genome.fa.s8242.2.7.7.80.10.50.1000.47.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  47  of  73  ( 8740 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11296655--11297165	135	3.9	135	86	6	708	29	20	22	27	1.99
11296921--11296983	20	3.0	21	75	15	76	26	19	23	30	1.98
11296913--11296975	20	3.0	20	72	17	65	25	25	22	26	2.00
11296664--11297165	257	2.0	256	90	0	797	29	20	23	27	1.99
11296791--11297046	122	2.1	122	95	0	467	29	20	22	27	1.98
11297035--11297059	13	1.9	13	100	0	50	32	24	20	24	1.98
11297052--11297131	42	1.9	42	86	0	115	22	20	28	28	1.98
11297175--11297346	53	3.2	53	86	1	238	31	20	26	20	1.97
11297496--11297567	3	24.7	3	72	16	53	29	0	2	68	1.04
11306902--11307031	30	4.3	30	86	1	152	33	22	18	26	1.97
11310875--11310908	18	1.9	17	88	5	50	47	17	0	35	1.48
11311948--11312050	30	3.4	30	87	1	125	31	19	21	28	1.97
11312004--11312118	31	3.8	30	76	3	86	30	21	19	28	1.97
11312034--11312129	31	3.1	30	74	12	88	32	20	19	27	1.97
11317142--11317181	21	2.0	20	86	13	57	15	7	7	70	1.33
11321781--11322341	83	6.8	83	81	5	559	35	16	18	29	1.93
11321817--11322341	249	2.1	247	85	4	691	36	16	18	29	1.92
11323220--11323271	26	2.0	27	84	3	70	57	19	1	21	1.50
11324191--11324276	15	5.9	15	71	8	52	15	40	4	39	1.68
11324197--11324246	18	2.8	18	84	0	64	16	40	6	38	1.73
11326336--11326377	19	2.2	20	86	4	59	71	4	0	23	1.05
11326337--11326401	32	2.0	32	82	11	80	67	4	0	27	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11326336--11326385	16	2.9	17	82	8	57	72	4	0	24	1.02
11327149--11327174	7	3.7	7	100	0	52	26	0	0	73	0.84
11327995--11328037	18	2.4	18	88	0	68	37	11	6	44	1.68
11329312--11329352	21	2.0	21	95	0	73	0	36	17	46	1.48
11334789--11334883	20	4.8	20	96	0	163	18	27	20	33	1.96
11336148--11336186	2	19.5	2	89	0	60	48	5	0	46	1.24
11336583--11336675	30	3.1	30	92	1	143	32	26	20	20	1.97
11337578--11337754	64	2.8	64	84	5	223	25	19	20	33	1.96
11337617--11337786	64	2.7	64	81	9	159	25	18	18	37	1.94
11341262--11341286	2	12.5	2	100	0	50	52	0	0	48	1.00
11341674--11341765	30	3.1	30	87	3	134	33	26	19	20	1.96
11341987--11342154	84	2.0	84	100	0	336	29	19	9	41	1.83
11342772--11342992	64	3.5	64	84	6	252	26	19	20	33	1.96
11346243--11346303	30	2.0	32	87	9	92	31	6	18	44	1.75
11346383--11346481	21	4.7	21	80	12	105	23	34	21	21	1.97
11346506--11346575	20	3.5	20	92	1	106	18	27	20	34	1.96
11346502--11346614	40	2.8	40	83	4	129	18	26	22	32	1.97
11349963--11350060	49	2.0	49	100	0	196	22	18	26	32	1.97
11350574--11350628	24	2.3	24	100	0	110	23	16	12	47	1.81
11351371--11351418	22	2.2	22	96	0	87	31	14	10	43	1.79
11351835--11352086	83	3.0	82	79	5	274	32	19	15	32	1.93
11357351--11357399	20	2.5	20	78	18	57	38	0	6	55	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11357386--11357691	152	2.0	153	99	0	605	42	7	15	34	1.75
11358441--11358583	72	2.0	72	97	0	268	39	7	16	36	1.77
11366881--11366955	21	3.6	21	78	7	55	36	16	17	30	1.91
11366898--11366957	21	2.9	21	80	5	68	30	20	18	31	1.96
11367387--11367416	3	10.0	3	92	0	51	30	0	0	70	0.88
11367460--11367506	2	23.5	2	100	0	94	48	0	0	51	1.00
11370452--11370519	21	3.2	21	79	8	59	36	14	14	33	1.87
11371496--11371532	2	19.0	2	94	5	67	51	0	0	48	1.00
11372927--11373076	74	2.0	74	100	0	300	30	16	17	36	1.91
11380535--11380584	21	2.4	21	100	0	100	38	14	18	30	1.89
11380696--11380748	20	2.7	20	90	0	88	32	9	24	33	1.87
11381440--11381664	54	4.2	54	88	0	326	31	19	19	29	1.97
11383594--11383639	23	2.0	23	87	8	67	43	6	0	50	1.28
11383729--11383798	30	2.3	31	80	7	81	44	0	5	50	1.26
11383786--11383825	20	2.0	20	85	0	53	45	2	5	47	1.38
11383854--11384102	30	8.6	29	70	17	142	52	0	9	37	1.39
11384087--11384151	18	3.5	19	68	14	55	46	1	6	46	1.37
11391193--11391279	30	3.0	29	81	9	106	37	5	2	54	1.37
11391193--11391304	30	3.5	33	74	17	94	37	6	2	53	1.40
11391494--11391557	27	2.4	27	82	14	80	51	0	6	42	1.27
11391591--11391722	65	2.0	65	100	0	264	47	1	15	34	1.55
11391681--11391804	30	4.2	29	82	7	133	52	1	8	37	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11394692--11394750	3	20.3	3	86	6	86	66	0	0	33	0.92
11394692--11394743	14	3.6	14	94	2	86	65	0	0	34	0.93
11394948--11395236	137	2.1	136	83	3	357	28	19	26	25	1.98
11395709--11395807	37	2.7	37	87	4	137	43	11	17	28	1.83
11399367--11399681	149	2.1	149	95	1	569	26	17	20	34	1.95
11399649--11399693	23	2.0	23	86	8	65	20	24	26	28	1.99
11406538--11406582	23	2.0	23	81	0	54	20	24	26	28	1.99
11408940--11409000	29	2.1	29	96	0	113	42	6	22	27	1.78
11414017--11414089	3	24.7	3	91	2	121	64	0	1	34	1.02
11415673--11415760	30	3.0	30	85	5	108	39	5	1	53	1.32
11415767--11415794	2	14.0	2	100	0	56	50	0	0	50	1.00
11415933--11416175	30	8.1	29	75	7	175	50	2	10	37	1.48
11416052--11416162	31	3.8	28	80	8	114	54	1	9	34	1.44
11416083--11416184	29	3.5	28	84	7	132	51	1	7	38	1.42
11419429--11419534	40	2.6	40	79	10	99	22	18	32	26	1.97
11419280--11419821	137	4.0	137	84	1	640	25	16	28	28	1.97
11419288--11419821	275	1.9	273	85	1	719	25	16	29	29	1.97
11419826--11419951	67	1.9	67	88	6	193	37	17	17	27	1.92
11420181--11420266	37	2.3	37	82	4	111	41	12	16	29	1.85
11420181--11420278	37	2.6	36	80	6	99	39	11	15	33	1.83
11422408--11422454	10	4.8	10	81	2	51	4	19	0	76	0.95
11423865--11423939	29	2.6	29	93	2	123	41	9	24	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11427109--11427179	30	2.4	30	81	9	83	15	15	9	59	1.61
11427742--11427791	3	16.7	3	100	0	100	66	0	0	34	0.92
11430102--11430149	22	2.1	22	88	3	69	39	4	12	43	1.62
11433679--11433703	2	12.5	2	100	0	50	48	0	0	52	1.00
11441152--11441213	3	20.7	3	100	0	124	66	0	0	33	0.92
11442829--11442912	30	2.8	31	83	5	109	39	4	1	54	1.29
11442922--11442947	2	13.0	2	100	0	52	50	0	0	50	1.00
11443139--11443180	2	21.0	2	100	0	84	50	0	0	50	1.00
11443092--11443229	30	4.5	31	73	12	108	56	0	3	39	1.17
11443173--11443428	30	8.6	30	77	5	200	50	1	8	38	1.45
11443305--11443437	29	4.5	29	82	9	144	52	2	8	36	1.44
11443653--11443714	31	2.0	31	100	0	124	45	3	16	35	1.63
11446550--11447094	137	4.0	137	83	1	653	26	16	28	28	1.97
11446558--11447094	275	2.0	273	84	1	716	25	16	28	28	1.97
11447096--11447221	67	1.9	67	88	6	193	36	15	19	28	1.92
11447451--11447566	37	3.2	37	79	8	112	39	12	16	31	1.85
11449959--11449991	10	3.3	10	91	8	50	0	18	0	81	0.68
11449955--11449989	14	2.5	14	100	0	70	0	20	0	80	0.72
11450161--11450249	29	3.0	29	78	15	110	52	0	8	38	1.33
11452494--11452569	30	2.6	30	80	13	97	13	15	9	61	1.55
11461948--11462035	30	3.0	29	81	8	106	38	5	2	53	1.37
11462089--11462243	77	2.0	79	80	8	176	52	0	3	43	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11462171--11462317	63	2.4	62	82	8	167	56	0	6	37	1.24
11462217--11462478	30	8.8	29	75	10	176	51	0	9	38	1.39
11462174--11462480	30	10.2	31	73	12	151	52	0	8	38	1.36
11462237--11462468	60	3.9	59	75	8	220	51	0	9	37	1.41
11462468--11462515	18	2.7	18	75	15	55	45	0	10	43	1.38
11462207--11462530	148	2.2	144	78	12	336	51	0	8	39	1.37
11464883--11464954	29	2.5	29	100	0	144	15	19	8	56	1.63
11465547--11465591	3	15.3	3	90	4	74	66	0	0	33	0.92
11465795--11466293	137	3.6	137	84	2	626	26	17	28	27	1.97
11465795--11466293	275	1.8	274	85	3	707	26	17	28	27	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73