Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002629.1 Hibiscus syriacus cultivar Beakdansim tig00005358_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: 96816
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:5291 original size:10 final size:10
Alignment explanation
Indices: 5278--5302 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5268 TTTATAAAGG
5278 TTGATTGAAT
1 TTGATTGAAT
5288 TTGATTGAAT
1 TTGATTGAAT
5298 TTGAT
1 TTGAT
5303 GTTGTGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.52
Consensus pattern (10 bp):
TTGATTGAAT
Found at i:6950 original size:6 final size:6
Alignment explanation
Indices: 6941--7003 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
6931 ACATTGGGCT
* * * * *
6941 ATGAAA ATGAAA TGTGAAA ATGAAT ATGAAT ATGAAA GTAAAAA ATGAAA
1 ATGAAA ATGAAA -ATGAAA ATGAAA ATGAAA ATGAAA AT-GAAA ATGAAA
6991 ATGAAA TATGAAA
1 ATGAAA -ATGAAA
7004 GTTTTTGAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
6 31 0.67
7 15 0.33
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.22
Consensus pattern (6 bp):
ATGAAA
Found at i:6960 original size:13 final size:12
Alignment explanation
Indices: 6941--7003 Score: 54
Period size: 13 Copynumber: 5.0 Consensus size: 12
6931 ACATTGGGCT
6941 ATGAAAATGAAA
1 ATGAAAATGAAA
* *
6953 TGTGAAAATGAAT
1 -ATGAAAATGAAA
*
6966 ATGAATATGAAA
1 ATGAAAATGAAA
* *
6978 GTAAAAAATGAAA
1 AT-GAAAATGAAA
6991 ATGAAATATGAAA
1 ATGAAA-ATGAAA
7004 GTTTTTGAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
12 13 0.34
13 25 0.66
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.22
Consensus pattern (12 bp):
ATGAAAATGAAA
Found at i:6975 original size:25 final size:25
Alignment explanation
Indices: 6940--7005 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
6930 TACATTGGGC
* *
6940 TATGAAAATGAAATGT-GAAAATGAA
1 TATGAATATGAAA-GTAAAAAATGAA
6965 TATGAATATGAAAGTAAAAAATGAA
1 TATGAATATGAAAGTAAAAAATGAA
*
6990 AATGAAATATGAAAGT
1 TATG-AATATGAAAGT
7006 TTTTGAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.06
25 23 0.64
26 11 0.31
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (25 bp):
TATGAATATGAAAGTAAAAAATGAA
Found at i:8329 original size:15 final size:16
Alignment explanation
Indices: 8294--8329 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
8284 TAATATAATG
8294 TATATAATATATTTTCA
1 TATATAATATATTTT-A
8311 TATATAATATATTTT-
1 TATATAATATATTTTA
8326 TATA
1 TATA
8330 CGTAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
17 15 0.79
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TATATAATATATTTTA
Found at i:8335 original size:17 final size:17
Alignment explanation
Indices: 8297--8335 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8287 TATAATGTAT
*
8297 ATAATATATTTTCATAT
1 ATAATATATTTTCATAC
*
8314 ATAATATATTTTTATAC
1 ATAATATATTTTCATAC
*
8331 GTAAT
1 ATAAT
8336 TTATAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (17 bp):
ATAATATATTTTCATAC
Found at i:8413 original size:2 final size:2
Alignment explanation
Indices: 8400--8490 Score: 51
Period size: 2 Copynumber: 50.0 Consensus size: 2
8390 AGAATAAATC
* *
8400 AT AT AA AT AT AT AT AT -T AT A- AT AA AT -T AT AT CA- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* *
8439 AT A- AT AT AA AT AT AT -T AT AT -T AT A- AT AA AT A- AT AT CA-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
8476 AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT
8491 TTTTGTATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 26
0.67 0.08 0.25
Matches are distributed among these distances:
1 11 0.16
2 55 0.81
3 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:8430 original size:27 final size:28
Alignment explanation
Indices: 8387--8458 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
8377 ATGATATTTC
* *
8387 TATAGAATAAATCATATAAATATATATAT
1 TATA-AATAAATTATATAAATATATATAA
*
8416 TAT-AATAAATTATATCAATATATATAA
1 TATAAATAAATTATATAAATATATATAA
*
8443 TATAAATATATTATAT
1 TATAAATAAATTATAT
8459 TATAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 24 0.63
28 11 0.29
29 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (28 bp):
TATAAATAAATTATATAAATATATATAA
Found at i:8465 original size:43 final size:42
Alignment explanation
Indices: 8400--8489 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 42
8390 AGAATAAATC
*
8400 ATATAAATATATATATTATAATAAATTATATCAATATATATA
1 ATATAAATATATATATTATAATAAATAATATCAATATATATA
8442 ATATAAATATATTATATTATAATAAATAATATCAATATATATA
1 ATATAAATATA-TATATTATAATAAATAATATCAATATATATA
8485 ATATA
1 ATATA
8490 TTTTTGTATA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 11 0.24
43 35 0.76
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (42 bp):
ATATAAATATATATATTATAATAAATAATATCAATATATATA
Found at i:8485 original size:15 final size:14
Alignment explanation
Indices: 8400--8489 Score: 80
Period size: 15 Copynumber: 6.4 Consensus size: 14
8390 AGAATAAATC
8400 ATATAAATATATATA
1 ATAT-AATATATATA
* *
8415 TTATAATA-A-ATT
1 ATATAATATATATA
8427 ATATCAATATATATA
1 ATAT-AATATATATA
8442 ATATAAATATATTATA
1 ATAT-AATATA-TATA
*
8458 TTATAATA-A-ATA
1 ATATAATATATATA
8470 ATATCAATATATATA
1 ATAT-AATATATATA
8485 ATATA
1 ATATA
8490 TTTTTGTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
12 11 0.18
13 9 0.15
14 8 0.13
15 26 0.43
16 7 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATAATATATATA
Found at i:9331 original size:19 final size:19
Alignment explanation
Indices: 9307--9355 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
9297 AACCAGACAA
9307 TCATGTCATCAACTGTTAG
1 TCATGTCATCAACTGTTAG
9326 TCATGTCATCAACTGTTAG
1 TCATGTCATCAACTGTTAG
9345 TCATGTCATCA
1 TCATGTCATCA
9356 TGCCATTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (19 bp):
TCATGTCATCAACTGTTAG
Found at i:9747 original size:37 final size:37
Alignment explanation
Indices: 9695--9839 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
9685 AAACAAACGT
*
9695 TAGAGTTTTAGTAGGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
*
9732 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
*
9769 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
*
9806 TAGAGTTTTACTATGATTCAAACTCCTAAAAATA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATA
9840 GGTTCCACAA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
Found at i:10473 original size:31 final size:31
Alignment explanation
Indices: 10435--10529 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 31
10425 GTTTTATTAA
*
10435 TTTATATATATTTACTGTTTTTA-TGTTTTAT
1 TTTATATATATTTACTATTTTTACT-TTTTAT
* *
10466 TTTATATATATATATTATTTTTACTTTTTAT
1 TTTATATATATTTACTATTTTTACTTTTTAT
* *
10497 TATTAT-TTTATTTA-TATGTTTTA-TTTATAT
1 T-TTATATATATTTACTAT-TTTTACTTTTTAT
10527 TTT
1 TTT
10530 TTCTTCTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
29 2 0.04
30 10 0.18
31 38 0.69
32 5 0.09
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.69
Consensus pattern (31 bp):
TTTATATATATTTACTATTTTTACTTTTTAT
Found at i:10488 original size:24 final size:22
Alignment explanation
Indices: 10455--10531 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 22
10445 TTTACTGTTT
10455 TTATGTTTTATTTTATATATATATA
1 TTAT-TTTTATTTT-TAT-TATATA
*
10480 TTATTTTTACTTTTTATTATTATT
1 TTATTTTTA-TTTTTATTA-TATA
*
10504 TTATTTATATGTTTTATT-TATA
1 TTATTTTTAT-TTTTATTATATA
10526 TT-TTTT
1 TTATTTT
10532 CTTCTTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
21 3 0.07
22 5 0.11
23 3 0.07
24 26 0.58
25 8 0.18
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (22 bp):
TTATTTTTATTTTTATTATATA
Found at i:10496 original size:13 final size:12
Alignment explanation
Indices: 10452--10530 Score: 54
Period size: 13 Copynumber: 6.4 Consensus size: 12
10442 ATATTTACTG
10452 TTTTTATGTTTTA
1 TTTTTAT-TTTTA
* *
10465 -TTTTATATATA
1 TTTTTATTTTTA
*
10476 TATATTATTTTTA
1 T-TTTTATTTTTA
*
10489 CTTTTTATTATTA
1 -TTTTTATTTTTA
*
10502 -TTTTATTTATA
1 TTTTTATTTTTA
*
10513 TGTTTTATTTATA
1 T-TTTTATTTTTA
10526 TTTTT
1 TTTTT
10531 TCTTCTTTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
11 12 0.23
12 10 0.19
13 29 0.56
14 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:10503 original size:37 final size:38
Alignment explanation
Indices: 10452--10531 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 38
10442 ATATTTACTG
* *
10452 TTTTTATGTTTTATTTTATATATATATATTATTTTTAC
1 TTTTTATGTATTATTTTATATATATATATTATTTATAC
* * * *
10490 TTTTTAT-TATTATTTTATTTATATGTTTTATTTATAT
1 TTTTTATGTATTATTTTATATATATATATTATTTATAC
10527 TTTTT
1 TTTTT
10532 CTTCTTTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 29 0.81
38 7 0.19
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (38 bp):
TTTTTATGTATTATTTTATATATATATATTATTTATAC
Found at i:10531 original size:13 final size:13
Alignment explanation
Indices: 10465--10561 Score: 65
Period size: 13 Copynumber: 7.5 Consensus size: 13
10455 TTATGTTTTA
* *
10465 TTTTATATATATA
1 TTTTATTTATATT
* * *
10478 TATTATTTTTACT
1 TTTTATTTATATT
*
10491 TTTTA-TTAT-TA
1 TTTTATTTATATT
*
10502 TTTTATTTATATG
1 TTTTATTTATATT
10515 TTTTATTTATATT
1 TTTTATTTATATT
* *
10528 TTTTCTTCTTTTATT
1 TTTT-AT-TTATATT
*
10543 TTTT-TATATATT
1 TTTTATTTATATT
10555 TTTTATT
1 TTTTATT
10562 ACTTACTATT
Statistics
Matches: 63, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
11 5 0.08
12 16 0.25
13 31 0.49
14 1 0.02
15 10 0.16
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (13 bp):
TTTTATTTATATT
Found at i:10544 original size:26 final size:25
Alignment explanation
Indices: 10515--10639 Score: 74
Period size: 26 Copynumber: 4.8 Consensus size: 25
10505 TATTTATATG
10515 TTTTATTTATATTTTTTCTTCTTTTA
1 TTTTATTTAT-TTTTTTCTTCTTTTA
* * *
10541 TTTTTTTATATATTTTTTATTACTTACTA
1 TTTTATT-TAT-TTTTTTCTT-CTT-TTA
* * *
10570 TTTTATCT-TTTTTATCTTATCTTTA
1 TTTTATTTATTTTTTTCTTCT-TTTA
* *
10595 TTTAATTT-GTTTTTTCTTCATTTTAA
1 TTTTATTTATTTTTTTCTTC-TTTT-A
* *
10621 TTTAATTTATTTATTTCTT
1 TTTTATTTATTTTTTTCTT
10640 ACCTTTTTAT
Statistics
Matches: 76, Mismatches: 16, Indels: 13
0.72 0.15 0.12
Matches are distributed among these distances:
25 20 0.26
26 24 0.32
27 21 0.28
28 4 0.05
29 7 0.09
ACGTcount: A:0.19, C:0.08, G:0.01, T:0.72
Consensus pattern (25 bp):
TTTTATTTATTTTTTTCTTCTTTTA
Found at i:13091 original size:23 final size:22
Alignment explanation
Indices: 13043--13091 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
13033 ACCCCAAAAT
*
13043 AAAATAACTTGATTATTTACCC
1 AAAATAACTTGATTATTTACCA
*
13065 AAAATAACTCATGGTTA-TTACCA
1 AAAATAACT--TGATTATTTACCA
13088 AAAA
1 AAAA
13092 GACCAAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 9 0.39
24 5 0.22
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (22 bp):
AAAATAACTTGATTATTTACCA
Found at i:13396 original size:16 final size:16
Alignment explanation
Indices: 13355--13388 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
13345 AGAATTCACT
13355 TGAAATAATTCTATCA
1 TGAAATAATTCTATCA
13371 TGAAATAATTCTATCA
1 TGAAATAATTCTATCA
13387 TG
1 TG
13389 CATTAATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (16 bp):
TGAAATAATTCTATCA
Found at i:13740 original size:27 final size:25
Alignment explanation
Indices: 13709--13760 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 25
13699 AATCAAGAAC
13709 AAAAAGAGAAAAAAGCAAAGAGAAAAT
1 AAAAAGAGAAAAAA-CAAAGA-AAAAT
13736 AAAAAGAGAAAAAACAAAGAAAAAT
1 AAAAAGAGAAAAAACAAAGAAAAAT
13761 TGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 5 0.20
26 6 0.24
27 14 0.56
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (25 bp):
AAAAAGAGAAAAAACAAAGAAAAAT
Found at i:13741 original size:13 final size:13
Alignment explanation
Indices: 13711--13759 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
13701 TCAAGAACAA
13711 AAAGAGAAAAAAGC
1 AAAGAGAAAAAA-C
13725 AAAGAGAAAATAA-
1 AAAGAGAAAA-AAC
13738 AAAGAGAAAAAAC
1 AAAGAGAAAAAAC
13751 AAAGA-AAAA
1 AAAGAGAAAA
13760 TTGAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.18
13 15 0.45
14 10 0.30
15 2 0.06
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAGAGAAAAAAC
Found at i:14846 original size:32 final size:32
Alignment explanation
Indices: 14809--14924 Score: 128
Period size: 32 Copynumber: 3.6 Consensus size: 32
14799 GGAACAATGA
*
14809 GGGCA-TCTTTGAAGATTCAACATCAAATGCTG
1 GGGCATTCTTTG-AGATTCAACATCAAATGTTG
* * *
14841 AGGCATTTTTTGAGATTTAACATCAAATGTTG
1 GGGCATTCTTTGAGATTCAACATCAAATGTTG
* * *
14873 GGGTATTTTTTGAGATTCAACATCAAATATTG
1 GGGCATTCTTTGAGATTCAACATCAAATGTTG
*
14905 GGGCA-TCTTTGGGAATTCAA
1 GGGCATTCTTTGAG-ATTCAA
14925 TATCCTGATG
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
31 6 0.08
32 60 0.85
33 5 0.07
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (32 bp):
GGGCATTCTTTGAGATTCAACATCAAATGTTG
Found at i:16208 original size:36 final size:36
Alignment explanation
Indices: 16122--16228 Score: 187
Period size: 36 Copynumber: 2.9 Consensus size: 36
16112 CAATTTCAAG
16122 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
* *
16159 TCTTGTCTCTCTTGAGACAGTTTCCGTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
16195 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
16229 CCAATCTTTG
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 35 0.53
37 31 0.47
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:16378 original size:36 final size:34
Alignment explanation
Indices: 16286--16398 Score: 172
Period size: 34 Copynumber: 3.3 Consensus size: 34
16276 AGACAATTTA
*
16286 TCTTGAAACACGAAAAAACCTTTGAAATTGTTTC
1 TCTTGAAACACAAAAAAACCTTTGAAATTGTTTC
*
16320 TCTTGAAATACAAAAAAACCTTTGAAATTGTTTC
1 TCTTGAAACACAAAAAAACCTTTGAAATTGTTTC
*
16354 TCTTGAAACACAAAAAAAAACCTTTGAAAATGTTTC
1 TCTTGAAACAC--AAAAAAACCTTTGAAATTGTTTC
*
16390 TCTTAAAAC
1 TCTTGAAAC
16399 CCAAGACCTT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
34 42 0.58
36 30 0.42
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (34 bp):
TCTTGAAACACAAAAAAACCTTTGAAATTGTTTC
Found at i:17057 original size:37 final size:37
Alignment explanation
Indices: 17005--17151 Score: 249
Period size: 37 Copynumber: 4.0 Consensus size: 37
16995 AAACAAACGT
*
17005 TAGAGTTTTAGTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
*
17042 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
17079 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* * *
17116 TAGAGTTTTACTATGATTCAAACTCATGAAAATAGG
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGG
17152 TTCCACAAGC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
Found at i:17686 original size:20 final size:19
Alignment explanation
Indices: 17642--17688 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
17632 TTTTCATGTA
17642 ATATTTTTTTACATTTTAT
1 ATATTTTTTTACATTTTAT
**
17661 GCATTTTTTTAC-TTTAGTAT
1 ATATTTTTTTACATTT--TAT
17681 ATATTTTT
1 ATATTTTT
17689 AATTTTTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 3 0.14
19 10 0.45
20 9 0.41
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.66
Consensus pattern (19 bp):
ATATTTTTTTACATTTTAT
Found at i:17776 original size:20 final size:19
Alignment explanation
Indices: 17753--17837 Score: 54
Period size: 20 Copynumber: 4.4 Consensus size: 19
17743 AATTTATATA
17753 TATATTTACTATTTTTATTT
1 TATATTTA-TATTTTTATTT
*
17773 TATATTTTATATATTTA--T
1 TATA-TTTATATTTTTATTT
17791 TAT-TTT-TACTGTTTTATTAT
1 TATATTTATA-T-TTTTATT-T
*
17811 TAT-TTTATTTATTTTATTT
1 TATATTTATAT-TTTTATTT
17830 ATATATTT
1 -TATATTT
17838 TTTCTTCTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 17
0.71 0.05 0.23
Matches are distributed among these distances:
15 2 0.04
16 4 0.08
17 4 0.08
18 4 0.08
19 1 0.02
20 29 0.56
21 8 0.15
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (19 bp):
TATATTTATATTTTTATTT
Found at i:17868 original size:51 final size:52
Alignment explanation
Indices: 17766--17869 Score: 124
Period size: 52 Copynumber: 2.0 Consensus size: 52
17756 ATTTACTATT
*
17766 TTTATTTTATATTTTATATATTTATTATTTTTACTGTTTTATTATTATTTTA
1 TTTATTTTATATTATATATATTTATTATTTTTACTGTTTTATTATTATTTTA
* * * *
17818 TTTATTTTAT-TTATATATTTTTTCTTCTTTTT-CTTTTTTATATATT-TTTTA
1 TTTATTTTATATTATATA-TATTTATTATTTTTACTGTTTTAT-TATTATTTTA
17869 T
1 T
17870 ATTACTTACT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
51 20 0.44
52 25 0.56
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (52 bp):
TTTATTTTATATTATATATATTTATTATTTTTACTGTTTTATTATTATTTTA
Found at i:20944 original size:9 final size:9
Alignment explanation
Indices: 20930--20977 Score: 50
Period size: 8 Copynumber: 5.8 Consensus size: 9
20920 ATAGTATTTT
20930 TATTTAATA
1 TATTTAATA
20939 TATTTAATA
1 TATTTAATA
20948 T-TTTAATA
1 TATTTAATA
*
20956 -ATTT-TTA
1 TATTTAATA
*
20963 TATTTATTA
1 TATTTAATA
20972 T-TTTAA
1 TATTTAA
20978 ATTCAACTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 2 0.06
8 18 0.53
9 14 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTTAATA
Found at i:28302 original size:229 final size:229
Alignment explanation
Indices: 27884--28605 Score: 1331
Period size: 229 Copynumber: 3.1 Consensus size: 229
27874 GTTATATTGT
* * * *
27884 AAAGTATCTATC-TTTTTTTAAAAGTGTCCATACTTATTTCACTGT-AAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
27947 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
* *
28012 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
28077 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
28111 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
28176 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCGAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
28241 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
28306 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
28340 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
28405 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
28470 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
28535 AAAAAATTGAAACATAAATTACATAACTTTAAAAA
196 AAAAAATTGAAACATAAATTACATAACTTT-AAAA
*
28570 AATATATATATATCATTTTTATAAAAGTGTCCATAC
1 AA-A-GTATATATCATTTTTATAAAAGTGTCCATAC
28606 GTATAAAAGT
Statistics
Matches: 481, Mismatches: 9, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
227 11 0.02
228 32 0.07
229 401 0.83
230 6 0.01
231 1 0.00
232 30 0.06
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:28859 original size:20 final size:19
Alignment explanation
Indices: 28836--28882 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
28826 CGATATAACA
28836 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
28856 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
28876 AGTAAAA
1 GGTAAAA
28883 TGATACCGGA
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:0.55, C:0.11, G:0.15, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:31125 original size:21 final size:21
Alignment explanation
Indices: 31101--31144 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
31091 AAGACAATCA
31101 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
31122 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
31143 AG
1 AG
31145 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:31220 original size:33 final size:33
Alignment explanation
Indices: 31178--31243 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
31168 AAATAGATGG
*
31178 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
31211 AGTGGTGAAAGAAGTCGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
31244 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:33079 original size:19 final size:19
Alignment explanation
Indices: 33039--33078 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
33029 GTAGGGTTAA
33039 TTTGTATAAGATTTATAAT
1 TTTGTATAAGATTTATAAT
*
33058 TTTGTATACGATTTAT-AT
1 TTTGTATAAGATTTATAAT
33076 TTT
1 TTT
33079 TATGTGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTGTATAAGATTTATAAT
Found at i:33795 original size:200 final size:200
Alignment explanation
Indices: 33199--34447 Score: 2357
Period size: 198 Copynumber: 6.3 Consensus size: 200
33189 CAATATGGCC
* *
33199 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
33264 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
33329 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
33394 TGG-A
196 TGGAA
* * *
33398 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
33462 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
33527 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
33592 TGGAA
196 TGGAA
33597 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
33662 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
33727 GAATATGTCTAAATAATGTGTCAACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
33792 TGGAA
196 TGGAA
33797 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
33862 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
33927 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
33992 TGGAA
196 TGGAA
33997 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
34062 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGG--CAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
34125 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
34190 TGGAA
196 TGGAA
34195 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
34260 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGG--CAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
34323 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
34388 TGGAA
196 TGGAA
* * *
34393 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAACGTATCGATCCCAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
34448 TGTATCGATC
Statistics
Matches: 1035, Mismatches: 13, Indels: 5
0.98 0.01 0.00
Matches are distributed among these distances:
198 477 0.46
199 119 0.11
200 439 0.42
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
TGGAA
Found at i:34142 original size:398 final size:399
Alignment explanation
Indices: 33199--34447 Score: 2346
Period size: 398 Copynumber: 3.1 Consensus size: 399
33189 CAATATGGCC
*
33199 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
33264 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGG-ACAAGTTTACCGGTTTTATGAGA
33329 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
* *
33394 TGG-AAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
*
33458 G-AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
260 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
33522 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
325 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
33587 ATGAATGGAA
390 ATGAATGGAA
*
33597 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
33662 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGG-ACAAGTTTACCGGTTTTATGAGA
*
33727 GAATATGTCTAAATAATGTGTCAACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
33792 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
195 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
*
33857 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTTTACCGGTTTTA
260 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
33922 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
325 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
33987 ATGAATGGAA
390 ATGAATGGAA
*
33997 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
34062 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGG-CAAGTTTACCGGTTTTATGAGAG
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGACAAGTTTACCGGTTTTATGAGAG
34126 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
34191 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
34256 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGG--CAAGTTTACCGGTTTTAT
261 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
34319 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
326 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
34384 TGAATGGAA
391 TGAATGGAA
* *
34393 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAACGTATCGATCCCAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
34448 TGTATCGATC
Statistics
Matches: 835, Mismatches: 14, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
396 144 0.17
398 390 0.47
399 60 0.07
400 241 0.29
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (399 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGACAAGTTTACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
TGAATGGAA
Found at i:34452 original size:16 final size:16
Alignment explanation
Indices: 34428--34480 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
34418 ATCCATATAT
*
34428 AAAACGTATCGATCCC
1 AAAATGTATCGATCCC
34444 AAAATGTATCGATCCC
1 AAAATGTATCGATCCC
*
34460 AAAAT-CATCGAATCCC
1 AAAATGTATCG-ATCCC
34476 AAAAT
1 AAAAT
34481 CCCGAAATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.12
16 30 0.88
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAATGTATCGATCCC
Found at i:34580 original size:39 final size:39
Alignment explanation
Indices: 34537--34623 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
34527 TCCGATGCTC
*
34537 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
34576 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
34615 ATCAAAATC
1 ATCAAAATC
34624 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:35075 original size:23 final size:23
Alignment explanation
Indices: 35044--35116 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
35034 ATAGGTAAAC
*
35044 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
35067 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
35090 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
35113 ATAT
1 ATAT
35117 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:35321 original size:30 final size:29
Alignment explanation
Indices: 35262--35328 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
35252 GTTACGATAT
* *
35262 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
35292 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
35322 ATTTTTT
1 ATATTTT
35329 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:35503 original size:23 final size:23
Alignment explanation
Indices: 35472--35544 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
35462 ATAGGTAAAA
*
35472 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
35495 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
35518 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
35541 ATAT
1 ATAT
35545 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:35932 original size:23 final size:23
Alignment explanation
Indices: 35901--35973 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
35891 ATAGGTAAAA
*
35901 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
35924 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
35947 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
35970 ATAT
1 ATAT
35974 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:36030 original size:429 final size:429
Alignment explanation
Indices: 34842--36322 Score: 2763
Period size: 429 Copynumber: 3.5 Consensus size: 429
34832 GTTAATGTTG
* * * * *
34842 TTAAATT-TAAATTATAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAAATAATTTTTTGTGCAA
*
34906 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAATTGAAACATA
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
* *
34970 AATTACATAACTTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AATTACATAAC-TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
35035 TAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
194 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
35100 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
259 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
35165 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
324 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
35230 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
389 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
35271 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
35336 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATG--ACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
* *
35399 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGGTATGGACATTTTCAATATAAT
130 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
35464 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
195 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
35529 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATATTTTTTTCACTGT
260 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
35594 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
325 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
35659 GTCTAATGATTTATTTTTTATGTTACGATATATATTATTA
390 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
35699 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATATTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
35764 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
35829 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
35894 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
35959 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
36024 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
36089 TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
36128 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
36193 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
36258 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
36323 TAATGTAATA
Statistics
Matches: 1026, Mismatches: 21, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
427 7 0.01
428 382 0.37
429 602 0.59
430 35 0.03
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (429 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:37535 original size:19 final size:19
Alignment explanation
Indices: 37508--37553 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
37498 TTTGAGTTAT
*
37508 TCGAGTTGCATATTACACC
1 TCGATTTGCATATTACACC
37527 TCGATTTGCATATTACACC
1 TCGATTTGCATATTACACC
37546 TCGATTTG
1 TCGATTTG
37554 AACTTGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (19 bp):
TCGATTTGCATATTACACC
Found at i:38564 original size:18 final size:19
Alignment explanation
Indices: 38520--38569 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
38510 AAATATTTTT
38520 ATTTTATTATAATTAATCA
1 ATTTTATTATAATTAATCA
* *
38539 ATAATTTATTAT-TTTATTCA
1 AT--TTTATTATAATTAATCA
38559 ATTTTATTATA
1 ATTTTATTATA
38570 CTAATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 8 0.31
19 2 0.08
20 8 0.31
21 8 0.31
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTATTATAATTAATCA
Found at i:40894 original size:26 final size:26
Alignment explanation
Indices: 40865--40923 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
40855 ATTTATTTGG
40865 GTTTTTAATATTTTTAATATTTAATT
1 GTTTTTAATATTTTTAATATTTAATT
** * *
40891 GTTTGAAATATTTTTATTATTTAGTT
1 GTTTTTAATATTTTTAATATTTAATT
40917 GTTTTTA
1 GTTTTTA
40924 TTGTTTGAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.64
Consensus pattern (26 bp):
GTTTTTAATATTTTTAATATTTAATT
Found at i:40921 original size:17 final size:18
Alignment explanation
Indices: 40901--40936 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
40891 GTTTGAAATA
40901 TTTTTATTATTT-AGTTG
1 TTTTTATTATTTGAGTTG
*
40918 TTTTTATTGTTTGAGTTG
1 TTTTTATTATTTGAGTTG
40936 T
1 T
40937 ATCGTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (18 bp):
TTTTTATTATTTGAGTTG
Found at i:43609 original size:21 final size:22
Alignment explanation
Indices: 43585--43625 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
43575 ATTAAAATAT
43585 AAAATAATCC-AAATAATTTTA
1 AAAATAATCCAAAATAATTTTA
**
43606 AAAATTTTCCAAAATAATTT
1 AAAATAATCCAAAATAATTT
43626 AATAACATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATAATCCAAAATAATTTTA
Found at i:45257 original size:55 final size:55
Alignment explanation
Indices: 45174--45284 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
45164 GCTATGGCAC
* *
45174 TTGATTGAGGGTATTACCTCACTCTAATATACTTTAATATATGGTTAAATAAAAA
1 TTGATTGAGGGTATTACCTCACTCTAATATACTTTAATATACGATTAAATAAAAA
*
45229 TTGATTGAGGGTATTACCTCACTCTAATATATTTTAATATACGATTAAATAAAAA
1 TTGATTGAGGGTATTACCTCACTCTAATATACTTTAATATACGATTAAATAAAAA
45284 T
1 T
45285 GTTAGTGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (55 bp):
TTGATTGAGGGTATTACCTCACTCTAATATACTTTAATATACGATTAAATAAAAA
Found at i:47252 original size:28 final size:28
Alignment explanation
Indices: 47189--47266 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
47179 AGTATGCCCC
*
47189 TAATAACAAATATTGAATAAATTGGACACT
1 TAATAACAAATATT-AA-AAATTAGACACT
* *
47219 TGATAATAAATATTAAAAATTAGAC-CTT
1 TAATAACAAATATTAAAAATTAGACAC-T
*
47247 TAATAACAAATGTTAGAAAA
1 TAATAACAAATATTA-AAAA
47267 AAATATTGGC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 1 0.03
28 21 0.52
29 6 0.15
30 12 0.30
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.31
Consensus pattern (28 bp):
TAATAACAAATATTAAAAATTAGACACT
Found at i:57373 original size:28 final size:28
Alignment explanation
Indices: 57338--57431 Score: 152
Period size: 28 Copynumber: 3.4 Consensus size: 28
57328 CTAGATTGAA
57338 GCACAGAGGTGCTCAATCAATCTTAGCT
1 GCACAGAGGTGCTCAATCAATCTTAGCT
* * *
57366 GCATAGAGATGCTCAATCAATCTTAGTT
1 GCACAGAGGTGCTCAATCAATCTTAGCT
57394 GCACAGAGGTGCTCAATCAATCTTAGCT
1 GCACAGAGGTGCTCAATCAATCTTAGCT
*
57422 ACACAGAGGT
1 GCACAGAGGT
57432 ATCAGTTCTC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (28 bp):
GCACAGAGGTGCTCAATCAATCTTAGCT
Found at i:57483 original size:55 final size:55
Alignment explanation
Indices: 57277--57632 Score: 319
Period size: 55 Copynumber: 6.5 Consensus size: 55
57267 CTTGATTTTA
* * * * * * *
57277 GATTGTAGCACAGATGTGCTCAATCA-TCTTA-ATACACAGAGGTGCCAGATCCTA
1 GATTGAAGCACAGAGGTGCTCAATCAGTTTTAGCTACACAGAGGTGTCAG-TTCTC
* * * * * *
57331 GATTGAAGCACAGAGGTGCTCAATCAATCTTAGCTGCATAGAGATGCTCA-ATCAATC
1 GATTGAAGCACAGAGGTGCTCAATCAGTTTTAGCTACACAGAGGTG-TCAGTTC--TC
** * * *
57388 --TTAGTTGCACAGAGGTGCTCAATCAATCTTAGCTACACAGAGGTATCAGTTCTC
1 GATT-GAAGCACAGAGGTGCTCAATCAGTTTTAGCTACACAGAGGTGTCAGTTCTC
* *
57442 GATTGAAGCACAGAGGTGCTCAATCAGTTTTAGCTATACAGAGGTGTCAGCTCTC
1 GATTGAAGCACAGAGGTGCTCAATCAGTTTTAGCTACACAGAGGTGTCAGTTCTC
** * * * * * *
57497 GGCTGAAGTACATAGGTGCTCAGTCATTTTTAACTGCACAGAGGTGTCAGTTCTC
1 GATTGAAGCACAGAGGTGCTCAATCAGTTTTAGCTACACAGAGGTGTCAGTTCTC
* * *
57552 GGTTGAAGCACAGAGGTGCTCAATCCGTTTTAGCTACACAGAGGTGTTAGCTT-TC
1 GATTGAAGCACAGAGGTGCTCAATCAGTTTTAGCTACACAGAGGTGTCAG-TTCTC
* *
57607 GATTTATGCACAGAGGTGCTCAATCA
1 GATTGAAGCACAGAGGTGCTCAATCA
57633 CTAATTCAGG
Statistics
Matches: 245, Mismatches: 47, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
54 26 0.11
55 165 0.67
56 51 0.21
57 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (55 bp):
GATTGAAGCACAGAGGTGCTCAATCAGTTTTAGCTACACAGAGGTGTCAGTTCTC
Found at i:65951 original size:18 final size:18
Alignment explanation
Indices: 65928--65968 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
65918 TCATCGCATT
65928 CCATTGTACCACTAACCC
1 CCATTGTACCACTAACCC
65946 CCATTGTACCACTAACCC
1 CCATTGTACCACTAACCC
*
65964 TCATT
1 CCATT
65969 TTCATACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.41, G:0.05, T:0.27
Consensus pattern (18 bp):
CCATTGTACCACTAACCC
Found at i:69941 original size:56 final size:56
Alignment explanation
Indices: 69856--70053 Score: 328
Period size: 56 Copynumber: 3.6 Consensus size: 56
69846 CAGGGCCCCA
69856 AAAAATAGGGGTCCCG-AATCGAATATATCTATCAGTTGTTGCCATTAATAAGCAT
1 AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAATAAGCAT
*
69911 AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAATAAACAT
1 AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAATAAGCAT
* * * *
69967 AAAAATAGGGGCCCCGAAATCGAGTATATCTATCAGTTGTTGCTATTAAGAAGCAT
1 AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAATAAGCAT
*
70023 AAAAATAAGGG-CCCGAAATCGAATATATCTA
1 AAAAATAGGGGTCCCGAAATCGAATATATCTA
70054 AAAAATAGAG
Statistics
Matches: 134, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
55 35 0.26
56 99 0.74
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (56 bp):
AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAATAAGCAT
Found at i:74347 original size:23 final size:23
Alignment explanation
Indices: 74321--74381 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
74311 AACATTAAAC
* *
74321 AAACGCTAAACGGACATGTTCAT
1 AAACGTTAAACGAACATGTTCAT
* *
74344 AAACATTAAACGAATATGTTCAT
1 AAACGTTAAACGAACATGTTCAT
*
74367 AAACGTTAAATGAAC
1 AAACGTTAAACGAAC
74382 GCTACATGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (23 bp):
AAACGTTAAACGAACATGTTCAT
Found at i:74416 original size:23 final size:22
Alignment explanation
Indices: 74390--74450 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
74380 ACGCTACATG
*
74390 AACATGTTCACGAATGCTAAACT
1 AACATGTTCACGAAT-CTAAACA
* *
74413 AACATGTTCGCGAACATTTAAACA
1 AACATGTTCACG-A-ATCTAAACA
74437 AACATGTTCACGAA
1 AACATGTTCACGAA
74451 CATTATACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 1 0.03
23 12 0.38
24 17 0.53
25 2 0.06
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (22 bp):
AACATGTTCACGAATCTAAACA
Found at i:74440 original size:24 final size:23
Alignment explanation
Indices: 74407--74480 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
74397 TCACGAATGC
*
74407 TAAACTAACATGTTCGCGAACATT
1 TAAACAAACATGTTCGCGAACA-T
*
74431 TAAACAAACATGTTCACGAACAT
1 TAAACAAACATGTTCGCGAACAT
* * *
74454 TATACAAACAAGTTCGCGAACGT
1 TAAACAAACATGTTCGCGAACAT
74477 TAAA
1 TAAA
74481 TGAACGAACA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 23 0.53
24 20 0.47
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.24
Consensus pattern (23 bp):
TAAACAAACATGTTCGCGAACAT
Found at i:74468 original size:23 final size:24
Alignment explanation
Indices: 74407--74474 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
74397 TCACGAATGC
*
74407 TAAACTAACATGTTCGCGAACATT
1 TAAACAAACATGTTCGCGAACATT
*
74431 TAAACAAACATGTTCACGAACA-T
1 TAAACAAACATGTTCGCGAACATT
* *
74454 TATACAAACAAGTTCGCGAAC
1 TAAACAAACATGTTCGCGAAC
74475 GTTAAATGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.24
Consensus pattern (24 bp):
TAAACAAACATGTTCGCGAACATT
Found at i:82210 original size:41 final size:41
Alignment explanation
Indices: 82153--82231 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
82143 AATTGAGGTC
*
82153 CAATATCGATATTGTCACCCTGAGAATCGATACTGGAGGGG
1 CAATATCGATACTGTCACCCTGAGAATCGATACTGGAGGGG
* *
82194 CAATATTGATACTGTCACCCTGAGTATCGATACTGGAG
1 CAATATCGATACTGTCACCCTGAGAATCGATACTGGAG
82232 TATCGATACT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (41 bp):
CAATATCGATACTGTCACCCTGAGAATCGATACTGGAGGGG
Found at i:82234 original size:14 final size:14
Alignment explanation
Indices: 82215--82245 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
82205 CTGTCACCCT
82215 GAGTATCGATACTG
1 GAGTATCGATACTG
82229 GAGTATCGATACTG
1 GAGTATCGATACTG
82243 GAG
1 GAG
82246 GGGCAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (14 bp):
GAGTATCGATACTG
Found at i:82244 original size:55 final size:54
Alignment explanation
Indices: 82178--82281 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 54
82168 CACCCTGAGA
*
82178 ATCGATACTGGAGGGGCAATATTGATACTGTCACCCT-G-AGTATCGATACTGGAGT
1 ATCGATACTGGAGGGGCAATATCGATAC--TC-CCCTGGCAGTATCGATACTGGAGT
82233 ATCGATACTGGAGGGGCAATATCGATACTCCCCTGGCAGTATCGATACT
1 ATCGATACTGGAGGGGCAATATCGATACTCCCCTGGCAGTATCGATACT
82282 TCTAGCCTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
52 4 0.09
53 3 0.07
54 12 0.26
55 27 0.59
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (54 bp):
ATCGATACTGGAGGGGCAATATCGATACTCCCCTGGCAGTATCGATACTGGAGT
Found at i:85611 original size:19 final size:18
Alignment explanation
Indices: 85579--85642 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
85569 TTTATTGAAA
85579 AACCGAAAAACCGAACCG
1 AACCGAAAAACCGAACCG
85597 AACCGAAAAACCCGAACCG
1 AACCGAAAAA-CCGAACCG
*
85616 TTAA---AAAAACCGAACCA
1 --AACCGAAAAACCGAACCG
85633 AACCGAAAAA
1 AACCGAAAAA
85643 ACTGGTTTCG
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
15 2 0.05
17 7 0.18
18 20 0.51
19 8 0.21
21 2 0.05
ACGTcount: A:0.55, C:0.30, G:0.12, T:0.03
Consensus pattern (18 bp):
AACCGAAAAACCGAACCG
Found at i:85643 original size:19 final size:19
Alignment explanation
Indices: 85578--85644 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
85568 TTTTATTGAA
85578 AAACCG-AAAAACCGAACC
1 AAACCGAAAAAACCGAACC
* *
85596 GAACCGAAAAACCCGAACC
1 AAACCGAAAAAACCGAACC
**
85615 GTTA---AAAAAACCGAACC
1 -AAACCGAAAAAACCGAACC
85632 AAACCGAAAAAAC
1 AAACCGAAAAAAC
85645 TGGTTTCGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
16 1 0.03
17 12 0.32
18 5 0.14
19 18 0.49
20 1 0.03
ACGTcount: A:0.55, C:0.30, G:0.12, T:0.03
Consensus pattern (19 bp):
AAACCGAAAAAACCGAACC
Found at i:86929 original size:23 final size:22
Alignment explanation
Indices: 86889--86937 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
86879 TTATAATTAT
86889 TTAAAAA-ATTAAATAAAAATA
1 TTAAAAATATTAAATAAAAATA
*
86910 TTAAAAATATTTAATAAAAA-A
1 TTAAAAATATTAAATAAAAATA
*
86931 TAAAAAA
1 TTAAAAA
86938 ATAGTTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
TTAAAAATATTAAATAAAAATA
Found at i:86938 original size:23 final size:21
Alignment explanation
Indices: 86891--86938 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
86881 ATAATTATTT
*
86891 AAAAAATTAAATAAAAATATTA
1 AAAAAATTAAATAAAAATA-AA
* *
86913 AAAATATTTAATAAAAAATAAA
1 AAAAAATTAAAT-AAAAATAAA
86935 AAAA
1 AAAA
86939 TAGTTTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATAAA
Found at i:93349 original size:19 final size:20
Alignment explanation
Indices: 93321--93389 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
93311 TCCAATTTTG
93321 GTATCGATACTCGCGG-AGA
1 GTATCGATACTCGCGGTAGA
* * *
93340 GTATCAATACTGGGGGTAGA
1 GTATCGATACTCGCGGTAGA
* *
93360 GTATCGATACTCCCAGTAGGA
1 GTATCGATACTCGCGGTA-GA
93381 GTATCGATA
1 GTATCGATA
93390 TTGATATATT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 13 0.32
20 16 0.40
21 11 0.28
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (20 bp):
GTATCGATACTCGCGGTAGA
Found at i:96694 original size:26 final size:27
Alignment explanation
Indices: 96662--96713 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
96652 AAATGCTTTA
*
96662 AGTCA-TTGACACTTTAGGGGCATTTT
1 AGTCATTTGACACTTTAAGGGCATTTT
* *
96688 AGTCATTTTATACTTTAAGGGCATTT
1 AGTCATTTGACACTTTAAGGGCATTT
96714 CTATAAATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (27 bp):
AGTCATTTGACACTTTAAGGGCATTTT
Done.