genome.fa.s9639.2.7.7.80.10.50.1000.56.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  56  of  62  ( 7398 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)
13366656--13366817	71	2.3	71	95	2	288	58	0	16	25	1.39
13366780--13366819	19	2.0	20	90	4	64	65	0	15	20	1.28
13366715--13366816	24	4.3	24	67	14	68	60	0	16	22	1.35
13367228--13367280	19	2.6	21	88	8	74	45	5	13	35	1.67
13376405--13376437	17	1.9	17	100	0	66	6	6	6	81	0.97
13376640--13376785	61	2.3	67	86	11	207	56	0	19	24	1.42
13381144--13381173	12	2.4	13	88	11	53	6	6	13	73	1.24
13387093--13387145	19	2.6	21	88	8	74	45	5	13	35	1.67
13390563--13390664	24	4.3	24	68	16	77	55	0	17	26	1.42
13390562--13390702	71	2.0	72	98	1	275	57	0	17	25	1.40
13390665--13390704	19	2.0	20	90	4	64	65	0	15	20	1.28
13390600--13390701	24	4.3	24	67	14	68	60	0	16	22	1.35
13391118--13391170	19	2.6	21	88	8	74	45	5	13	35	1.67
13393459--13393484	13	2.0	13	100	0	52	23	38	0	38	1.55
13394218--13394250	17	1.9	17	93	0	57	36	27	0	36	1.57
13397954--13397987	16	2.1	17	89	10	54	11	23	0	64	1.26
13404680--13404709	13	2.4	13	94	5	53	43	0	30	26	1.55
13407609--13407719	19	6.1	19	63	18	56	25	15	0	58	1.43
13413773--13413810	20	1.9	20	100	0	76	18	21	13	47	1.82
13414246--13414285	19	2.1	19	85	4	53	22	12	0	65	1.26
13414262--13414387	24	5.2	24	70	10	78	26	15	0	58	1.37
13414250--13414409	71	2.2	71	93	1	266	24	16	0	58	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13417219--13417256	20	1.9	20	100	0	76	18	21	13	47	1.82
13417692--13417731	19	2.1	19	85	4	53	22	12	0	65	1.26
13417708--13417833	24	5.2	24	70	10	78	26	15	0	58	1.37
13417696--13417855	71	2.2	71	93	1	266	24	16	0	58	1.38
13420659--13420696	20	1.9	20	100	0	76	18	21	13	47	1.82
13421136--13421295	71	2.2	71	92	1	257	23	19	0	56	1.46
13421507--13421556	26	1.9	26	88	8	75	78	4	14	4	1.05
13422250--13422317	35	1.9	36	90	3	111	30	2	35	30	1.73
13425892--13425928	12	3.0	12	96	4	65	27	8	48	16	1.74
13438391--13438441	11	4.6	11	87	0	75	84	9	3	1	0.83
13440082--13440123	21	2.0	21	85	0	57	23	33	9	33	1.87
13457572--13457616	22	2.1	21	87	4	63	0	13	6	80	0.91
13459721--13459794	9	8.0	9	76	16	55	82	12	4	1	0.87
13459726--13459788	11	5.5	11	81	10	72	84	9	4	1	0.84
13459726--13459778	12	4.4	12	83	9	72	86	7	3	1	0.75
13459720--13459778	13	4.7	13	79	10	61	84	10	3	1	0.80
13459721--13459788	23	3.0	22	81	10	84	83	10	4	1	0.84
13474229--13474401	90	1.9	91	86	3	251	30	21	25	22	1.99
13476254--13476283	13	2.4	13	94	5	53	26	30	0	43	1.55
13485401--13485439	16	2.5	17	88	12	57	0	17	0	82	0.68
13485426--13485493	28	2.5	27	83	4	75	11	13	11	63	1.53
13485630--13485659	5	6.2	5	96	3	53	0	20	0	80	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13485629--13485666	15	2.5	15	80	20	51	0	21	0	78	0.74
13485295--13485748	229	2.0	225	96	3	840	21	17	12	48	1.81
13486595--13486624	10	3.0	10	100	0	60	30	30	10	30	1.90
13490887--13490920	15	2.2	16	89	5	52	47	14	17	20	1.83
13492489--13492534	23	2.0	23	83	8	58	36	6	8	47	1.60
13495780--13495825	23	2.0	23	83	8	58	36	6	8	47	1.60
13519633--13519686	19	2.9	18	81	8	63	83	5	11	0	0.80
13522561--13522609	16	2.9	16	84	6	53	61	0	22	16	1.34
13536996--13537064	24	2.8	24	72	14	59	65	14	15	4	1.43
13542161--13542197	15	2.5	15	95	0	65	32	40	0	27	1.57
13546833--13546875	21	2.0	21	100	0	86	41	11	18	27	1.85
13550627--13550655	15	2.0	15	93	6	51	0	20	3	75	0.94
13554852--13554888	18	2.1	18	94	0	65	40	0	27	32	1.57
13555545--13555610	24	2.7	25	80	11	66	45	16	9	28	1.78
13556814--13556844	14	2.2	14	94	0	53	35	12	12	38	1.82
13558992--13559034	22	2.0	22	90	0	68	60	16	11	11	1.59
13559001--13559049	21	2.3	22	85	3	64	61	14	16	8	1.56
13564031--13564081	23	2.2	23	92	0	84	13	25	15	45	1.83
13571730--13571785	19	3.1	19	74	10	62	3	16	3	76	1.06
13577109--13577146	19	2.0	20	84	5	51	57	0	18	23	1.40
13580744--13580882	72	1.9	72	92	0	233	31	15	20	32	1.94
13581673--13581788	35	3.3	35	85	1	151	26	35	2	35	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13584228--13584284	30	1.9	30	85	7	80	31	15	28	24	1.96
13589361--13589405	13	3.5	13	84	3	56	35	35	2	26	1.69
13589427--13589463	18	2.1	18	90	10	58	18	16	0	64	1.29
13589427--13589471	17	2.6	19	83	16	55	20	15	0	64	1.29
13589722--13589788	18	3.7	17	74	25	66	76	1	17	4	1.04
13589733--13589801	34	2.2	30	82	15	77	73	2	17	5	1.15
13602975--13603016	17	2.5	17	96	0	75	11	23	33	30	1.91
13606249--13606300	26	2.0	26	96	0	95	15	25	23	36	1.93
13621813--13621853	17	2.4	17	95	0	73	51	17	9	21	1.74
13624644--13624668	13	1.9	13	100	0	50	28	0	40	32	1.57
13629305--13629353	6	8.8	6	76	14	52	0	4	10	85	0.71
13629304--13629353	11	4.5	11	80	9	66	0	4	10	86	0.71
13631182--13631235	23	2.3	24	87	3	83	62	11	16	9	1.52
13631182--13631241	24	2.6	23	81	7	77	63	10	18	8	1.50
13638123--13638151	12	2.3	13	94	5	51	20	0	48	31	1.50
13640442--13640615	91	1.9	91	91	0	285	29	22	27	20	1.98
13649495--13649522	14	2.0	14	100	0	56	35	0	42	21	1.53
13658083--13658108	13	2.0	13	100	0	52	38	0	30	30	1.58
13661335--13661384	24	2.1	24	84	0	64	32	26	20	22	1.98
13661478--13661541	23	2.6	25	80	7	69	65	9	15	9	1.46
13672957--13673006	24	2.1	24	85	7	66	34	26	20	20	1.96
13680011--13680126	36	3.2	36	85	6	164	30	3	34	31	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13685450--13685517	13	5.2	13	92	0	91	30	20	11	36	1.89
13685489--13685654	85	2.0	84	86	3	235	28	22	18	30	1.97
13689659--13689778	64	1.9	64	82	3	152	25	18	20	36	1.94
13698534--13698574	18	2.3	18	100	0	82	21	0	39	39	1.54
13700292--13700443	46	3.3	46	86	3	225	22	25	9	42	1.84
13700365--13700463	20	4.7	20	76	14	108	21	28	10	40	1.85
13700881--13700931	22	2.5	20	78	12	57	25	27	13	33	1.94
13704251--13704276	3	8.7	3	100	0	52	69	0	30	0	0.89
13706344--13706393	25	2.0	25	100	0	100	28	28	8	36	1.85
13709791--13710110	46	7.0	46	87	2	450	22	23	8	45	1.80
13710067--13710108	17	2.5	17	96	0	75	21	21	9	47	1.79
13710021--13710143	63	2.0	63	95	0	219	21	21	11	46	1.82
13709791--13710110	139	2.3	137	85	5	385	22	23	8	45	1.80
13710562--13710639	22	3.6	22	69	19	65	26	19	14	39	1.89
13715582--13715615	18	1.9	18	88	5	52	47	5	2	44	1.42
13716205--13716338	36	3.8	35	85	6	198	20	24	18	36	1.95
13716338--13716377	21	2.0	19	85	9	53	12	32	0	55	1.38
13718600--13718693	49	1.9	48	84	2	125	17	31	29	21	1.96
13718829--13718868	10	4.0	10	84	12	55	32	27	0	40	1.57
13720603--13720638	18	2.0	18	100	0	72	33	22	16	27	1.95
13720980--13721023	9	4.9	9	80	0	52	31	20	36	11	1.88
13720986--13721032	15	3.1	15	87	0	76	31	17	36	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13722835--13722940	37	2.9	37	81	2	124	41	14	12	32	1.82
13723290--13723322	15	2.1	16	94	5	59	24	6	3	66	1.28
13723460--13723836	119	3.0	125	67	18	327	32	6	3	57	1.40
13724058--13724095	2	20.0	2	89	10	62	47	0	0	52	1.00
13727957--13728342	191	2.0	191	94	1	675	30	18	19	30	1.96
13729443--13729550	36	3.0	34	73	10	92	26	15	13	43	1.85
13729695--13729768	38	1.9	38	83	5	96	25	22	13	37	1.91
13729672--13729988	105	3.1	103	92	3	514	29	20	12	36	1.89
13729889--13729964	36	2.1	36	90	0	116	22	21	15	40	1.90
13730137--13730325	98	1.9	100	82	9	244	33	26	23	16	1.95

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