genome.fa.s9587.2.7.7.80.10.50.1000.19.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  19  of  29  ( 3457 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)
4166045--4166106	21	2.7	23	73	11	65	43	0	6	50	1.28
4172703--4172792	22	4.1	22	89	2	119	33	12	16	37	1.86
4172737--4172810	22	3.4	22	87	7	89	35	9	17	37	1.82
4174918--4174979	21	2.7	23	73	11	65	43	0	6	50	1.28
4175507--4175553	23	2.1	22	84	4	58	65	4	2	27	1.22
4178510--4178546	15	2.5	15	90	0	56	8	18	64	8	1.45
4181938--4182368	83	5.2	83	83	6	432	28	18	18	34	1.95
4181938--4182368	41	10.4	41	79	6	406	28	18	18	34	1.95
4181938--4182326	165	2.3	165	82	6	489	28	18	18	33	1.95
4182079--4182400	84	3.8	85	77	10	229	29	18	18	33	1.95
4182427--4182474	18	2.7	18	83	0	69	16	27	0	56	1.41
4184352--4184379	13	2.2	13	100	0	56	42	7	7	42	1.59
4185791--4186010	42	5.1	43	86	2	282	28	21	18	31	1.97
4185791--4186010	85	2.6	85	85	3	289	28	21	18	31	1.97
4185974--4186055	43	1.9	43	87	0	119	30	14	17	37	1.89
4185826--4186066	42	5.6	42	81	4	119	28	19	17	34	1.95
4190699--4190726	2	14.0	2	100	0	56	50	0	0	50	1.00
4190800--4190834	17	2.1	17	100	0	70	51	14	0	34	1.42
4193089--4193449	37	9.7	39	83	11	379	45	3	6	44	1.44
4193089--4193492	39	10.9	36	79	15	382	45	2	5	45	1.42
4193254--4193313	31	2.0	28	87	12	75	45	3	5	46	1.41
4193179--4193492	107	2.9	109	82	11	371	45	2	5	46	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4193396--4193484	41	2.1	42	84	12	121	47	1	3	48	1.26
4194292--4194324	12	2.8	12	100	0	66	48	0	42	9	1.35
4194346--4194370	7	3.6	7	100	0	50	52	0	32	16	1.44
4194799--4194849	17	2.9	18	83	11	54	29	1	0	68	1.00
4196386--4196420	18	1.9	18	88	0	52	22	20	31	25	1.98
4199093--4199118	13	2.0	13	100	0	52	38	0	30	30	1.58
4204041--4204145	39	2.7	39	86	2	140	38	9	6	45	1.63
4205966--4205995	15	1.9	16	93	6	53	33	0	13	53	1.40
4206012--4206370	4	90.8	4	85	8	495	47	23	1	26	1.62
4209141--4209184	18	2.4	18	82	14	54	77	2	2	18	0.98
4209147--4209187	9	4.8	9	82	11	59	78	2	0	19	0.87
4209156--4209187	16	1.9	17	93	6	57	78	3	0	18	0.89
4209291--4209388	47	2.1	47	98	1	189	18	29	6	45	1.73
4214973--4215085	53	2.2	52	80	4	120	44	12	16	26	1.83
4220353--4220462	55	2.0	55	100	0	220	38	20	7	34	1.80
4220556--4220591	2	18.0	2	100	0	72	50	0	0	50	1.00
4227103--4227207	37	2.8	37	82	4	131	41	14	12	31	1.82
4227434--4227506	18	4.1	18	71	7	58	13	9	4	72	1.24
4227434--4227468	9	3.9	9	88	0	52	17	2	0	80	0.84
4227426--4227469	14	3.2	14	81	15	56	18	2	0	79	0.83
4227430--4227496	36	1.9	36	85	8	95	14	7	2	74	1.16
4231967--4232496	183	2.9	183	94	0	909	27	20	21	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4233685--4233800	36	3.1	35	68	8	88	27	18	15	37	1.92
4233644--4233818	71	2.4	74	84	8	216	26	18	13	41	1.87
4233644--4233757	36	3.2	36	70	7	99	28	17	10	43	1.82
4233660--4233772	36	3.2	36	70	5	104	25	16	14	43	1.86
4233834--4233973	39	3.4	39	66	22	104	26	21	13	38	1.90
4233895--4234201	102	3.0	102	88	5	433	30	20	11	37	1.88
4234101--4234176	36	2.1	36	90	0	116	22	21	15	40	1.90
4233895--4234201	101	3.0	101	86	6	424	30	20	11	37	1.88
4234376--4234997	105	6.0	105	89	4	913	33	26	17	21	1.96
4234371--4234996	207	3.0	209	88	4	910	33	26	17	21	1.96
4235538--4235642	37	2.8	37	82	4	131	41	14	12	31	1.82
4235834--4235865	2	16.0	2	100	0	64	50	0	0	50	1.00
4235911--4235949	13	3.0	12	82	17	51	20	2	0	76	0.90
4235911--4235954	14	3.2	13	84	15	54	20	2	0	77	0.88
4235912--4235991	18	4.5	17	74	14	63	16	8	3	71	1.26
4239494--4239546	2	26.5	2	100	0	106	49	0	0	50	1.00
4243950--4243994	13	3.4	13	78	3	54	44	24	13	17	1.85
4247103--4247147	13	3.4	13	78	3	54	44	24	13	17	1.85
4254332--4254633	149	2.0	151	97	2	574	24	15	19	41	1.89
4257043--4257095	16	3.3	16	86	0	79	9	7	26	56	1.57
4258295--4258342	19	2.8	18	78	15	57	50	4	2	43	1.33
4258373--4258431	12	4.6	13	73	14	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4260446--4260488	20	2.2	20	87	4	61	55	0	0	44	0.99
4260533--4260581	25	2.0	25	88	8	73	51	4	0	44	1.20
4267493--4267574	15	5.5	15	82	2	103	39	8	18	34	1.81
4267487--4267574	45	2.0	44	88	2	131	40	7	19	31	1.80
4267576--4267616	14	2.9	14	88	0	55	29	14	19	36	1.92
4267744--4267807	21	3.6	18	75	20	55	43	3	0	53	1.16
4267908--4267970	23	2.7	23	80	5	63	46	1	1	50	1.20
4267956--4268008	28	1.9	27	88	11	81	50	1	0	47	1.12
4267946--4267998	20	2.7	20	75	16	56	49	1	0	49	1.12
4267955--4268120	29	5.8	27	69	18	81	51	1	0	46	1.13
4267954--4268056	29	3.5	28	77	17	86	51	1	0	46	1.12
4268072--4268115	22	2.0	23	86	4	63	54	0	0	45	0.99
4268310--4268413	42	2.5	41	87	3	136	19	17	16	47	1.83
4268616--4268659	22	2.0	23	86	4	63	45	0	0	54	0.99
4268654--4268688	17	2.1	17	88	0	52	54	5	0	40	1.24
4268608--4268666	31	1.9	32	86	13	88	47	0	0	52	1.00
4270340--4270384	23	2.0	23	86	0	63	53	2	2	42	1.25
4270481--4270543	21	3.3	19	71	22	60	50	0	3	46	1.17
4270667--4270702	14	2.6	14	90	0	54	30	22	11	36	1.89
4270699--4270740	15	2.9	15	82	3	59	40	19	9	30	1.83
4270830--4270949	42	2.9	42	88	0	177	45	18	17	18	1.85
4277915--4278335	169	2.5	168	86	3	585	28	18	19	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4278375--4278418	21	2.1	21	91	4	72	20	11	2	65	1.35
4281137--4281201	27	2.4	28	78	14	75	60	3	1	35	1.22
4281348--4281392	7	6.4	7	87	7	65	82	0	0	17	0.68
4281351--4281390	20	2.0	21	95	5	73	80	0	0	20	0.72
4281348--4281392	13	3.2	14	84	9	65	82	0	0	17	0.68
4288726--4288780	23	2.4	23	96	0	101	30	21	12	34	1.91
4293447--4293507	25	2.4	25	97	0	113	29	21	14	34	1.93
4300330--4300375	21	2.4	19	80	19	60	73	6	0	19	1.04
4304796--4304847	12	4.7	11	75	17	54	11	17	0	71	1.15
4309668--4309699	14	2.3	14	94	0	55	25	9	31	34	1.87
4312553--4312674	41	3.0	40	87	4	172	31	17	14	36	1.90
4313352--4313410	21	2.8	21	89	0	91	20	8	22	49	1.75
4324569--4324633	27	2.4	27	92	2	105	23	26	27	23	2.00
4325742--4325791	25	2.0	25	88	11	77	28	10	8	54	1.62
4326804--4326853	21	2.4	21	96	0	91	64	16	6	14	1.48
4328540--4328880	111	3.1	111	86	3	454	29	15	22	31	1.95
4341235--4341283	24	2.0	25	84	4	64	6	6	6	81	0.98
4341650--4341684	18	1.9	18	88	0	52	20	0	2	77	0.90
4346341--4346478	21	6.7	21	70	6	68	36	25	16	21	1.94
4346446--4346639	20	9.6	20	81	6	87	35	26	18	19	1.95
4346446--4346638	40	4.8	40	80	8	133	35	26	18	19	1.95
4346446--4346639	60	3.2	60	76	7	205	35	26	18	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4347018--4347088	33	2.2	33	92	0	115	11	22	16	49	1.78
4347168--4347273	21	5.6	20	70	16	91	46	18	23	11	1.82
4347161--4347277	41	3.1	38	79	14	136	47	17	24	11	1.80
4347228--4347284	14	3.7	14	72	20	51	45	22	22	8	1.80
4347220--4347289	33	2.1	33	97	0	131	48	20	22	8	1.76
4347226--4347300	33	2.3	33	92	0	123	48	24	20	8	1.76
4347296--4347421	19	7.1	19	71	18	110	11	24	19	44	1.83
4347318--4347374	14	3.7	14	75	20	60	8	24	22	43	1.81
4347301--4347421	33	3.5	33	93	6	188	10	23	19	45	1.82
4347831--4347855	12	2.1	12	100	0	50	0	28	0	72	0.86

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