Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003527.1 Hibiscus syriacus cultivar Beakdansim tig00007449_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: 100568
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Found at i:4942 original size:14 final size:15
Alignment explanation
Indices: 4917--4950 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
4907 ATCCAGGAAC
*
4917 TGAATCCTGTATTCA
1 TGAATCCTGTATTAA
4932 TGAAT-CTGTATTAA
1 TGAATCCTGTATTAA
4946 TGAAT
1 TGAAT
4951 GAGGAGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (15 bp):
TGAATCCTGTATTAA
Found at i:6726 original size:120 final size:120
Alignment explanation
Indices: 6507--7337 Score: 946
Period size: 120 Copynumber: 7.0 Consensus size: 120
6497 ACTACAGACT
* * * * * * *
6507 TGACAAAACGGAAGTTAAAGAGGACACAGGTCTTGCCCGAGAGGATCAGAGTTCAGTTCACTCAG
1 TGACAAAATGGAAGTTAAAGAGGACACAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCACTTAG
* * *
6572 AAGATACCAACGTAACTGCTGCTGTACCAGTTCAGGAGGTAGTTACCTGGGAAAG
66 AAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTTCCTGGGAAAG
* * * * * *
6627 TGACAAAACGGAAGTTAAAGAGGACACAGGTCTTCCTCAAGGGGATCAGAGTTCAGTGCACTCAG
1 TGACAAAATGGAAGTTAAAGAGGACACAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCACTTAG
* **
6692 AAGATACCAACATAACTGCTGCTGAACCAATTCAGGAGGTAGTTTTTTGGGAAAG
66 AAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTTCCTGGGAAAG
* * * * * *
6747 TGACAAAATTGAAG-TAGATGAGGACACGAGTCTTGCTAAAGAGGACCAGAGTT-ATATGCAATT
1 TGACAAAATGGAAGTTA-AAGAGGACACAAGTCTTGCTCAAGAGGATCAGAGTTCA-ATGCACTT
* *
6810 GGAAGATACTAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTAT-CTGGGAAAG
64 AGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTT-TCCTGGGAAAG
* * * * * * *
6867 TGACAAAATTGAAGATAAAGAAGACACAAGTCCTGTTCAAGAGGATCAGAGTTCACTGCAATTAG
1 TGACAAAATGGAAGTTAAAGAGGACACAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCACTTAG
* * * ** *
6932 AACATACCAACATTACTGCCGCTGAACCAGTTCAGGAGACAGTTTCCAGGGAAAG
66 AAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTTCCTGGGAAAG
* * * * *
6987 TGTCAAAATGGAAGTTAAAGAGGACAC-A----T-ATCAAGAGGATCCGTGTTCATTGCACTTAG
1 TGACAAAATGGAAGTTAAAGAGGACACAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCACTTAG
*
7046 AAGATACCAACATAACTGCTGCTGAACCAGTTCAAGAGGTAGTTTCCTGGGAAAG
66 AAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTTCCTGGGAAAG
* * * * * *
7101 TGACAAAATTGAAG-TAGATGAGGACATAAGTCTTGCTCAAGAGGATCAGAGTTCAATACAGTCA
1 TGACAAAATGGAAGTTA-AAGAGGACACAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCACTTA
* * * * * * *
7165 GAAGATACCAACATAAATGCTGCTGGAGCAGTTCAGGAGATTGTTTTCTGGAAAAG
65 GAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTTCCTGGGAAAG
* * * *
7221 TGACAAAATGGAAGTTAAAGAGGACACAAGTCTTACTCAAGAGGGTAAGAGTTTAATGCACTTAG
1 TGACAAAATGGAAGTTAAAGAGGACACAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCACTTAG
* * *
7286 AAGATACCAACCA-AACTGCTGTTGAACCAATTCAGGAGGTAGTTTTCTGGGA
66 AAGATACCAA-CATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTTCCTGGGA
7338 TCACTTGAAT
Statistics
Matches: 600, Mismatches: 96, Indels: 30
0.83 0.13 0.04
Matches are distributed among these distances:
113 2 0.00
114 93 0.16
115 2 0.00
119 6 0.01
120 489 0.81
121 8 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (120 bp):
TGACAAAATGGAAGTTAAAGAGGACACAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCACTTAG
AAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTTCCTGGGAAAG
Found at i:7171 original size:354 final size:356
Alignment explanation
Indices: 6507--7323 Score: 1003
Period size: 354 Copynumber: 2.3 Consensus size: 356
6497 ACTACAGACT
* * * * * * * * * * *
6507 TGACAAAACGGAAGTTAAAGAGGACACAGGTCTTGCCCGAGAGGATCAGAGTTCAGTTCACTCAG
1 TGACAAAATGGAAGATAAAGAAGACACAAGTCCTACTCAAGAGGATCAGAGTTCAATGCACTTAG
* * ** *
6572 AAGATACCAACGTAACTGCTGCTGTACCAGTTCAGGAGGTAGTTACCTGGGAAAGTGACAAAACG
66 AAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGACAGTTACCAGGGAAAGTGACAAAACG
* *
6637 GAAGTTAAAGAGGACACAGGTCTTCCTCAAGGGGATCAGAGTTCAGTGCACTCAGAAGATACCAA
131 GAAGTTAAAGAGGACACA-G---TCATCAAGAGGATCAGAGTTCAGTGCACTCAGAAGATACCAA
* **
6702 CATAACTGCTGCTGAACCAATTCAGGAGGTAGTTTTTTGGGAAAGTGACAAAATTGAAGTAGATG
192 CATAACTGCTGCTGAACCAATTCAAGAGGTAGTTTCCTGGGAAAGTGACAAAATTGAAGTAGATG
* * ** * *
6767 AGGACACGAGTCTTGCTAAAGAGGACCAGAGTTATATGCAATTGGAAGATACTAACATAACTGCT
257 AGGACACAAGTCTTGCTAAAGAGGACCAGAGTTATATACAATCAGAAGATACCAACATAAATGCT
* *
6832 GCTGAACCAGTTCAGGAGGTAGTTATCTGGGAAAG
322 GCTGAACCAGTTCAGGAGATAGTTATCTGGAAAAG
* ** * *
6867 TGACAAAATTGAAGATAAAGAAGACACAAGTCCTGTTCAAGAGGATCAGAGTTCACTGCAATTAG
1 TGACAAAATGGAAGATAAAGAAGACACAAGTCCTACTCAAGAGGATCAGAGTTCAATGCACTTAG
* * * * * *
6932 AACATACCAACATTACTGCCGCTGAACCAGTTCAGGAGACAGTTTCCAGGGAAAGTGTCAAAATG
66 AAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGACAGTTACCAGGGAAAGTGACAAAACG
* * * *
6997 GAAGTTAAAGAGGACACA-T-ATCAAGAGGATCCGTGTTCATTGCACTTAGAAGATACCAACATA
131 GAAGTTAAAGAGGACACAGTCATCAAGAGGATCAGAGTTCAGTGCACTCAGAAGATACCAACATA
*
7060 ACTGCTGCTGAACCAGTTCAAGAGGTAGTTTCCTGGGAAAGTGACAAAATTGAAGTAGATGAGGA
196 ACTGCTGCTGAACCAATTCAAGAGGTAGTTTCCTGGGAAAGTGACAAAATTGAAGTAGATGAGGA
* * * *
7125 CATAAGTCTTGCTCAAGAGGATCAGAGTTCA-ATACAGTCAGAAGATACCAACATAAATGCTGCT
261 CACAAGTCTTGCTAAAGAGGACCAGAGTT-ATATACAATCAGAAGATACCAACATAAATGCTGCT
* * * *
7189 GGAGCAGTTCAGGAGATTGTTTTCTGGAAAAG
325 GAACCAGTTCAGGAGATAGTTATCTGGAAAAG
* * * * * *
7221 TGACAAAATGGAAGTTAAAGAGGACACAAGTCTTACTCAAGAGGGTAAGAGTTTAATGCACTTAG
1 TGACAAAATGGAAGATAAAGAAGACACAAGTCCTACTCAAGAGGATCAGAGTTCAATGCACTTAG
* *
7286 AAGATACCAACCA-AACTGCTGTTGAACCAATTCAGGAG
66 AAGATACCAA-CATAACTGCTGCTGAACCAGTTCAGGAG
7324 GTAGTTTTCT
Statistics
Matches: 389, Mismatches: 66, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
354 261 0.67
355 4 0.01
360 124 0.32
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (356 bp):
TGACAAAATGGAAGATAAAGAAGACACAAGTCCTACTCAAGAGGATCAGAGTTCAATGCACTTAG
AAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGACAGTTACCAGGGAAAGTGACAAAACG
GAAGTTAAAGAGGACACAGTCATCAAGAGGATCAGAGTTCAGTGCACTCAGAAGATACCAACATA
ACTGCTGCTGAACCAATTCAAGAGGTAGTTTCCTGGGAAAGTGACAAAATTGAAGTAGATGAGGA
CACAAGTCTTGCTAAAGAGGACCAGAGTTATATACAATCAGAAGATACCAACATAAATGCTGCTG
AACCAGTTCAGGAGATAGTTATCTGGAAAAG
Found at i:12447 original size:2 final size:2
Alignment explanation
Indices: 12404--12433 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12394 CCCCATTACT
12404 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12434 AAAGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14461 original size:29 final size:29
Alignment explanation
Indices: 14428--14485 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
14418 CATGACCAAG
14428 GAAAACCTAAAACAAAGAATACCAAATGT
1 GAAAACCTAAAACAAAGAATACCAAATGT
14457 GAAAACCTAAAACAAAGAATACCAAATGT
1 GAAAACCTAAAACAAAGAATACCAAATGT
14486 TTACCATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.59, C:0.17, G:0.10, T:0.14
Consensus pattern (29 bp):
GAAAACCTAAAACAAAGAATACCAAATGT
Found at i:21517 original size:15 final size:17
Alignment explanation
Indices: 21497--21528 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
21487 CATAATATAA
21497 TAAATT-CAAG-TAGAT
1 TAAATTACAAGATAGAT
21512 TAAATTACAAGATAGAT
1 TAAATTACAAGATAGAT
21529 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (17 bp):
TAAATTACAAGATAGAT
Found at i:21878 original size:27 final size:26
Alignment explanation
Indices: 21858--21907 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
21848 TTTTATATTA
*
21858 GGAAA-AAACTTATTAAATTTTAAAG
1 GGAAATAAACTTATCAAATTTTAAAG
21883 GGAAATAAACTTATCAAATTTTAAA
1 GGAAATAAACTTATCAAATTTTAAA
21908 AGATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (26 bp):
GGAAATAAACTTATCAAATTTTAAAG
Found at i:21953 original size:17 final size:18
Alignment explanation
Indices: 21928--21971 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
21918 ATATTTTTTT
*
21928 AATTGAAAATATA-AAAA
1 AATTTAAAATATATAAAA
*
21945 AATTTAAAATATATAAGA
1 AATTTAAAATATATAAAA
21963 AA-TTAAAAT
1 AATTTAAAAT
21972 TTTCAAGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTTAAAATATATAAAA
Found at i:22808 original size:32 final size:32
Alignment explanation
Indices: 22749--22810 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
22739 TCGAATATGT
* * *
22749 TAGAATTGAGTTTGACAGCCTAGGTGGTAGGG
1 TAGAACTGAATTTGACAGCCTACGTGGTAGGG
* *
22781 TAGAACTGAATTTGGCAGTCTACGTGGTAG
1 TAGAACTGAATTTGACAGCCTACGTGGTAG
22811 TAAAAATGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.26, C:0.11, G:0.34, T:0.29
Consensus pattern (32 bp):
TAGAACTGAATTTGACAGCCTACGTGGTAGGG
Found at i:26425 original size:25 final size:26
Alignment explanation
Indices: 26397--26445 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
26387 ATCTGCAAAA
*
26397 AAATTATATAAGTAAA-ATATTAAAT
1 AAATTAAATAAGTAAATATATTAAAT
**
26422 AAATTAAATACTTAAATATATTAA
1 AAATTAAATAAGTAAATATATTAA
26446 GTACAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
AAATTAAATAAGTAAATATATTAAAT
Found at i:26429 original size:17 final size:18
Alignment explanation
Indices: 26409--26445 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
26399 ATTATATAAG
26409 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
*
26426 T-AAATACTTAAATATAT
1 TAAAATACTTAAATAAAT
26443 TAA
1 TAA
26446 GTACAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 5 0.29
17 11 0.65
18 1 0.06
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:31741 original size:229 final size:227
Alignment explanation
Indices: 31322--31779 Score: 790
Period size: 229 Copynumber: 2.0 Consensus size: 227
31312 GTTATATTGT
* * * *
31322 AAAATTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATT
1 AAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATT
*
31387 ATCTTTAGTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAA
66 ATATTTAGTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAA
** *
31452 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
131 ATAAAATTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTA
31517 AAAAAATTGAAACATAAATTACATAACTTTCAA
196 AAAAAATTGAAACATAAATTACATAACTTT-AA
31550 AAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTAT
1 AAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTAT
* *
31615 TATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCA
65 TATATTTAGTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCA
*
31680 AATAAAATTTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATT
130 AATAAAATTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATT
*
31745 AAATAAATTGAAACATAAATTACATAACTTTAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAA
31778 AA
1 AA
31780 GCAGTTTTAA
Statistics
Matches: 217, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
228 47 0.22
229 170 0.78
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (227 bp):
AAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATT
ATATTTAGTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAA
ATAAAATTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTA
AAAAAATTGAAACATAAATTACATAACTTTAA
Found at i:31868 original size:20 final size:19
Alignment explanation
Indices: 31845--31891 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
31835 CGATATACCA
31845 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
31865 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
31885 GGTAAAA
1 GGTAAAA
31892 TTAAAAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:32034 original size:20 final size:19
Alignment explanation
Indices: 32011--32056 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
32001 CGATATAACA
*
32011 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
32031 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
32051 GGTAAA
1 GGTAAA
32057 TGATACCGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:34401 original size:33 final size:33
Alignment explanation
Indices: 34359--34424 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
34349 AAATAGATGG
*
34359 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
34392 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
34425 TATTAAGATG
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:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:36258 original size:19 final size:19
Alignment explanation
Indices: 36214--36257 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
36204 AATGTCGAGT
36214 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
36233 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
36252 T-ATTTT
1 TAATTTT
36258 TTTATGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:37356 original size:199 final size:199
Alignment explanation
Indices: 36351--37950 Score: 2957
Period size: 198 Copynumber: 8.1 Consensus size: 199
36341 GTCGATACTA
36351 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
1 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
36416 TCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
66 TCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
36479 TTTAATCTAACCGGTACAATTATACCGGTTTTAT--GAGAATAAGTCTAAATAATGTGTCGACAC
131 TTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACAC
36542 TAAT
196 TAAT
36546 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
1 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
36611 TCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
66 TCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
36675 TTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACAC
131 TTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACAC
36740 TAAT
196 TAAT
36744 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCATCAATAAAGTGTCGA
1 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
36808 TCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
66 TCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
*
36873 TTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACAC
131 TTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACAC
36938 TAAT
196 TAAT
* * *
36942 ATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGA
1 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
37007 TCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
66 TCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
37072 TTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACA
130 TTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACA
37137 CTAAT
195 CTAAT
37142 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
1 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
37207 TCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
66 TCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
37272 TTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACAC
131 TTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACAC
37337 TAAT
196 TAAT
37341 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCATCAATAAAGTGTCGA
1 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
37405 TCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
66 TCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
*
37470 TTTAATCTAACCGGTACAATTATACCGGTTTTATAAGAGAATAAGTCTAAATAATGTGTCGACAC
131 TTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACAC
37535 TAAT
196 TAAT
* * * *
37539 ATAGTTTGTGTCGATA-TTTTTTCCCAGAATGAATAAAAAACAAGGTGCACCCATAAAGTGTCGA
1 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
37603 TCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
66 TCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
* *
37667 TTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACAC
131 TTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACAC
37732 TAAT
196 TAAT
* * *
37736 ATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGA
1 ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
*
37801 TCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
66 TCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
* * *
37866 TTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACAC
131 TTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACAC
37931 TAAT
196 TAAT
*
37935 ATATTTTGTGTCGATA
1 ATAGTTTGTGTCGATA
37951 CTAATTTAAA
Statistics
Matches: 1375, Mismatches: 20, Indels: 16
0.97 0.01 0.01
Matches are distributed among these distances:
195 68 0.05
196 89 0.06
197 201 0.15
198 483 0.35
199 339 0.25
200 195 0.14
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGA
TCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTT
TTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACAC
TAAT
Found at i:39434 original size:18 final size:18
Alignment explanation
Indices: 39411--39478 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
39401 ATCGGTCGCA
39411 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
39429 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
39450 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
39471 GAAGATGA
1 GAAGATGA
39479 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:39435 original size:6 final size:6
Alignment explanation
Indices: 39411--39508 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
39401 ATCGGTCGCA
* * * * * *
39411 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
39459 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
39507 GA
1 GA
39509 TGATCCAACA
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:39446 original size:3 final size:3
Alignment explanation
Indices: 39426--39512 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
39416 TGAAGCTGAC
* * * * * ** *
39426 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
39474 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
39513 CCAACAAGTA
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:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:39461 original size:42 final size:42
Alignment explanation
Indices: 39414--39504 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
39404 GGTCGCAGAA
*
39414 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
39456 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
39498 GATGAAG
1 GATGAAG
39505 ATGATGATCC
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:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:39512 original size:18 final size:18
Alignment explanation
Indices: 39411--39508 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
39401 ATCGGTCGCA
* *
39411 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
39429 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
39447 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
39465 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
39483 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
39501 GAAGATGA
1 GAAGATGA
39509 TGATCCAACA
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:41189 original size:183 final size:184
Alignment explanation
Indices: 40877--42097 Score: 2340
Period size: 184 Copynumber: 6.7 Consensus size: 184
40867 CTTTCAACAT
**
40877 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
40942 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTAGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
41007 AATGTGTCGATACGATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
41060 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
41125 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
41190 AATGTGTCGATACAATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
41243 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
41308 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
41373 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
41427 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
41492 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
41557 AATGTGTCGATACAATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
41610 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
41675 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
41740 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
41794 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
41859 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
41924 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* * *
41978 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
42043 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
42098 CCATTTAAAA
Statistics
Matches: 1027, Mismatches: 9, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
183 510 0.50
184 517 0.50
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:41549 original size:367 final size:367
Alignment explanation
Indices: 40877--42097 Score: 2345
Period size: 367 Copynumber: 3.3 Consensus size: 367
40867 CTTTCAACAT
**
40877 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
40942 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTAGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
41007 AATGTGTCGATACGATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
41071 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
41136 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
41201 ACAATTTAAAAAGTGTCGACATTTTACACATCGGAACCCATA
326 ACAATTTAAAAAGTGTCGACATTTTACACATCGGAACCCATA
41243 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
41308 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
41373 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
41438 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
41503 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
41568 ACAATTTAAAAAGTGTCGACATTTTACACATCGGAACCCATA
326 ACAATTTAAAAAGTGTCGACATTTTACACATCGGAACCCATA
41610 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
41675 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
41740 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
41805 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
41870 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
*
41935 ACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
326 ACAATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCATA
* * *
41978 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
42043 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
42098 CCATTTAAAA
Statistics
Matches: 844, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
366 144 0.17
367 549 0.65
368 151 0.18
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (367 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
ACAATTTAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:44685 original size:23 final size:23
Alignment explanation
Indices: 44654--44716 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
44644 ATAGGTAAAC
*
44654 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
44677 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
44700 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
44717 ATGGTTATAT
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:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:44724 original size:23 final size:23
Alignment explanation
Indices: 44654--44726 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
44644 ATAGGTAAAC
* * **
44654 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
44677 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
44700 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
44723 ATAT
1 ATAT
44727 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:45116 original size:23 final size:23
Alignment explanation
Indices: 45085--45147 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
45075 ATAGGTAAAC
*
45085 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
45108 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
45131 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
45148 ATGGTTATAT
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:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:45155 original size:23 final size:23
Alignment explanation
Indices: 45085--45157 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
45075 ATAGGTAAAC
* * **
45085 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
45108 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
45131 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
45154 ATAT
1 ATAT
45158 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:45358 original size:431 final size:431
Alignment explanation
Indices: 44555--45576 Score: 2021
Period size: 431 Copynumber: 2.4 Consensus size: 431
44545 AATTCGCAGT
44555 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
44620 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
44685 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
44750 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
44815 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
44880 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
44945 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
44986 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
45051 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
45116 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
45181 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
45246 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
*
45311 ATTAAATTTAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
45376 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
45417 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCC-TTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
45480 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
45545 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
45577 TCTATCTCGC
Statistics
Matches: 590, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
429 104 0.18
430 48 0.08
431 438 0.74
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:45577 original size:23 final size:23
Alignment explanation
Indices: 45514--45578 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
45504 ATAGGTAAAC
* *
45514 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
45537 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
45560 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
45579 TATCTCGCAT
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:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:45803 original size:18 final size:18
Alignment explanation
Indices: 45782--45818 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45772 GTAATTGGAG
45782 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
45800 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
45818 T
1 T
45819 ATATATTTCG
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:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:45826 original size:24 final size:24
Alignment explanation
Indices: 45774--45820 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
45764 TTTCATATGT
* *
45774 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
45798 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
45821 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:59835 original size:23 final size:22
Alignment explanation
Indices: 59801--59849 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
59791 AGAATGGTAT
* *
59801 TAAAATTAATTATATTTATTTTA
1 TAAAATTAATTA-ATTCATATTA
59824 TAAAA-TATATTAATTCATATTA
1 TAAAATTA-ATTAATTCATATTA
59846 TAAA
1 TAAA
59850 TAATTTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAAATTAATTAATTCATATTA
Found at i:64384 original size:64 final size:64
Alignment explanation
Indices: 64270--64390 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
64260 AACTGGTGTT
* * * * *
64270 GACCTGAACCCGAGTTGGACCTGAAAATTGTGGATCCGAACTCGACCTGCATCCGACCTGAGAAC
1 GACCTGAACCCGAATTGAACCTGAAAATTGT-GACCCGAACCCGAACTGCATCCGACCTGAGAAC
64335 GACCTGAACCCGAATTGAACC-GAAAATATGAT-ACCCGAACCCGAACTGCATCCGAC
1 GACCTGAACCCGAATTGAACCTGAAAAT-TG-TGACCCGAACCCGAACTGCATCCGAC
64391 TGATATGAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
64 27 0.55
65 21 0.43
66 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.17
Consensus pattern (64 bp):
GACCTGAACCCGAATTGAACCTGAAAATTGTGACCCGAACCCGAACTGCATCCGACCTGAGAAC
Found at i:64462 original size:16 final size:16
Alignment explanation
Indices: 64441--64511 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
64431 GGTATTACCC
64441 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
64457 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
* *
64473 GACCTATTTTTAACCT
1 GACCTGTTTTCAACCT
*
64489 GACCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
64505 GACCTGT
1 GACCTGT
64512 AAATGATCCA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:67161 original size:3 final size:3
Alignment explanation
Indices: 67153--67201 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
67143 ACTTGTAATT
* * *
67153 TAA TAA TAA GAA TAA TAA -AA TAA TAG TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
67200 TA
1 TA
67202 GAAAAAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:68032 original size:66 final size:63
Alignment explanation
Indices: 67860--68038 Score: 171
Period size: 66 Copynumber: 2.8 Consensus size: 63
67850 CCAAAGCAAC
* * * * *
67860 TGTCTCGAAAGAGACAAGATTCGTTTCAAAGGAAAC-AACCCAAAGATGGCATTTAAAGGGAAT
1 TGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGGCATTTAAAGGGAAT
* * ** * * * * *
67923 TGTCTTAAGCGAGACAAAATTTGTTTTTAAGGGAAACGTTCTCAAAGATCGGCGTTTCATGGGAA
1 TGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAACGATCTCAAAGAT-GGCATTTAAAGGG-A
67988 AT
62 AT
67990 TGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
1 TGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
68039 TTTGTTTTGT
Statistics
Matches: 91, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
62 2 0.02
63 13 0.14
64 13 0.14
65 9 0.10
66 35 0.38
67 19 0.21
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (63 bp):
TGTCTCAAAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGGCATTTAAAGGGAAT
Found at i:68167 original size:36 final size:35
Alignment explanation
Indices: 68013--68143 Score: 237
Period size: 35 Copynumber: 3.7 Consensus size: 35
68003 ACAAAATTCA
68013 TTTCAAGGGAAAC-GATCTCAAAGATGTTTGTTTTG
1 TTTCAAGGGAAACAGAT-TCAAAGATGTTTGTTTTG
*
68048 TTTCAAGGGAAACATATTCAAAGATGTTTGTTTTG
1 TTTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
68083 TTTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
1 TTTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
68118 TTTCAAGGGAAACAGATTCAAAGATG
1 TTTCAAGGGAAACAGATTCAAAGATG
68144 GTAAATTTTG
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
35 91 0.98
36 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (35 bp):
TTTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
Found at i:68453 original size:15 final size:16
Alignment explanation
Indices: 68428--68476 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 16
68418 AAAGATGTTC
*
68428 TTGTTTGAAGGGAAAA
1 TTGTTTCAAGGGAAAA
68444 -TGTTTCAAGGGACAAAA
1 TTGTTTCAAGGG--AAAA
68461 TTTGTTTCAAGGGAAA
1 -TTGTTTCAAGGGAAA
68477 CGACTCAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 10 0.36
17 7 0.25
19 11 0.39
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.31
Consensus pattern (16 bp):
TTGTTTCAAGGGAAAA
Found at i:68968 original size:66 final size:67
Alignment explanation
Indices: 68879--69031 Score: 193
Period size: 67 Copynumber: 2.3 Consensus size: 67
68869 AAAGATTTAC
*** * * * * *
68879 TTCAAAAGAAACGGTCTCAAGAGATACAAAAT-TCATTT-TAAGAGAAACAGATTCAAAGATTTT
1 TTCAAAAGAAATTATCTTAAGAGAGACAAAATGTCATTTCCAA-AGAAACAAATTCAAAGATCTT
68942 TGT
65 TGT
**
68945 TTCAAAAGAAATTATCTTAAGAGAGACAAAATGTTGTTTCCAAAGAAACAAATTCAAAGATCTTT
1 TTCAAAAGAAATTATCTTAAGAGAGACAAAATGTCATTTCCAAAGAAACAAATTCAAAGATCTTT
69010 GT
66 GT
69012 TTCAAAAGAAATTATCTTAA
1 TTCAAAAGAAATTATCTTAA
69032 AATTTTTTCA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
66 27 0.36
67 46 0.61
68 2 0.03
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (67 bp):
TTCAAAAGAAATTATCTTAAGAGAGACAAAATGTCATTTCCAAAGAAACAAATTCAAAGATCTTT
GT
Found at i:69193 original size:29 final size:28
Alignment explanation
Indices: 69127--69261 Score: 195
Period size: 29 Copynumber: 4.8 Consensus size: 28
69117 AAATAAATAG
*
69127 ACTCAAAGA-TTTTTTCAAAAGAAAC-A
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
69153 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAAGGAACAA
69182 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAAGGAACAA
*
69211 ACTCAAAGA-TTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
69238 ACTCAAAGATTTTTTCCTCAAAAG
1 ACTCAAAGATTTTTT--TCAAAAG
69262 AAATTGTCTT
Statistics
Matches: 100, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
26 9 0.09
27 26 0.26
28 20 0.20
29 39 0.39
30 6 0.06
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (28 bp):
ACTCAAAGATTTTTTTCAAAAGGAACAA
Found at i:69239 original size:56 final size:56
Alignment explanation
Indices: 69127--69264 Score: 201
Period size: 56 Copynumber: 2.4 Consensus size: 56
69117 AAATAAATAG
69127 ACTCAAAGA-TTTTTTCAAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTTTCAAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAA
* *
69182 ACTCAAAGATTTTTATTCAAAAGGAACAAACTCAAAGA-TTTT-TTCAAGAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAAGAAAC-AACTCAAAGATTTTTATTCAAAAGGAACAA
69238 ACTCAAAGATTTTTTCCTCAAAAGAAA
1 ACTCAAAGATTTTTT--TCAAAAGAAA
69265 TTGTCTTTAA
Statistics
Matches: 75, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
55 10 0.13
56 31 0.41
57 24 0.32
58 10 0.13
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (56 bp):
ACTCAAAGATTTTTTTCAAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAA
Found at i:69588 original size:36 final size:36
Alignment explanation
Indices: 69505--69607 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 36
69495 AGACAATGAC
* * *
69505 GTCTCAAGCGAGACGAAATTTG-CTTTA-AGATATA
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAATA
** *
69539 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAATA
*
69575 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
69608 ACGATCTCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 19 0.33
35 10 0.17
36 29 0.50
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAATA
Found at i:69635 original size:36 final size:36
Alignment explanation
Indices: 69503--69623 Score: 115
Period size: 36 Copynumber: 3.4 Consensus size: 36
69493 AGAGACAATG
* * * *
69503 ACGTCTCAAGCGAGACGAAATTTG-CTTTA-AGATAT
1 ACGTCTCAAGTGAGACAAAATTTGTTTTTAGAGA-AA
*
69538 A-GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAA
1 ACGTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAA
** * *
69573 TTGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 ACGTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAA
69608 ACGATCTCAAGTGAGA
1 ACG-TCTCAAGTGAGA
69624 TCAACTTTGT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
34 19 0.27
35 13 0.19
36 38 0.54
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (36 bp):
ACGTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAA
Found at i:69692 original size:102 final size:104
Alignment explanation
Indices: 69575--69807 Score: 278
Period size: 105 Copynumber: 2.2 Consensus size: 104
69565 TAGAGAAATT
* *
69575 GTCTCAAGCGAGACAAAGTTTGTTTTTG-AG-AA-AACGATCTCAA-GTGAGATCAACTTT-GTT
1 GTCTCAAGCGAGACAAAATTTG-TTTTGAAGAAACAACAATCT-AAGGTGAGATCAACTTTGGTT
* * *
69635 TAATGTGAAACAAATTCTAAATTTGGATCTCAAAGGGAAAGG
64 TAA-GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
69677 GTCTCAAGCGAGACAAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGGTTT
1 GTCTCAAGCGAGACAAAATTTGTTTTG-AAGAAACAACAATCTAAGGTGAGATCAACTTTGGTTT
* * * *
69742 TAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
65 AAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
**
69782 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACAAAATTTGTTTT
69808 AAAATTCTCC
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
101 5 0.04
102 21 0.19
103 2 0.02
104 4 0.04
105 75 0.67
106 5 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (104 bp):
GTCTCAAGCGAGACAAAATTTGTTTTGAAGAAACAACAATCTAAGGTGAGATCAACTTTGGTTTA
AGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:70276 original size:4 final size:4
Alignment explanation
Indices: 70267--70332 Score: 109
Period size: 4 Copynumber: 17.0 Consensus size: 4
70257 TTTATGTATC
70267 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
70313 ATGT ATGT GTGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT
70333 TTTCTCGATC
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
4 56 0.97
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:77318 original size:3 final size:3
Alignment explanation
Indices: 77310--77358 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
77300 ACTTGTAATT
* * *
77310 TAA TAA TAA GAA TAA TAA -AA TAA TAG TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
77357 TA
1 TA
77359 GGAAAAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:77544 original size:14 final size:14
Alignment explanation
Indices: 77522--77552 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
77512 TCCATTTAAA
77522 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
*
77536 TTAGTGTTTATGGT
1 TTAGGGTTTATGGT
77550 TTA
1 TTA
77553 AAATTTAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:77592 original size:41 final size:40
Alignment explanation
Indices: 77515--77592 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
77505 GTGCTAGTCC
* * *
77515 ATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAA
1 ATTTAAATTAAGGTTTATGATTTAGTGTTTAGGGTTTAAA
77555 ATTTAGAATTAAGGTTTATGATTTAG-GATTTAGGGTTT
1 ATTTA-AATTAAGGTTTATGATTTAGTG-TTTAGGGTTT
77593 CTACAAACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 6 0.18
41 27 0.82
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (40 bp):
ATTTAAATTAAGGTTTATGATTTAGTGTTTAGGGTTTAAA
Found at i:77679 original size:9 final size:9
Alignment explanation
Indices: 77665--77698 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
77655 AGTAATTTAC
77665 TTTATATAG
1 TTTATATAG
77674 TTTATATA-
1 TTTATATAG
*
77682 TATATATAG
1 TTTATATAG
77691 TTTATATA
1 TTTATATA
77699 TACTATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (9 bp):
TTTATATAG
Found at i:77716 original size:20 final size:18
Alignment explanation
Indices: 77667--77705 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
77657 TAATTTACTT
77667 TATATAGTTTATATATA-
1 TATATAGTTTATATATAC
77684 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
77702 TATA
1 TATA
77706 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:77743 original size:13 final size:13
Alignment explanation
Indices: 77727--77753 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77717 CATACATATT
77727 ATAAAATTATTTA
1 ATAAAATTATTTA
77740 ATAAAATTATTTA
1 ATAAAATTATTTA
77753 A
1 A
77754 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:77763 original size:15 final size:14
Alignment explanation
Indices: 77727--77769 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
77717 CATACATATT
77727 ATAAAATTATTT-A
1 ATAAAATTATTTAA
77740 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
77754 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
77769 A
1 A
77770 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:78083 original size:14 final size:14
Alignment explanation
Indices: 78061--78131 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 14
78051 TCTATTTAAA
78061 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
*
78075 TTAGTGTTTATGGT
1 TTAGGGTTTATGGT
** **
78089 TTAAAGTTTA-GAA
1 TTAGGGTTTATGGT
* *
78102 TTAGGGTTTACGAT
1 TTAGGGTTTATGGT
* *
78116 TTAGGATTTAGGGT
1 TTAGGGTTTATGGT
78130 TT
1 TT
78132 TTATAAACTA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
13 9 0.20
14 36 0.80
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:78131 original size:41 final size:40
Alignment explanation
Indices: 78055--78131 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
78045 TGCTAGTCTA
* * *
78055 TTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAG
1 TTTAAATTAGGGTTTACGATTTAGTGTTTAGGGTTTAAAG
78095 TTTAGAATTAGGGTTTACGATTTAG-GATTTAGGGTTT
1 TTTA-AATTAGGGTTTACGATTTAGTG-TTTAGGGTTT
78132 TTATAAACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.25, C:0.01, G:0.26, T:0.48
Consensus pattern (40 bp):
TTTAAATTAGGGTTTACGATTTAGTGTTTAGGGTTTAAAG
Found at i:78226 original size:15 final size:15
Alignment explanation
Indices: 78206--78242 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
78196 TAATTTACTT
78206 TATATAGTTTATATA
1 TATATAGTTTATATA
78221 TATATAGTTTATATA
1 TATATAGTTTATATA
78236 TACTATA
1 TA-TATA
78243 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:78503 original size:548 final size:547
Alignment explanation
Indices: 77444--79140 Score: 2922
Period size: 534 Copynumber: 3.1 Consensus size: 547
77434 TTTTGGCAAT
* *
77444 ACATTAGTTTACAAAGG-CCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTG
1 ACATTAGTTTACATAGGCCCAATGC--AAGCCCACTCTTTTATTACAAATATATATGCATTAGTG
* *
77508 CTAGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAATTTAGAATTAAGGTTTA
64 CTAGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAGTTTAGAATTAGGGTTTA
* * *
77573 TGATTTAGGATTTAGGGTTTCTACAAACTGTATATTTTATTACTTTATATAGTTTATGCATAGTA
129 TGATTTAGGATTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTG
77638 TTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATATAGTTTATATATACT
194 TTTCTATAAACTATATAAGTAATTTACTTTATATAG-TT-TATATATATATAGTTTATATATACT
77703 ATACATGGTTTATACATACATA-T-TAT-AAA--A-TT-AT---TTAATAAAATTATTTAAATGT
257 ATACATGGTTTATACATACATATTATATAAAATTATTTAATAAATTAATAAAATTATTTAAATGT
77758 AAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGG
322 AAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGG
77823 TTCATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTA
387 TTCATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTA
77888 GGTTAATTCACATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAA
452 GGTTAATTCACATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAA
*
77953 TAAGTCCATTTGCAATAGTGCTAGTCCATTA
517 TAAGTCCATTTGCAATAGTGATAGTCCATTA
* *
77984 ACATTAGTTTACATAGGCCCAATGCAAGTCTACTCTTTTATTACAAATATATATGCATTAGTGCT
1 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCT
* *
78049 AGTCTATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAGTTTAGAATTAGGGTTTACG
66 AGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAGTTTAGAATTAGGGTTTATG
*
78114 ATTTAGGATTTAGGGTTTTTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTGTT
131 ATTTAGGATTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTGTT
78179 TCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAGTTTATATATACTATAC
196 TCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAGTTTATATATACTATAC
78244 ATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATTATTTAAATGTAAA
261 ATGGTTTATACATACATATTATATAAAATTATTTAAT-AAATTAATAAAATTATTTAAATGTAAA
* *
78309 TTATATAAAGCATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATAGTTC
325 TTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTC
78374 ATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTAGGT
390 ATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTAGGT
*
78439 TAATTCACATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAA
455 TAATTCACATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAA
*
78504 GTCCATTTGCAATAGTGTTAGTCCATTA
520 GTCCATTTGCAATAGTGATAGTCCATTA
*
78532 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGTT
1 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCT
*
78597 AGTTCATTT-AA--A----TTA-----T-G-GTTTATGGTTTAAAGTTTAGAATTAGGGTTTATG
66 AGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAGTTTAGAATTAGGGTTTATG
* *
78648 ATTTAGGGTTTAGGGTTTCTATAAATTATATATTTTATTACTTTATATAGTTTATGCATAGTGTT
131 ATTTAGGATTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTGTT
78713 TCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAGTTTATATATACTATAC
196 TCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAGTTTATATATACTATAC
*
78778 ATGGTTTATATATACATATTATATAAAATTATTTAATAACATTAATAAAATTATTTAAATGTAAA
261 ATGGTTTATACATACATATTATATAAAATTATTTAATAA-ATTAATAAAATTATTTAAATGTAAA
78843 TTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTC
325 TTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTC
78908 ATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTAGGT
390 ATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTAGGT
*
78973 TAATTCACATTAATGGCTCATTTATTTTGTTATTATGAATAAGTAATAATAAAACCCAAAAATAA
455 TAATTCACATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAA
*
79038 GTCCATTTGTAATAGTGATAGTCCATTA
520 GTCCATTTGCAATAGTGATAGTCCATTA
* * *
79066 ACATTAATTTAAATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGAT
1 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCT
79131 AGTCCATTTA
66 AGTCCATTTA
79141 TATTTTAAAT
Statistics
Matches: 1107, Mismatches: 36, Indels: 33
0.94 0.03 0.03
Matches are distributed among these distances:
533 2 0.00
534 508 0.46
535 1 0.00
536 1 0.00
537 47 0.04
538 3 0.00
539 197 0.18
540 19 0.02
541 9 0.01
542 1 0.00
543 2 0.00
544 2 0.00
545 1 0.00
547 2 0.00
548 312 0.28
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (547 bp):
ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCT
AGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAGTTTAGAATTAGGGTTTATG
ATTTAGGATTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTGTT
TCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAGTTTATATATACTATAC
ATGGTTTATACATACATATTATATAAAATTATTTAATAAATTAATAAAATTATTTAAATGTAAAT
TATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCA
TAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTAGGTT
AATTCACATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAG
TCCATTTGCAATAGTGATAGTCCATTA
Found at i:78655 original size:14 final size:14
Alignment explanation
Indices: 78613--78659 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
78603 TTTAAATTAT
* *
78613 GGTTTATGGTTTAA
1 GGTTTATGATTTAG
* *
78627 AGTTTA-GAATTAG
1 GGTTTATGATTTAG
78640 GGTTTATGATTTAG
1 GGTTTATGATTTAG
78654 GGTTTA
1 GGTTTA
78660 GGGTTTCTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
GGTTTATGATTTAG
Found at i:78760 original size:15 final size:15
Alignment explanation
Indices: 78740--78776 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
78730 TAATTTACTT
78740 TATATAGTTTATATA
1 TATATAGTTTATATA
78755 TATATAGTTTATATA
1 TATATAGTTTATATA
78770 TACTATA
1 TA-TATA
78777 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:82002 original size:61 final size:60
Alignment explanation
Indices: 81907--82027 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 60
81897 ACATAGTTCG
* *
81907 GCGATTCCATCGCGTGCACCTGAGATACTAACATCGAATATCATCAATTACGAAACTGAAT
1 GCGATTCCATCGCCTGCACCTGAGATACTAACATCGAATATCAAC-ATTACGAAACTGAAT
81968 GCGATTCCATCGCCTGCACCTGAGATACTAACATCGAATATCAACATTACGAAACTGAAT
1 GCGATTCCATCGCCTGCACCTGAGATACTAACATCGAATATCAACATTACGAAACTGAAT
82028 AAATCAAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 15 0.26
61 43 0.74
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (60 bp):
GCGATTCCATCGCCTGCACCTGAGATACTAACATCGAATATCAACATTACGAAACTGAAT
Found at i:84049 original size:32 final size:31
Alignment explanation
Indices: 84009--84101 Score: 114
Period size: 32 Copynumber: 3.0 Consensus size: 31
83999 TGTGGAGTTC
* *
84009 ATAAATTTAATAATTATTTTGTAATATTTTG
1 ATAAATTTAATGATTATTTTATAATATTTTG
* *
84040 ATAAAATTTAATGATCATTTTATAATAATTTG
1 AT-AAATTTAATGATTATTTTATAATATTTTG
* * *
84072 ATACATATAATGATTATTTTATAATTTTTT
1 ATAAATTTAATGATTATTTTATAATATTTT
84102 CATTTTAAAC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
31 25 0.48
32 27 0.52
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (31 bp):
ATAAATTTAATGATTATTTTATAATATTTTG
Found at i:87816 original size:19 final size:19
Alignment explanation
Indices: 87792--87831 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
87782 AAGCGATGAT
87792 TTAACTCCAAACGTGAGAA
1 TTAACTCCAAACGTGAGAA
*
87811 TTAACTCTAAACGTGAGAA
1 TTAACTCCAAACGTGAGAA
87830 TT
1 TT
87832 GTAAGACACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (19 bp):
TTAACTCCAAACGTGAGAA
Found at i:88327 original size:10 final size:11
Alignment explanation
Indices: 88308--88344 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
88298 TCAAAATCAA
88308 ATTATTATTTT
1 ATTATTATTTT
88319 ATT-TTA-TTT
1 ATTATTATTTT
88328 ATTATT-TTTT
1 ATTATTATTTT
88338 ATTATTA
1 ATTATTA
88345 ATTGTCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 6 0.26
10 14 0.61
11 3 0.13
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:88331 original size:17 final size:17
Alignment explanation
Indices: 88309--88362 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
88299 CAAAATCAAA
88309 TTATTATTTTATTTTAT
1 TTATTATTTTATTTTAT
88326 TTATTATTTT-TTATTAT
1 TTATTATTTTATT-TTAT
* * *
88343 TAATTGTCTTTATCTTAT
1 TTATTAT-TTTATTTTAT
88361 TT
1 TT
88363 TCAAACAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.07
17 19 0.63
18 8 0.27
19 1 0.03
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (17 bp):
TTATTATTTTATTTTAT
Found at i:90353 original size:31 final size:33
Alignment explanation
Indices: 90314--90382 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
90304 AAAATTATTA
*
90314 TAAAAA-ATATAACATTTCAATTGAACACAACC
1 TAAAAATATATAACATTTCAATCGAACACAACC
90346 TAAAAATATATAACATTTCAATCGAACACAACC
1 TAAAAATATATAACATTTCAATCGAACACAACC
90379 TAAA
1 TAAA
90383 TTGTTACAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.25
Consensus pattern (33 bp):
TAAAAATATATAACATTTCAATCGAACACAACC
Found at i:91814 original size:2 final size:2
Alignment explanation
Indices: 91807--91839 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
91797 TGAGGGGGAG
*
91807 GA GA GA GA GA GA GA GA G- GG GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
91840 TTATAGATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
GA
Found at i:91829 original size:17 final size:17
Alignment explanation
Indices: 91804--91839 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
91794 AATTGAGGGG
91804 GAGGAGAGAGAGAGAGA
1 GAGGAGAGAGAGAGAGA
*
91821 GAGGGGAGAGAGAGAGA
1 GAGGAGAGAGAGAGAGA
91838 GA
1 GA
91840 TTATAGATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (17 bp):
GAGGAGAGAGAGAGAGA
Found at i:95624 original size:2 final size:2
Alignment explanation
Indices: 95617--95647 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
95607 CAAAAGTCGT
95617 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95648 TTGTGATTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.