Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008196.1 Hibiscus syriacus cultivar Beakdansim tig00110815_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: 117950
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:4191 original size:21 final size:21
Alignment explanation
Indices: 4165--4227 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
4155 TTTTGGTGCA
*
4165 GAGGGAATCGATCCCCCCCCT
1 GAGGGAACCGATCCCCCCCCT
* **
4186 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATCCCCCCCCT
*
4207 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATCCCCCCC
4228 ACAGGGAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 18 0.51
22 1 0.03
23 16 0.46
ACGTcount: A:0.21, C:0.38, G:0.25, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCCCT
Found at i:7693 original size:13 final size:13
Alignment explanation
Indices: 7670--7702 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
7660 CTCACAAGAG
7670 CCTTATCTCCCTTT
1 CCTT-TCTCCCTTT
7684 CCTTTCTCCCTTT
1 CCTTTCTCCCTTT
7697 -CTTTCT
1 CCTTTCT
7703 TTCTCGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 9 0.47
14 4 0.21
ACGTcount: A:0.03, C:0.42, G:0.00, T:0.55
Consensus pattern (13 bp):
CCTTTCTCCCTTT
Found at i:7851 original size:33 final size:33
Alignment explanation
Indices: 7804--7870 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
7794 ATAATTTAGG
7804 TGTCACCGGCTGCCTCAATTATTTCACCAATAA
1 TGTCACCGGCTGCCTCAATTATTTCACCAATAA
*
7837 TGTCACCGGTTGCCTCAATTATTTCACCAATAA
1 TGTCACCGGCTGCCTCAATTATTTCACCAATAA
7870 T
1 T
7871 TGTGCATTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (33 bp):
TGTCACCGGCTGCCTCAATTATTTCACCAATAA
Found at i:8021 original size:18 final size:19
Alignment explanation
Indices: 7989--8027 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
7979 AGGCATGCAG
7989 CGGGAGCAGGAGGGGAGCA
1 CGGGAGCAGGAGGGGAGCA
8008 CGGGAGCA-GAGGGGAGCA
1 CGGGAGCAGGAGGGGAGCA
8026 CG
1 CG
8028 TGAAGCTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.26, C:0.18, G:0.56, T:0.00
Consensus pattern (19 bp):
CGGGAGCAGGAGGGGAGCA
Found at i:8084 original size:29 final size:28
Alignment explanation
Indices: 8043--8117 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
8033 CTTGGCCGTC
*
8043 GGGACTGCTTGGCGACCTACAAGGTCGCT
1 GGGAGTGCTTGGCGACCT-CAAGGTCGCT
* **
8072 GGGAGTGCATGGCGACCTTTAGGTCGCT
1 GGGAGTGCTTGGCGACCTCAAGGTCGCT
8100 GGGAGTGCTTGGCGACCT
1 GGGAGTGCTTGGCGACCT
8118 TGTAGGGGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 25 0.61
29 16 0.39
ACGTcount: A:0.15, C:0.24, G:0.39, T:0.23
Consensus pattern (28 bp):
GGGAGTGCTTGGCGACCTCAAGGTCGCT
Found at i:8554 original size:32 final size:29
Alignment explanation
Indices: 8514--8576 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
8504 AAATTCTAAC
8514 TTGATCTACATATTTCAGATAAAATATTAAT
1 TTGATCTACA-ATTT-AGATAAAATATTAAT
* *
8545 TTGACTCTACACTTTAGATAAAGTATTAAT
1 TTGA-TCTACAATTTAGATAAAATATTAAT
8575 TT
1 TT
8577 AACTTTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 16 0.55
31 7 0.24
32 6 0.21
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (29 bp):
TTGATCTACAATTTAGATAAAATATTAAT
Found at i:11816 original size:22 final size:24
Alignment explanation
Indices: 11760--11816 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
11750 ATAAACAAAC
*
11760 GTTAAAAAATATATTTATGAACAT
1 GTTAAATAATATATTTATGAACAT
* *
11784 -TAAAATGAATATATTTGT-AA-AT
1 GTTAAAT-AATATATTTATGAACAT
11806 GTTAAATAATA
1 GTTAAATAATA
11817 CGTTGTTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
22 6 0.22
23 11 0.41
24 10 0.37
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.39
Consensus pattern (24 bp):
GTTAAATAATATATTTATGAACAT
Found at i:20928 original size:49 final size:48
Alignment explanation
Indices: 20870--20968 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 48
20860 TAAAAAAACC
* *
20870 CAGATCCAAAATCGTTCATTTCCA-CGA-ATAGAGAAAAAAATCCAGTTTT
1 CAGATCCAAAATCGTTCATTTACACCAACATAG-GAAAAAAAT--AGTTTT
*
20919 CAGATCCAAAATCGTTCCTTTACACCAACATAGGAAAAAAATAGTTTT
1 CAGATCCAAAATCGTTCATTTACACCAACATAGGAAAAAAATAGTTTT
20967 CA
1 CA
20969 AATAGGGAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
48 8 0.18
49 22 0.49
50 11 0.24
51 4 0.09
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.26
Consensus pattern (48 bp):
CAGATCCAAAATCGTTCATTTACACCAACATAGGAAAAAAATAGTTTT
Found at i:31485 original size:26 final size:26
Alignment explanation
Indices: 31445--31514 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
31435 CACCGAAGGA
** *
31445 CGGTGGCTCGCCGACGACATCACCAC
1 CGGTGGCTCATCGACAACATCACCAC
31471 CGGTGGCTCATCGACAACATCACCAC
1 CGGTGGCTCATCGACAACATCACCAC
* *
31497 CTGTGGCTCATTGACAAC
1 CGGTGGCTCATCGACAAC
31515 CTCATCGGCG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.23, C:0.37, G:0.23, T:0.17
Consensus pattern (26 bp):
CGGTGGCTCATCGACAACATCACCAC
Found at i:32940 original size:14 final size:15
Alignment explanation
Indices: 32907--32946 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
32897 CACTATATAT
*
32907 TTTTTTGGGGCCCCA
1 TTTTTTGGGACCCCA
32922 TTTTTTGGGACCCCA
1 TTTTTTGGGACCCCA
32937 TTTTTTGGGA
1 TTTTTTGGGA
32947 GGCCCTGCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.10, C:0.20, G:0.25, T:0.45
Consensus pattern (15 bp):
TTTTTTGGGACCCCA
Found at i:33231 original size:21 final size:21
Alignment explanation
Indices: 33207--33267 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
33197 AACTTTGAAA
33207 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
33228 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
*
33242 AAATGATTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
33263 AAATG
1 AAATG
33268 TTTCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.33
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:33244 original size:37 final size:37
Alignment explanation
Indices: 33199--33320 Score: 155
Period size: 35 Copynumber: 3.4 Consensus size: 37
33189 TCGTAACCAA
*
33199 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
33236 CTTTG--AAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* * *
33271 CTTTGAAAAATAT-TTTTTCAAAGTTTGATAGATGTTT
1 CTTTGAAAAA-ATGATTTTCAAAGTTTGGTAAATGTTT
*
33308 -GTTG-AAAAATGAT
1 CTTTGAAAAAATGAT
33321 AATGGAATAA
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
34 2 0.03
35 39 0.52
36 3 0.04
37 29 0.39
38 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:37853 original size:35 final size:34
Alignment explanation
Indices: 37796--37888 Score: 100
Period size: 35 Copynumber: 2.7 Consensus size: 34
37786 TGAAAGTATT
*
37796 AAAATGGTTTT-TAAGTTTGGTAA-CCAACTTTG
1 AAAATGGTTTTCAAAGTTTGGTAATCCAACTTTG
****
37828 AAAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 --AAAATGGTTTTCAAAGTTTGGT-AATCCAACTTTG
37865 AAAATGGTTTTCAAAGTTTGGTAA
1 AAAATGGTTTTCAAAGTTTGGTAA
37889 ATGTTTCTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
34 13 0.25
35 31 0.61
36 2 0.04
37 5 0.10
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.41
Consensus pattern (34 bp):
AAAATGGTTTTCAAAGTTTGGTAATCCAACTTTG
Found at i:37855 original size:21 final size:21
Alignment explanation
Indices: 37831--37891 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
37821 AACTTTGAAA
37831 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
37852 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
37866 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
37887 AAATG
1 AAATG
37892 TTTCTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:37889 original size:35 final size:35
Alignment explanation
Indices: 37830--37937 Score: 148
Period size: 35 Copynumber: 3.1 Consensus size: 35
37820 CAACTTTGAA
37830 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
37865 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTT-
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * * * *
37899 TAAATAGTTTTTCAAAGTTTGATAGATGTTT-GTTG
1 AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
37934 AAAA
1 AAAA
37938 ATGATAATGG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
34 6 0.09
35 59 0.91
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:44847 original size:19 final size:18
Alignment explanation
Indices: 44810--44849 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
44800 CTATTAAAAA
44810 TTTAAAATTATTATATAT
1 TTTAAAATTATTATATAT
* *
44828 TTTAAATATTTTTTTATAT
1 TTTAAA-ATTATTATATAT
44847 TTT
1 TTT
44850 TACTTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTAAAATTATTATATAT
Found at i:45626 original size:30 final size:31
Alignment explanation
Indices: 45591--45651 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
45581 AAGCATAATA
45591 AAATGTTTATACTC-TAACA-TTTGGTTAAAT
1 AAATGTTTATA-TCATAACATTTTGGTTAAAT
45621 AAATGTTTATATCATAACATTTTGGTTAAAT
1 AAATGTTTATATCATAACATTTTGGTTAAAT
45652 TACAAGTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 2 0.07
30 16 0.55
31 11 0.38
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (31 bp):
AAATGTTTATATCATAACATTTTGGTTAAAT
Found at i:47376 original size:23 final size:23
Alignment explanation
Indices: 47346--47395 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
47336 ATACTTTACA
* *
47346 ATATAAGCGCTGCCTATTACATT
1 ATATAAGCGCTACCTATTACATC
47369 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATC
47392 ATAT
1 ATAT
47396 TTTTACCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATC
Found at i:47848 original size:23 final size:23
Alignment explanation
Indices: 47813--47885 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
47803 ATACTTTACA
*
47813 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
47836 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* * *
47859 ATATAAGTGCTACATATTACATC
1 ATATAAGCGCTACCTATTACATT
47882 ATAT
1 ATAT
47886 TTTTATCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:48380 original size:23 final size:23
Alignment explanation
Indices: 48308--48374 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
48298 ATACTTTACA
*
48308 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
48331 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
48354 ATATAAGCGCTACCTATTACA
1 ATATAAGCGCTACCTATTACA
48375 ACATATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:48823 original size:23 final size:23
Alignment explanation
Indices: 48797--48869 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
48787 ATATTTTACA
48797 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
**
48820 ATATAAAAACTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
* *
48843 ATATAAGCGCTACCTATTACATC
1 ATATAAGCACTACCTATTACATT
48866 ATAT
1 ATAT
48870 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATT
Found at i:49165 original size:490 final size:490
Alignment explanation
Indices: 47358--50270 Score: 5138
Period size: 489 Copynumber: 5.9 Consensus size: 490
47348 ATAAGCGCTG
*
47358 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTTCA
1 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
47423 TACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTA
66 TACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTA
*
47488 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTT
131 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTT
*
47553 GATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAA
196 GATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAA
47618 TAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAA
261 TAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAA
* * *
47683 AAATAAATCATTAGACACCAATAATTACTAAATTAATATCTTAAAACTCACTTAAAATATAACCT
326 AAATAAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
* * *
47748 TAAATTAATGTTTTCTACAGTTAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACA
391 TAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACA
*
47813 ATATAAGCACTACCTATTACATTATATAAACGCTA
456 ATATAAGCACTACCTATTACATTATATAAAAGCTA
* * * *
47848 CCTATTACATTATATAAGTGCTACATATTACATCATATTTTTATCTATTATATTGAAGGTGTCCA
1 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
* *
47913 TATTTTTTATAAAAATGATCGATACTTTTTCTAAAGTTATGTAATTTATGTTTCAATTTTTTTTA
66 TACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTA
47978 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAATTATTT
131 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTT
* *
48042 AATTATTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAAATTTAACAATATTAACCAA
196 GATTGTTTTGATATTTTATAAAATAATATTTAG------AATTTAAATTTAACAATATTAACCAA
*
48107 AGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAA
255 AGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAA
* * * *
48172 CATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGA
320 CGTAAAAAATAAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
*
48237 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATAC
385 TAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATAC
*
48302 TTTACAATATAAGCACTACCTATTACATTATATAAACGCTA
450 TTTACAATATAAGCACTACCTATTACATTATATAAAAGCTA
*
48343 CCTATTACATTATATAAGCGCTACCTATTACAACATATTTTTACCTATTATATTGAAAGTGTCCA
1 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
*
48408 TACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTA
66 TACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTA
48472 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTT
131 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTT
48537 GATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAA
196 GATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAA
48602 TAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAA
261 TAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAA
* * * *
48667 AAATAAATCATTAGACGCCTATAATTATTAAATTAATATCTTAAAACTCACTTAAAAAATAACCT
326 AAATAAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
* * *
48732 TAAATTAATGTTTTCCATAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATATTTTACA
391 TAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACA
*
48797 ATATAAGCACTACCTATTACATTATATAAAAACTA
456 ATATAAGCACTACCTATTACATTATATAAAAGCTA
*
48832 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTACA
1 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
48897 TACTTTTTATAAAAATGATCGATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTT
66 TACTTTTTATAAAAATGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTT
*
48961 AACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
130 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
49026 TGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATA
195 TGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATA
49091 ATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAA
260 ATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAA
* *
49156 AACATAAATCATTAGA-GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACC
325 AAAATAAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACC
*
49220 TTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATATTTTAC
390 TTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTAC
*
49285 AATATAAGCACTACCTATTACATTATATAAAAACTA
455 AATATAAGCACTACCTATTACATTATATAAAAGCTA
49321 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
1 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
**
49386 TACTTTTTATAAAAAAAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTA
66 TACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTA
*
49450 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTGCAC-AAAAATTATTT
131 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTT
49514 GATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAA
196 GATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAA
* *
49579 TAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAA
261 TAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAA
* *
49644 AAATAAATCATTAGATACATATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
326 AAATAAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
*
49709 TAAATTAATATTTTCCACAGTGAAAAAAGTGTGGACACTTTTATAAAAAGGATAGATACTTTACA
391 TAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACA
* * *
49774 ATATAAACACTACCTACTACATTATATAAATGCTA
456 ATATAAGCACTACCTATTACATTATATAAAAGCTA
49809 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
1 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
*
49874 TACTTTTTATAAAAATGATCGATATTTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTT
66 TACTTTTTATAAAAATGATCGATA-CTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTT
* * *
49939 AACAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTACACAAAAAATTATT
130 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
* * *
50004 TAATTGTTTTGATATTTTATAAAATATTATTTAGTAA-TTAAGTTTAACAATATTAACCAAAGAT
195 TGATTGTTTTGATATTTTATAAAATAATATTTAG-AATTTAAATTTAACAATATTAACCAAAGAT
50068 AATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTA
259 AATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTA
* *
50133 AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAATATAAC
324 AAAAATAAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAAC
*
50198 CTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGATAGATACTTTA
389 CTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTA
50263 CAATATAA
454 CAATATAA
50271 CAGGTAAAAA
Statistics
Matches: 2322, Mismatches: 88, Indels: 25
0.95 0.04 0.01
Matches are distributed among these distances:
487 153 0.07
488 318 0.14
489 639 0.28
490 479 0.21
491 263 0.11
492 2 0.00
494 61 0.03
495 407 0.18
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (490 bp):
CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
TACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTA
ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTT
GATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAA
TAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAA
AAATAAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
TAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACA
ATATAAGCACTACCTATTACATTATATAAAAGCTA
Found at i:49312 original size:23 final size:23
Alignment explanation
Indices: 49286--49358 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
49276 ATATTTTACA
49286 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
**
49309 ATATAAAAACTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
* *
49332 ATATAAGCGCTACCTATTACATC
1 ATATAAGCACTACCTATTACATT
49355 ATAT
1 ATAT
49359 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATT
Found at i:49800 original size:23 final size:23
Alignment explanation
Indices: 49774--49846 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
49764 ATACTTTACA
* *
49774 ATATAAACACTACCTACTACATT
1 ATATAAACGCTACCTATTACATT
*
49797 ATATAAATGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
49820 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
49843 ATAT
1 ATAT
49847 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:50093 original size:978 final size:978
Alignment explanation
Indices: 46943--50270 Score: 5661
Period size: 978 Copynumber: 3.4 Consensus size: 978
46933 TTATAATATG
* *
46943 TTGAAAGTGTCTATACTTTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATG
1 TTGAAAGTGTCCATAC--TTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATG
*
47008 TTTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
64 TTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
*
47072 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
129 ACAAAAAATTATTTAATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
*
47137 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
* *
47202 TACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATTTTAAAACTCAC
259 TACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTAATATCTTAAAACTCAC
* * * * *
47267 TAAAAAAATAACCTTAAATTAATGTTTTCCACAGTGAAATAAGTATGGACACTTCTAT-AAAA--
324 TCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
* *
47329 A-AG------------AT-AG-A-TA-CT-TTACA--ATATAAGCGCTGCCTATTACATTATATA
389 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
* *
47374 AGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTTCATACTTTTTATAAAAAT
454 AGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAA
47439 GATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTT
519 GATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTT
*
47504 TCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTT
583 TCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTT
*
47569 TATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATA
648 TATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATA
47634 TATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGAC
713 TATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGAC
*
47699 ACCA-ATAATTACTAAATTAATATCTTAAAACTCACTTAAAATATAACCTTAAATTAATGTTTTC
778 A-CATATAATTACTAAATTAATATCTTAAAACTCACTTAAAAAATAACCTTAAATTAATGTTTTC
* *
47763 TACAGTTAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCT
842 CACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCT
* * * *
47828 ATTACATTATATAAACGCTACCTATTACATTATATAAGTGCTACATATTACATCATATTTTTATC
907 ATTACATTATATAAAAGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
47893 TATTATA
972 TATTATA
* * *
47900 TTGAAGGTGTCCATATTTTTTATAAAAATGATCGATACTTTTTCTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
47965 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAA-TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
48030 C-AAAAATTATTTAATTATTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAAATTTAA
130 CAAAAAATTATTTAATTGTTTTGATATTTTATAAAATAATATTTAG------AATTTAAATTTAA
*
48094 CAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATA
189 CAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATA
*
48159 ATATATACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAA
254 ATATATACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTAATATCTTAAAA
*
48224 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAA
319 CTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAA
48289 AAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATT
384 AAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATT
*
48354 ATATAAGCGCTACCTATTACAACATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATA
449 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATA
*
48419 AAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
514 AAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
48484 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
579 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
48549 ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
644 ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
48614 AATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATT
709 AATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATT
* * *
48679 AGACGCCTATAATTATTAAATTAATATCTTAAAACTCACTTAAAAAATAACCTTAAATTAATGTT
774 AGACACATATAATTACTAAATTAATATCTTAAAACTCACTTAAAAAATAACCTTAAATTAATGTT
* *
48744 TTCCATAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATATTTTACAATATAAGCACTA
839 TTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTA
*
48809 CCTATTACATTATATAAAAACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTT
904 CCTATTACATTATATAAAAGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTT
48874 ACCTATTATA
969 ACCTATTATA
*
48884 TTGAAAGTGTACATACTTTTTATAAAAATGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
48949 TTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
49014 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTAATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
49079 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* * * *
49144 ACCGTAACGTAAAACATAAATCATTAGA-GCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTAATATCTTAAAACTCACT
49208 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* **
49273 TAGATATTTTACAATATAAGCACTACCTATTACATTATATAAAAACTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
*
49338 GCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAAA
455 GCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAAG
49403 ATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTC
520 ATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTC
*
49468 CACCTACAATATTAATTTAATAATTTTATTTGCAC-AAAAATTATTTGATTGTTTTGATATTTTA
585 CACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTA
49532 TAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATA
650 TAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATA
* * *
49597 TATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAAATAAATCATTAGATAC
715 TATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACAC
* * *
49662 ATATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCAC
780 ATATAATTACTAAATTAATATCTTAAAACTCACTTAAAAAATAACCTTAAATTAATGTTTTCCAC
* * *
49727 AGTGAAAAAAGTGTGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAACACTACCTACT
845 AGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATT
*
49792 ACATTATATAAATGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
910 ACATTATATAAAAGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
49857 TATA
975 TATA
*
49861 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATATTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATA-CTTTTTTTAAAGTTATGTAATTTATGT
* *
49926 TTCAATTTTTTTTAACAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTAC
65 TTCAA-TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
* *
49991 ACAAAAAATTATTTAATTGTTTTGATATTTTATAAAATATTATTTAGTAA-TTAAGTTTAACAAT
129 ACAAAAAATTATTTAATTGTTTTGATATTTTATAAAATAATATTTAG-AATTTAAATTTAACAAT
50055 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATAT
193 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATAT
* ** *
50120 ATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCA
258 ATACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTAATATCTTAAAACTCA
* *
50185 CTCAAAATATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAT
323 CTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAG
50250 GATAGATACTTTACAATATAA
388 GATAGATACTTTACAATATAA
50271 CAGGTAAAAA
Statistics
Matches: 2253, Mismatches: 80, Indels: 54
0.94 0.03 0.02
Matches are distributed among these distances:
955 51 0.02
956 42 0.02
957 73 0.03
962 201 0.09
963 4 0.00
965 1 0.00
966 2 0.00
977 409 0.18
978 531 0.24
979 230 0.10
980 1 0.00
981 2 0.00
982 2 0.00
983 6 0.00
984 498 0.22
985 200 0.09
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (978 bp):
TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTAATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
CGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGA
TCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
AAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATAT
ATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACACA
TATAATTACTAAATTAATATCTTAAAACTCACTTAAAAAATAACCTTAAATTAATGTTTTCCACA
GTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTA
CATTATATAAAAGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
ATA
Found at i:50525 original size:11 final size:11
Alignment explanation
Indices: 50509--50533 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50499 ATCCGGTAAT
50509 ACCGTATATTA
1 ACCGTATATTA
50520 ACCGTATATTA
1 ACCGTATATTA
50531 ACC
1 ACC
50534 CGCCTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:52437 original size:21 final size:21
Alignment explanation
Indices: 52413--52703 Score: 133
Period size: 21 Copynumber: 13.9 Consensus size: 21
52403 ACTTCGACTA
*
52413 TCGCATTGTGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
52434 TCGCGTTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* * **
52455 TCGCGTTGCGA-A-TCTGGAAAC
1 TCGCATTGCGATAGTC--CAAGT
*
52476 T-G-ATTTGCGATAGTCGAAGT
1 TCGCA-TTGCGATAGTCCAAGT
* * * *
52496 TCGCGTTGCGATTTATTACAAAT
1 TCGCATTGCGA--TAGTCCAAGT
* *
52519 TCG--TTACGATAGTCTAAGT
1 TCGCATTGCGATAGTCCAAGT
*
52538 TCG--TTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
52557 TCGCGTTGCGATTTATTCCAAGT
1 TCGCATTGCGA--TAGTCCAAGT
*
52580 TCG--TTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* * * *
52599 TCGCGTTGCGATTTATTTCAAAT
1 TCGCATTGCGA--TAGTCCAAGT
52622 TCG--TTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
52641 TCGCGTTGCGATTTATTCCAAGT
1 TCGCATTGCGA--TAGTCCAAGT
* *
52664 TCGCGTTGCGATTTATTCCAAGT
1 TCGCATTGCGA--TAGTCCAAGT
52687 TCG--TTGCGATAGTCCAA
1 TCGCATTGCGATAGTCCAA
52704 AATCGCAACG
Statistics
Matches: 216, Mismatches: 33, Indels: 44
0.74 0.11 0.15
Matches are distributed among these distances:
19 56 0.26
20 12 0.06
21 82 0.38
22 2 0.01
23 64 0.30
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:52556 original size:61 final size:62
Alignment explanation
Indices: 52480--52610 Score: 210
Period size: 61 Copynumber: 2.1 Consensus size: 62
52470 GGAAACTGAT
*
52480 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCGTTACGATAGTCTAAGTT-CG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCGTTACGATAGTCGAAGTTCCG
* * *
52541 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCGTTACGATAGTCGAAGTTC-CG
52604 TTGCGAT
1 TTGCGAT
52611 TTATTTCAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 55 0.86
63 9 0.14
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (62 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCGTTACGATAGTCGAAGTTCCG
Found at i:52580 original size:42 final size:42
Alignment explanation
Indices: 52534--52675 Score: 239
Period size: 42 Copynumber: 3.3 Consensus size: 42
52524 ACGATAGTCT
52534 AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCC
1 AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCC
*
52576 AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTTC
1 AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCC
* *
52618 AAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCC
1 AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCC
52660 AAGTTCGCGTTGCGAT
1 AAGTT--CGTTGCGAT
52676 TTATTCCAAG
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 84 0.90
44 9 0.10
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (42 bp):
AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCC
Found at i:52817 original size:5 final size:5
Alignment explanation
Indices: 52795--52851 Score: 69
Period size: 5 Copynumber: 11.0 Consensus size: 5
52785 CACGTATTAC
* *
52795 CACGA CCACGA CCACGA CACGA CACGA CACGA CACGA CCCGA GACGA CACGA
1 CACGA -CACGA -CACGA CACGA CACGA CACGA CACGA CACGA CACGA CACGA
*
52847 GACGA
1 CACGA
52852 GACGGACGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
5 35 0.76
6 11 0.24
ACGTcount: A:0.37, C:0.40, G:0.23, T:0.00
Consensus pattern (5 bp):
CACGA
Found at i:53578 original size:19 final size:19
Alignment explanation
Indices: 53490--53579 Score: 99
Period size: 19 Copynumber: 4.5 Consensus size: 19
53480 CGGGTCGTGG
*
53490 CGAACTTCGACTATCGCAA
1 CGAACTTGGACTATCGCAA
*
53509 CGAACTTGGAATAAATCGCAA
1 CGAACTTGGACT--ATCGCAA
*
53530 CGCGAACTTCGACTATCGCAA
1 --CGAACTTGGACTATCGCAA
*
53551 CGAACTTGGACTATTGCAA
1 CGAACTTGGACTATCGCAA
*
53570 CGAATTTGGA
1 CGAACTTGGA
53580 AAATCGCATT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
19 36 0.60
21 14 0.23
23 10 0.17
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (19 bp):
CGAACTTGGACTATCGCAA
Found at i:53616 original size:21 final size:21
Alignment explanation
Indices: 53583--53635 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
53573 ATTTGGAAAA
*
53583 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
* *
53604 TCGCGTTGTGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
*
53625 TCGTGTTGCGA
1 TCGCGTTGCGA
53636 ATCTGGAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:64824 original size:15 final size:14
Alignment explanation
Indices: 64794--64838 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
64784 ATTATTTATG
*
64794 TATAATAT-ATTTT
1 TATAATATGATATT
64807 TATAATATGATATAT
1 TATAATATGATAT-T
*
64822 TATTATATGATATT
1 TATAATATGATATT
64836 TAT
1 TAT
64839 TAAATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 8 0.29
14 7 0.25
15 13 0.46
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (14 bp):
TATAATATGATATT
Found at i:67618 original size:61 final size:61
Alignment explanation
Indices: 67491--67604 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
67481 TTATAAATGA
* * * *
67491 TATTTTGTTGAGTTTCTCGACTATTGAAAGTTACAAAAATGATCCCTCAATTATAAGGTAT
1 TATTTTGTTGAGTATCTCGACTATTAAAAGTTACAAAAATGATCACTCAACTATAAGGTAT
*
67552 TATTTTGTTGAGTCATCT-GATTATTAAAAGTTAC-AAAAT-AGTCACTCAACTAT
1 TATTTTGTTGAGT-ATCTCGACTATTAAAAGTTACAAAAATGA-TCACTCAACTAT
67605 TCATGTGTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 15 0.33
61 27 0.59
62 3 0.07
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (61 bp):
TATTTTGTTGAGTATCTCGACTATTAAAAGTTACAAAAATGATCACTCAACTATAAGGTAT
Found at i:68099 original size:52 final size:53
Alignment explanation
Indices: 68034--68140 Score: 171
Period size: 52 Copynumber: 2.0 Consensus size: 53
68024 CACAAGATGG
* *
68034 GGCACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAA
1 GGCACATA-AAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
*
68088 GGCACAT-AAATAGGAGACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
1 GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
68140 G
1 G
68141 AATATTATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 43 0.86
54 7 0.14
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (53 bp):
GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
Found at i:73597 original size:2 final size:2
Alignment explanation
Indices: 73590--73625 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
73580 TTTAAAGGTA
73590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73626 TTAGATTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79953 original size:43 final size:43
Alignment explanation
Indices: 79813--79973 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
79803 TTCAACAAAA
*** * * * *
79813 AAACGCCGCAATAGGTGACAACATATAGCGGCAATTGTTCA-AC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTG-GCAGAC
* * * * *
79856 AAACGCCGCAAAAGGTATTGATATTTAGCGGCGTTTGGCATAA
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGGCAGAC
*
79899 AAACGCCGCAATAGGTGTTGATATTTAACGGCATTTGGCAGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGGCAGAC
*
79942 AAACGCCGCAATA-GTCGTTGATGTTTAGCGGC
1 AAACGCCGCAATAGGT-GTTGATATTTAGCGGC
79974 GTTTTCTTCA
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 4 0.04
43 93 0.96
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGGCAGAC
Found at i:79987 original size:43 final size:43
Alignment explanation
Indices: 79854--80124 Score: 171
Period size: 43 Copynumber: 6.3 Consensus size: 43
79844 CAATTGTTCA
* * * * *
79854 ACAAACGCCGCAAAAGGTATTGATATTTAGCGGCGTTTGGCAT-
1 ACAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTT-TCTTC
* * * * * **
79897 AAAAACGCCGCAATAGGTGTTGATATTTAACGGCATTTGGC-AG
1 ACAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTT-TCTTC
79940 ACAAACGCCGCAATA-GTCGTTGATGTTTAGCGGCGTTTTCTTC
1 ACAAACGCCGCAATAGGT-GTTGATGTTTAGCGGCGTTTTCTTC
* * * * * * *
79983 ACAAACGCCGCAGTAGATGTTTATTTTTACCAGCGTTTT-TCC
1 ACAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTTTCTTC
* * * *
80025 TACAAACGCCGCAGAATATGTCTTGA-GATTTAGCGGCATTTTCGTC
1 -ACAAACGCCGC--AATAGGTGTTGATG-TTTAGCGGCGTTTTCTTC
* *
80071 GA-AAACGCCGCAATATGTGTTGA-GATTTCGCGGCGTTTT-TATC
1 -ACAAACGCCGCAATAGGTGTTGATG-TTTAGCGGCGTTTTCT-TC
80114 ACAAACGCCGC
1 ACAAACGCCGC
80125 TAAATGTATG
Statistics
Matches: 181, Mismatches: 36, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
42 6 0.03
43 145 0.80
44 1 0.01
45 27 0.15
46 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (43 bp):
ACAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTTTCTTC
Found at i:79989 original size:86 final size:85
Alignment explanation
Indices: 79854--80098 Score: 215
Period size: 86 Copynumber: 2.8 Consensus size: 85
79844 CAATTGTTCA
* * * * *
79854 ACAAACGCCGCAAAAGGTATTGATATTTAGCGGCGTTTGGCATAAAAACGCCGCAATAGGTGTTG
1 ACAAACGCCGCAATAGGTCTTGATGTTTAGCGGCGTTT-TCATCAAAACGCCGCAATAGGTGTTG
*
79919 ATATTTAACGGCATTTGGCAG
65 ATATTTAACAGCATTTGGCAG
* * *
79940 ACAAACGCCGCAATA-GTCGTTGATGTTTAGCGGCGTTTTCTTCACAAACGCCGCAGTAGATGTT
1 ACAAACGCCGCAATAGGTC-TTGATGTTTAGCGGCGTTTTCATCA-AAACGCCGCAATAGGTGTT
* * * * ** **
80004 TATTTTTACCAGCGTTTTTCCT
64 GATATTTAACAGCATTTGGCAG
* * * *
80026 ACAAACGCCGCAGAATATGTCTTGA-GATTTAGCGGCATTTTCGTCGAAAACGCCGCAATATGTG
1 ACAAACGCCGC--AATAGGTCTTGATG-TTTAGCGGCGTTTTCATC-AAAACGCCGCAATAGGTG
*
80090 TTGAGATTT
62 TTGATATTT
80099 CGCGGCGTTT
Statistics
Matches: 127, Mismatches: 25, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
85 5 0.04
86 73 0.57
87 1 0.01
88 44 0.35
89 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (85 bp):
ACAAACGCCGCAATAGGTCTTGATGTTTAGCGGCGTTTTCATCAAAACGCCGCAATAGGTGTTGA
TATTTAACAGCATTTGGCAG
Found at i:80512 original size:23 final size:21
Alignment explanation
Indices: 80466--80525 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
80456 ATATATTACT
* *
80466 TCTCTCTGTTCTGCCGCTGCC
1 TCTCTCTGTGCTGCCGCTACC
*
80487 TCTCTCTGTGCTGCCGCTACT
1 TCTCTCTGTGCTGCCGCTACC
* *
80508 TCTCTCTCTGCTTCCGCT
1 TCTCTCTGTGCTGCCGCT
80526 GCTGCTCTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.02, C:0.42, G:0.17, T:0.40
Consensus pattern (21 bp):
TCTCTCTGTGCTGCCGCTACC
Found at i:80533 original size:21 final size:20
Alignment explanation
Indices: 80479--80585 Score: 108
Period size: 21 Copynumber: 5.1 Consensus size: 20
80469 CTCTGTTCTG
*
80479 CCGCTGCCT-CTCTCTGTGCTG
1 CCGCTG-CTGCTCTCT-TGCTT
* *
80500 CCGCTACTTCTCTCTCTGCTT
1 CCGCTGCTGCTCTCT-TGCTT
*
80521 CCGCTGCTGCTCTAGTTGCTT
1 CCGCTGCTGCTCT-CTTGCTT
*
80542 CCGCTGCTGCTCTAGTTGCTT
1 CCGCTGCTGCTCT-CTTGCTT
80563 CCGCTGCTGCTCTCTCTGCTT
1 CCGCTGCTGCTCTCT-TGCTT
80584 CC
1 CC
80586 CTTGCTTCAT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
20 3 0.04
21 72 0.95
22 1 0.01
ACGTcount: A:0.03, C:0.40, G:0.20, T:0.37
Consensus pattern (20 bp):
CCGCTGCTGCTCTCTTGCTT
Found at i:80549 original size:18 final size:21
Alignment explanation
Indices: 80516--80575 Score: 120
Period size: 21 Copynumber: 2.9 Consensus size: 21
80506 CTTCTCTCTC
80516 TGCTTCCGCTGCTGCTCTAGT
1 TGCTTCCGCTGCTGCTCTAGT
80537 TGCTTCCGCTGCTGCTCTAGT
1 TGCTTCCGCTGCTGCTCTAGT
80558 TGCTTCCGCTGCTGCTCT
1 TGCTTCCGCTGCTGCTCT
80576 CTCTGCTTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.03, C:0.35, G:0.23, T:0.38
Consensus pattern (21 bp):
TGCTTCCGCTGCTGCTCTAGT
Found at i:86561 original size:41 final size:41
Alignment explanation
Indices: 86476--86636 Score: 256
Period size: 40 Copynumber: 4.0 Consensus size: 41
86466 CGTTTATACA
*
86476 AAAAAATGCCACTATTGATT-ACACTATTGTGGCGTTTGTT
1 AAAAAACGCCACTATTGATTAACACTATTGTGGCGTTTGTT
86516 AAAAAACGCCACTATTGATT-ACACTATTGTGGCGTTTGTT
1 AAAAAACGCCACTATTGATTAACACTATTGTGGCGTTTGTT
* *
86556 AAAAAACGCCACTATTGATTAAAACTATTGTGGCGTTTATCT
1 AAAAAACGCCACTATTGATTAACACTATTGTGGCGTTTGT-T
*
86598 -AAAAACGCCACTATTGATTAACACTATTATGGCGTTTGT
1 AAAAAACGCCACTATTGATTAACACTATTGTGGCGTTTGT
86637 GGTATAAACG
Statistics
Matches: 113, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 59 0.52
41 53 0.47
42 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (41 bp):
AAAAAACGCCACTATTGATTAACACTATTGTGGCGTTTGTT
Found at i:86592 original size:81 final size:81
Alignment explanation
Indices: 86476--86636 Score: 254
Period size: 81 Copynumber: 2.0 Consensus size: 81
86466 CGTTTATACA
* * *
86476 AAAAAATGCCACTATTGATTACACTATTGTGGCGTTTGT-TAAAAAACGCCACTATTGATT-ACA
1 AAAAAACGCCACTATTGATTAAACTATTGTGGCGTTTATCT-AAAAACGCCACTATTGATTAACA
*
86539 CTATTGTGGCGTTTGTT
65 CTATTATGGCGTTTGTT
86556 AAAAAACGCCACTATTGATTAAAACTATTGTGGCGTTTATCTAAAAACGCCACTATTGATTAACA
1 AAAAAACGCCACTATTGATT-AAACTATTGTGGCGTTTATCTAAAAACGCCACTATTGATTAACA
86621 CTATTATGGCGTTTGT
65 CTATTATGGCGTTTGT
86637 GGTATAAACG
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
80 19 0.26
81 36 0.49
82 19 0.26
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (81 bp):
AAAAAACGCCACTATTGATTAAACTATTGTGGCGTTTATCTAAAAACGCCACTATTGATTAACAC
TATTATGGCGTTTGTT
Found at i:87920 original size:1 final size:1
Alignment explanation
Indices: 87914--87993 Score: 52
Period size: 1 Copynumber: 80.0 Consensus size: 1
87904 ATAGACACAT
* * * * * * * * * *
87914 AAAAAAAAATAAATAAAATAAAAAATAAAAATAAATAAAAAATAAAAATAAAAAATAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
87979 ATAAAAAATAAAAAA
1 AAAAAAAAAAAAAAA
87994 TAAAGATAAA
Statistics
Matches: 55, Mismatches: 24, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (1 bp):
A
Found at i:87927 original size:22 final size:22
Alignment explanation
Indices: 87914--88025 Score: 93
Period size: 25 Copynumber: 4.8 Consensus size: 22
87904 ATAGACACAT
*
87914 AAAA-AAAAATAAATAAAATAA
1 AAAATAAAAATAAATAAAACAA
*
87935 AAAATAAAAATAAATAAAAAATA
1 AAAATAAAAATAAATAAAACA-A
*
87958 AAAATAAAAAATAAAATAAAAATAA
1 AAAAT-AAAAAT-AAAT-AAAACAA
*
87983 AAAATAAAAAATAAAGATAAAATAA
1 AAAAT-AAAAAT-AA-ATAAAACAA
*
88008 TAAAATAAATA-AAATAAA
1 -AAAATAAAAATAAATAAA
88026 GATAAAACAA
Statistics
Matches: 81, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
21 4 0.05
22 20 0.25
23 8 0.10
24 6 0.07
25 31 0.38
26 12 0.15
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.17
Consensus pattern (22 bp):
AAAATAAAAATAAATAAAACAA
Found at i:87936 original size:18 final size:18
Alignment explanation
Indices: 87912--88025 Score: 137
Period size: 17 Copynumber: 6.3 Consensus size: 18
87902 AAATAGACAC
*
87912 ATAAAAAAAAATAAATAAA
1 ATAAAAAATAA-AAATAAA
87931 ATAAAAAATAAAAAT-AA
1 ATAAAAAATAAAAATAAA
87948 ATAAAAAATAAAAATAAA
1 ATAAAAAATAAAAATAAA
87966 A-AATAAAATAAAAATAAAAA
1 ATAA-AAAATAAAAAT--AAA
*
87986 ATAAAAAATAAAGATAAA
1 ATAAAAAATAAAAATAAA
88004 ATAATAAAAT--AAATAAA
1 ATAA-AAAATAAAAATAAA
88021 ATAAA
1 ATAAA
88026 GATAAAACAA
Statistics
Matches: 86, Mismatches: 3, Indels: 15
0.83 0.03 0.14
Matches are distributed among these distances:
16 1 0.01
17 29 0.34
18 25 0.29
19 15 0.17
20 14 0.16
21 2 0.02
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.18
Consensus pattern (18 bp):
ATAAAAAATAAAAATAAA
Found at i:87944 original size:13 final size:13
Alignment explanation
Indices: 87912--88032 Score: 112
Period size: 13 Copynumber: 9.5 Consensus size: 13
87902 AAATAGACAC
*
87912 ATAAAAAAAAATAA
1 ATAAAAAATAA-AA
*
87926 ATAAAATA-AAAA
1 ATAAAAAATAAAA
87938 AT-AAAAAT--AA
1 ATAAAAAATAAAA
87948 ATAAAAAATAAAA
1 ATAAAAAATAAAA
87961 ATAAAAAAT-AAA
1 ATAAAAAATAAAA
87973 AT-AAAAATAAAAA
1 ATAAAAAAT-AAAA
*
87986 ATAAAAAATAAAG
1 ATAAAAAATAAAA
87999 ATAAAATAAT-AAA
1 ATAAAA-AATAAAA
*
88012 ATAAATAAAATAAAG
1 AT-AA-AAAATAAAA
88027 ATAAAA
1 ATAAAA
88033 CAAGTAAAAT
Statistics
Matches: 91, Mismatches: 5, Indels: 23
0.76 0.04 0.19
Matches are distributed among these distances:
10 4 0.04
11 16 0.18
12 9 0.10
13 33 0.36
14 23 0.25
15 6 0.07
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:87984 original size:48 final size:47
Alignment explanation
Indices: 87914--88041 Score: 161
Period size: 48 Copynumber: 2.7 Consensus size: 47
87904 ATAGACACAT
*
87914 AAAAAAAAAT-AAAT-AAAATAAAAAATAAAAATAAATAAAAAATAA
1 AAAAAAAAATAAAATAAAAATAAAAAATAAAAATAAAGAAAAAATAA
*
87959 AAATAAAAAATAAAATAAAAATAAAAAATAAAAAATAAAGATAAAATAA
1 AAA-AAAAAATAAAATAAAAATAAAAAAT-AAAAATAAAGAAAAAATAA
* * *
88008 TAAAATAAATAAAATAAAGATAAAACAAGTAAAA
1 AAAAAAAAATAAAATAAAAATAAAA-AA-TAAAA
88042 TGAGTAAACA
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
45 3 0.04
46 7 0.10
47 4 0.06
48 32 0.44
49 25 0.35
50 1 0.01
ACGTcount: A:0.80, C:0.01, G:0.02, T:0.16
Consensus pattern (47 bp):
AAAAAAAAATAAAATAAAAATAAAAAATAAAAATAAAGAAAAAATAA
Found at i:88042 original size:48 final size:44
Alignment explanation
Indices: 87912--88042 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 44
87902 AAATAGACAC
*
87912 ATAAAAA-AAAATAAATAAAATAAAAAATAAAAAT-AAATAAAAA
1 ATAAAAATAAAATAAATAAAATAAAATA-AAAAATAAAATAAAAA
87955 ATAAAAAT-AAA-AAATAAAATAAAAATAAAAAATAAAA-AATAAA
1 ATAAAAATAAAATAAATAAAAT-AAAATAAAAAATAAAATAA-AAA
87998 GATAAAATAATAAAATAAATAAAATAAAGATAAAACAAGTAAAAT
1 -AT-AAA-AATAAAATAAATAAAATAAA-ATAAAA-AA-TAAAAT
88043 GAGTAAACAA
Statistics
Matches: 74, Mismatches: 1, Indels: 18
0.80 0.01 0.19
Matches are distributed among these distances:
42 17 0.23
43 21 0.28
44 2 0.03
45 3 0.04
46 3 0.04
47 6 0.08
48 15 0.20
49 2 0.03
50 5 0.07
ACGTcount: A:0.79, C:0.01, G:0.02, T:0.18
Consensus pattern (44 bp):
ATAAAAATAAAATAAATAAAATAAAATAAAAAATAAAATAAAAA
Found at i:88074 original size:18 final size:18
Alignment explanation
Indices: 87912--88074 Score: 99
Period size: 18 Copynumber: 8.8 Consensus size: 18
87902 AAATAGACAC
87912 ATAAAA-AAAAATAAATAAA
1 ATAAAATAAAAAT--ATAAA
87931 ATAAAAAATAAAAATA-AATA
1 AT--AAAATAAAAATATAA-A
*
87951 A-AAAATAAAAATAAAAA
1 ATAAAATAAAAATATAAA
*
87968 ATAAAATAAAAATAAAAA
1 ATAAAATAAAAATATAAA
*
87986 ATAAAA-AATAAAGATAAA
1 ATAAAATAA-AAATATAAA
*
88004 AT--AATAAAATAAATAAA
1 ATAAAATAAAA-ATATAAA
88021 ATAAAGATAAAACA-AGTAAA
1 ATAAA-ATAAAA-ATA-TAAA
* *
88041 ATGAGTAAA-CAAAATATGAA
1 AT-A--AAATAAAAATATAAA
88061 ATAAAATAAAAATA
1 ATAAAATAAAAATA
88075 AGGAAGGACA
Statistics
Matches: 119, Mismatches: 7, Indels: 37
0.73 0.04 0.23
Matches are distributed among these distances:
16 4 0.03
17 29 0.24
18 39 0.33
19 7 0.06
20 22 0.18
21 9 0.08
22 7 0.06
23 2 0.02
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (18 bp):
ATAAAATAAAAATATAAA
Found at i:88075 original size:68 final size:67
Alignment explanation
Indices: 87912--88042 Score: 180
Period size: 68 Copynumber: 1.9 Consensus size: 67
87902 AAATAGACAC
87912 ATAAAAAA-AAATAAATAAAATAAAA-AATAAAAATAAATAAAAAATAAAAATAAAAAATAAAAT
1 ATAAAAAATAAA-AAATAAAATAAAATAATAAAAATAAAT-AAAAATAAAAATAAAAAATAAAAT
87975 AAAA
64 AAAA
*
87979 ATAAAAAATAAAAAATAAAGATAAAATAAT-AAAATAAAT-AAAATAAAGATAAAACAAGTAAAA
1 ATAAAAAATAAAAAATAAA-ATAAAATAATAAAAATAAATAAAAATAAAAATAAAA-AA-TAAAA
88042 T
63 T
88043 GAGTAAACAA
Statistics
Matches: 58, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
66 14 0.24
67 17 0.29
68 24 0.41
69 3 0.05
ACGTcount: A:0.79, C:0.01, G:0.02, T:0.18
Consensus pattern (67 bp):
ATAAAAAATAAAAAATAAAATAAAATAATAAAAATAAATAAAAATAAAAATAAAAAATAAAATAA
AA
Found at i:88226 original size:28 final size:28
Alignment explanation
Indices: 88193--88278 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
88183 AATAATACAA
88193 ATATAAAATATAGAATAAATATATATAC
1 ATATAAAATATAGAATAAATATATATAC
* * *
88221 ATATAAAGTACTA-ATTAAA-A-ACA-A-
1 ATATAAAATA-TAGAATAAATATATATAC
88245 ATA-AAAATATAGAATAAATATATATAC
1 ATATAAAATATAGAATAAATATATATAC
*
88272 TTATAAA
1 ATATAAA
88279 GTACTAAGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
22 2 0.05
23 10 0.23
24 4 0.09
25 3 0.07
26 3 0.07
27 3 0.07
28 17 0.39
29 2 0.05
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (28 bp):
ATATAAAATATAGAATAAATATATATAC
Found at i:88252 original size:51 final size:51
Alignment explanation
Indices: 88189--88329 Score: 205
Period size: 51 Copynumber: 2.7 Consensus size: 51
88179 CCAAAATAAT
*
88189 ACAAATATAAAATATAGAATAAATATATATACATATAAAGTACTAATTAAAA
1 ACAAATA-AAAATATAGAATAAATATATATACATATAAAGTACTAAGTAAAA
*
88241 ACAAATAAAAATATAGAATAAATATATATACTTATAAAGTACTAAGTAAAA
1 ACAAATAAAAATATAGAATAAATATATATACATATAAAGTACTAAGTAAAA
**
88292 ACAAATAAAAA-ATA-AAGTAAAATATATATGTATATAAA
1 ACAAATAAAAATATAGAA-T-AAATATATATACATATAAA
88330 CGTATAAATA
Statistics
Matches: 82, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
49 2 0.02
50 4 0.05
51 69 0.84
52 7 0.09
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (51 bp):
ACAAATAAAAATATAGAATAAATATATATACATATAAAGTACTAAGTAAAA
Found at i:88328 original size:22 final size:23
Alignment explanation
Indices: 88284--88377 Score: 79
Period size: 22 Copynumber: 4.1 Consensus size: 23
88274 ATAAAGTACT
*
88284 AAGTAAAAACAAATAAA-A-AATA
1 AAGT-AAAATAAATAAATATAATA
* **
88306 AAGTAAAATATATATGTAT-ATA
1 AAGTAAAATAAATAAATATAATA
88328 AACGTATAAATAAATAAATATAATA
1 AA-GTA-AAATAAATAAATATAATA
*
88353 AA-TAAAATAAATAAAATAAAATA
1 AAGTAAAATAAAT-AAATATAATA
88376 AA
1 AA
88378 AAGGAATAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
21 8 0.14
22 18 0.31
23 16 0.28
24 11 0.19
25 5 0.09
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (23 bp):
AAGTAAAATAAATAAATATAATA
Found at i:88342 original size:4 final size:4
Alignment explanation
Indices: 88333--88377 Score: 54
Period size: 4 Copynumber: 10.2 Consensus size: 4
88323 ATATAAACGT
88333 ATAA ATAA ATAA ATATA ATAA ATAAA ATAA ATAAA ATAAA ATAA A
1 ATAA ATAA ATAA ATA-A ATAA AT-AA ATAA AT-AA AT-AA ATAA A
88378 AAGGAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 21 0.55
5 17 0.45
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:88354 original size:9 final size:9
Alignment explanation
Indices: 88333--88378 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
88323 ATATAAACGT
88333 ATAAAT-AA
1 ATAAATAAA
*
88341 ATAAATATA
1 ATAAATAAA
88350 ATAAATAAA
1 ATAAATAAA
88359 ATAAATAAA
1 ATAAATAAA
88368 ATAAAATAAA
1 AT-AAATAAA
88378 A
1 A
88379 AGGAATAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
8 6 0.18
9 20 0.59
10 8 0.24
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAAATAAA
Found at i:88360 original size:5 final size:5
Alignment explanation
Indices: 88335--88378 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
88325 ATAAACGTAT
*
88335 AAAT- AAAT- AAATA TAAT- AAATA AAAT- AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
88379 AGGAATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
4 15 0.43
5 20 0.57
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:88376 original size:14 final size:13
Alignment explanation
Indices: 88333--88377 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 13
88323 ATATAAACGT
88333 ATAAATAAAT-AA
1 ATAAATAAATAAA
88345 ATATAATAAATAAA
1 ATA-AATAAATAAA
88359 ATAAATAAAATAAA
1 ATAAAT-AAATAAA
88373 ATAAA
1 ATAAA
88378 AAGGAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.10
13 10 0.33
14 17 0.57
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAAATAAATAAA
Found at i:88547 original size:3 final size:3
Alignment explanation
Indices: 88539--88619 Score: 57
Period size: 3 Copynumber: 27.7 Consensus size: 3
88529 AACTAACAAA
* *
88539 AAT AAT AAT AGT AAT AAAT AA- AA- AACT AA- AA- AAT ATAT AAA AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AA-T AAT AAT AAT A-AT AAT AAT
*
88583 -AT AAAT AAT TA- AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
88620 GGGATTAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 11 0.17
3 43 0.67
4 10 0.16
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:88563 original size:71 final size:69
Alignment explanation
Indices: 88481--88618 Score: 172
Period size: 71 Copynumber: 2.0 Consensus size: 69
88471 ACAAACATTG
*
88481 ATAAAAAAAAAA-AAATAAATTATATAAAAATATACAT-ATATAAATAAAAACTAACAAAAATAA
1 ATAAAAAAAAAACAAA-AAA-TATATAAAAATATAAATAAT-TAAATAAAAA-TAACAAAAATAA
88544 TAATAGTA
62 TAATAGTA
* * * *
88552 ATAAATAAAAAACTAAAAAATATATAAAAATATAAATAATTAAATAATAATAATAATAATAATAA
1 ATAAAAAAAAAAC-AAAAAATATATAAAAATATAAATAATTAAATAAAAATAACAAAAATAATAA
88617 TA
65 TA
88619 AGGGATTAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
70 15 0.25
71 36 0.61
72 5 0.08
73 3 0.05
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (69 bp):
ATAAAAAAAAAACAAAAAATATATAAAAATATAAATAATTAAATAAAAATAACAAAAATAATAAT
AGTA
Found at i:88580 original size:9 final size:8
Alignment explanation
Indices: 88537--88619 Score: 59
Period size: 8 Copynumber: 10.2 Consensus size: 8
88527 AAAACTAACA
88537 AAAATAAT
1 AAAATAAT
*
88545 AATAGTAAT
1 AA-AATAAT
88554 -AAATAA-
1 AAAATAAT
88560 AAAACTAA-
1 AAAA-TAAT
88568 AAAAT-AT
1 AAAATAAT
88575 ATAAA-AAT
1 A-AAATAAT
88583 ATAAATAAT
1 A-AAATAAT
*
88592 TAAATAAT
1 AAAATAAT
88600 AATAATAAT
1 AA-AATAAT
88609 AATAATAAT
1 AA-AATAAT
88618 AA
1 AA
88620 GGGATTAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 9 0.14
8 28 0.44
9 25 0.40
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (8 bp):
AAAATAAT
Found at i:88587 original size:31 final size:32
Alignment explanation
Indices: 88518--88590 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
88508 AAATATACAT
*
88518 ATATAAAT-AAAAACTAACAAAAATAATAATA
1 ATATAAATAAAAAACTAACAAAAATAATAAAA
*
88549 GTAATAAATAAAAAACT-A-AAAAATATATAAAA
1 AT-ATAAATAAAAAACTAACAAAAATA-ATAAAA
88581 ATATAAATAA
1 ATATAAATAA
88591 TTAAATAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
31 16 0.44
32 13 0.36
33 7 0.19
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.23
Consensus pattern (32 bp):
ATATAAATAAAAAACTAACAAAAATAATAAAA
Found at i:90790 original size:21 final size:21
Alignment explanation
Indices: 90745--90792 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
90735 GATACCGGAG
** **
90745 ATCGCATTGCGATAGTTGACT
1 ATCGCATTGCGATAGTCCAAA
90766 ATCGCATTGCGATAGTCCAAA
1 ATCGCATTGCGATAGTCCAAA
90787 ATCGCA
1 ATCGCA
90793 ACGACTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (21 bp):
ATCGCATTGCGATAGTCCAAA
Found at i:90906 original size:6 final size:6
Alignment explanation
Indices: 90872--90950 Score: 91
Period size: 6 Copynumber: 14.3 Consensus size: 6
90862 GACACGTATT
* *
90872 ACCACG ACCACG ACCACG ACCACG ACCACG GCCACG GCCACG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
90919 ACC-CG ACC-CG ACC-CG ACC-CG ACC-CG ACC-CG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG AC
90951 TCGAGACGAG
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
5 34 0.48
6 37 0.52
ACGTcount: A:0.25, C:0.54, G:0.20, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:90922 original size:5 final size:5
Alignment explanation
Indices: 90912--90950 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
90902 GCCACGGCCA
90912 CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGAC
1 CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGAC
90951 TCGAGACGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.21, C:0.59, G:0.21, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:91605 original size:21 final size:21
Alignment explanation
Indices: 91581--91675 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
91571 TTTTGGACTA
*
91581 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
91602 TCGCATTGCGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
*
91622 ATCGCATTGCGATAGTCCAAGT
1 -TCGCATTGCGATAGTCGAAGT
* * **
91644 TCGCATTGCGATAATCCAAAA
1 TCGCATTGCGATAGTCGAAGT
91665 TCGCATTGCGA
1 TCGCATTGCGA
91676 ATCTGGAAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
20 2 0.03
21 61 0.94
22 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:91611 original size:42 final size:42
Alignment explanation
Indices: 91576--91656 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
91566 TGCGATTTTG
*
91576 GACTATCGCAATGCGATAGTCGAAGTTCGCATTGCGATAGTC
1 GACTATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
*
91618 GACTATCGCATTGCGATAGTCCAAGTTCGCATTGCGATA
1 GACTATCGCAATGCGATAGTCCAAGTTCGCATTGCGATA
91657 ATCCAAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (42 bp):
GACTATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
Found at i:91668 original size:42 final size:42
Alignment explanation
Indices: 91580--91675 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
91570 ATTTTGGACT
* * * * **
91580 ATCGCAATGCGATAGTCGAAGTTCGCATTGCGATAGTCGACT
1 ATCGCATTGCGATAGTCCAAGTTCGCATTGCGATAATCCAAA
91622 ATCGCATTGCGATAGTCCAAGTTCGCATTGCGATAATCCAAA
1 ATCGCATTGCGATAGTCCAAGTTCGCATTGCGATAATCCAAA
91664 ATCGCATTGCGA
1 ATCGCATTGCGA
91676 ATCTGGAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (42 bp):
ATCGCATTGCGATAGTCCAAGTTCGCATTGCGATAATCCAAA
Found at i:92474 original size:17 final size:19
Alignment explanation
Indices: 92432--92498 Score: 88
Period size: 17 Copynumber: 3.7 Consensus size: 19
92422 CACAGAATGT
*
92432 AAGATTACCAGGAGGAATAA
1 AAGATTACCGGGAGGAAT-A
92452 AAGATTA-CGGGAGGAAT-
1 AAGATTACCGGGAGGAATA
92469 AAGATTACC-GG-GGAATA
1 AAGATTACCGGGAGGAATA
92486 AAGATTACCGGGA
1 AAGATTACCGGGA
92499 ATATGATTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
16 5 0.12
17 18 0.43
18 3 0.07
19 9 0.21
20 7 0.17
ACGTcount: A:0.43, C:0.10, G:0.30, T:0.16
Consensus pattern (19 bp):
AAGATTACCGGGAGGAATA
Found at i:92485 original size:16 final size:17
Alignment explanation
Indices: 92431--92508 Score: 81
Period size: 17 Copynumber: 4.5 Consensus size: 17
92421 TCACAGAATG
92431 TAAGATTACCAGGAGGAA
1 TAAGATTACC-GGAGGAA
*
92449 TAAAAGATTACGGGAGGAA
1 T--AAGATTACCGGAGGAA
92468 TAAGATTACCGG-GGAA
1 TAAGATTACCGGAGGAA
92484 TAAAGATTACC-G-GGAA
1 T-AAGATTACCGGAGGAA
*
92500 TATGATTAC
1 TAAGATTAC
92509 TGGGAATATT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.13
16 11 0.20
17 19 0.35
18 1 0.02
19 8 0.15
20 8 0.15
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (17 bp):
TAAGATTACCGGAGGAA
Found at i:92507 original size:32 final size:34
Alignment explanation
Indices: 92431--92516 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 34
92421 TCACAGAATG
*
92431 TAAGATTACCAGGAGGAATAAAAGATTACGGGAGGAA
1 TAAGATTACC-GG-GGAAT-AAAGATTACGCGAGGAA
92468 TAAGATTACCGGGGAATAAAGATTAC-CG-GGAA
1 TAAGATTACCGGGGAATAAAGATTACGCGAGGAA
* *
92500 TATGATTA-CTGGGAATA
1 TAAGATTACCGGGGAATA
92517 TTGTATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 8 0.17
32 11 0.24
33 1 0.02
34 9 0.20
35 5 0.11
36 2 0.04
37 10 0.22
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (34 bp):
TAAGATTACCGGGGAATAAAGATTACGCGAGGAA
Found at i:92517 original size:15 final size:15
Alignment explanation
Indices: 92464--92516 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
92454 GATTACGGGA
92464 GGAATAAGATTACCGG
1 GGAATAAGATTACC-G
92480 GGAATAAAGATTACCG
1 GGAAT-AAGATTACCG
* *
92496 GGAATATGATTACTG
1 GGAATAAGATTACCG
92511 GGAATA
1 GGAATA
92517 TTGTATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 14 0.41
16 11 0.32
17 9 0.26
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (15 bp):
GGAATAAGATTACCG
Found at i:94750 original size:24 final size:24
Alignment explanation
Indices: 94723--94834 Score: 188
Period size: 24 Copynumber: 4.7 Consensus size: 24
94713 ATCATAACAT
* *
94723 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCCGATCAG
*
94747 AATCCAGGTCAAGTATTCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
94771 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
94795 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
94819 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
94835 TATAATATAA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 83 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAG
Found at i:98774 original size:2 final size:2
Alignment explanation
Indices: 98767--98798 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
98757 GCTCAATCTA
98767 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
98799 TGCTTTTATG
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:108338 original size:22 final size:23
Alignment explanation
Indices: 108299--108363 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
108289 TCGAGGGTTC
* *
108299 TACGCGGTCTTTCAGGACATATA
1 TACGCGGTCCTTCGGGACATATA
** * *
108322 TGTG-GGTCCTTCGGGACATTTC
1 TACGCGGTCCTTCGGGACATATA
108344 TACGCGGTCCTTCGGGACAT
1 TACGCGGTCCTTCGGGACAT
108364 TTTTATATGG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.17, C:0.25, G:0.28, T:0.31
Consensus pattern (23 bp):
TACGCGGTCCTTCGGGACATATA
Found at i:112084 original size:3 final size:3
Alignment explanation
Indices: 112076--112109 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
112066 TTTTAATTTC
112076 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
112110 TACTATCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Done.