genome.fa.s851.2.7.7.80.10.50.1000.19.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: 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  19  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)
4641853--4641910	14	3.9	14	75	16	62	50	25	15	8	1.73
4641837--4641915	32	2.4	33	93	2	133	48	24	17	10	1.78
4641927--4642017	32	2.8	33	88	3	139	13	18	19	48	1.81
4641934--4642017	14	5.1	17	68	24	63	11	19	20	48	1.79
4642002--4642056	20	2.8	19	83	8	65	16	23	23	36	1.94
4642538--4642582	18	2.5	18	88	0	72	13	15	44	26	1.83
4643900--4643942	20	2.2	20	95	0	77	53	18	18	9	1.70
4644221--4644264	22	2.0	22	86	0	61	20	13	45	20	1.85
4644452--4644565	20	5.7	20	78	6	104	24	18	25	31	1.97
4644555--4644647	20	4.5	21	75	4	91	17	24	17	40	1.90
4644555--4644647	41	2.3	41	96	0	141	17	24	17	40	1.90
4648389--4648518	66	2.0	66	81	6	156	30	33	16	19	1.94
4648462--4648999	57	9.5	57	75	5	412	31	33	16	18	1.93
4648488--4648999	114	4.5	114	81	3	491	32	33	16	17	1.93
4650238--4650272	2	17.5	2	100	0	70	48	0	0	51	1.00
4654109--4654179	27	2.7	26	78	6	79	60	1	12	25	1.40
4654607--4654686	2	42.0	2	78	14	71	57	1	1	40	1.15
4656451--4657120	105	6.4	105	95	0	1180	22	18	25	32	1.97
4657873--4657975	52	1.9	54	88	3	156	13	23	13	49	1.77
4668351--4668436	27	3.2	26	77	6	91	61	1	11	25	1.37
4668606--4668861	139	1.8	138	89	4	395	58	5	7	28	1.50
4670876--4670914	19	2.1	19	100	0	78	38	10	10	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4672639--4672679	19	2.2	19	95	4	75	24	14	12	48	1.78
4673079--4673153	3	24.0	3	72	12	53	58	5	2	33	1.34
4674904--4674973	31	2.3	30	82	7	79	40	10	20	30	1.85
4676472--4676592	59	2.1	59	91	0	197	28	18	25	28	1.98
4677588--4677640	21	2.4	22	84	6	63	54	0	9	35	1.33
4678524--4678549	2	13.0	2	100	0	52	50	0	0	50	1.00
4679523--4679567	22	2.1	22	84	8	58	35	17	20	26	1.95
4679897--4680036	53	2.6	54	89	5	214	39	10	16	34	1.82
4680100--4680754	81	8.1	81	88	0	907	36	11	21	30	1.89
4681564--4682186	81	7.8	81	88	2	848	35	12	22	30	1.90
4681564--4682102	236	2.3	236	89	2	799	35	11	21	31	1.90
4681564--4682179	317	1.9	317	87	1	905	35	12	21	30	1.90
4686165--4686212	2	24.0	2	100	0	96	50	0	0	50	1.00
4686573--4687241	163	4.1	164	83	4	699	26	17	22	33	1.96
4686581--4687241	82	8.1	82	83	3	706	26	17	22	33	1.96
4687232--4687759	229	2.3	227	86	1	714	31	18	17	32	1.94
4696064--4696089	12	2.2	12	100	0	52	57	0	7	34	1.27
4703614--4703723	41	2.7	41	73	0	112	27	15	19	38	1.91
4705885--4705926	18	2.4	17	81	18	50	26	9	14	50	1.73
4706282--4706309	14	2.0	14	100	0	56	35	7	14	42	1.73
4706858--4707136	137	2.0	138	91	2	454	46	11	15	26	1.80
4707811--4707848	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4714555--4714599	14	3.1	14	87	12	72	46	15	22	15	1.83
4717076--4717293	106	2.1	106	95	0	391	49	25	8	16	1.73
4720026--4720070	18	2.6	17	93	6	74	33	6	31	28	1.83
4720660--4720737	37	2.1	38	90	2	122	39	34	11	14	1.82
4721103--4721162	24	2.5	24	88	0	102	25	20	11	43	1.85
4721987--4722027	2	20.5	2	100	0	82	48	0	0	51	1.00
4722704--4722748	21	2.1	21	87	0	63	48	2	2	46	1.26
4723578--4723650	2	36.5	2	100	0	146	50	0	0	49	1.00
4724297--4724805	109	4.6	110	90	2	758	35	12	17	34	1.88
4724297--4724805	164	3.1	164	89	3	754	35	12	17	34	1.88
4724297--4724805	55	9.3	55	89	2	747	35	12	17	34	1.88
4726502--4726540	17	2.4	17	95	4	71	43	0	5	51	1.24
4730467--4730978	55	9.3	55	86	2	600	33	12	18	34	1.89
4733796--4733826	9	3.6	9	91	8	55	58	0	0	41	0.98
4736943--4737000	22	2.6	22	100	0	116	18	22	41	17	1.90
4739653--4739710	20	2.7	22	84	7	66	20	24	36	18	1.95
4747429--4747455	13	2.1	13	100	0	54	25	14	7	51	1.68
4748003--4748034	10	3.0	11	90	9	57	81	0	0	18	0.70
4748064--4748122	27	2.3	25	80	11	66	35	5	0	59	1.20
4749649--4749700	27	1.9	27	88	0	77	28	15	32	23	1.95
4753067--4753143	27	2.8	28	90	4	120	25	2	22	49	1.63
4754072--4754124	25	2.1	25	89	0	79	28	7	16	47	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4760530--4760608	27	2.8	28	90	3	124	27	2	21	48	1.63
4761398--4761466	30	2.2	30	85	15	95	34	5	17	42	1.73
4761407--4761466	30	2.0	30	93	6	104	33	6	16	43	1.74
4761546--4761601	21	2.7	21	85	0	85	23	33	16	26	1.95
4761589--4761666	22	3.6	22	88	8	117	23	30	23	23	1.99
4761688--4761754	20	3.3	20	83	4	89	22	31	19	26	1.98
4761707--4761767	21	3.0	21	80	4	79	26	29	21	22	1.99
4761688--4761767	41	2.0	41	89	0	124	23	30	20	26	1.98
4762127--4762196	34	2.1	32	84	5	86	31	15	28	24	1.96
4764897--4764965	30	2.2	30	85	15	95	34	5	17	42	1.73
4764906--4764965	30	2.0	30	93	6	104	33	6	16	43	1.74
4765045--4765162	21	5.7	20	86	8	139	23	30	21	24	1.99
4765301--4765340	20	1.9	22	90	10	66	37	40	10	12	1.77
4765976--4766053	31	2.5	31	79	6	86	17	25	28	28	1.98
4766120--4766172	25	2.1	25	89	0	79	32	7	13	47	1.70
4769243--4769354	51	2.2	51	85	0	143	47	8	4	39	1.55
4778458--4778571	50	2.3	51	86	7	153	50	9	2	36	1.49
4779486--4779535	25	1.9	27	88	8	77	40	4	0	56	1.18
4780477--4780515	13	2.9	14	76	7	53	20	10	30	38	1.86
4781467--4781522	21	2.7	20	86	10	60	66	5	26	1	1.23
4781488--4781522	3	11.7	3	93	0	61	68	2	28	0	1.04
4787013--4787475	231	2.0	231	99	0	917	37	19	11	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4794645--4794690	18	2.6	18	96	0	83	43	23	6	26	1.78
4799520--4799571	20	2.6	20	82	8	70	30	28	15	25	1.96
4800803--4800840	19	2.0	19	94	0	67	21	21	23	34	1.97
4800942--4801164	111	2.0	111	100	0	446	33	21	21	24	1.97
4810483--4810536	17	3.2	17	72	0	54	31	0	3	64	1.11
4811905--4812002	41	2.4	41	81	6	101	21	35	22	20	1.96
4811933--4812002	21	3.4	20	92	5	113	18	37	25	18	1.94
4812522--4812614	32	2.8	33	83	8	118	54	4	2	38	1.32
4812989--4813611	127	4.9	128	94	3	1095	32	20	24	22	1.98
4812989--4813611	256	2.5	253	93	4	1089	32	20	24	22	1.98
4813677--4813717	8	5.2	8	82	5	57	36	29	0	34	1.58
4816729--4817203	261	1.8	254	95	4	862	39	18	14	27	1.90
4818793--4818846	18	3.1	18	83	2	74	29	14	3	51	1.60
4824255--4824336	5	16.2	5	76	8	51	21	4	1	71	1.11
4828354--4828392	20	2.0	21	85	10	55	20	7	12	58	1.58
4829240--4829265	8	3.2	8	100	0	52	23	0	0	76	0.78
4832586--4832664	32	2.6	32	82	6	83	1	27	11	59	1.40
4833043--4833110	3	22.7	3	88	5	102	67	1	0	30	0.99
4833424--4833776	112	3.2	110	83	7	439	31	18	14	35	1.91
4833685--4833860	87	2.0	87	85	4	239	30	17	18	33	1.94
4833582--4833976	201	2.0	199	89	3	605	29	18	15	35	1.92
4833466--4834065	314	1.9	310	85	5	832	29	18	15	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4833772--4834030	113	2.3	114	87	4	362	25	20	14	39	1.91
4833772--4834066	113	2.6	111	82	8	342	27	18	15	38	1.91
4834795--4835270	83	5.7	83	96	0	837	36	21	13	28	1.91
4836406--4836471	9	7.4	9	77	13	57	0	18	0	81	0.68
4836407--4836471	10	6.2	10	75	22	62	0	16	0	83	0.66
4836406--4836471	21	3.0	23	80	13	84	0	18	0	81	0.68
4836423--4836471	15	3.3	15	83	13	66	0	16	0	83	0.64
4836413--4836472	14	4.2	14	81	10	68	0	18	0	81	0.69
4843749--4843780	15	2.1	15	94	0	55	46	9	18	25	1.79
4848779--4848852	32	2.4	32	86	4	98	0	27	10	62	1.28

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