Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002881.1 Hibiscus syriacus cultivar Beakdansim tig00005939_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: 1746118
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:3088 original size:29 final size:31
Alignment explanation
Indices: 3039--3101 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
3029 CTTTTGATCC
*
3039 CTAAACTTTTACAAAGTTTATACTTTAGCCA
1 CTAAACTTTTACAAAGCTTATACTTTAGCCA
* *
3070 CTAAAC-TTT-CAAAGCTTATATTTTAGTCA
1 CTAAACTTTTACAAAGCTTATACTTTAGCCA
3099 CTA
1 CTA
3102 GCCAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.69
30 3 0.10
31 6 0.21
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (31 bp):
CTAAACTTTTACAAAGCTTATACTTTAGCCA
Found at i:6245 original size:2 final size:2
Alignment explanation
Indices: 6238--6278 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6228 TAATTGCATC
6238 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6279 TGTCAGTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13834 original size:16 final size:16
Alignment explanation
Indices: 13790--13850 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
13780 TCAATTTGAA
*
13790 TTGGATTACTTTTGAT
1 TTGGATTACTTTCGAT
*
13806 TTGTG-TTATTTTCGAT
1 TTG-GATTACTTTCGAT
*
13822 TTGGATTACTTTCAAT
1 TTGGATTACTTTCGAT
* *
13838 TCGGATTATTTTC
1 TTGGATTACTTTC
13851 AGTTGGATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
15 1 0.03
16 35 0.95
17 1 0.03
ACGTcount: A:0.18, C:0.10, G:0.16, T:0.56
Consensus pattern (16 bp):
TTGGATTACTTTCGAT
Found at i:15734 original size:11 final size:11
Alignment explanation
Indices: 15718--15744 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15708 CATATTTATT
15718 GTTATAATTTA
1 GTTATAATTTA
15729 GTTATAATTTA
1 GTTATAATTTA
15740 GTTAT
1 GTTAT
15745 TCATCACTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (11 bp):
GTTATAATTTA
Found at i:15991 original size:30 final size:30
Alignment explanation
Indices: 15919--16009 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 30
15909 TCTAAAGTAA
* *
15919 TTTTTTATCAAAAT-GAGTACTTAAAATTATC
1 TTTTTTATCAAAATAG-GTAATTAAAA-TATT
**
15950 TTTTTGGTCAAAATAGGTAATTAAAATATT
1 TTTTTTATCAAAATAGGTAATTAAAATATT
* *
15980 TTTTTTCTCAAAATA-GAAATCTAAAATATT
1 TTTTTTATCAAAATAGGTAAT-TAAAATATT
16010 CAATTTTTTC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 4 0.08
30 25 0.49
31 21 0.41
32 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (30 bp):
TTTTTTATCAAAATAGGTAATTAAAATATT
Found at i:16187 original size:29 final size:30
Alignment explanation
Indices: 16120--16196 Score: 102
Period size: 31 Copynumber: 2.6 Consensus size: 30
16110 TTTGATATAG
* * *
16120 AATATTTTAGGTATCTATTTTGACTAAAAA
1 AATATTTTAAGTATTTATTTTGACAAAAAA
*
16150 GATAATTTTAAGTATTTATTTTGA-AAAAAA
1 AAT-ATTTTAAGTATTTATTTTGACAAAAAA
16180 AATATTTTAAGTATTTA
1 AATATTTTAAGTATTTA
16197 AATAAAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 14 0.34
30 9 0.22
31 18 0.44
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (30 bp):
AATATTTTAAGTATTTATTTTGACAAAAAA
Found at i:16205 original size:29 final size:29
Alignment explanation
Indices: 16145--16227 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
16135 TATTTTGACT
* ** **
16145 AAAAAGATAATTTTAAGTATTTATTTTGAA
1 AAAAAAAT-ATTTTAAGTATTTAAATAAAA
16175 AAAAAAATATTTTAAGTATTTAAATAAAA
1 AAAAAAATATTTTAAGTATTTAAATAAAA
* *
16204 AATAAAATATACTATAAGTATTTA
1 AA-AAAA-ATATTTTAAGTATTTA
16228 TTTATGATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 19 0.43
30 11 0.25
31 14 0.32
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (29 bp):
AAAAAAATATTTTAAGTATTTAAATAAAA
Found at i:20190 original size:20 final size:20
Alignment explanation
Indices: 20165--20257 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
20155 TTTTCCCAAT
20165 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
20185 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
20205 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
20226 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
20247 TCGCAATGCGA
1 TCGCAATGCGA
20258 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:20207 original size:41 final size:41
Alignment explanation
Indices: 20162--20257 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
20152 CGATTTTCCC
20162 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
20203 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
20244 AAATCGCAATGCGA
1 AATTCGCAATGCGA
20258 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:20211 original size:21 final size:20
Alignment explanation
Indices: 20165--20257 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
20155 TTTTCCCAAT
*
20165 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
20185 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
20205 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
20226 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
20247 TCGCAATGCGA
1 TCGCAATGCGA
20258 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:20271 original size:20 final size:20
Alignment explanation
Indices: 20246--20339 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
20236 AATTGGGAAA
*
20246 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
20266 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
20287 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
20307 TTCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
*
20327 TTCGCAACGCGAT
1 ATCGCAACGCGAT
20340 TTACTTAGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:20320 original size:41 final size:41
Alignment explanation
Indices: 20243--20320 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
20233 GCGAATTGGG
* * **
20243 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
* *
20284 AAAATCGCAACGAGATACTTACTTTCGCAACACGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATA
20321 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
Found at i:20917 original size:19 final size:19
Alignment explanation
Indices: 20893--20937 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
20883 GCAACGAGAT
*
20893 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
20912 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
20931 AATCGCA
1 AATCGCA
20938 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:20955 original size:19 final size:19
Alignment explanation
Indices: 20933--21117 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
20923 GAAACCAAAA
*
20933 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
20952 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* * *
20971 TCGAGTTGGGATTTTAATT
1 TCGCGTTGCGATTTTCATT
20990 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
21010 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
21026 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
21043 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
21057 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
21076 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
21096 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
21116 TC
1 TC
21118 AACCAAAAGA
Statistics
Matches: 134, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 57 0.43
20 48 0.36
21 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.23, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:21008 original size:39 final size:38
Alignment explanation
Indices: 20938--21022 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 38
20928 CAAAATCGCA
*
20938 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGAG
1 TTGCGATTTTAATTTCGCGTTGCGATTTTCATTTCGAG
* *
20976 TTGGGATTTTAATTTCGCGGTTGCGATTTTCATTTCGCG
1 TTGCGATTTTAATTTCGC-GTTGCGATTTTCATTTCGAG
21015 TTGCGATT
1 TTGCGATT
21023 GTCTGGTCGC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 16 0.38
39 26 0.62
ACGTcount: A:0.13, C:0.16, G:0.24, T:0.47
Consensus pattern (38 bp):
TTGCGATTTTAATTTCGCGTTGCGATTTTCATTTCGAG
Found at i:21042 original size:33 final size:33
Alignment explanation
Indices: 21005--21092 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
20995 GTTGCGATTT
* *
21005 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
21038 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
21071 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
21093 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:21094 original size:20 final size:20
Alignment explanation
Indices: 21060--21117 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
21050 GCGATTCTCT
**
21060 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
21080 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
21100 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
21118 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:23201 original size:42 final size:42
Alignment explanation
Indices: 23118--23210 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
23108 GCCCGACTCG
* * * *
23118 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAATAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
23160 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* *
23202 ACTGTCATC
1 CCTATCATC
23211 GTTGAAGAGG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.22, C:0.39, G:0.15, T:0.25
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:24618 original size:14 final size:14
Alignment explanation
Indices: 24599--24634 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
24589 ATTGTTTAAT
24599 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
24613 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
24627 TGATTTGT
1 TGATTTGT
24635 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:24835 original size:19 final size:19
Alignment explanation
Indices: 24813--24930 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
24803 CGAAATTAAA
24813 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
24832 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
24847 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
24865 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
24880 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
24898 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
24917 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
24931 GGACATTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 34 0.47
20 10 0.14
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:24859 original size:33 final size:33
Alignment explanation
Indices: 24817--24910 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
24807 ATTAAATTCG
24817 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
24850 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
24883 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
24911 AGTAATTTCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:27224 original size:12 final size:12
Alignment explanation
Indices: 27207--27231 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27197 TCTTCGGGGA
27207 CTTTTTCTTCTT
1 CTTTTTCTTCTT
27219 CTTTTTCTTCTT
1 CTTTTTCTTCTT
27231 C
1 C
27232 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:28708 original size:14 final size:14
Alignment explanation
Indices: 28689--28725 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
28679 CATCAATTAA
28689 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
28703 ACAAATCATCTTTT
1 ACAAATCAACATTT
28717 ACAAATCAA
1 ACAAATCAA
28726 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:29115 original size:20 final size:20
Alignment explanation
Indices: 29090--29140 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
29080 ATTCATTTGA
29090 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGTGAAAATGG
29110 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGTGAAAATGG
*
29130 TTATCGCAACG
1 CTATCGCAACG
29141 AGAATATCGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (20 bp):
CTATCGCAACGTGAAAATGG
Found at i:29190 original size:14 final size:15
Alignment explanation
Indices: 29170--29242 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 15
29160 TGAAAATCGC
29170 ATTGCGATTTTCTCG
1 ATTGCGATTTTCTCG
29185 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC---TCG
*
29202 CATTGCGATTTCATTTCG
1 -ATTGCGATTT--TCTCG
29220 CATTGCGATTTTCTCG
1 -ATTGCGATTTTCTCG
29236 -TTGCGAT
1 ATTGCGAT
29243 AGCCATTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.37
16 4 0.08
17 3 0.06
18 14 0.29
19 9 0.18
21 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (15 bp):
ATTGCGATTTTCTCG
Found at i:29207 original size:19 final size:19
Alignment explanation
Indices: 29166--29232 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
29156 GAAATGAAAA
29166 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
29182 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
29199 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
29217 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
29233 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
18 18 0.40
19 10 0.22
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:29368 original size:14 final size:14
Alignment explanation
Indices: 29349--29385 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
29339 CATCAATTAA
29349 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
29363 ACAAATCATCTTTT
1 ACAAATCAACATTT
29377 ACAAATCAA
1 ACAAATCAA
29386 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:31286 original size:20 final size:19
Alignment explanation
Indices: 31251--31317 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
31241 GAAACTTAAA
31251 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
31270 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
31290 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
31309 ATCGCAACG
1 ATCGCAACG
31318 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:31325 original size:14 final size:14
Alignment explanation
Indices: 31306--31363 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
31296 ATGCGAAATG
31306 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
31320 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
31336 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
31352 AAAATCGCAACG
1 AAAATCGCAACG
31364 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:31348 original size:32 final size:33
Alignment explanation
Indices: 31290--31368 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
31280 GGAAATGGCT
*
31290 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
31323 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
31355 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
31369 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:31397 original size:19 final size:19
Alignment explanation
Indices: 31375--31456 Score: 86
Period size: 18 Copynumber: 4.6 Consensus size: 19
31365 GAAACACAAA
*
31375 TCGCATTGCGATTTTCTTT
1 TCGCATTGCGATTTTCATT
*
31394 TCGCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
* *
31412 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
31428 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
31445 TCGCATTGCGAT
1 TCGCATTGCGAT
31457 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.11
15 3 0.06
16 4 0.07
17 4 0.07
18 20 0.37
19 17 0.31
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:31475 original size:20 final size:19
Alignment explanation
Indices: 31441--31495 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
31431 TTGCGATTTT
*
31441 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
31460 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
31480 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
31496 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:31994 original size:18 final size:18
Alignment explanation
Indices: 31968--32012 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
31958 GTTGATCAGA
*
31968 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
31986 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
32004 TGATGGCTC
1 TGATGGCTC
32013 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:33354 original size:20 final size:20
Alignment explanation
Indices: 33329--33366 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33319 AATAGTTTCT
33329 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
33349 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
33367 GAGAGAATCG
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:33655 original size:22 final size:22
Alignment explanation
Indices: 33630--33673 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33620 GATTTAGATA
33630 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
33652 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
33674 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:33886 original size:20 final size:20
Alignment explanation
Indices: 33861--33954 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
33851 GATTATGTAT
33861 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
33881 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
33901 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
33922 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
33942 TATCGCATTGCGA
1 TATCGCGTTGCGA
33955 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:33955 original size:20 final size:20
Alignment explanation
Indices: 33841--33955 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
33831 CGCTTTGAAA
*
33841 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
33862 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
33882 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
33902 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
33923 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
33943 ATCGCATTGCGAT
1 ATCGCATTGCGAT
33956 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:33974 original size:41 final size:41
Alignment explanation
Indices: 33883--34017 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
33873 AAAGTCAGTA
* * * ** *
33883 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
33923 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
33965 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
34006 TCGCGTTGCGAT
1 TCGCGTTGCGAT
34018 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:33988 original size:20 final size:20
Alignment explanation
Indices: 33944--34036 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
33934 ATAGTCAGTA
* **
33944 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
33965 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
33985 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
34006 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
34026 TCGCATTGCGA
1 TCGCATTGCGA
34037 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:34018 original size:41 final size:41
Alignment explanation
Indices: 33944--34039 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
33934 ATAGTCAGTA
*
33944 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
33985 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
34026 TCGCATTGCGAATT
1 TCGCATTGCGAATT
34040 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:34701 original size:21 final size:21
Alignment explanation
Indices: 34677--34727 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
34667 TCTATTGAGT
34677 ACTATCACAACAGTATTGTGA
1 ACTATCACAACAGTATTGTGA
34698 ACTATCACAACAGTATTGTGA
1 ACTATCACAACAGTATTGTGA
34719 ACTATCACA
1 ACTATCACA
34728 TTAATATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (21 bp):
ACTATCACAACAGTATTGTGA
Found at i:34735 original size:21 final size:21
Alignment explanation
Indices: 34677--34737 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
34667 TCTATTGAGT
*
34677 ACTATCACAACAGTATTGTGA
1 ACTATCACAACAATATTGTGA
*
34698 ACTATCACAACAGTATTGTGA
1 ACTATCACAACAATATTGTGA
**
34719 ACTATCACATTAATATTGT
1 ACTATCACAACAATATTGT
34738 AGATTGTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (21 bp):
ACTATCACAACAATATTGTGA
Found at i:36286 original size:2 final size:2
Alignment explanation
Indices: 36279--36310 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36269 TTTTACACAA
36279 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36311 GCTTTGATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38655 original size:31 final size:31
Alignment explanation
Indices: 38620--38718 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 31
38610 AAAATATAAT
38620 ATTTAGTCACTTTTATTTTTATTTAATTAAG
1 ATTTAGTCACTTTTATTTTTATTTAATTAAG
* ** *
38651 ATTTAATCA----TATTTAAATAATAATTAAG
1 ATTTAGTCACTTTTATTTTTAT-TTAATTAAG
*
38679 ATTTAGTTACTTTTATTTTTATTTAATTAAG
1 ATTTAGTCACTTTTATTTTTATTTAATTAAG
*
38710 ACTTAGTCA
1 ATTTAGTCA
38719 TTTAGGGTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
27 7 0.13
28 15 0.29
31 23 0.44
32 7 0.13
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (31 bp):
ATTTAGTCACTTTTATTTTTATTTAATTAAG
Found at i:39562 original size:20 final size:20
Alignment explanation
Indices: 39525--39567 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
39515 CCTGACATAT
* *
39525 TTTTTAATATTAAAAAATAA
1 TTTTTAAAAATAAAAAATAA
* *
39545 TTTTTAAAAATAACAAATTA
1 TTTTTAAAAATAAAAAATAA
39565 TTT
1 TTT
39568 CGTTCCAGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTTTAAAAATAAAAAATAA
Found at i:41105 original size:31 final size:31
Alignment explanation
Indices: 41065--41137 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
41055 GAAACATAAT
* *
41065 ATTTAGTCACTTTTATTTTTATTTAATTAAG
1 ATTTGGTCACTTTTAGTTTTATTTAATTAAG
* *
41096 ATTTGGTCACTTTTGGTTTTATTTGATTAAG
1 ATTTGGTCACTTTTAGTTTTATTTAATTAAG
* *
41127 ATATGATCACT
1 ATTTGGTCACT
41138 GATGGTTAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.26, C:0.08, G:0.12, T:0.53
Consensus pattern (31 bp):
ATTTGGTCACTTTTAGTTTTATTTAATTAAG
Found at i:41144 original size:31 final size:31
Alignment explanation
Indices: 41081--41144 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
41071 TCACTTTTAT
* * **
41081 TTTTATTTAATTAAGATTTGGTCACTTTTGG
1 TTTTATTTAATTAAGATATGATCACTGATGG
*
41112 TTTTATTTGATTAAGATATGATCACTGATGG
1 TTTTATTTAATTAAGATATGATCACTGATGG
41143 TT
1 TT
41145 AACTGTCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.52
Consensus pattern (31 bp):
TTTTATTTAATTAAGATATGATCACTGATGG
Found at i:41695 original size:31 final size:31
Alignment explanation
Indices: 41648--41716 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
41638 ACCCTCAGTA
* **
41648 ACTACATCTTAATTAAATAAAAACGGAAGTG
1 ACTAAATCTTAATTAAATAAAAACAAAAGTG
*
41679 ACTAAATCTTACTTAAATAAAAACAAAAGTG
1 ACTAAATCTTAATTAAATAAAAACAAAAGTG
*
41710 ACCAAAT
1 ACTAAAT
41717 ATTATGCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (31 bp):
ACTAAATCTTAATTAAATAAAAACAAAAGTG
Found at i:43364 original size:30 final size:30
Alignment explanation
Indices: 43329--43394 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
43319 AGAACCGGAA
*
43329 GAACCGGCTGAAAACCGATAAAACCGGGGT
1 GAACCGGCTGAAAACCGACAAAACCGGGGT
**
43359 GAACCGGCTGAAAACCGACAAAACCGGTTT
1 GAACCGGCTGAAAACCGACAAAACCGGGGT
43389 GAACCG
1 GAACCG
43395 CCGGTTCACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.36, C:0.26, G:0.27, T:0.11
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGACAAAACCGGGGT
Found at i:44799 original size:2 final size:2
Alignment explanation
Indices: 44792--44830 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
44782 GGTAACTATT
44792 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
44831 TAATTCTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:50044 original size:29 final size:30
Alignment explanation
Indices: 50011--50077 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
50001 TTAAAACCTA
* *
50011 GATGCATGTGCATGACATG-AACTAATATG
1 GATGCATGTGCATAACATGCAACCAATATG
* *
50040 GATGCATGTGCATAACTTGCAACCGATATG
1 GATGCATGTGCATAACATGCAACCAATATG
50070 GATGCATG
1 GATGCATG
50078 AGTTTGGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (30 bp):
GATGCATGTGCATAACATGCAACCAATATG
Found at i:60127 original size:35 final size:36
Alignment explanation
Indices: 60084--60162 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
60074 TGGCAACCAA
60084 CTTTGAAAAATG-TTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
60119 CTTTGAAAAATGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
60155 -GTTGAAAA
1 CTTTGAAAA
60163 TAAGAATGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 19 0.46
36 22 0.54
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:61360 original size:15 final size:15
Alignment explanation
Indices: 61336--61367 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
61326 TGGCAGATCC
*
61336 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
61351 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
61366 AA
1 AA
61368 GAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:62215 original size:15 final size:15
Alignment explanation
Indices: 62191--62222 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
62181 TGGCAGATCC
*
62191 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
62206 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
62221 AA
1 AA
62223 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:64764 original size:15 final size:15
Alignment explanation
Indices: 64740--64771 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
64730 TGGCAGATCC
*
64740 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
64755 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
64770 AA
1 AA
64772 GAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:65580 original size:854 final size:855
Alignment explanation
Indices: 61189--68862 Score: 13147
Period size: 855 Copynumber: 9.0 Consensus size: 855
61179 ATCGAGAAAT
*
61189 AGCAAATTAAAATTCGACGATGTTCAGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
1 AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
* *
61254 GAGTGAAGCATCAACCTCATCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
66 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
*
61319 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAATATTTTACCTGT
131 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
*
61384 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATTGGCGC
196 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATCGGCGC
* * *
61449 ATAAGAATCTGCCAACGTGACAGGGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCC-A
261 ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
*
61513 TTTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCTTGCCGAGAAATCATGGA
326 -TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGA
*
61578 GAACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATTGTCG
390 GAACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCG
* * * * *
61643 AAAAAGGAGACATTCGATTAAAGCTGCCAAACCAGACCACCTAGAAGCTAACATGAGTGAGACAT
455 GAAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACAT
*
61708 ATTCCTGGCCTCAAAAGAAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAAC
520 ATTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAAC
* *
61773 CTTTTCAGGCTGTGAAGGGAAGATTATCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTG
585 CTTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTG
*
61838 GTACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATAGAAAATCA
650 GTACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATCA
*
61903 AACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTT-TCCAAAGG
715 AACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGT-CAAAAG
* *
61967 GGAAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTTCATCTTTCGCAAACAA
779 GGAAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAACAA
62032 AAGAAAGTCAAC
844 AAGAAAGTCAAC
* * *
62044 AACAAATTAAAATTCGACGATGTTCGGGATATGGTATTGAGTGAAGAAATTTGACGGAGAGAATC
1 AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
62109 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
66 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
62174 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
131 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
* * * *
62239 TATAACTGTGGCAAGAATGGCCACTTTAAAAAGGATTGTCGAGCATCGAAGAAAAATATCGGCGC
196 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATCGGCGC
* *
62304 ATAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATAATTCTAAGCGTCAACAGTCCGA
261 ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
*
62369 TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCTGAGAAATCATGGAG
326 TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGAG
*
62434 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATTGTCGG
391 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
* *
62499 AAAAGGAGATATCCGATTAAAGCTACCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACATA
456 AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACATA
*
62564 TTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTATAACC
521 TTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAACC
*
62629 TTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTTGTGGTAAGAAAACTGG
586 TTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTGG
* *
62694 TACTCTCTGTATAACCTCAAATTTAGAGAACATCATTGCAGTAGCAGATGCTGATGGAAAATCAA
651 TACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATCAA
* * *
62759 ACCTATGGCACCAAAGGCTTGGCCATATGAGTGATAAAGGGATGAAGACACTTTTGTC-AAAGAA
716 ACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGTCAAAAG-G
* * * *
62823 AAAGTTGTCGTATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTACATCTTTGGCAAACAAA
780 GAAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAACAAA
62888 AGAAAGTCAAC
845 AGAAAGTCAAC
*
62899 AGCAAATTAAAATTCGACGATGTTCAGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
1 AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
*
62964 GGGTGAAGCATCAACCTCCTCAGCCTTGCACATGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
66 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
* *
63029 CAAATCGTGGTAGATCCAAAT------C--------C-AGAACGGGAAAGAAATATTTTACCTGT
131 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
* * * *
63079 TATAACTACGGCAAGAAGGGCCACTTTAAAAATGATTGCCGAGCATCGAAGAAAAATATCGGCGT
196 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATCGGCGC
* *
63144 ACAGGAATCTACCAACGTGACAGAGGATACAGGTGATGGCATGATTCTAAGCGTCAACAGTCCGA
261 ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
* * *
63209 TTGAATCATAGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATACCGAGATATCATGGAG
326 TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGAG
63274 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
391 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
* *
63339 AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTAGAAGCTGAAAGGAGTGAGACATA
456 AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACATA
* * *
63404 TTCCTGTCCTCAAAAGGAATTTGATTTCTGTA-GAGAGCTTGATGGAGAAGGATATAGTACAACA
521 TTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAACC
63468 TTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTGG
586 TTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTGG
* *
63533 TACACTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGAAGATGCTGATGGAAAATCAA
651 TACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATCAA
* *
63598 ACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACATTTTTGTCAAAGGGG
716 ACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGTCAAAAGGG
*
63663 AAGTTGCCGGATCTAAAGAATGTAGATGTAGGACTATGCGAGGATTGCATCTTTGGCAAACAAAA
781 AAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAACAAAA
* *
63728 AAAAGTCAAT
846 GAAAGTCAAC
* *
63738 AGCAAATTAAAATTCGACGATGTTCGGGATATGGTATTGAGTGAAGAAATTCGAAGGAGAGAATC
1 AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
63803 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
66 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
* * *
63868 CAAATCGTGGCAGATCCAAATCCAGAACGGAAAAATCAAGAACGAGAAAGAAATATTTTACCTGT
131 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
** *
63933 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTATCGAGCACCGAAGAAAAATATTGGCGC
196 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATCGGCGC
* * *
63998 ACAGGAATTTGCCAACGTGACAGATGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCTGA
261 ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
*
64063 TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGTAG
326 TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGAG
* *
64128 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATTGTCGA
391 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
* *
64193 AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGTCCACCTGGATGCTGACAGGAGTGAGACATA
456 AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACATA
*
64258 TTCCTGGCCTCAAAAGGAATTTGATTTCTATAGGACAGCTTGATGGAGAAGGATATAGTACAACC
521 TTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAACC
*
64323 TTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGGTCGTGGTAAGAAAACTGG
586 TTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTGG
*
64388 TACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGACGCTGATGGAAAATCAA
651 TACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATCAA
* * * *
64453 ACCTATGGCACCAAAGGCTTGGCCATATGAGTGAGAAAGTGATAAAGACACTTTTGTC-AAAGAA
716 ACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGTCAAAAG-G
* * * *
64517 AAAGTTGTCGTATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCAACTTTGGCAAACAAA
780 GAAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAACAAA
64582 AGAAAGTCAAC
845 AGAAAGTCAAC
* *
64593 AACAAATTAAAATTCGACGATGTTCGGGATATGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
1 AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
* * *
64658 AGGTGAAGCATCAACCTCCTCAGCCTTGCACATGGAGTCCAGACGGAGAACTTCAGAAAGAAATT
66 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
*
64723 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAATATTTTACCTGT
131 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
* * *
64788 TATAACTGCGGCAAGAAGGGCCACTTTAAAAATGATTGCCGAGCATCGAAGAAAAATATCGACGC
196 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATCGGCGC
64853 ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
261 ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
* * *
64918 TTGAATCATAGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATACTGAGAAATCATGGAG
326 TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGAG
64983 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
391 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
* * *
65048 AAAAGGAGACATCTGATTAAAGCTG-CATAACCAGACCACCTGGAAACTGACAGGAGTGAGATAT
456 AAAAGGAGACATCCGATTAAAGCTGCCA-AACCAGACCACCTGGAAGCTGACAGGAGTGAGACAT
65112 ATTCCTGGCCTCAAAAGGAATTTGATTTCTGTA-GACAGCTTGATGGAGAAGGATATAGTACAAC
520 ATTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAAC
* *
65176 ATTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAATTG
585 CTTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTG
* *
65241 GTACTCTCTAAATAACCTCAAATTTAGAGAATATCATTGCAGTAGAAGATGCTGATGGAAAATCA
650 GTACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATCA
* *
65306 AACCAATGGCACCAAAGGGTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGTCAAAAGG
715 AACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGTCAAAAGG
* *
65371 GAAGTTGCCGGATCTAAAGAATGTGGATGTCGGACTATGCGAGGATTGTATCTTTGGCAAACAAA
780 GAAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAACAAA
65436 AGAAAGTCAAC
845 AGAAAGTCAAC
* * *
65447 AACAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGATGAAATTCGATGGAGAGAATC
1 AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
*
65512 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCATAAAGAAATT
66 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
65577 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
131 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
*
65642 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTACCGAGCACCGAAGAAAAATATCGGCGC
196 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATCGGCGC
*
65707 ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGTGTCAACAGTCCGA
261 ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
65772 TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGAG
326 TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGAG
65837 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
391 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
65902 AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACATA
456 AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACATA
65967 TTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAACC
521 TTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAACC
* * * *
66032 TTTTCAAGCTGTGAATTGAAGATTACCAAATGAGCACTCGGCATTGCTCGTGGTAAGAAAACTGG
586 TTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTGG
* *
66097 TACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTAATGGAAAATTAA
651 TACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATCAA
* * *
66162 ACCTATGGCACCAAAGGCTTGGCCATATGAGTGAGAAAGTGATGAAGACGCTTTTGTC-AAAGAG
716 ACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGTCAAAAG-G
* * *
66226 GAAGTTGTCGTATCTAAAGAATGTAGATGTCAGACTATGCGAGGATTGCATCTTTGGCAAACAAA
780 GAAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAACAAA
66291 AGAAAGTCAAC
845 AGAAAGTCAAC
* *
66302 AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTAAGTAAAGAAATTCGACGGAGAGAATC
1 AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
*
66367 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCATAAAGAAATT
66 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
66432 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
131 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
* *
66497 TATAACTGCGGCAAGAAGGGCCACTTTAAAAATGATTGCCGAGCATCGAAGAAAAATATCGGCGC
196 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATCGGCGC
*
66562 ACAGGAATCTGCCAACGTGACAGATGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
261 ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
* *
66627 TTGAATCATAGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCTATGCCGAGAAATCATGGAG
326 TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGAG
66692 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
391 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
*
66757 AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACTTA
456 AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACATA
*
66822 TTCCTGGCCTCAAAAGGAATTTGATTTCTGTA-GACAGCTTGATGGAGAAAGATATAGTACAACA
521 TTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAAC-
66886 TCTTTT-A-GCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACT
585 -CTTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACT
*
66949 GGTACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATAGAAAATC
649 GGTACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATC
*
67014 AAACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAATACACTTTTGT-AAAAG
714 AAACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGTCAAAAG
* *
67078 GGAAAGTTACCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAATA
779 GG-AAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAACA
*
67143 AAAGAAAGTCAAT
843 AAAGAAAGTCAAC
67156 AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
1 AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
* *
67221 GAGTGAAGCATCAACCTCCTCAGCCTTGCACATGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
66 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
* **
67286 CAAATCGTGGCAGATCCAAATCCAGAACGAGAAAATCAAGAACATGAAAGAAAGATTTTACCTGT
131 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
* * *
67351 TATAACTGTGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGTACCGAAGAAAAATATCAGCGC
196 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATCGGCGC
* * *
67416 CCAGGAATCTGCCAATGTGACAGAGGATATAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
261 ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
* * * *
67481 TTGCATAATGGATCTTGGATTCATGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGAA
326 TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGAG
* *
67546 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGTTGAAACCTTGAAGATCTTCGG
391 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
*
67611 AAAAGGAGACATCAGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACATA
456 AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACATA
* * * * *
67676 TTCCTAGCCTCAAAAGGAATTTGATTTATGTAGGACAACTTGATGGAGAATGATATAAT-CAACC
521 TTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAACC
67740 TTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTGG
586 TTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTGG
**
67805 TACTCTCTATATAATATCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATCAA
651 TACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATCAA
* * *
67870 ACCTATGGCATCAAAGGCTTGGCCATATGAGCGAGAAATGGATGAAGACACTTTTGTCAAATGGG
716 ACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGTCAAAAGGG
*
67935 AAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAAAAAAA
781 AAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAACAAAA
68000 GAAAGTCAAC
846 GAAAGTCAAC
**
68010 AGCAAATTAAAATTCGACGATAATCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
1 AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
* * *
68075 GGGTAAAGCATCAACCTCCTCAGCCTTGCATACGGAGTCCAGAGGGAGAACTTCATAAAGAAATT
66 GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
* *
68140 CAAATCGTGGCAGATCCAAATACAGAACGAGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
131 CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
* *
68205 TATAACTGCGGCAAGAAAGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATCAGCGC
196 TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATCGGCGC
** *
68270 ACAGGAATCTATCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCATCAACAGTCCGA
261 ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
* * *
68335 TTGAATAATGGATCTTGGATTCGGGAGCATCTTTCCACTCCACCCCATGCTGAGAAATCATGGAG
326 TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGAG
* * * *
68400 AACTGTGTCAGTGGTGATTTTGGGAGGGTTCATCTAGTTAATGATGAAACCTTGAAGATCTTCGG
391 AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
** *
68465 AAAAGGAGACATCCGATTAAAGCTTACAAACCAGACCACCTAGAAGCTGACAGGAGTGAGACATA
456 AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACATA
*
68530 TTCCTAGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAACC
521 TTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAACC
* ** *
68595 TTTTCAGGCTGTGAATGGAAGATTAGCAAAGGATTACTCGTCATTGCTTGTGGTAAGAAAACTGG
586 TTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTGG
* *
68660 TACTCTATATATAATCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATCAA
651 TACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATCAA
68725 ACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGTC-AAAGGA
716 ACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGTCAAAAGG-
68789 GAAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAACAAA
780 GAAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAACAAA
68854 AGAAAGTCA
845 AGAAAGTCA
68863 GCTTTGCAAA
Statistics
Matches: 6443, Mismatches: 340, Indels: 72
0.94 0.05 0.01
Matches are distributed among these distances:
839 424 0.07
840 366 0.06
841 1 0.00
845 1 0.00
849 1 0.00
852 5 0.00
853 4 0.00
854 2773 0.43
855 2861 0.44
856 7 0.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (855 bp):
AGCAAATTAAAATTCGACGATGTTCGGGATCTGGTATTGAGTGAAGAAATTCGACGGAGAGAATC
GGGTGAAGCATCAACCTCCTCAGCCTTGCACACGGAGTCCAGAGGGAGAACTTCAGAAAGAAATT
CAAATCGTGGCAGATCCAAATCCAGAACGGGAAAATCAAGAACGGGAAAGAAAGATTTTACCTGT
TATAACTGCGGCAAGAAGGGCCACTTTAAAAAGGATTGCCGAGCACCGAAGAAAAATATCGGCGC
ACAGGAATCTGCCAACGTGACAGAGGATACAGGTGATGCCATGATTCTAAGCGTCAACAGTCCGA
TTGAATCATGGATCTTGGATTCAGGAGCATCTTTCCACTCCACCCCATGCCGAGAAATCATGGAG
AACTATGTCAGTGGTGATTTTGGGAGGGTTCATCTAGCTGATGATGAAACCTTGAAGATCGTCGG
AAAAGGAGACATCCGATTAAAGCTGCCAAACCAGACCACCTGGAAGCTGACAGGAGTGAGACATA
TTCCTGGCCTCAAAAGGAATTTGATTTCTGTAGGACAGCTTGATGGAGAAGGATATAGTACAACC
TTTTCAGGCTGTGAATGGAAGATTACCAAAGGAGCACTCGTCATTGCTCGTGGTAAGAAAACTGG
TACTCTCTATATAACCTCAAATTTAGAGAATATCATTGCAGTAGCAGATGCTGATGGAAAATCAA
ACCTATGGCACCAAAGGCTTGGCCATATGAGCGAGAAAGGGATGAAGACACTTTTGTCAAAAGGG
AAGTTGCCGGATCTAAAGAATGTAGATGTCGGACTATGCGAGGATTGCATCTTTGGCAAACAAAA
GAAAGTCAAC
Found at i:65618 original size:15 final size:15
Alignment explanation
Indices: 65594--65625 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
65584 TGGCAGATCC
*
65594 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
65609 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
65624 AA
1 AA
65626 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:66473 original size:15 final size:15
Alignment explanation
Indices: 66449--66480 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
66439 TGGCAGATCC
*
66449 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
66464 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
66479 AA
1 AA
66481 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:71408 original size:34 final size:36
Alignment explanation
Indices: 71365--71451 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 36
71355 TAAAAGTTAG
*
71365 TTTCAAAGTTTGG-CAA-CCAACTTTGAAAAATATT
1 TTTCAAAGTTTGGTAAATCCAACTTTGAAAAATATT
**** *
71399 TTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATGTT
1 TTTCAAAGTTTGGTAAATCCAACTTTGAAAAATATT
71435 TTTCAAAGTTTGGTAAA
1 TTTCAAAGTTTGGTAAA
71452 GTTTGGTAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 13 0.29
35 2 0.04
36 30 0.67
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.41
Consensus pattern (36 bp):
TTTCAAAGTTTGGTAAATCCAACTTTGAAAAATATT
Found at i:71437 original size:36 final size:35
Alignment explanation
Indices: 71385--71455 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 35
71375 TGGCAACCAA
71385 CTTTGAAAAATATTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATATTTTTCAAAGTTTGGTAAA-GTTT
*
71421 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAAGTTT
1 CTTTGAAAAATATTTTTCAAAGTTTGGTAAAGTTT
71456 GGTAGATGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 4 0.12
36 30 0.88
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.46
Consensus pattern (35 bp):
CTTTGAAAAATATTTTTCAAAGTTTGGTAAAGTTT
Found at i:83080 original size:32 final size:32
Alignment explanation
Indices: 83044--83105 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
83034 GTATTTATTC
* *
83044 ACCATAATATCTATTTGTCATTGACAACACCT
1 ACCATAATATCTATTAGTCAGTGACAACACCT
83076 ACCATAATATCTATTAGTCAGTGACAACAC
1 ACCATAATATCTATTAGTCAGTGACAACAC
83106 ACGTCCTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (32 bp):
ACCATAATATCTATTAGTCAGTGACAACACCT
Found at i:84490 original size:2 final size:2
Alignment explanation
Indices: 84483--84507 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
84473 ATTAGATTTA
84483 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
84508 AATAATGTTG
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:84757 original size:6 final size:6
Alignment explanation
Indices: 84748--84773 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
84738 AAGAGGGGAA
84748 AAAATC AAAATC AAAATC AAAATC AA
1 AAAATC AAAATC AAAATC AAAATC AA
84774 GAAATTCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:88358 original size:31 final size:31
Alignment explanation
Indices: 88309--88382 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
88299 ACTTTAAAAA
88309 AATATATTTTA-TTTTTTTCTTAACTTATTG
1 AATATATTTTATTTTTTTTCTTAACTTATTG
88339 AATATATTTTATTTTTTTTCTTAACTTATTG
1 AATATATTTTATTTTTTTTCTTAACTTATTG
88370 AATATATTTTATT
1 AATATATTTTATT
88383 CTTGCCTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 11 0.26
31 32 0.74
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (31 bp):
AATATATTTTATTTTTTTTCTTAACTTATTG
Found at i:89714 original size:18 final size:20
Alignment explanation
Indices: 89691--89732 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
89681 ACTTGGAGGA
89691 CTAAAAACCTAA-AT-TAAC
1 CTAAAAACCTAACATATAAC
89709 CTAAAAACCTAACATATAAC
1 CTAAAAACCTAACATATAAC
89729 CTAA
1 CTAA
89733 CTAAAACAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
20 8 0.36
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (20 bp):
CTAAAAACCTAACATATAAC
Found at i:91674 original size:55 final size:55
Alignment explanation
Indices: 91611--91958 Score: 354
Period size: 55 Copynumber: 6.3 Consensus size: 55
91601 TCTTCGAATG
* * * **
91611 ACGGGTCTGCTCACTATCCCTTCAGGGAGTATAAGACTC-AACCAATCTTCAGTAA
1 ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAACAA
* * * *
91666 ACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAACAA
1 ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
* *
91721 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAACAATCCTCAACAA
1 ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAA
* * * * * *
91776 ACGGG-CTTACTCCCTCTTGCTTCAGGGAGTA-GA-ACTCGAACAATCTTCAACAA
1 ACGGGTC-TGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
*
91829 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATATA-ACTCGAACAATCTTCATA-AA
1 ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATA-AGACTCGAACAATCTTCA-ACAA
* * *
91884 ACGAGTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCAAACAATCTTCATA-AA
1 ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCA-ACAA
* *
91939 ACGGGTTTGCTTCACTATTC
1 ACGGGTCTGC-TCTCTATTC
91959 TTCCGTGAAG
Statistics
Matches: 250, Mismatches: 32, Indels: 21
0.83 0.11 0.07
Matches are distributed among these distances:
53 43 0.17
54 4 0.02
55 192 0.77
56 11 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (55 bp):
ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
Found at i:91886 original size:108 final size:109
Alignment explanation
Indices: 91611--91944 Score: 371
Period size: 108 Copynumber: 3.1 Consensus size: 109
91601 TCTTCGAATG
* * * * *
91611 ACGGGTCTGCTCACTATCCCTTCAGGGAGTATAAGACTC-AACCAATCTTCAGT-AAACGTGTCT
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAA-ACTCGAA-CAATCTTCA-TAAAACGGGTCT
*
91674 GCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAACAA
63 ACTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAACAA
*
91721 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCCTCA-ACAAACGGG-CTT
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATA-AACTCGAACAATCTTCATA-AAACGGGTC-T
* *
91784 ACTCCCTCTTGC-TTCAGGGAGTA-GA-ACTCGAACAATCTTCAACAA
63 ACTCCCTATT-CATTCAGGGAGTATAAGACTCGAACAATCTTCAACAA
* **
91829 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATATAACTCGAACAATCTTCATAAAACGAGTCCGC
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATA-AACTCGAACAATCTTCATAAAACGGGTCTAC
* * * *
91894 TCTCTATTCCTTCAGAGAGTAT-AGAACTCAAACAATCTTCATA-AA
65 TCCCTATTCATTCAGGGAGTATAAG-ACTCGAACAATCTTCA-ACAA
91939 ACGGGT
1 ACGGGT
91945 TTGCTTCACT
Statistics
Matches: 193, Mismatches: 18, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
107 1 0.01
108 93 0.48
109 4 0.02
110 90 0.47
111 5 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (109 bp):
ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAACTCGAACAATCTTCATAAAACGGGTCTACT
CCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAACAA
Found at i:91930 original size:163 final size:165
Alignment explanation
Indices: 91630--91943 Score: 451
Period size: 163 Copynumber: 1.9 Consensus size: 165
91620 CTCACTATCC
** * * *
91630 CTTCAGGGAGTATAAGACTCAACCAATCTTCAGTAAACGTGTCTGCTCCCTATTCATTCAGGGAG
1 CTTCAGGGAGTATAAGACTCAACCAATCTTCAACAAACGGGTCCGCTCCCTATTCATTCAGAGAG
*
91695 TATAAGACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC
66 TATAAGACTCGAACAATCTTCAACAAACGAGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC
*
91760 GAACAATCCTCA-ACAAACGGGCTTACTCCCTCTTG
131 AAACAATCCTCATA-AAACGGGCTTACTCCCTCTTG
* * *
91795 CTTCAGGGAGTA-GA-ACTCGAA-CAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGA
1 CTTCAGGGAGTATAAGACTC-AACCAATCTTCAACAAACGGGTCCGCTCCCTATTCATTCAGAGA
91857 GTATATA-ACTCGAACAATCTTCATA-AAACGAGTCCGCTCTCTATTCCTTCAGAGAGTATAGAA
65 GTATA-AGACTCGAACAATCTTCA-ACAAACGAGTCCGCTCTCTATTCCTTCAGAGAGTATAGAA
*
91920 CTCAAACAATCTTCATAAAACGGG
128 CTCAAACAATCCTCATAAAACGGG
91944 TTTGCTTCAC
Statistics
Matches: 134, Mismatches: 11, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
163 116 0.87
164 6 0.04
165 12 0.09
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (165 bp):
CTTCAGGGAGTATAAGACTCAACCAATCTTCAACAAACGGGTCCGCTCCCTATTCATTCAGAGAG
TATAAGACTCGAACAATCTTCAACAAACGAGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC
AAACAATCCTCATAAAACGGGCTTACTCCCTCTTG
Found at i:92004 original size:37 final size:36
Alignment explanation
Indices: 91944--92014 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
91934 ATAAAACGGG
*
91944 TTTGCTTCACTATTCTTCCGTGAAGGATTATAGATGA
1 TTTGCTTCACTACTCTTCCGTGAAGGATTA-AGATGA
** *
91981 TTTGCTTCACTACTCTTTTGTGAAGGCTTAAGAT
1 TTTGCTTCACTACTCTTCCGTGAAGGATTAAGAT
92015 TGACTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 4 0.13
37 26 0.87
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (36 bp):
TTTGCTTCACTACTCTTCCGTGAAGGATTAAGATGA
Found at i:93327 original size:17 final size:17
Alignment explanation
Indices: 93302--93459 Score: 71
Period size: 15 Copynumber: 9.8 Consensus size: 17
93292 CCCCTTTTCA
*
93302 TTTCTTTTTTCTTCTTT
1 TTTCATTTTTCTTCTTT
93319 TTTCA-TTTT-TTCATTT
1 TTTCATTTTTCTTC-TTT
*
93335 TTT-A-TTTTC-TC--C
1 TTTCATTTTTCTTCTTT
*
93347 TTTCTTTTTTCTTCTTT
1 TTTCATTTTTCTTCTTT
*
93364 TTCACCATTTTTCATT-TTT
1 TT--TCATTTTTC-TTCTTT
*
93383 TTCTCATTTTTCATT-TTC
1 TT-TCATTTTTC-TTCTTT
*
93401 TTTCATTTTTCCTCTTT
1 TTTCATTTTTCTTCTTT
93418 TTT--TTCTTT-TTCTTT
1 TTTCATT-TTTCTTCTTT
93433 TTTC---TTTC-T-TTT
1 TTTCATTTTTCTTCTTT
93445 TTTCATTTCTTCTTC
1 TTTCATTT-TTCTTC
93460 AAGTGAAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 39
0.68 0.08 0.24
Matches are distributed among these distances:
12 10 0.09
13 4 0.04
14 5 0.05
15 23 0.21
16 17 0.16
17 21 0.19
18 15 0.14
19 12 0.11
20 2 0.02
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCATTTTTCTTCTTT
Found at i:93404 original size:54 final size:54
Alignment explanation
Indices: 93317--93419 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
93307 TTTTTCTTCT
* * *
93317 TTTTTCATTTTTTCATTTTTTATTTTCTCCTTTCTTTTTTCTTCTTTTTCACCA
1 TTTTTCATTTTTTCATTTTTCATTTTCTCCTTTCATTTTTCCTCTTTTTCACCA
93371 TTTTTCATTTTTTTCTCATTTTTCA-TTT-T-CTTTCATTTTTCCTCTTTTT
1 TTTTTCA--TTTTT-TCATTTTTCATTTTCTCCTTTCATTTTTCCTCTTTTT
93420 TTTCTTTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
54 25 0.58
55 1 0.02
56 8 0.19
57 9 0.21
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (54 bp):
TTTTTCATTTTTTCATTTTTCATTTTCTCCTTTCATTTTTCCTCTTTTTCACCA
Found at i:93408 original size:35 final size:35
Alignment explanation
Indices: 93369--93452 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 35
93359 TCTTTTTCAC
93369 CATTTTTCATTTTTTTCTCATTTTTC-ATTTTCTTT
1 CATTTTTCATTTTTTTCTC-TTTTTCTATTTTCTTT
* * *
93404 CATTTTTCCTCTTTTTTTTCTTTTTCTTTTTTCTTT
1 CATTTTTCAT-TTTTTTCTCTTTTTCTATTTTCTTT
*
93440 CTTTTTTTCATTT
1 C-ATTTTTCATTT
93453 CTTCTTCAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
35 15 0.37
36 19 0.46
37 7 0.17
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (35 bp):
CATTTTTCATTTTTTTCTCTTTTTCTATTTTCTTT
Found at i:93433 original size:13 final size:13
Alignment explanation
Indices: 93417--93458 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
93407 TTTTCCTCTT
93417 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
*
93430 TTTTTTCTTTCT-
1 TTTTTTCTTTTTC
93442 TTTTTTCATTTCTTC
1 TTTTTTC-TTT-TTC
93457 TT
1 TT
93459 CAAGTGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 7 0.29
13 14 0.58
14 1 0.04
15 2 0.08
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:102998 original size:45 final size:45
Alignment explanation
Indices: 102931--103081 Score: 239
Period size: 45 Copynumber: 3.3 Consensus size: 45
102921 CCATGCTTTG
* *
102931 TTATTCACAAAAATAAATCCTAACCGCATGATATCTAATCCGCATGC
1 TTATTCA-AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGC
102978 TTATTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
1 TTATTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
103023 TTATTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
1 TTATTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
*
103068 ATTTATTCGAAAAA
1 --TTATTCAAAAAA
103082 CAAAAATTAA
Statistics
Matches: 99, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
45 72 0.73
46 9 0.09
47 18 0.18
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (45 bp):
TTATTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
Found at i:104985 original size:18 final size:20
Alignment explanation
Indices: 104962--105003 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
104952 ACTTGGAGGA
104962 CTAAAAACCTAA-AT-TAAC
1 CTAAAAACCTAACATATAAC
104980 CTAAAAACCTAACATATAAC
1 CTAAAAACCTAACATATAAC
105000 CTAA
1 CTAA
105004 CTAAAACAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
20 8 0.36
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (20 bp):
CTAAAAACCTAACATATAAC
Found at i:106917 original size:18 final size:17
Alignment explanation
Indices: 106894--106940 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
106884 TGTTTCTGAG
106894 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
* *
106912 GGAATTGGAATATGTCA
1 GGAATTGGAATCTGTAA
106929 GGAATTGGAATC
1 GGAATTGGAATC
106941 CAATTCCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.34, C:0.06, G:0.32, T:0.28
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:117300 original size:31 final size:31
Alignment explanation
Indices: 117211--117341 Score: 140
Period size: 31 Copynumber: 4.2 Consensus size: 31
117201 AGAGTTGAGG
117211 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
* ***
117242 GAATTACCTATG-TCTTTCGAGACATATGGACA
1 GTA-TACCTATGTTCTAAGGA-ACATATGGACA
*
117274 GTATACCTATGTTCTAAGGAATATATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
* * ** *
117305 GTTTACCTAGGTTCTTCGGAACCTATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
117336 GT-TACC
1 GTATACC
117342 GAGGATCTTT
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
30 4 0.05
31 52 0.63
32 26 0.32
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (31 bp):
GTATACCTATGTTCTAAGGAACATATGGACA
Found at i:117387 original size:29 final size:30
Alignment explanation
Indices: 117325--117395 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 30
117315 GTTCTTCGGA
* *
117325 ACCTATGGACAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
*
117355 ACCTCTGGATAGTTACCGAGG-TCTTTGTG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
117384 ACCTCTGGATAG
1 ACCTCTGGATAG
117396 GTCCTTCGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 19 0.50
30 19 0.50
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:119733 original size:13 final size:13
Alignment explanation
Indices: 119715--119744 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
119705 ATAACCCGAA
*
119715 CCGACCCGTTTAC
1 CCGACCCGTTGAC
119728 CCGACCCGTTGAC
1 CCGACCCGTTGAC
119741 CCGA
1 CCGA
119745 TCCGACCTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.47, G:0.20, T:0.17
Consensus pattern (13 bp):
CCGACCCGTTGAC
Found at i:119749 original size:18 final size:18
Alignment explanation
Indices: 119728--119762 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
119718 ACCCGTTTAC
119728 CCGACCCGTTGACCCGAT
1 CCGACCCGTTGACCCGAT
*
119746 CCGACCTGTTGACCCGA
1 CCGACCCGTTGACCCGA
119763 CCCATTGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (18 bp):
CCGACCCGTTGACCCGAT
Found at i:119750 original size:31 final size:31
Alignment explanation
Indices: 119708--119771 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
119698 ACCGGTCATA
* *
119708 ACCCGAACCGACCCGTTTACCCGACCCGTTG
1 ACCCGAACCGACCCGTTGACCCGACCCATTG
* *
119739 ACCCGATCCGACCTGTTGACCCGACCCATTG
1 ACCCGAACCGACCCGTTGACCCGACCCATTG
119770 AC
1 AC
119772 TCGTTTACCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.44, G:0.19, T:0.17
Consensus pattern (31 bp):
ACCCGAACCGACCCGTTGACCCGACCCATTG
Found at i:121113 original size:18 final size:18
Alignment explanation
Indices: 121087--121121 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
121077 GGACTGAAGG
* *
121087 AAATGATAAGATTGGATT
1 AAATAATAAGATCGGATT
121105 AAATAATAAGATCGGAT
1 AAATAATAAGATCGGAT
121122 GGAAGTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.29
Consensus pattern (18 bp):
AAATAATAAGATCGGATT
Found at i:122335 original size:24 final size:24
Alignment explanation
Indices: 122216--122331 Score: 155
Period size: 24 Copynumber: 4.8 Consensus size: 24
122206 TTCGATTTGA
122216 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
* *
122240 ATTCTGATATGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
122264 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
122288 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
122312 AGTT-TGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
122332 CTGGTTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 1 0.01
24 78 0.95
25 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:130123 original size:20 final size:20
Alignment explanation
Indices: 130094--130132 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
130084 AGAGCTCATA
*
130094 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
130114 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
130133 GTGGTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:146684 original size:6 final size:6
Alignment explanation
Indices: 146670--146718 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
146660 CCTTCCTAAA
* * *
146670 CTCTTT CTCTAT CTCTAT CTCTAT CTCTAAT C-CTAT CTATAT CACTAT
1 CTCTAT CTCTAT CTCTAT CTCTAT CTCT-AT CTCTAT CTCTAT CTCTAT
146718 C
1 C
146719 CTTATTCATC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 3 0.08
6 31 0.84
7 3 0.08
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (6 bp):
CTCTAT
Found at i:148751 original size:31 final size:30
Alignment explanation
Indices: 148713--148777 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
148703 TTACTTGTTA
*
148713 ATAATAAATCT-ATTATTAATATTAACGATTT
1 ATAATAAAT-TGATTATTAACATTAACGA-TT
* *
148744 ATAATAAATTGGTTATTAACATTATCGATT
1 ATAATAAATTGATTATTAACATTAACGATT
148774 ATAA
1 ATAA
148778 CAAAATGGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (30 bp):
ATAATAAATTGATTATTAACATTAACGATT
Found at i:148911 original size:31 final size:31
Alignment explanation
Indices: 148852--148921 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
148842 CTTTTAAAAC
*
148852 TTGCAATACAGTCCCCCAATATTAAGTCCAT
1 TTGCAATACAGTCCCCCAACATTAAGTCCAT
* * * *
148883 TTGCAATACAGTCTCTCAACATTTAGTCCGT
1 TTGCAATACAGTCCCCCAACATTAAGTCCAT
*
148914 TTGTAATA
1 TTGCAATA
148922 TGGTCCCCGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (31 bp):
TTGCAATACAGTCCCCCAACATTAAGTCCAT
Found at i:149297 original size:50 final size:50
Alignment explanation
Indices: 149239--149364 Score: 162
Period size: 50 Copynumber: 2.5 Consensus size: 50
149229 TTAGCAGGAA
* * *
149239 AGCGCGCCCCCTGAACCGCGCTATATGTTGATTTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGGTGATCTGGCGCCACGTGGGTAT
* ** * *
149289 AGCGCGCCCCTTGCCCCGAGATATACGGTGATCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGGTGATCTGGCGCCACGTGGGTAT
* *
149339 AGCACGCCCCCTGATCCGCGCTATAC
1 AGCGCGCCCCCTGAACCGCGCTATAC
149365 CTGGATATCT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCGCTATACGGTGATCTGGCGCCACGTGGGTAT
Found at i:149447 original size:19 final size:17
Alignment explanation
Indices: 149414--149448 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
149404 GCACGCTATA
149414 CCCTTAAATCCCCATCT
1 CCCTTAAATCCCCATCT
149431 CCCTATAAATACCCCATC
1 CCCT-TAAAT-CCCCATC
149449 CTCAATCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.26
Consensus pattern (17 bp):
CCCTTAAATCCCCATCT
Found at i:149484 original size:10 final size:10
Alignment explanation
Indices: 149469--149503 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
149459 TTTATCACAC
149469 CAAATTCTCT
1 CAAATTCTCT
149479 CAAATTCTCT
1 CAAATTCTCT
149489 -AAATTTCTCT
1 CAAA-TTCTCT
149499 CAAAT
1 CAAAT
149504 ATTCTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 3 0.13
10 17 0.74
11 3 0.13
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:149508 original size:12 final size:12
Alignment explanation
Indices: 149472--149510 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 12
149462 ATCACACCAA
149472 ATTCTCTC-AA-
1 ATTCTCTCAAAT
149482 ATTCTCT-AAAT
1 ATTCTCTCAAAT
149493 -TTCTCTCAAAT
1 ATTCTCTCAAAT
149504 ATTCTCT
1 ATTCTCT
149511 TTTTAAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 15 0.60
11 4 0.16
12 6 0.24
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTCTCTCAAAT
Found at i:149827 original size:111 final size:111
Alignment explanation
Indices: 149633--149854 Score: 408
Period size: 111 Copynumber: 2.0 Consensus size: 111
149623 TGGAAATCAT
* *
149633 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
149698 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
149744 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
149809 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
149855 TTTTTGTAAT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:151037 original size:31 final size:31
Alignment explanation
Indices: 151001--151094 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
150991 CCCGAATGAC
* * *
151001 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
151032 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
151063 CAGTCCATATGTCCCGAAAAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
151094 C
1 C
151095 CCTCGACCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 57 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:152281 original size:64 final size:64
Alignment explanation
Indices: 152213--152437 Score: 235
Period size: 64 Copynumber: 3.5 Consensus size: 64
152203 TTGTTTGAAG
* * ** *
152213 GTGCATAGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATT
*
152276 T
64 A
* *
152277 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTA
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTA
* * * * * *
152341 GTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCA-ATT
152405 A
64 A
*
152406 -TGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCAT
152438 ACCTTCATTA
Statistics
Matches: 137, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
63 2 0.01
64 124 0.91
65 11 0.08
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTA
Found at i:153314 original size:103 final size:103
Alignment explanation
Indices: 153189--153408 Score: 413
Period size: 103 Copynumber: 2.1 Consensus size: 103
153179 GTCGAGGGTC
* *
153189 TATGTGGTCTTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
153254 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
153292 TATGTGGTCCTTCGGGATATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
153357 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
*
153395 TATGTGGTTCTTCG
1 TATGTGGTCCTTCG
153409 AGACATTATT
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
Found at i:153456 original size:23 final size:23
Alignment explanation
Indices: 153423--153485 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
153413 ATTATTATAT
153423 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
153446 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
153469 TGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
153486 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:158030 original size:64 final size:63
Alignment explanation
Indices: 157962--158186 Score: 256
Period size: 64 Copynumber: 3.5 Consensus size: 63
157952 TTATTTGAAG
** **
157962 GTGCATCGATGCATTGGTAGTGCATCGATGCACTCTTTTAA-AATAAATACATCGAATGCAATTT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCA-TCCATTAATAATAAA-ACATCGAATGCAATTT
** *
158026 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTA
1 GTGCATCGATGCATAAGTAGTGCATCGATGCAT-CCATTAATAATAAAACATCGAATGCAATTT
* * * * *
158090 GTGCATCGATGCATAAGGCA-TGCATCGATGCATTCCAGTAATAATACAACATCGAATACATTTT
1 GTGCATCGATGCATAA-GTAGTGCATCGATGCA-TCCATTAATAATAAAACATCGAATGCAATTT
* * *
158154 ATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCAT
158187 ACCTTCATTA
Statistics
Matches: 137, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
63 4 0.03
64 126 0.92
65 7 0.05
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (63 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATCCATTAATAATAAAACATCGAATGCAATTT
Found at i:159062 original size:103 final size:103
Alignment explanation
Indices: 158938--159160 Score: 419
Period size: 103 Copynumber: 2.2 Consensus size: 103
158928 GTCGAGGGTC
*
158938 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTAATCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
159003 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATATATATGATTCTTAAGGAGTGA
*
159041 TATGTGGTCCTTCGGGATATATGTGTAATCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTAATCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
159106 TTGATCCCTAGTATATATATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATATATATGATTCTTAAGGAGTGA
159144 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
159161 CATTATTATA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
103 117 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGATATATATGTAATCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATATATATGATTCTTAAGGAGTGA
Found at i:159210 original size:23 final size:23
Alignment explanation
Indices: 159172--159234 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
159162 ATTATTATAT
*
159172 GGCACTACGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
* * *
159195 GGTACTCCGGTACAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
*
159218 GGCACTTCGGTGCAATT
1 GGCACTCCGGTGCAATT
159235 ATATGAGCTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:160872 original size:16 final size:16
Alignment explanation
Indices: 160851--160893 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
160841 GGTAATTAAA
160851 GATTGATAAGGAATTT
1 GATTGATAAGGAATTT
* *
160867 GATTGATTAATGATTTT
1 GATTGA-TAAGGAATTT
*
160884 GAGTGATAAG
1 GATTGATAAG
160894 AACTGATGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (16 bp):
GATTGATAAGGAATTT
Found at i:161829 original size:22 final size:21
Alignment explanation
Indices: 161777--161836 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
161767 GATTTCTGGG
*
161777 CAAGGGGAATCAGTACCCATT
1 CAAGGGGAATCGGTACCCATT
161798 CAA-GGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
*
161818 CAATGGGGAATCGATACCC
1 CAA-GGGGAATCGGTACCC
161837 CTCAAGCGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 19 0.54
21 3 0.09
22 13 0.37
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGGTACCCATT
Found at i:163281 original size:23 final size:23
Alignment explanation
Indices: 163255--163299 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
163245 GCGAGTACTA
163255 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCG
*
163278 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGGAGTGCC
163300 ATATAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.27, G:0.31, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCG
Found at i:163437 original size:103 final size:103
Alignment explanation
Indices: 163311--163533 Score: 437
Period size: 103 Copynumber: 2.2 Consensus size: 103
163301 TATAATAATG
163311 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
*
163376 CACCAGACTTCACACATGTTCTAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
163414 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
163479 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
163517 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
163534 GACCCTCGAC
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 119 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.26
Consensus pattern (103 bp):
TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
CACCAGACTTCACACATGTTCCAAAGAATACATATATA
Found at i:164393 original size:64 final size:64
Alignment explanation
Indices: 164285--164509 Score: 253
Period size: 64 Copynumber: 3.5 Consensus size: 64
164275 TAATGAAGGT
* * * *
164285 ATGCATCGATGCACTACTTATGCATCGGTGCA-TAAAATGTATTCGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCATTATTAATGG
164348 G
64 G
* * *
164349 ATGCATCGATGCA-TGCCTTATGCATCGATACACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
* * **
164413 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT-TTCATTATTAATGGG
**
164476 AGTGCATCGATGCACTACCAATGCATCGATGCAC
1 A-TGCATCGATGCACTACTTATGCATCGATGCAC
164510 CTTCAAACAA
Statistics
Matches: 139, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
63 4 0.03
64 129 0.93
65 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:168732 original size:23 final size:23
Alignment explanation
Indices: 168706--168769 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
168696 CAGCTCATAT
168706 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
** * *
168729 AATTATACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
168752 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
168770 TATAATAATG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:168962 original size:103 final size:103
Alignment explanation
Indices: 168783--169002 Score: 431
Period size: 103 Copynumber: 2.1 Consensus size: 103
168773 AATAATGTCT
*
168783 CGAAGAACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCAC
1 CGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCAC
168848 CAGACTTCACACATGTTCCAAAGAATACATATATATCC
66 CAGACTTCACACATGTTCCAAAGAATACATATATATCC
168886 CGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCAC
1 CGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCAC
168951 CAGACTTCACACATGTTCCAAAGAATACATATATATCC
66 CAGACTTCACACATGTTCCAAAGAATACATATATATCC
168989 CGAAGGACCACATA
1 CGAAGGACCACATA
169003 GACCCTCGAC
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 116 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
CGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCAC
CAGACTTCACACATGTTCCAAAGAATACATATATATCC
Found at i:169862 original size:64 final size:64
Alignment explanation
Indices: 169754--169978 Score: 228
Period size: 64 Copynumber: 3.5 Consensus size: 64
169744 TAATGAAGGT
* * * * *
169754 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATATTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATATT-TCATTATTAATGG
169817 G
64 G
* * *
169818 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATATTTCATTATTAATGGG
* **
169882 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTT-ATT-TTAA-AA
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGA--TATTTCATTATTAATGG
169944 G
64 G
* **
169945 AGTGCATCGATGTACTACCAATGCATCGATGCAC
1 A-TGCATCGATGCACTACTTATGCATCGATGCAC
169979 CTTCAATCAA
Statistics
Matches: 137, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
63 4 0.03
64 125 0.91
65 4 0.03
66 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATATTTCATTATTAATGGG
Found at i:172777 original size:31 final size:31
Alignment explanation
Indices: 172739--172832 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
172729 CCCGAAGGAC
* * * *
172739 CAGTCCATA-GATTCCGAATAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
172770 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
172801 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
172832 C
1 C
172833 CCTCGACCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 57 0.98
32 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:173897 original size:21 final size:20
Alignment explanation
Indices: 173818--173893 Score: 107
Period size: 20 Copynumber: 3.7 Consensus size: 20
173808 TTCGCTTGAG
*
173818 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATT-CCC-TTGAAT
*
173840 GGTTACCGATTCCCTTGAAT
1 GGGTACCGATTCCCTTGAAT
173860 GGGTACCGATTCCCTTGAAT
1 GGGTACCGATTCCCTTGAAT
*
173880 GGGTACCTATTCCC
1 GGGTACCGATTCCC
173894 CTTGCCCAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 38 0.76
21 3 0.06
22 9 0.18
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (20 bp):
GGGTACCGATTCCCTTGAAT
Found at i:175624 original size:18 final size:18
Alignment explanation
Indices: 175600--175640 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
175590 CGCAGTAGCC
175600 ACCGCAGCCATATATGAT
1 ACCGCAGCCATATATGAT
*
175618 GCCGCAGCCATATATGAT
1 ACCGCAGCCATATATGAT
175636 ACCGC
1 ACCGC
175641 CATCGCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.20
Consensus pattern (18 bp):
ACCGCAGCCATATATGAT
Found at i:176243 original size:35 final size:33
Alignment explanation
Indices: 176204--176288 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
176194 ATATTTTAGT
176204 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
* *
176239 TAATTTGGTTATCATTTACCATTTTATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
176274 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
176289 TAAATATCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.57
36 1 0.02
37 3 0.07
38 11 0.26
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:179970 original size:50 final size:51
Alignment explanation
Indices: 179883--180016 Score: 141
Period size: 51 Copynumber: 2.6 Consensus size: 51
179873 CCCCTACGTG
* * *
179883 GCGTATAGCGCGTATCAGGGGGCGCGCTATACC-CCACGT-GTACCCAGTCA
1 GCGTATAGCGCGTATCAGGGGGCGCGCT-TTCCTCCACGTGGTACCAAATCA
* * *
179933 GTGTATAGCGCGGT-TCAGGGGGCGCGCTTTCCTCCACGTGGTGCCAAATCC
1 GCGTATAGCGC-GTATCAGGGGGCGCGCTTTCCTCCACGTGGTACCAAATCA
* *
179984 GCATATAGCGCAGTGT-AGGGGGCGCGCTTTCCT
1 GCGTATAGCGC-GTATCAGGGGGCGCGCTTTCCT
180017 GTTAAGGGTG
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
49 3 0.04
50 30 0.42
51 37 0.52
52 1 0.01
ACGTcount: A:0.16, C:0.29, G:0.33, T:0.22
Consensus pattern (51 bp):
GCGTATAGCGCGTATCAGGGGGCGCGCTTTCCTCCACGTGGTACCAAATCA
Found at i:181126 original size:5 final size:5
Alignment explanation
Indices: 181116--181147 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
181106 TTTTCAAAAA
181116 CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC CC
1 CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC CC
181148 ATCTTTCCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.81, G:0.00, T:0.19
Consensus pattern (5 bp):
CCCTC
Found at i:194914 original size:102 final size:102
Alignment explanation
Indices: 194738--194938 Score: 384
Period size: 102 Copynumber: 2.0 Consensus size: 102
194728 TGGTAGCGTT
*
194738 ACCTTGGTTATCAGGGTCGCATCGTCGGAGTTCTTGACCAATCTTCGAGCTTGCTTTCTCTCTTT
1 ACCTTGGTTATCAGGGTCGCATCGTCAGAGTTCTTGACCAATCTTCGAGCTTGCTTTCTCTCTTT
194803 TGAGGTTTGGTTTAGAGTTCATCGAGAGAGAGAGGAG
66 TGAGGTTTGGTTTAGAGTTCATCGAGAGAGAGAGGAG
*
194840 ACCTTGGTTGTCAGGGTCGCATCGTCAGAGTTCTTGACCAATCTTCGAGCTTGCTTTCTCTCTTT
1 ACCTTGGTTATCAGGGTCGCATCGTCAGAGTTCTTGACCAATCTTCGAGCTTGCTTTCTCTCTTT
194905 TGAGGTTTGGTTTAGAGTTCATCGAGAGAGAGAG
66 TGAGGTTTGGTTTAGAGTTCATCGAGAGAGAGAG
194939 AGGAGGAGGA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.35
Consensus pattern (102 bp):
ACCTTGGTTATCAGGGTCGCATCGTCAGAGTTCTTGACCAATCTTCGAGCTTGCTTTCTCTCTTT
TGAGGTTTGGTTTAGAGTTCATCGAGAGAGAGAGGAG
Found at i:210927 original size:30 final size:31
Alignment explanation
Indices: 210857--210917 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
210847 ATAAAAAATT
**
210857 AAATACTTTAGATACCTATTTTTTCCAAAAA
1 AAATACTTTAGATACCTATTTTGACCAAAAA
*
210888 AAATACTTTAGGTACCTA-TTTGACCAAAAA
1 AAATACTTTAGATACCTATTTTGACCAAAAA
210918 GATAACTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (31 bp):
AAATACTTTAGATACCTATTTTGACCAAAAA
Found at i:216096 original size:180 final size:180
Alignment explanation
Indices: 215782--216137 Score: 685
Period size: 180 Copynumber: 2.0 Consensus size: 180
215772 GTCCTCGAAT
*
215782 CTGAAGATGTAAATATTCAAACAAAAGGCCTTTAGAAAGAAAAAAGCTATCGAAATGTTCACTTA
1 CTGAAAATGTAAATATTCAAACAAAAGGCCTTTAGAAAGAAAAAAGCTATCGAAATGTTCACTTA
215847 AGAACTAAAATGCAGTCATGTGCTTGTGATGCAGCGAAATGAAAACGGTCTGGAATTGATGACCA
66 AGAACTAAAATGCAGTCATGTGCTTGTGATGCAGCGAAATGAAAACGGTCTGGAATTGATGACCA
215912 AAACCTAAGTATTTCTGAACTATAAGCTCTAAAGCTTTTATCATTAAGAA
131 AAACCTAAGTATTTCTGAACTATAAGCTCTAAAGCTTTTATCATTAAGAA
*
215962 CTGAAAATGTATATATTCAAACAAAAGGCCTTTAGAAAGAAAAAAGCTATCGAAATGTTCACTTA
1 CTGAAAATGTAAATATTCAAACAAAAGGCCTTTAGAAAGAAAAAAGCTATCGAAATGTTCACTTA
*
216027 AGAACTTAAATGCAGTCATGTGCTTGTGATGCAGCGAAATGAAAACGGTCTGGAATTGATGACCA
66 AGAACTAAAATGCAGTCATGTGCTTGTGATGCAGCGAAATGAAAACGGTCTGGAATTGATGACCA
216092 AAACCTAAGTATTTCTGAACTATAAGCTCTAAAGCTTTTATCATTA
131 AAACCTAAGTATTTCTGAACTATAAGCTCTAAAGCTTTTATCATTA
216138 GGAGACTAAT
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 173 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (180 bp):
CTGAAAATGTAAATATTCAAACAAAAGGCCTTTAGAAAGAAAAAAGCTATCGAAATGTTCACTTA
AGAACTAAAATGCAGTCATGTGCTTGTGATGCAGCGAAATGAAAACGGTCTGGAATTGATGACCA
AAACCTAAGTATTTCTGAACTATAAGCTCTAAAGCTTTTATCATTAAGAA
Found at i:225644 original size:97 final size:97
Alignment explanation
Indices: 225540--225725 Score: 372
Period size: 97 Copynumber: 1.9 Consensus size: 97
225530 GGCTTTCGTC
225540 TCTCTCTCTCTCTCTCTCTTAATTCAACAAATTGAAGAACATTTTTTAGGCATTTGATCTTATTG
1 TCTCTCTCTCTCTCTCTCTTAATTCAACAAATTGAAGAACATTTTTTAGGCATTTGATCTTATTG
225605 ATATGATTTATGCTGATTTTTTTTGTTTTTCG
66 ATATGATTTATGCTGATTTTTTTTGTTTTTCG
225637 TCTCTCTCTCTCTCTCTCTTAATTCAACAAATTGAAGAACATTTTTTAGGCATTTGATCTTATTG
1 TCTCTCTCTCTCTCTCTCTTAATTCAACAAATTGAAGAACATTTTTTAGGCATTTGATCTTATTG
225702 ATATGATTTATGCTGATTTTTTTT
66 ATATGATTTATGCTGATTTTTTTT
225726 TCCGTTAAGG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.50
Consensus pattern (97 bp):
TCTCTCTCTCTCTCTCTCTTAATTCAACAAATTGAAGAACATTTTTTAGGCATTTGATCTTATTG
ATATGATTTATGCTGATTTTTTTTGTTTTTCG
Found at i:227148 original size:20 final size:21
Alignment explanation
Indices: 227123--227161 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
227113 AAATGTTCAG
227123 TACATTT-TTTGTTCTTTTAA
1 TACATTTATTTGTTCTTTTAA
*
227143 TACATTTATTTGTTGTTTT
1 TACATTTATTTGTTCTTTT
227162 TGAGAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (21 bp):
TACATTTATTTGTTCTTTTAA
Found at i:230169 original size:23 final size:23
Alignment explanation
Indices: 230139--230187 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
230129 TAAAGAACCA
230139 AAAATAAACT-TAAATATACCATT
1 AAAATAAACTCTAAATAT-CCATT
*
230162 AAAATAAAGTCTAAATATCCATT
1 AAAATAAACTCTAAATATCCATT
230185 AAA
1 AAA
230188 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATAAACTCTAAATATCCATT
Found at i:237002 original size:3 final size:3
Alignment explanation
Indices: 236994--237027 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
236984 CAATGTGAGT
*
236994 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
237028 CCTTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Done.