genome.fa.s8428.2.7.7.80.10.50.1000.21.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   

This is table  21  of  30  ( 3508 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)
4724199--4724241	19	2.3	19	84	8	52	32	4	0	62	1.15
4724213--4724274	22	2.9	22	73	19	60	30	4	1	62	1.25
4725619--4725655	18	2.1	17	95	5	65	16	8	5	70	1.30
4729067--4729109	17	2.5	16	85	11	50	83	0	16	0	0.64
4729075--4729103	10	2.7	11	89	10	51	89	0	10	0	0.48
4734015--4734069	22	2.5	22	87	0	83	36	12	12	38	1.82
4734509--4735337	113	7.7	111	79	11	916	38	14	18	28	1.90
4734509--4735318	214	3.8	214	95	1	1415	39	14	18	27	1.89
4735681--4735741	9	6.5	10	78	16	51	32	0	1	65	1.02
4735689--4735742	3	18.0	3	85	14	76	37	0	0	62	0.95
4736993--4737032	12	3.1	13	82	10	55	40	0	0	60	0.97
4738652--4738698	21	2.4	19	89	10	76	72	0	4	23	1.02
4739522--4739546	13	1.9	13	100	0	50	56	0	8	36	1.29
4744013--4744052	19	2.1	19	85	0	53	37	12	5	45	1.64
4747176--4747201	2	13.0	2	100	0	52	50	0	0	50	1.00
4748453--4748532	38	2.1	38	100	0	160	47	27	15	10	1.77
4749694--4749746	20	2.7	19	74	5	52	18	15	3	62	1.47
4750965--4750998	10	3.4	10	87	0	50	20	5	0	73	1.04
4761261--4761917	105	6.4	105	88	5	935	33	24	18	23	1.97
4762639--4762718	38	2.1	38	100	0	160	47	27	15	10	1.77
4763886--4763933	20	2.5	19	75	3	51	18	14	4	62	1.47
4766398--4766467	34	2.1	34	91	0	113	25	11	15	47	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4767035--4767088	29	2.0	26	82	10	63	25	11	1	61	1.40
4772892--4772955	32	2.0	32	100	0	128	37	12	12	37	1.81
4772895--4772963	32	2.2	32	94	0	120	40	11	13	34	1.80
4775196--4775254	29	2.0	29	96	0	109	25	11	13	49	1.76
4781363--4781424	23	2.8	23	80	9	58	20	24	30	24	1.99
4791774--4791826	21	2.5	21	90	0	79	22	24	32	20	1.98
4794526--4794555	4	7.2	4	92	7	51	26	0	0	73	0.84
4795027--4795084	29	2.0	29	100	0	116	65	6	20	6	1.40
4802065--4802131	2	33.5	2	100	0	134	49	0	0	50	1.00
4807074--4807113	21	1.9	21	89	0	62	27	17	17	37	1.92
4810591--4810651	23	2.7	23	80	10	79	27	27	24	19	1.99
4810676--4810867	101	1.9	98	92	3	321	36	22	15	26	1.93
4811914--4811951	20	2.0	20	89	5	60	36	10	2	50	1.51
4811915--4811961	20	2.2	20	85	7	58	40	12	2	44	1.54
4815478--4815530	23	2.3	23	90	0	88	26	26	26	20	1.99
4815532--4815759	99	2.3	102	90	5	365	36	22	14	26	1.92
4819112--4819272	74	2.2	74	85	4	218	28	18	10	42	1.84
4822388--4822457	31	2.3	31	100	0	140	37	8	10	44	1.69
4825339--4825422	32	2.6	32	100	0	168	38	22	9	29	1.86
4827944--4828014	27	2.6	27	82	8	72	22	12	1	63	1.37
4828249--4828302	28	2.0	28	85	10	76	29	9	3	57	1.47
4830906--4830931	3	8.7	3	100	0	52	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4837098--4837601	252	2.0	252	100	0	1008	32	14	13	40	1.84
4852707--4852789	30	2.7	30	75	3	76	46	4	42	6	1.49
4854019--4854082	26	2.5	26	94	0	110	43	15	15	25	1.86
4859332--4859387	2	28.5	2	96	3	105	0	0	51	48	1.00
4859387--4859423	2	18.5	2	100	0	74	48	0	51	0	1.00
4860378--4860767	193	2.0	195	98	1	766	39	9	23	27	1.86
4880985--4881021	6	5.4	7	87	12	51	29	2	0	67	1.04
4881768--4881806	15	2.5	16	83	8	53	12	20	33	33	1.91
4883303--4883342	21	1.9	21	85	10	55	12	7	5	75	1.18
4884859--4885049	99	1.9	99	86	2	267	33	16	17	31	1.93
4886344--4886799	124	3.7	124	88	1	657	32	23	17	26	1.97
4887041--4887066	3	8.7	3	100	0	52	30	0	0	69	0.89
4892176--4892220	21	2.1	21	87	0	63	31	28	24	15	1.96
4892803--4892837	18	1.9	18	88	11	54	54	5	17	22	1.64
4893556--4893612	31	1.9	30	82	7	71	42	8	21	28	1.82
4893717--4894020	149	2.0	149	98	0	590	26	17	20	34	1.95
4893999--4894043	23	2.0	23	86	0	63	20	24	28	26	1.99
4897300--4897344	21	2.1	21	87	0	63	31	28	24	15	1.96
4897927--4897961	18	1.9	18	88	11	54	54	5	17	22	1.64
4898683--4898739	31	1.9	30	82	7	71	42	8	21	28	1.82
4898844--4899147	149	2.0	149	98	0	581	26	17	21	34	1.95
4899126--4899170	23	2.0	23	86	0	63	20	24	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4906056--4906092	20	1.9	19	89	10	58	45	10	24	18	1.81
4906243--4906315	36	2.0	36	84	10	96	46	5	1	46	1.34
4908033--4908092	29	2.1	28	84	9	77	33	6	11	48	1.66
4911168--4911205	15	2.4	16	83	16	53	47	5	7	39	1.55
4914749--4914795	21	2.2	21	84	0	67	19	27	17	36	1.93
4914791--4914878	20	4.4	20	89	2	115	34	28	19	18	1.95
4915738--4915790	23	2.2	24	90	3	81	20	18	20	39	1.92
4918114--4918207	20	4.7	20	81	2	109	35	22	20	22	1.96
4918179--4918274	33	2.8	33	87	3	120	42	19	22	14	1.88
4918289--4918384	33	2.8	33	90	3	138	13	22	20	42	1.87
4918486--4918522	14	2.6	14	86	0	56	48	21	0	29	1.50
4918533--4918700	81	2.0	83	93	6	288	41	23	9	26	1.85
4920549--4920679	20	6.9	20	76	10	123	39	19	19	20	1.92
4920560--4920698	73	1.9	73	95	0	251	38	20	21	19	1.93
4920726--4920866	20	7.3	20	81	9	177	19	18	21	41	1.91
4920705--4920866	40	4.3	40	79	13	186	17	18	20	42	1.89
4922744--4922831	20	4.4	20	88	0	86	39	23	17	19	1.92
4922783--4922833	20	2.5	20	100	0	102	29	23	19	27	1.98
4922877--4922923	20	2.3	20	88	0	67	21	19	23	36	1.95
4923503--4923563	20	3.0	20	100	0	122	21	19	19	39	1.93
4923572--4923679	21	5.2	21	73	6	76	34	16	25	23	1.95
4923545--4923673	62	2.1	62	91	0	213	31	17	24	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4935084--4935144	32	1.9	32	86	3	88	45	11	4	37	1.62
4942807--4942865	27	2.1	28	81	3	66	47	8	13	30	1.73
4943837--4943879	21	2.0	21	90	0	68	27	16	25	30	1.97
4945129--4945168	19	2.2	18	90	4	62	40	0	0	60	0.97
4946842--4946893	15	3.2	17	72	22	58	36	21	0	42	1.53
4950080--4950244	80	2.1	80	87	4	235	32	9	7	50	1.64
4957792--4957851	21	2.9	21	92	0	93	30	25	20	25	1.99
4957923--4957971	19	2.5	19	96	3	89	24	20	16	38	1.92
4957841--4958003	21	7.9	21	85	8	176	25	22	22	30	1.99
4958171--4958427	42	6.1	42	94	0	451	36	22	19	21	1.95
4958199--4958489	65	4.6	65	78	12	300	37	23	18	20	1.95
4958174--4958534	107	3.4	107	82	10	413	37	22	19	20	1.94
4958269--4958543	149	1.8	149	95	0	496	37	22	19	20	1.94
4958171--4958469	126	2.4	124	89	4	413	36	22	19	21	1.95
4958418--4958543	42	3.0	42	91	0	216	38	23	18	19	1.93
4963411--4963450	2	21.5	2	82	14	50	45	0	0	55	0.99
4963434--4963703	38	7.1	37	81	9	271	45	3	5	45	1.43
4963434--4963703	75	3.6	72	80	9	274	45	3	5	45	1.43
4963460--4963703	113	2.2	113	85	5	341	46	3	5	44	1.43
4963675--4963701	13	2.1	13	100	0	54	44	0	0	55	0.99
4963435--4963703	37	7.2	38	81	7	266	46	3	5	44	1.43
4964970--4965063	9	10.2	9	81	15	54	23	2	2	72	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4965007--4965069	3	20.7	3	77	20	60	25	3	0	71	1.01
4965810--4965843	17	1.9	18	88	5	52	8	11	29	50	1.69
4969009--4969069	28	2.1	31	85	14	85	40	3	9	45	1.53
4969034--4969214	38	4.9	35	79	14	129	43	2	8	45	1.48
4969055--4969214	37	4.4	37	82	7	186	43	2	8	45	1.47
4969165--4969235	26	2.8	25	83	10	81	45	2	7	45	1.45
4969210--4969337	37	3.4	37	85	1	157	46	4	4	43	1.45
4969327--4969381	15	3.8	15	88	7	78	47	0	3	49	1.19
4969327--4969401	14	5.5	13	78	7	60	42	1	6	49	1.37
4969431--4969474	4	10.8	4	95	4	79	22	0	0	77	0.77

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