTTCTCCTTTACTTTTATTAGATAAAAAT
261 CATTTGCATTTTGTTCTCCTTTACTTTTATTAGATAAAAAT
* * * *
835760 TGTTTTATAACTAACAATCTCACAACATGCCATCTAGAGTC-AGGAATATTTGATAATCTTTCTA
1 TGTTTTATAACTAACAATCTCACAACAGGCCATCTACAGTCGA-GAATATTTGATAACCTATCTA
*
835824 AATTGCAAGTATTAAGCTTGGA-TGGGAATCAGATATCTGGTAGAATTCCCAATAGCTTATCCAA
65 AATTGCAAGAATTAAG-TTGGACTGGGAATCAGATATCTGGTAGAATTCCCAATAGCTTATCCAA
*
835888 GTGCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCTATGGAAGGAAGTATACCCGTAGAAA
129 GTGCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCTATGGAAGGAAGTATACCCATAGAAA
*
835953 TCGGAAATTTGACAATGCTCCAATCTTTGTATCTTGGTTACAACAACCTCAAAGGTAAACAATTC
194 TCGGAAATTTGACAATGCTCCAATCTTTGTATCTGGGTTACAACAACCTCAAAGGTAAACAATTC
836018 CTCATTTGCATTTTGTTCTCCTTTACTTTTATTAGATAAA
259 CTCATTTGCATTTTGTTCTCCTTTACTTTTATTAGATAAA
836058 TGACTCATCC
Statistics
Matches: 279, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
300 1 0.00
301 274 0.98
302 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (301 bp):
TGTTTTATAACTAACAATCTCACAACAGGCCATCTACAGTCGAGAATATTTGATAACCTATCTAA
ATTGCAAGAATTAAGTTGGACTGGGAATCAGATATCTGGTAGAATTCCCAATAGCTTATCCAAGT
GCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCTATGGAAGGAAGTATACCCATAGAAATC
GGAAATTTGACAATGCTCCAATCTTTGTATCTGGGTTACAACAACCTCAAAGGTAAACAATTCCT
CATTTGCATTTTGTTCTCCTTTACTTTTATTAGATAAAAAT
Found at i:843899 original size:21 final size:21
Alignment explanation
Indices: 843875--843922 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
843865 TGAAGCACCA
*
843875 CCAATTACGACAATAGTTAGT
1 CCAATTACAACAATAGTTAGT
843896 CCAATTACAACAATAGTTAGT
1 CCAATTACAACAATAGTTAGT
843917 CCAATT
1 CCAATT
843923 CCATCGACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (21 bp):
CCAATTACAACAATAGTTAGT
Found at i:856465 original size:19 final size:19
Alignment explanation
Indices: 856427--856465 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
856417 CTACTAACAT
* **
856427 AGATGAACTTAAATCTATA
1 AGATGAACCTAAATAAATA
856446 AGATGAACCTAAATAAATA
1 AGATGAACCTAAATAAATA
856465 A
1 A
856466 AATCTTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (19 bp):
AGATGAACCTAAATAAATA
Found at i:858531 original size:19 final size:20
Alignment explanation
Indices: 858487--858536 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
858477 CTTACTGCAA
858487 AGTATCCATACTAAAGGGCT
1 AGTATCCATACTAAAGGGCT
* *
858507 AGTATCGATACTAAAGGTC-
1 AGTATCCATACTAAAGGGCT
*
858526 AGTATCTATAC
1 AGTATCCATAC
858537 CATCATACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (20 bp):
AGTATCCATACTAAAGGGCT
Found at i:860407 original size:44 final size:44
Alignment explanation
Indices: 860339--860488 Score: 248
Period size: 44 Copynumber: 3.4 Consensus size: 44
860329 GCGAAGACTC
*
860339 TTGACGTAGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
1 TTGACGTGGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
*
860383 TTGACGTGGACTTGGGTATG-ATTTGCTTTAATTGATTCGCTTTG
1 TTGACGTGGACTTGGGTA-GAATTTGCTTTTATTGATTCGCTTTG
* *
860427 TTGACTTGGACTTGGGTAGAATTTGCTTTTATTGATTCCCTTTG
1 TTGACGTGGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
860471 TTGACGTGGACTTGGGTA
1 TTGACGTGGACTTGGGTA
860489 CAATAATAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
43 1 0.01
44 96 0.98
45 1 0.01
ACGTcount: A:0.17, C:0.12, G:0.27, T:0.45
Consensus pattern (44 bp):
TTGACGTGGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
Found at i:863060 original size:327 final size:328
Alignment explanation
Indices: 862466--863306 Score: 1605
Period size: 327 Copynumber: 2.6 Consensus size: 328
862456 TGGACTTGGG
*
862466 TGAAACAGAAGTAGAAGGACAGCAGATGCTCATGGCAGGGTGAAGATTTGTTCACCGTCCTGTTT
1 TGAAACAGAAGTAGAAGGACAGCAGATGCTCATGGCAGGGTGAAGATTTGTTCACTGTCCTGTTT
* *
862531 TTGGTTTGATGTTCGGTTTATGAATGGTGTTTTGATTGGATTTGCAGTCATGTTTTTACATACAT
66 TTGGTTTGATGTTCGGTTTATGAATGGTGTTTCGATTGTATTTGCAGTCATGTTTTTACATACAT
*
862596 GCAACTGTGAAAAATGTCATAGTTGGTAATGATTGATCTCTAATATATTTTATGTTTAAAGTATT
131 GCAGCTGTGAAAAATGTCATAGTTGGTAATGATTGATCTCTAATATATTTTATGTTTAAAGTATT
862661 TATTTATTTTGAGAAACTCTTCAAACTGAAAATTGAATTTAAATACATTTCAATATGCATAATAA
196 TATTTATTTTGAGAAACTCTTCAAACTGAAAATTGAATTTAAATACATTTCAATATGCATAATAA
862726 TAATA-TTTTTTTAATTAATTTAATGATTTTTCCATGAAAATTGTCTATCTTTTGTTATTTATTA
261 TAATATTTTTTTTAATTAATTTAATGATTTTTCCATGAAAATTGTCTATCTTTTGTTATTTATTA
862790 TGA
326 TGA
*
862793 TGAAACAGAAGTAGAAGGACAGCAGATGCTCATGGCAGGGTGAATATTTGTTCACTGTCCTGTTT
1 TGAAACAGAAGTAGAAGGACAGCAGATGCTCATGGCAGGGTGAAGATTTGTTCACTGTCCTGTTT
862858 TTGGTTTGATGTTCGGTTTATGAATGGTGTTTCGATTGTATTTGCAGTCATGTTTTTACATACAT
66 TTGGTTTGATGTTCGGTTTATGAATGGTGTTTCGATTGTATTTGCAGTCATGTTTTTACATACAT
862923 GCAGCTGTGAAAAATGTCATAGTTGGTAATGATTGATCTCTAATATATTTTATGTTTAAAGTATT
131 GCAGCTGTGAAAAATGTCATAGTTGGTAATGATTGATCTCTAATATATTTTATGTTTAAAGTATT
862988 TATTTATTTTGAGAAACTCTTCAAACTGAAAATTGAATTTAAATACATTTCAATATGCATAATAA
196 TATTTATTTTGAGAAACTCTTCAAACTGAAAATTGAATTTAAATACATTTCAATATGCATAATAA
863053 TAATATTTTTTTTAATTAATTTAATGATTTTTCCATGAAAATTGTCTATCTTTTGTTATTTATTA
261 TAATATTTTTTTTAATTAATTTAATGATTTTTCCATGAAAATTGTCTATCTTTTGTTATTTATTA
863118 TGA
326 TGA
* *
863121 TGAAACAGAAGTGGAAGGACAGCAGATGCTCATGACAGGGTGAAGATTTGTTCACTGTCCTGTTT
1 TGAAACAGAAGTAGAAGGACAGCAGATGCTCATGGCAGGGTGAAGATTTGTTCACTGTCCTGTTT
863186 TTGGTTTGATGTTCGGTTTATGAATGGTGTTTCGATTGTATTTGCAGTCATGTTTTTACATACAT
66 TTGGTTTGATGTTCGGTTTATGAATGGTGTTTCGATTGTATTTGCAGTCATGTTTTTACATACAT
863251 GCAGCTGTGAAAAATGTCATAGTTGGTAATGATTGATCTCTAATATATTTTA-GTTT
131 GCAGCTGTGAAAAATGTCATAGTTGGTAATGATTGATCTCTAATATATTTTATGTTT
863307 TATATTTTAC
Statistics
Matches: 505, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
327 264 0.52
328 241 0.48
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.42
Consensus pattern (328 bp):
TGAAACAGAAGTAGAAGGACAGCAGATGCTCATGGCAGGGTGAAGATTTGTTCACTGTCCTGTTT
TTGGTTTGATGTTCGGTTTATGAATGGTGTTTCGATTGTATTTGCAGTCATGTTTTTACATACAT
GCAGCTGTGAAAAATGTCATAGTTGGTAATGATTGATCTCTAATATATTTTATGTTTAAAGTATT
TATTTATTTTGAGAAACTCTTCAAACTGAAAATTGAATTTAAATACATTTCAATATGCATAATAA
TAATATTTTTTTTAATTAATTTAATGATTTTTCCATGAAAATTGTCTATCTTTTGTTATTTATTA
TGA
Found at i:867395 original size:9 final size:9
Alignment explanation
Indices: 867381--867493 Score: 64
Period size: 10 Copynumber: 11.8 Consensus size: 9
867371 GGCTGCTGGA
867381 AACCGGTTT
1 AACCGGTTT
867390 AACCGGTTTT
1 AACCGG-TTT
*
867400 CAACCGATTCT
1 -AACCGGTT-T
*
867411 GACCGGTTT
1 AACCGGTTT
*
867420 GACCGGTTT
1 AACCGGTTT
*
867429 CAACCGGTTCG
1 -AACCGGTT-T
867440 AACCGGTTT
1 AACCGGTTT
* *
867449 GACCGGTCTG
1 AACCGGT-TT
*
867459 AATCGGTTT
1 AACCGGTTT
* *
867468 GACCGGTCTG
1 AACCGGT-TT
*
867478 AGCCGGTTT
1 AACCGGTTT
*
867487 GACCGGT
1 AACCGGT
867494 CTGACCCGAC
Statistics
Matches: 78, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
9 34 0.44
10 38 0.49
11 6 0.08
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (9 bp):
AACCGGTTT
Found at i:867444 original size:29 final size:28
Alignment explanation
Indices: 867382--867486 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 28
867372 GCTGCTGGAA
* *
867382 ACCGGTTTAACCGGTTTTCAACCGATTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTC-G
867412 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTTTCAACCGGTTCG
* * * *
867440 AACCGGTTTGACCGGTCTGAATCGGTTTG
1 -ACCGGTTTGACCGGTTTCAACCGGTTCG
*
867469 ACCGGTCTGAGCCGGTTT
1 ACCGGTTTGA-CCGGTTT
867487 GACCGGTCTG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
28 10 0.15
29 42 0.65
30 13 0.20
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCG
Found at i:867494 original size:19 final size:19
Alignment explanation
Indices: 867381--867497 Score: 112
Period size: 19 Copynumber: 6.1 Consensus size: 19
867371 GGCTGCTGGA
* * *
867381 AACCGGTTTAACCGGTTTTC
1 AACCGGTTTGACCGG-TCTG
* *
867401 AACCGATTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
*
867421 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
867440 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
867459 AATCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
867478 AGCCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
867497 A
1 A
867498 CCCGACCCGA
Statistics
Matches: 83, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
18 2 0.02
19 56 0.67
20 19 0.23
21 6 0.07
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:867498 original size:9 final size:9
Alignment explanation
Indices: 867382--867499 Score: 92
Period size: 9 Copynumber: 12.3 Consensus size: 9
867372 GCTGCTGGAA
*
867382 ACCGGTTTA
1 ACCGGTTTG
*
867391 ACCGGTTTTCA
1 ACCGG-TTT-G
*
867402 ACCGATTCTG
1 ACCGGTT-TG
867412 ACCGGTTTG
1 ACCGGTTTG
*
867421 ACCGGTTTCA
1 ACCGGTTT-G
*
867431 ACCGGTTCG
1 ACCGGTTTG
867440 AACCGGTTTG
1 -ACCGGTTTG
*
867450 ACCGGTCTG
1 ACCGGTTTG
*
867459 AATCGGTTTG
1 -ACCGGTTTG
*
867469 ACCGGTCTG
1 ACCGGTTTG
867478 AGCCGGTTTG
1 A-CCGGTTTG
*
867488 ACCGGTCTG
1 ACCGGTTTG
867497 ACC
1 ACC
867500 CGACCCGACC
Statistics
Matches: 88, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
9 41 0.47
10 41 0.47
11 6 0.07
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:867506 original size:5 final size:5
Alignment explanation
Indices: 867496--867551 Score: 58
Period size: 5 Copynumber: 10.4 Consensus size: 5
867486 TGACCGGTCT
* *
867496 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
867545 GACCC GA
1 GACCC GA
867552 ACGTTGACCG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 35 0.81
7 8 0.19
ACGTcount: A:0.20, C:0.50, G:0.23, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:867522 original size:22 final size:22
Alignment explanation
Indices: 867496--867560 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
867486 TGACCGGTCT
867496 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
867518 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
867540 GACCCGACCCGAACGTTGACC
1 GACCCGACCCGACCGTTGACC
867561 GTTGGCCGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.20, C:0.48, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:868526 original size:32 final size:31
Alignment explanation
Indices: 868479--868566 Score: 79
Period size: 32 Copynumber: 2.8 Consensus size: 31
868469 ATCATTCTCG
** *
868479 GGTAGGCCCTGCGGCCCTAAGATGTGTTCTTA
1 GGTAGGCCCCACGGCCCTAAGATGT-ATCTTA
* * * *
868511 GGTAGGCCCCACGGCCCCAAAATCTATCTTG
1 GGTAGGCCCCACGGCCCTAAGATGTATCTTA
*
868542 GGTAGGCTCTCA-GGCCCTAAGATGT
1 GGTAGGC-CCCACGGCCCTAAGATGT
868567 TCCCTTAGGG
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
31 21 0.48
32 23 0.52
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.24
Consensus pattern (31 bp):
GGTAGGCCCCACGGCCCTAAGATGTATCTTA
Found at i:874806 original size:19 final size:18
Alignment explanation
Indices: 874782--874879 Score: 99
Period size: 19 Copynumber: 5.2 Consensus size: 18
874772 CCGGTTTTCA
*
874782 ACCGGTTCTGACCGGTTTG
1 ACCGGTT-TGACCGGTCTG
*
874801 ACCGGTTTCAACCGGT-TCG
1 ACCGGTTT-GACCGGTCT-G
874820 AACCGGTTTGACCGGTCTG
1 -ACCGGTTTGACCGGTCTG
*
874839 AATCGGTTTGACCGGTCTG
1 -ACCGGTTTGACCGGTCTG
*
874858 AGCCGGTTTGATCGGTCTG
1 A-CCGGTTTGACCGGTCTG
874877 ACC
1 ACC
874880 CGACCGTTGA
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
18 5 0.07
19 55 0.80
20 9 0.13
ACGTcount: A:0.14, C:0.27, G:0.31, T:0.29
Consensus pattern (18 bp):
ACCGGTTTGACCGGTCTG
Found at i:874818 original size:29 final size:29
Alignment explanation
Indices: 874765--874866 Score: 118
Period size: 29 Copynumber: 3.5 Consensus size: 29
874755 GCTGGAAACT
*
874765 GGTTTAACCGGTTTTCAACCGGTTCTGACC
1 GGTTTGACCGG-TTTCAACCGGTTCTGACC
874795 GGTTTGACCGGTTTCAACCGGTTC-GAACC
1 GGTTTGACCGGTTTCAACCGGTTCTG-ACC
* * *
874824 GGTTTGACCGGTCTGAATCGGTT-TGACC
1 GGTTTGACCGGTTTCAACCGGTTCTGACC
*
874852 GGTCTGAGCCGGTTT
1 GGTTTGA-CCGGTTT
874867 GATCGGTCTG
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
28 10 0.16
29 43 0.68
30 10 0.16
ACGTcount: A:0.15, C:0.25, G:0.29, T:0.31
Consensus pattern (29 bp):
GGTTTGACCGGTTTCAACCGGTTCTGACC
Found at i:874853 original size:38 final size:39
Alignment explanation
Indices: 874781--874877 Score: 110
Period size: 38 Copynumber: 2.5 Consensus size: 39
874771 ACCGGTTTTC
*
874781 AACCGGTTCTGACCGGTTTG-ACCGGTTTCAACCGGT-TCG
1 AACCGGTT-TGACCGGTCTGAACCGGTTTCAACCGGTCT-G
* *
874820 AACCGGTTTGACCGGTCTGAATCGGTTT-GACCGGTCTG
1 AACCGGTTTGACCGGTCTGAACCGGTTTCAACCGGTCTG
* *
874858 AGCCGGTTTGATCGGTCTGA
1 AACCGGTTTGACCGGTCTGA
874878 CCCGACCGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
38 35 0.69
39 16 0.31
ACGTcount: A:0.15, C:0.25, G:0.31, T:0.29
Consensus pattern (39 bp):
AACCGGTTTGACCGGTCTGAACCGGTTTCAACCGGTCTG
Found at i:874901 original size:22 final size:22
Alignment explanation
Indices: 874876--874928 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
874866 TGATCGGTCT
874876 GACCCGACCGTTGA-CTCGACCC
1 GACCCGACCGTTGACCT-GACCC
*
874898 GACCTGACCGTTGACCTGACCC
1 GACCCGACCGTTGACCTGACCC
874920 GACCCGACC
1 GACCCGACC
874929 CGACCTGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.19, C:0.45, G:0.23, T:0.13
Consensus pattern (22 bp):
GACCCGACCGTTGACCTGACCC
Found at i:874905 original size:27 final size:27
Alignment explanation
Indices: 874874--874945 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
874864 TTTGATCGGT
* *
874874 CTGACCCGACCGTTGACTCGACCCGAC
1 CTGACCTGACCGTTGACCCGACCCGAC
874901 CTGACCGTTGACC--TGACCCGACCCGAC
1 CTGACC--TGACCGTTGACCCGACCCGAC
*
874928 CCGACCTGACCGTTGACC
1 CTGACCTGACCGTTGACC
874946 GTTGACCGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 5 0.13
27 29 0.76
29 4 0.11
ACGTcount: A:0.18, C:0.44, G:0.22, T:0.15
Consensus pattern (27 bp):
CTGACCTGACCGTTGACCCGACCCGAC
Found at i:874923 original size:10 final size:10
Alignment explanation
Indices: 874893--874938 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
874883 CCGTTGACTC
874893 GACCCGACCT
1 GACCCGACCT
*
874903 GACCGTTGACCT
1 GACC--CGACCT
*
874915 GACCCGACCC
1 GACCCGACCT
874925 GACCCGACCT
1 GACCCGACCT
874935 GACC
1 GACC
874939 GTTGACCGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 21 0.70
12 9 0.30
ACGTcount: A:0.20, C:0.48, G:0.22, T:0.11
Consensus pattern (10 bp):
GACCCGACCT
Found at i:874946 original size:7 final size:7
Alignment explanation
Indices: 874934--874958 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
874924 CGACCCGACC
874934 TGACCGT
1 TGACCGT
874941 TGACCGT
1 TGACCGT
874948 TGACCGT
1 TGACCGT
874955 TGAC
1 TGAC
874959 TTTCTTTGAC
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:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (7 bp):
TGACCGT
Found at i:875894 original size:63 final size:63
Alignment explanation
Indices: 875826--875949 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
875816 CTAATGTGAC
* ** * *
875826 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
875889 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
875950 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:879408 original size:13 final size:13
Alignment explanation
Indices: 879390--879414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
879380 CAACGATGCA
879390 ATATTAACACATG
1 ATATTAACACATG
879403 ATATTAACACAT
1 ATATTAACACAT
879415 AAGATCAACA
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:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
ATATTAACACATG
Found at i:884940 original size:15 final size:14
Alignment explanation
Indices: 884916--884957 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
884906 CCTCGGTAAG
*
884916 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
884931 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
884945 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
884958 GCTGCGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:884948 original size:20 final size:20
Alignment explanation
Indices: 884916--884957 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
884906 CCTCGGTAAG
*
884916 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
884936 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
884956 TT
1 TT
884958 GCTGCGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Done.