genome.fa.s851.2.7.7.80.10.50.1000.18.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   

This is table  18  of  31  ( 3618 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)
4336500--4336819	57	5.9	55	83	7	273	34	19	12	33	1.89
4336688--4336839	57	2.7	57	93	0	250	38	19	11	30	1.86
4337261--4337309	20	2.5	20	83	6	55	28	24	10	36	1.88
4339806--4339834	2	15.0	2	92	7	51	48	0	0	51	1.00
4343378--4343521	76	2.0	68	82	14	171	43	3	2	50	1.33
4352670--4352827	21	7.8	20	72	7	86	38	25	17	18	1.92
4352794--4352987	20	9.6	20	81	5	221	35	25	19	19	1.95
4352794--4352987	60	3.2	60	83	0	253	35	25	19	19	1.95
4353368--4353476	19	6.2	18	67	22	63	11	21	22	45	1.82
4353401--4353490	14	5.7	14	72	23	72	8	24	23	43	1.82
4353384--4353498	33	3.5	33	96	0	212	10	22	20	46	1.81
4355246--4355280	14	2.6	14	90	4	54	31	0	22	45	1.53
4355387--4355484	19	5.4	19	83	13	134	46	17	21	14	1.83
4355387--4355499	53	2.2	53	96	1	210	46	17	22	14	1.84
4355509--4355660	33	4.5	33	71	17	141	13	23	17	46	1.83
4355531--4355744	19	12.4	19	75	19	220	14	21	17	46	1.83
4355509--4355717	52	4.0	52	96	1	393	13	23	16	45	1.83
4355509--4355717	103	2.0	104	97	0	393	13	23	16	45	1.83
4358041--4358065	12	2.1	12	100	0	50	0	28	0	72	0.86
4358967--4359196	20	11.5	20	85	3	221	20	18	24	36	1.94
4359163--4359260	21	4.8	20	75	15	83	22	17	22	37	1.94
4359163--4359261	42	2.4	43	78	8	107	22	17	23	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4361476--4361535	2	30.0	2	100	0	120	50	0	0	50	1.00
4368310--4368334	12	2.1	12	100	0	50	40	24	16	20	1.91
4371117--4371165	25	2.0	25	87	0	71	26	20	26	26	1.99
4371434--4371504	34	2.1	34	86	0	97	32	9	18	39	1.83
4384909--4385016	36	3.0	36	91	1	173	30	51	16	0	1.51
4398090--4398129	21	1.9	21	85	10	55	35	10	2	52	1.48
4403141--4403179	19	2.0	20	85	5	53	41	2	0	56	1.13
4406142--4406285	3	48.0	3	100	0	288	66	0	0	33	0.92
4409536--4409619	42	2.0	42	95	0	150	32	5	15	46	1.70
4413838--4413947	40	2.7	40	87	1	166	26	16	25	31	1.96
4413922--4413965	22	2.0	22	95	0	79	20	13	34	31	1.92
4413883--4414005	62	2.0	62	93	0	210	22	15	28	33	1.95
4413944--4414021	40	2.0	40	97	0	147	23	17	26	32	1.97
4414587--4414628	21	2.0	21	95	0	75	28	21	23	26	1.99
4414701--4414743	22	2.0	22	95	0	77	23	20	13	41	1.88
4419741--4419812	31	2.4	31	79	4	76	47	6	18	27	1.74
4439484--4439527	20	2.2	20	88	8	63	31	15	25	27	1.96
4445964--4446000	20	1.9	19	89	10	58	35	18	27	18	1.95
4446054--4446099	18	2.6	18	100	0	92	28	21	21	28	1.99
4446173--4446226	20	2.7	20	88	0	72	35	18	22	24	1.96
4451999--4452032	18	1.9	18	88	5	52	17	20	5	55	1.62
4462791--4462849	21	2.8	21	84	0	55	22	27	11	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4464084--4464116	12	3.0	11	91	8	50	45	36	18	0	1.49
4465250--4465279	15	2.0	15	100	0	60	20	0	46	33	1.51
4469823--4469874	20	2.6	19	76	8	59	30	26	13	28	1.94
4474881--4475433	158	3.5	157	84	3	675	28	17	7	46	1.74
4485674--4485747	21	3.6	21	80	5	71	31	16	20	32	1.94
4498354--4498390	19	1.9	19	88	0	56	29	21	21	27	1.99
4502356--4502390	6	5.8	6	100	0	70	17	0	0	82	0.66
4502886--4502929	20	2.2	20	84	8	54	20	15	27	36	1.93
4507124--4507182	27	2.1	29	87	9	86	30	23	8	37	1.85
4507768--4507874	31	3.5	30	89	3	160	37	16	14	31	1.89
4509292--4509321	15	2.0	15	93	0	51	43	0	0	56	0.99
4510326--4510374	22	2.2	23	81	3	55	55	4	0	40	1.19
4510379--4510430	20	2.9	17	73	15	50	42	0	0	57	0.98
4510380--4510430	19	2.7	19	81	3	68	43	0	0	56	0.99
4513149--4513234	3	28.7	3	97	0	163	65	0	1	33	1.01
4515318--4515431	24	4.8	24	84	2	122	21	22	24	30	1.99
4519192--4519337	65	2.2	64	83	7	170	26	17	23	31	1.97
4532115--4532181	24	2.7	25	88	4	109	22	29	20	26	1.99
4532186--4532232	24	2.0	24	86	0	67	27	17	19	36	1.93
4533378--4533426	14	3.2	14	74	20	53	28	12	32	26	1.92
4538552--4538700	65	2.3	64	83	3	183	27	17	23	31	1.97
4547612--4547676	29	2.3	27	77	15	69	35	18	4	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4549555--4549586	2	16.5	2	93	6	57	50	0	0	50	1.00
4550571--4550599	15	1.9	15	100	0	58	27	31	6	34	1.83
4555447--4555489	18	2.4	18	80	7	52	0	32	6	60	1.23
4561778--4562310	266	2.0	264	97	0	1012	33	20	6	39	1.77
4563557--4563627	31	2.4	29	77	13	74	36	21	1	40	1.62
4568173--4568224	24	2.2	24	82	6	61	55	0	1	42	1.10
4568494--4568528	11	3.2	11	91	0	52	54	0	5	40	1.24
4568878--4568920	13	3.8	11	80	14	52	67	2	2	27	1.15
4569642--4569690	23	2.1	24	82	17	59	4	22	16	57	1.56
4570164--4570228	3	21.3	3	77	3	67	60	1	1	36	1.16
4570353--4571194	45	18.8	45	92	1	1287	35	19	22	21	1.96
4571850--4571929	22	3.6	22	75	18	85	41	12	12	33	1.81
4572117--4572220	54	1.9	54	82	0	127	28	18	12	40	1.87
4576261--4576316	7	7.7	7	74	21	53	0	21	0	78	0.75
4576245--4576320	17	4.2	18	85	9	93	0	25	0	75	0.81
4576268--4576319	13	4.2	12	75	20	54	0	19	0	80	0.71
4576245--4576319	37	2.0	37	89	7	116	0	24	0	76	0.80
4582393--4582444	24	2.2	24	82	6	61	55	0	1	42	1.10
4582545--4582579	11	3.2	11	91	0	52	57	0	2	40	1.14
4583933--4583960	13	2.2	13	100	0	56	21	21	50	7	1.72
4584217--4584291	3	24.3	3	78	5	78	61	1	1	36	1.13
4588133--4588159	14	1.9	14	100	0	54	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4592208--4592247	3	13.0	3	89	5	62	32	0	2	65	1.06
4593509--4593560	16	3.2	16	71	10	52	13	25	36	25	1.92
4606010--4606074	17	3.8	17	78	11	62	44	7	10	36	1.68
4611329--4611368	21	1.9	21	100	0	80	30	30	12	27	1.93
4611481--4611564	34	2.4	35	90	7	136	17	22	36	22	1.94
4612881--4612931	23	2.2	23	79	6	59	11	13	3	70	1.29
4613571--4613615	18	2.5	18	96	0	81	33	6	15	44	1.73
4616041--4616080	21	1.9	21	85	10	55	47	5	25	22	1.71
4617400--4617471	17	4.2	17	82	5	74	36	13	9	40	1.78
4618512--4618583	17	4.2	17	76	3	63	40	9	12	37	1.76
4622599--4622651	17	3.1	17	86	0	70	41	7	15	35	1.75
4622604--4622666	17	3.6	17	82	6	56	42	7	12	36	1.72
4631315--4631366	21	2.5	21	81	3	61	38	19	25	17	1.93
4631355--4631468	20	5.7	20	81	6	104	30	25	19	24	1.98
4631352--4631468	61	1.9	61	83	0	153	32	24	18	23	1.97
4632023--4632064	19	2.2	19	91	0	66	52	26	16	4	1.63
4632060--4632149	39	2.3	38	94	1	153	12	18	22	46	1.82
4632060--4632244	19	10.1	19	76	15	158	12	21	22	43	1.86
4632079--4632160	39	2.1	39	86	6	114	8	20	26	43	1.80
4632132--4632219	33	2.6	33	92	1	140	11	25	25	38	1.89
4632187--4632244	20	2.9	20	80	10	64	13	24	18	43	1.87
4634240--4634362	42	2.9	42	80	2	122	22	35	17	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4635720--4635755	14	2.6	14	95	0	63	30	0	25	44	1.54
4635934--4636064	19	7.7	19	67	23	103	15	22	19	42	1.88
4635938--4636064	33	3.9	32	85	8	184	15	22	18	42	1.89
4635931--4636063	66	2.0	66	95	0	239	17	22	18	41	1.90
4638328--4638352	12	2.1	12	100	0	50	0	28	0	72	0.86
4638527--4638580	24	2.2	24	90	0	81	38	20	16	24	1.92
4639636--4639693	20	2.9	20	97	0	107	37	24	22	15	1.93
4639688--4639755	19	3.8	19	85	14	101	47	17	22	13	1.82
4639896--4639932	14	2.6	14	86	0	56	48	21	0	29	1.50
4641798--4641864	19	3.5	19	83	4	89	37	23	23	14	1.93

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