Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005377.1 Hibiscus syriacus cultivar Beakdansim tig00012268_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: 91069
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:1251 original size:21 final size:20
Alignment explanation
Indices: 1227--1268 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
1217 GTCATACAAC
*
1227 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
1248 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
1268 T
1 T
1269 TGTAAGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:1928 original size:22 final size:21
Alignment explanation
Indices: 1903--1952 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
1893 ACAATAAATG
*
1903 TTATAGTTAAGTTAAATTATAT
1 TTATAATT-AGTTAAATTATAT
* *
1925 TTATAATTAGTTTAATTTTA-
1 TTATAATTAGTTAAATTATAT
1945 TTATAATT
1 TTATAATT
1953 TTAGTGATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 10 0.40
22 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TTATAATTAGTTAAATTATAT
Found at i:3788 original size:25 final size:25
Alignment explanation
Indices: 3754--3803 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
3744 TTGAAATTAG
3754 TTAGTTTAGATCATATAAGGACCAT
1 TTAGTTTAGATCATATAAGGACCAT
3779 TTAGTTTAGATCATATAAGGACCAT
1 TTAGTTTAGATCATATAAGGACCAT
3804 ATATAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (25 bp):
TTAGTTTAGATCATATAAGGACCAT
Found at i:5344 original size:11 final size:11
Alignment explanation
Indices: 5328--5358 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
5318 AAAAGAAGGA
5328 CAAAGAGAAAG
1 CAAAGAGAAAG
5339 CAAAGAGAAAG
1 CAAAGAGAAAG
5350 CAAAGAGAA
1 CAAAGAGAA
5359 CGAGTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.10, G:0.26, T:0.00
Consensus pattern (11 bp):
CAAAGAGAAAG
Found at i:9906 original size:23 final size:23
Alignment explanation
Indices: 9880--9948 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
9870 CACCACAGCT
*
9880 CATATAATTGCACCGAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* *
9903 CATAGAATTGCACCGGAGTGCCG
1 CATAGAATTGCACCGAAGTGCCA
* *
9926 CGTAGAATTGCACCGTAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
9949 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:10135 original size:103 final size:103
Alignment explanation
Indices: 9964--10387 Score: 731
Period size: 103 Copynumber: 4.1 Consensus size: 103
9954 TAATGTCCAT
* * * *
9964 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACGA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
* *
10029 GACTTCACACAAGTTCCAAAGAATACATATATGTCCCA
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
10067 AAGGACCACATATAATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
10132 GACTTCACACATGTTACAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
10170 AAGGACCACATATCATTCCTTAAGAATCTTATACATATGCCAATGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
10235 GACTTCACACATGTTCCAAAGAATACATATATGTCCTG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
10273 AAGAACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
10338 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
10376 AAGGACCACATA
1 AAGGACCACATA
10388 GACCCTCGAC
Statistics
Matches: 303, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 303 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:10285 original size:21 final size:21
Alignment explanation
Indices: 10259--10298 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10249 TCCAAAGAAT
10259 ACATAT-ATGTCCTGAAGAACC
1 ACATATCAT-TCCTGAAGAACC
*
10280 ACATATCATTCCTTAAGAA
1 ACATATCATTCCTGAAGAA
10299 TCATATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (21 bp):
ACATATCATTCCTGAAGAACC
Found at i:15737 original size:23 final size:23
Alignment explanation
Indices: 15706--15774 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
15696 CACCACAGCT
*
15706 CATATAATTGCACCGAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* **
15729 CGTAGAATTGCACC-AGAGTGCTG
1 CATAGAATTGCACCGA-AGTGCCA
*
15752 CATAGAATTGCACCGTAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
15775 TATAATAATG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 1 0.03
23 35 0.97
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:15961 original size:103 final size:103
Alignment explanation
Indices: 15793--16110 Score: 564
Period size: 103 Copynumber: 3.1 Consensus size: 103
15783 TGTCCATAAG
*** *
15793 GACCACATATCATTCCTTAAGAATCATATACATATATTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
*
15858 TTCACACATGTTCCAAAGAATACATATATGTCCTGAAT
66 TTCACACATGTTCCAAAGAATACATATATGTCCTGAAA
*
15896 GACCACATGTCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
15961 TTCACACATGTTCCAAAGAATACATATATGTCCTGAAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCTGAAA
15999 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
* *
16064 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCCTGAAA
16102 GACCACATA
1 GACCACATA
16111 GACCCTCGAC
Statistics
Matches: 206, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 206 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCTGAAA
Found at i:16949 original size:64 final size:64
Alignment explanation
Indices: 16877--17033 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 64
16867 TTCCCTATCG
* * * ** *
16877 GTGCATCGATGCACTACCTGTGCATCGGTGCATAAAATACATTCGATGTTTGTT-TATT-ACTGG
1 GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTT-TTAGATTAAAAGA
* * * * *
16940 GATGCATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTTAGATTAAAAG
1 G-TGCATCGATGCACTACC-TGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAG
17004 A
64 A
17005 GTGCATCGATGCACTACCTGTGCATCGAT
1 GTGCATCGATGCACTACCTGTGCATCGAT
17034 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
63 6 0.08
64 64 0.84
65 6 0.08
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAGA
Found at i:21745 original size:23 final size:23
Alignment explanation
Indices: 21719--21766 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
21709 ATAAAGTACA
*
21719 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
21742 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
21765 AT
1 AT
21767 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:22516 original size:18 final size:18
Alignment explanation
Indices: 22493--22529 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22483 CGAAATATAT
22493 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
22511 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
22529 A
1 A
22530 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:22759 original size:23 final size:23
Alignment explanation
Indices: 22733--22797 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
22723 ATGCGAGATA
22733 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
22756 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
22779 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
22798 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:23177 original size:21 final size:22
Alignment explanation
Indices: 23152--23203 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
23142 ACACTTTACA
*
23152 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
23175 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
23198 ATATAA
1 ATATAA
23204 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:23188 original size:23 final size:23
Alignment explanation
Indices: 23162--23224 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
23152 ATATAACCAC
23162 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
23185 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
23208 TACCTATTACATCATAT
1 TACCTATTACATTATAT
23225 GTTTACCTAT
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:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:23642 original size:23 final size:22
Alignment explanation
Indices: 23580--23651 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
23570 ACACTTTACA
*
23580 ATATAACCACTACCTATTACATT
1 ATATAA-CGCTACCTATTACATT
*
23603 ATATAACGATACCTATTACATT
1 ATATAACGCTACCTATTACATT
* *
23625 ATATAAGGGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
23648 ATAT
1 ATAT
23652 GTTTACCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
22 20 0.47
23 23 0.53
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.35
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:23878 original size:428 final size:428
Alignment explanation
Indices: 22735--24179 Score: 2826
Period size: 427 Copynumber: 3.4 Consensus size: 428
22725 GCGAGATAGA
22735 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
22800 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
22865 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
22930 ATTTCATTTGCAC-AAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
22994 AATTTAATAATAATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
261 AATTTAATAATAATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
23059 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
326 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
23124 CTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
391 CTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
23162 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
23227 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
23292 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
23357 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
23422 AATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
261 AATTTAATAATAATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
23487 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
325 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
23552 ACTTTTAT-AAAAGGATAGACACTTTACAATATAACCAC
390 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
23590 TACCTATTACATTATAT-AACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
23654 TTACCTA-TTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
23718 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
23783 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
23848 AATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
261 AATTTAATAAT-A-ATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
23913 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
324 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
23978 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
389 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
24018 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
24083 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
24148 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
24180 ACTGCGAATT
Statistics
Matches: 1010, Mismatches: 1, Indels: 11
0.99 0.00 0.01
Matches are distributed among these distances:
426 198 0.20
427 373 0.37
428 185 0.18
429 165 0.16
430 89 0.09
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (428 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
AATTTAATAATAATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
CTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
Found at i:24033 original size:21 final size:22
Alignment explanation
Indices: 24008--24059 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
23998 ACACTTTACA
*
24008 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
24031 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
24054 ATATAA
1 ATATAA
24060 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:24044 original size:23 final size:23
Alignment explanation
Indices: 24018--24080 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
24008 ATATAACCAC
24018 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
24041 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
24064 TACCTATTACATCATAT
1 TACCTATTACATTATAT
24081 GTTTACCTAT
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:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:26948 original size:184 final size:184
Alignment explanation
Indices: 26639--27125 Score: 895
Period size: 184 Copynumber: 2.7 Consensus size: 184
26629 TTTTAAATGG
* *
26639 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
26704 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
26769 GATGTATAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 AATGTATAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
26823 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
26888 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
26953 AATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 AATGTATAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
27007 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
27071 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
27126 ATGTTGAAAG
Statistics
Matches: 295, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
183 89 0.30
184 206 0.70
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
AATGTATAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:27166 original size:22 final size:22
Alignment explanation
Indices: 27132--27176 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
27122 TAATATGTTG
*
27132 AAAGTATCCATACTTTTTATAA
1 AAAGGATCCATACTTTTTATAA
* *
27154 AAAGGATCGATACTTTTTTTAA
1 AAAGGATCCATACTTTTTATAA
27176 A
1 A
27177 GATATGTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (22 bp):
AAAGGATCCATACTTTTTATAA
Found at i:28600 original size:3 final size:3
Alignment explanation
Indices: 28592--28678 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
28582 ACTTGTTTGG
* * * **
28592 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
28640 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
28679 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:28615 original size:18 final size:18
Alignment explanation
Indices: 28592--28693 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
28582 ACTTGTTTGG
28592 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
28610 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
28628 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
28646 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
28664 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
28682 AGCTTCATCTTC
1 ATCATCATCTTC
28694 TGCGACCGAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:28659 original size:42 final size:42
Alignment explanation
Indices: 28600--28690 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
28590 GGATCATCAT
*
28600 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
28642 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
28684 CTTCATC
1 CTTCATC
28691 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:31007 original size:200 final size:199
Alignment explanation
Indices: 30146--31762 Score: 2996
Period size: 200 Copynumber: 8.1 Consensus size: 199
30136 ATTTAATTTG
* *
30146 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
30211 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
30276 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
30339 AAAA
196 AAAA
30343 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
30407 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
30472 CGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
30535 AAAA
196 AAAA
30539 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
30604 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
30668 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
30733 AAAA
196 AAAA
30737 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
30802 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
30867 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
30932 AAAAA
195 AAAAA
* *
30937 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
31002 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
31067 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
31132 AAAAA
195 AAAAA
31137 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
31202 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
31267 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AAA
31332 AAAAA
195 AAAAA
31337 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
31402 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
31467 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
31532 AAAA
196 AAAA
31536 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
31601 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
31666 CGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
31730 AAAA
196 AAAA
*
31734 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
31763 TGACCCTTAA
Statistics
Matches: 1391, Mismatches: 22, Indels: 13
0.98 0.02 0.01
Matches are distributed among these distances:
196 159 0.11
197 219 0.16
198 209 0.15
199 215 0.15
200 589 0.42
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAA
Found at i:31871 original size:19 final size:19
Alignment explanation
Indices: 31844--31888 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
31834 ATTCACATAA
*
31844 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
31863 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
31882 AAAATTA
1 AAAATTA
31889 ACTCGACATT
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:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:33708 original size:33 final size:33
Alignment explanation
Indices: 33671--33736 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
33661 CATCTTAATA
*
33671 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
33704 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
33737 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:35874 original size:24 final size:24
Alignment explanation
Indices: 35837--35889 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
35827 CCGTTCTATC
35837 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
35861 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
35885 TATTT
1 TATTT
35890 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:36077 original size:20 final size:19
Alignment explanation
Indices: 36031--36077 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
36021 TCCGGTATCA
*
36031 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
36050 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
36071 TTTTACC
1 TTTTACC
36078 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:36231 original size:19 final size:20
Alignment explanation
Indices: 36198--36242 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
36188 CACTTTTAAA
36198 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
36217 TGTTACCGG-TTTATCATATT
1 T-TTACCGGTTTTATCATATT
36237 TTTACC
1 TTTACC
36243 TGGTATATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.53
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:38298 original size:21 final size:21
Alignment explanation
Indices: 38274--38326 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
38264 ACTTCGACTA
*
38274 TCGCATTGCGATTTTTCAAAT
1 TCGCATTGCGATTTTACAAAT
* *
38295 TCGCATTACGA-TTTACATAT
1 TCGCATTGCGATTTTACAAAT
38315 TCGCATTGCGAT
1 TCGCATTGCGAT
38327 AGTCCAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:38344 original size:21 final size:21
Alignment explanation
Indices: 38320--38365 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
38310 CATATTCGCA
38320 TTGCGATAGTCCAAGTTCACG
1 TTGCGATAGTCCAAGTTCACG
* *
38341 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCACG
38362 TTGC
1 TTGC
38366 CCAAAATCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCACG
Found at i:39625 original size:21 final size:21
Alignment explanation
Indices: 39599--39711 Score: 122
Period size: 21 Copynumber: 5.5 Consensus size: 21
39589 CGCAACGCGA
*
39599 CGCAACGTGAACTTGGACTAT
1 CGCAACGCGAACTTGGACTAT
*
39620 CGCAACGTGAACTTGGACTAT
1 CGCAACGCGAACTTGGACTAT
* * **
39641 CGCAA--CGAATTTAGAAAAT
1 CGCAACGCGAACTTGGACTAT
39660 CGCAACGCGAACTTGGACTAT
1 CGCAACGCGAACTTGGACTAT
* **
39681 CGCAACGCGAATTTGGAAAAT
1 CGCAACGCGAACTTGGACTAT
*
39702 CGCAATGCGA
1 CGCAACGCGA
39712 TAGTCGAAGT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 14 0.18
21 63 0.82
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (21 bp):
CGCAACGCGAACTTGGACTAT
Found at i:39664 original size:40 final size:41
Alignment explanation
Indices: 39618--39711 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 41
39608 AACTTGGACT
*
39618 ATCGCAACGTGAACTTGGACTATCGCAA-CGAATTTAGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAACCGAATTTAGAAA
*
39658 ATCGCAACGCGAACTTGGACTATCGCAACGCGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAAC-CGAATTTAGAAA
*
39700 ATCGCAATGCGA
1 ATCGCAACGCGA
39712 TAGTCGAAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 27 0.55
42 22 0.45
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAACTTGGACTATCGCAACCGAATTTAGAAA
Found at i:47038 original size:3 final size:3
Alignment explanation
Indices: 47030--47094 Score: 94
Period size: 3 Copynumber: 20.7 Consensus size: 3
47020 TATTTTATTT
*
47030 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
47076 ACTA ATA ATA ATAA ATA AT
1 A-TA ATA ATA AT-A ATA AT
47095 TAAGACCCAG
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
3 48 0.84
4 9 0.16
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:47068 original size:19 final size:19
Alignment explanation
Indices: 47030--47097 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
47020 TATTTTATTT
*
47030 ATAATAATAA-TAATAGTA
1 ATAATAATAATTAATAATA
47048 ATAATAATAATTAATAATA
1 ATAATAATAATTAATAATA
*
47067 ATAATAATAACTAATAATA
1 ATAATAATAATTAATAATA
47086 AT-A-AATAATTAA
1 ATAATAATAATTAA
47098 GACCCAGACA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.17
18 11 0.24
19 27 0.59
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (19 bp):
ATAATAATAATTAATAATA
Found at i:48057 original size:21 final size:23
Alignment explanation
Indices: 48033--48084 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
48023 TGTCATTTGT
*
48033 ATAATTTACCTTT-TATTTT-AA
1 ATAATTTACCTTTAAATTTTCAA
*
48054 ATAATTAACCTTTAAATTTTCAA
1 ATAATTTACCTTTAAATTTTCAA
*
48077 CTAATTTA
1 ATAATTTA
48085 TAATTATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 12 0.48
22 5 0.20
23 8 0.32
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (23 bp):
ATAATTTACCTTTAAATTTTCAA
Found at i:49438 original size:18 final size:19
Alignment explanation
Indices: 49394--49450 Score: 82
Period size: 18 Copynumber: 3.0 Consensus size: 19
49384 ATGTTTAATG
49394 AAAAA-GATACCAATTGTTT
1 AAAAAGGATACCAATTG-TT
49413 ACAAAAGGATACCAATTGTT
1 A-AAAAGGATACCAATTGTT
49433 -AAAAGGATACCAATTGTT
1 AAAAAGGATACCAATTGTT
49451 GGAAAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 18 0.50
19 1 0.03
20 6 0.17
21 11 0.31
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (19 bp):
AAAAAGGATACCAATTGTT
Found at i:52839 original size:18 final size:19
Alignment explanation
Indices: 52795--52851 Score: 82
Period size: 18 Copynumber: 3.0 Consensus size: 19
52785 ATGTTTAATG
52795 AAAAA-GATACCAATTGTTT
1 AAAAAGGATACCAATTG-TT
52814 ACAAAAGGATACCAATTGTT
1 A-AAAAGGATACCAATTGTT
52834 -AAAAGGATACCAATTGTT
1 AAAAAGGATACCAATTGTT
52852 GGAAAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 18 0.50
19 1 0.03
20 6 0.17
21 11 0.31
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (19 bp):
AAAAAGGATACCAATTGTT
Found at i:57195 original size:11 final size:12
Alignment explanation
Indices: 57171--57211 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
57161 TTTATAAACA
*
57171 TAATAATATTTT
1 TAATAATTTTTT
57183 TAAT-ATTTTTT
1 TAATAATTTTTT
57194 T-ATAATTTTTT
1 TAATAATTTTTT
57205 TAA-AATT
1 TAATAATT
57212 ATCATGTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 2 0.08
11 19 0.73
12 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TAATAATTTTTT
Found at i:62367 original size:2 final size:2
Alignment explanation
Indices: 62360--62384 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62350 CTAAGTCGAG
62360 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 T
62385 GTGGAAATAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66906 original size:14 final size:14
Alignment explanation
Indices: 66887--66919 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
66877 TGTGAATATA
66887 AATGACTTATGTAT
1 AATGACTTATGTAT
66901 AATGACTTATGTAT
1 AATGACTTATGTAT
66915 AATGA
1 AATGA
66920 GGATCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (14 bp):
AATGACTTATGTAT
Found at i:67808 original size:16 final size:16
Alignment explanation
Indices: 67789--67822 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
67779 CAATATACGA
67789 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
67805 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
67821 AT
1 AT
67823 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:67897 original size:16 final size:18
Alignment explanation
Indices: 67865--67898 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
67855 TATTAATGTA
67865 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
67883 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
67899 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:68574 original size:130 final size:130
Alignment explanation
Indices: 68370--68617 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
68360 AATTTTCTTC
* * *
68370 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGCGCTAACACATGTCAGAT
** *
68435 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
68500 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGCGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGCGCTAACACATGTCAGAT
68565 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
68618 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGCGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:69075 original size:35 final size:35
Alignment explanation
Indices: 69014--69089 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
69004 AATTGAATTT
*
69014 AATTGAATTATTTTGAAATTTAGGGTTTAGAATGA
1 AATTGAATTATTTGGAAATTTAGGGTTTAGAATGA
*
69049 AATTGAATTACTTTGGAAA-TTGGGGTTTAGAATGA
1 AATTGAATTA-TTTGGAAATTTAGGGTTTAGAATGA
69084 AATTGA
1 AATTGA
69090 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 31 0.82
36 7 0.18
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.39
Consensus pattern (35 bp):
AATTGAATTATTTGGAAATTTAGGGTTTAGAATGA
Found at i:72100 original size:21 final size:20
Alignment explanation
Indices: 72050--72123 Score: 58
Period size: 21 Copynumber: 3.6 Consensus size: 20
72040 TTCTGACTAC
* *
72050 CGCATTGCGATTTTTCAAATT
1 CGCAATGCGATTTTTTAAA-T
**
72071 CGCGTTGCGATTTTTTGAAAT
1 CGCAATGCGATTTTTT-AAAT
* * *
72092 CGCAATGCGAATATGTAAAT
1 CGCAATGCGATTTTTTAAAT
*
72112 AGCAATGCGATT
1 CGCAATGCGATT
72124 CTGACTATCG
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
20 14 0.33
21 26 0.60
22 3 0.07
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (20 bp):
CGCAATGCGATTTTTTAAAT
Found at i:72136 original size:20 final size:20
Alignment explanation
Indices: 72113--72157 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
72103 TATGTAAATA
72113 GCAATGCGATTCTGACTATC
1 GCAATGCGATTCTGACTATC
72133 GCAATGCGATTCTGACTATC
1 GCAATGCGATTCTGACTATC
*
72153 ACAAT
1 GCAAT
72158 CGCAACGCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (20 bp):
GCAATGCGATTCTGACTATC
Found at i:72181 original size:20 final size:20
Alignment explanation
Indices: 72113--72183 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 20
72103 TATGTAAATA
*
72113 GCAATGCGATTCTGACTATC
1 GCAACGCGATTCTGACTATC
*
72133 GCAATGCGATTCTGACTATCACAATC
1 GCAACGCGATTCTGAC--T----ATC
72159 GCAACGCGATTCTGACTATC
1 GCAACGCGATTCTGACTATC
72179 GCAAC
1 GCAAC
72184 ACTGAATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
20 24 0.55
22 1 0.02
24 1 0.02
26 18 0.41
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (20 bp):
GCAACGCGATTCTGACTATC
Found at i:72859 original size:74 final size:75
Alignment explanation
Indices: 72677--72883 Score: 238
Period size: 74 Copynumber: 2.8 Consensus size: 75
72667 CAAAGCCAAA
* * * * **
72677 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATT-CCCCCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
72741 TTTGGCTCCGAG
64 TTTGGCTCCGAG
* *
72753 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACATTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
* *
72818 TTGTTCCGAG
66 TGGCTCCGAG
* * ** * *
72828 AATTCCAGTATGCTTGGAGGGAACCGA-TCCCCCCCAGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCT
72884 GTTCAACGGT
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
74 46 0.41
75 42 0.37
76 25 0.22
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:81465 original size:75 final size:75
Alignment explanation
Indices: 81331--81522 Score: 233
Period size: 75 Copynumber: 2.5 Consensus size: 75
81321 GATTGCTCAA
* ** *
81331 AGGGAACCGATTCCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGGTTTGGCTCCGAGATTT
1 AGGGAACCGATT---CCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATT
81396 CCAGAATGCTCGG
63 CCAGAATGCTCGG
* * * *
81409 AGGGAACCGATTCCCCCATAGGAGGAACTGATTCCCCCCTAAACATTTTTGTTCCGAGAATTCCA
1 AGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCA
*
81474 GTATGCTCGG
66 GAATGCTCGG
** * *
81484 AGGGAACCGA-TCCCCCCCAGGGGGTACCGATTCCCCCCT
1 AGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCT
81523 GTTCAACGGT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
74 24 0.24
75 64 0.64
78 12 0.12
ACGTcount: A:0.22, C:0.33, G:0.24, T:0.21
Consensus pattern (75 bp):
AGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCA
GAATGCTCGG
Found at i:82826 original size:24 final size:24
Alignment explanation
Indices: 82799--82852 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
82789 GTATTCGAAA
*
82799 TTTGGTCTTGGTCAATACCCAGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
82823 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
82847 TTTGAT
1 TTTGAT
82853 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:85298 original size:20 final size:20
Alignment explanation
Indices: 85273--85341 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
85263 CAACGCGGAA
*
85273 ATCGCAACGC-GAATAAGACT
1 ATCGCAACGCGGAA-ATGACT
*
85293 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
85313 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
85333 ATCGCAACG
1 ATCGCAACG
85342 AGAGAATCGC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 42 0.93
21 3 0.07
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:85352 original size:14 final size:14
Alignment explanation
Indices: 85333--85419 Score: 66
Period size: 14 Copynumber: 5.5 Consensus size: 14
85323 GGAAATGACT
85333 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
85347 ATCGCAATGCGAACTGAAA
1 ATCGCAA--CG-A--GAGA
85366 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
85380 ATCGCAATGCGAACTGAAA
1 ATCGCAA--CG-A--GAGA
85399 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
85413 ATCGCAA
1 ATCGCAA
85420 TGCGAAAATG
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 27 0.46
16 6 0.10
17 6 0.10
19 20 0.34
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:85370 original size:19 final size:18
Alignment explanation
Indices: 85346--85439 Score: 78
Period size: 14 Copynumber: 5.4 Consensus size: 18
85336 GCAACGAGAG
85346 AATCGCAATGCGAACTGAA
1 AATCGCAATGCGAA-TGAA
*
85365 AATCGCAA--CG-A-GAG
1 AATCGCAATGCGAATGAA
85379 AATCGCAATGCGAACTGAA
1 AATCGCAATGCGAA-TGAA
*
85398 AATCGCAA--CG-A-GAG
1 AATCGCAATGCGAATGAA
85412 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG--AATGAA
85432 AATCGCAA
1 AATCGCAA
85440 CGTGAATCTA
Statistics
Matches: 60, Mismatches: 4, Indels: 21
0.71 0.05 0.25
Matches are distributed among these distances:
14 20 0.33
16 6 0.10
17 5 0.08
19 19 0.32
20 10 0.17
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (18 bp):
AATCGCAATGCGAATGAA
Found at i:85372 original size:33 final size:33
Alignment explanation
Indices: 85333--85441 Score: 200
Period size: 33 Copynumber: 3.3 Consensus size: 33
85323 GGAAATGACT
85333 ATCGCAACGAGAGAATCGCAATGCGAACTGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAACTGAAA
85366 ATCGCAACGAGAGAATCGCAATGCGAACTGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAACTGAAA
*
85399 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCG-AACTGAAA
85433 ATCGCAACG
1 ATCGCAACG
85442 TGAATCTAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
33 58 0.78
34 16 0.22
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAACTGAAA
Found at i:85540 original size:33 final size:34
Alignment explanation
Indices: 85481--85552 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
85471 TTTTGTATTA
** *
85481 CGATTCTCTCGTTACGATTTTTATTT-CGCATTG
1 CGATTCTCTCGTTACGATAGTCATTTCCGCATTG
* *
85514 CGATTCTCTCGTTGCGATAGTCATTTCCGCGTTG
1 CGATTCTCTCGTTACGATAGTCATTTCCGCATTG
85548 CGATT
1 CGATT
85553 GTCTATTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 22 0.67
34 11 0.33
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (34 bp):
CGATTCTCTCGTTACGATAGTCATTTCCGCATTG
Found at i:85676 original size:14 final size:14
Alignment explanation
Indices: 85657--85690 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
85647 CATCAATTAA
85657 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
85671 ACAAATCATCTTTT
1 ACAAATCAACATTT
85685 ACAAAT
1 ACAAAT
85691 AAATTAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:87680 original size:18 final size:19
Alignment explanation
Indices: 87657--87702 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
87647 GAAACTTAAA
87657 ATCGCAACACG-AATGACT
1 ATCGCAACACGAAATGACT
*
87675 ATCGCAACGCGAAAATGACT
1 ATCGCAACACG-AAATGACT
87695 ATCGCAAC
1 ATCGCAAC
87703 TTGAATTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.40
20 15 0.60
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.15
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:87791 original size:20 final size:20
Alignment explanation
Indices: 87766--87831 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
87756 GCGATTCTTT
**
87766 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
87786 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
87806 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
87826 CGTTGC
1 CGTTGC
87832 AAAAGTAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:87792 original size:34 final size:37
Alignment explanation
Indices: 87748--87831 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 37
87738 CGATTTTCAT
*
87748 TTCGCATTGCGAT-TC-TTT-CGTTGCGATAGTCAAA
1 TTCGCGTTGCGATATCATTTCCGTTGCGATAGTCAAA
**
87782 TTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATA-TCA-TTTC-CGTTGCGATAGTCAAA
87822 TTCGCGTTGC
1 TTCGCGTTGC
87832 AAAAGTAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 12 0.29
36 2 0.05
38 3 0.07
40 24 0.59
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (37 bp):
TTCGCGTTGCGATATCATTTCCGTTGCGATAGTCAAA
Found at i:88205 original size:20 final size:19
Alignment explanation
Indices: 88180--88235 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 19
88170 TCGTAACACG
88180 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGC-AA
88200 AATGACTATCGCAACGCAA
1 AATGACTATCGCAACGCAA
*
88219 ATTTGACTATCGCAACG
1 A-ATGACTATCGCAACG
88236 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 3 0.09
20 31 0.91
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (19 bp):
AATGACTATCGCAACGCAA
Found at i:88303 original size:20 final size:20
Alignment explanation
Indices: 88278--88345 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
88268 GCGATTCTTT
**
88278 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
88298 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
88318 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
88338 CGTTGCGA
1 CGTTGCGA
88346 AAGTAAACTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:88304 original size:34 final size:37
Alignment explanation
Indices: 88260--88345 Score: 97
Period size: 40 Copynumber: 2.3 Consensus size: 37
88250 CGATTTTCAT
*
88260 TTCGCATTGCGAT-TC-TTT-CGTTGCGATAGTCAAA
1 TTCGCGTTGCGATATCATTTCCGTTGCGATAGTCAAA
**
88294 TTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATA-TCA-TTTC-CGTTGCGATAGTCAAA
88334 TTCGCGTTGCGA
1 TTCGCGTTGCGA
88346 AAGTAAACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
34 12 0.28
36 2 0.05
38 3 0.07
40 26 0.60
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.38
Consensus pattern (37 bp):
TTCGCGTTGCGATATCATTTCCGTTGCGATAGTCAAA
Found at i:88374 original size:512 final size:512
Alignment explanation
Indices: 87408--88408 Score: 1885
Period size: 512 Copynumber: 2.0 Consensus size: 512
87398 ATTCACCCAA
*
87408 GTCATTATTCTATCATTGTTCACAAAATGCATCATATAACATTCCAGAAGTAATCACTTATATAA
1 GTCATTATTCTATCATTGTTCACAAAATGCATCAGATAACATTCCAGAAGTAATCACTTATATAA
*
87473 ACATTTAAAAGGATAACATATAGGTTTAGTGCAGGTTCAATGACAACATAAAGAGTAGTAGTTTA
66 ACATTTAAAAGGACAACATATAGGTTTAGTGCAGGTTCAATGACAACATAAAGAGTAGTAGTTTA
*
87538 TTCTTGAAACTTAAATTTTCAACACTTTGAAGTTAGTATTTGTCTTTGTCTTTTGGTTGAAGTAA
131 TTCTTGAAACTTAAATTTTCAACACTGTGAAGTTAGTATTTGTCTTTGTCTTTTGGTTGAAGTAA
*
87603 TGCAATTCATTCAAGTTTCAATTTGCAGAAGAAGAATAGAATCTGAAACTTAAAATCGCAACACG
196 TGCAATTCATTCAAGTTTCAATTTGAAGAAGAAGAATAGAATCTGAAACTTAAAATCGCAACACG
*** *
87668 AATGACTATCGCAACGCGAAAATGACTATCGCAACTTGAATTTGACTATCGTAACGAGAGAATCA
261 AATGACTATCGCAACGCGAAAATGACTATCGCAACGCAAATTTGACTATCGCAACGAGAGAATCA
87733 CAATGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCGTTGCGATAGT
326 CAATGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCGTTGCGATAGT
*
87798 CATTTTCGCGTTGCGATAGTCATTTTCGCGTTGCAAAAGTAAACTATTCTTCTTCTGGAAATTGA
391 CATTTTCGCGTTGCGATAGTCATTTTCGCGTTGCAAAAGTAAACTATTCTTCTTCTGCAAATTGA
*
87863 AACTTGAATGGATTGCATTACTTCAACCAAAAGATAACCAAATACTAACTTCACAGG
456 AACTTGAATGGATTACATTACTTCAACCAAAAGATAACCAAATACTAACTTCACAGG
87920 GTCATTATTCTATCATTGTTCACAAAATGCATCAGATAACATTCCAGAAGTAATCACTTATATAA
1 GTCATTATTCTATCATTGTTCACAAAATGCATCAGATAACATTCCAGAAGTAATCACTTATATAA
87985 ACATTTAAAAGGACAACATATAGGTTTAGTGCAGGTTCAATGACAACATAAAGAGTAGTAGTTTA
66 ACATTTAAAAGGACAACATATAGGTTTAGTGCAGGTTCAATGACAACATAAAGAGTAGTAGTTTA
88050 TTCTTGAAACTTAAATTTTCAACACTGTGAAGTTAGTATTTGTCTTTGTCTTTTGGTTGAAGTAA
131 TTCTTGAAACTTAAATTTTCAACACTGTGAAGTTAGTATTTGTCTTTGTCTTTTGGTTGAAGTAA
*
88115 TGCAATTCATTCAAGTTTCAATTTGAAGAAGAAGAATAGAATCTGAAACTTAAAATCGTAACACG
196 TGCAATTCATTCAAGTTTCAATTTGAAGAAGAAGAATAGAATCTGAAACTTAAAATCGCAACACG
*
88180 AATGACTATCGCAACGCGAAAATGACTATCGCAACGCAAATTTGACTATCGCAACGAGAGAATCG
261 AATGACTATCGCAACGCGAAAATGACTATCGCAACGCAAATTTGACTATCGCAACGAGAGAATCA
88245 CAATGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCGTTGCGATAGT
326 CAATGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCGTTGCGATAGT
*
88310 CATTTTCGCGTTGCGATAGTCATTTTCGCGTTGCGAAAGTAAACTATTCTTCTTCTGCAAATTGA
391 CATTTTCGCGTTGCGATAGTCATTTTCGCGTTGCAAAAGTAAACTATTCTTCTTCTGCAAATTGA
88375 AACTTGAATGGATTACATTACTTCAACCAAAAGA
456 AACTTGAATGGATTACATTACTTCAACCAAAAGA
88409 CAACAAAAAA
Statistics
Matches: 476, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
512 476 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (512 bp):
GTCATTATTCTATCATTGTTCACAAAATGCATCAGATAACATTCCAGAAGTAATCACTTATATAA
ACATTTAAAAGGACAACATATAGGTTTAGTGCAGGTTCAATGACAACATAAAGAGTAGTAGTTTA
TTCTTGAAACTTAAATTTTCAACACTGTGAAGTTAGTATTTGTCTTTGTCTTTTGGTTGAAGTAA
TGCAATTCATTCAAGTTTCAATTTGAAGAAGAAGAATAGAATCTGAAACTTAAAATCGCAACACG
AATGACTATCGCAACGCGAAAATGACTATCGCAACGCAAATTTGACTATCGCAACGAGAGAATCA
CAATGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCGTTGCGATAGT
CATTTTCGCGTTGCGATAGTCATTTTCGCGTTGCAAAAGTAAACTATTCTTCTTCTGCAAATTGA
AACTTGAATGGATTACATTACTTCAACCAAAAGATAACCAAATACTAACTTCACAGG
Found at i:90272 original size:20 final size:20
Alignment explanation
Indices: 90249--90344 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 20
90239 TCTGAAACTT
*
90249 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
*
90269 AAAATCGTAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
90289 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** * *
90309 ACTATCGTAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
90328 AAAATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
90345 CTAAAACCGC
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
19 14 0.23
20 47 0.77
ACGTcount: A:0.46, C:0.20, G:0.18, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:90355 original size:19 final size:19
Alignment explanation
Indices: 90317--90355 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
90307 TGACTATCGT
*
90317 AACGCGAAATGAAAATCGC
1 AACGCGAAATGAAAACCGC
90336 AACGCGAAACT-AAAACCGC
1 AACGCGAAA-TGAAAACCGC
90355 A
1 A
90356 TTGTGATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.26, G:0.18, T:0.08
Consensus pattern (19 bp):
AACGCGAAATGAAAACCGC
Found at i:90956 original size:20 final size:20
Alignment explanation
Indices: 90926--90979 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
90916 GCGCTTTGAA
*
90926 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
90946 CATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
90966 AATCGCGTTGCGAT
1 AATCGCGTTGCGAT
90980 TTACATATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:91027 original size:21 final size:22
Alignment explanation
Indices: 90998--91040 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
90988 TCGCATTACG
90998 ATTTCGGAAAATCGCAACGCGA
1 ATTTCGGAAAATCGCAACGCGA
*
91020 ATTT-GGAAAATCGCAATGCGA
1 ATTTCGGAAAATCGCAACGCGA
91041 TAGTCAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (22 bp):
ATTTCGGAAAATCGCAACGCGA
Done.