genome.fa.s8620.2.7.7.80.10.50.1000.23.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   63   64   

This is table  23  of  64  ( 7674 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)
4566579--4566906	62	5.3	62	82	6	362	28	21	15	34	1.95
4567075--4567484	36	11.4	36	85	2	554	40	17	19	22	1.91
4567492--4568029	101	5.3	101	81	3	576	29	20	18	32	1.96
4567532--4568034	205	2.5	204	85	3	656	29	20	18	32	1.96
4567852--4568135	151	1.9	149	81	7	342	29	20	18	31	1.96
4568263--4568306	3	14.7	3	100	0	88	34	0	0	65	0.93
4571249--4571359	39	2.9	40	85	6	140	43	27	3	25	1.71
4587343--4587406	20	3.5	19	70	25	66	29	10	12	46	1.76
4587339--4587406	34	2.0	34	100	0	136	32	11	11	44	1.77
4591597--4591645	16	3.1	16	79	5	55	51	6	0	42	1.27
4591653--4591754	12	9.4	12	75	20	68	68	0	2	27	1.10
4591658--4591717	22	2.7	23	82	10	79	65	0	3	31	1.09
4591653--4591754	33	3.2	32	75	20	97	68	0	2	27	1.10
4593291--4593350	23	2.7	23	84	7	70	63	0	0	36	0.95
4593773--4594026	112	2.3	111	83	9	294	28	18	13	39	1.89
4594002--4594965	112	8.6	113	86	2	1282	28	18	15	37	1.91
4594002--4594965	337	2.9	335	86	2	1308	28	18	15	37	1.91
4594002--4594970	449	2.2	449	96	0	1796	28	18	15	37	1.91
4596650--4596981	76	4.4	75	83	3	317	31	21	13	32	1.93
4596819--4596935	34	3.2	34	64	21	83	33	18	12	35	1.89
4597094--4597167	36	2.1	34	80	14	80	29	21	16	32	1.95
4597992--4598218	114	2.0	114	92	0	373	31	19	14	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4600380--4600481	23	4.4	24	86	9	142	0	22	0	77	0.77
4600380--4600481	8	13.2	8	85	10	133	0	22	0	77	0.77
4604536--4604608	23	3.1	23	80	2	74	49	2	4	43	1.36
4604964--4604994	2	15.5	2	93	0	53	51	3	0	45	1.17
4604942--4604992	16	3.2	16	80	5	59	50	5	0	43	1.26
4605006--4605099	12	8.3	11	77	12	93	67	0	5	27	1.12
4605010--4605093	23	3.6	22	83	13	98	64	0	5	29	1.17
4606580--4606636	22	2.5	23	85	5	71	61	0	0	38	0.96
4607279--4607719	44	10.0	44	84	0	540	26	21	11	40	1.87
4608230--4608278	21	2.5	20	80	9	57	36	20	14	28	1.92
4613387--4613826	44	10.0	44	82	2	517	24	20	11	43	1.85
4616615--4616664	21	2.5	20	87	9	66	32	24	12	32	1.91
4619422--4619582	20	7.2	20	66	22	70	44	11	22	20	1.84
4619405--4619752	46	7.6	46	88	0	417	45	11	21	21	1.83
4619437--4619824	26	16.5	26	68	20	104	44	11	22	21	1.84
4619621--4619869	118	2.1	116	87	3	279	44	10	22	22	1.84
4619552--4619915	164	2.2	161	87	4	459	44	10	22	21	1.84
4619739--4619947	46	4.6	46	93	1	357	43	10	23	22	1.84
4619739--4619947	91	2.3	92	92	1	357	43	10	23	22	1.84
4620290--4620471	81	2.2	81	90	0	274	39	13	19	28	1.89
4620467--4620563	46	2.1	46	90	0	149	46	13	17	22	1.83
4623938--4624153	20	9.6	20	67	21	99	41	11	24	23	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4623932--4624257	46	7.1	46	88	0	445	43	9	22	23	1.83
4623950--4624129	26	7.7	25	64	21	104	42	11	23	22	1.85
4624600--4624761	82	2.0	82	88	2	245	39	12	20	26	1.89
4624777--4624874	46	2.1	46	86	3	135	47	12	14	25	1.78
4642593--4642638	18	2.5	18	85	3	56	73	6	17	2	1.14
4648941--4649005	23	2.6	25	79	13	73	35	3	0	61	1.12
4649137--4649178	20	2.1	20	82	8	50	28	2	9	59	1.41
4650009--4650068	2	30.0	2	100	0	120	50	0	0	50	1.00
4673214--4673248	14	2.6	14	86	4	54	17	22	25	34	1.96
4675537--4675631	24	4.0	24	76	0	82	22	13	16	47	1.82
4681226--4681260	18	2.0	17	88	5	52	20	11	11	57	1.64
4682468--4682816	174	2.0	175	99	0	691	31	19	14	34	1.92
4682883--4682969	24	3.6	24	78	9	79	21	12	16	49	1.78
4685783--4685816	7	4.9	7	85	0	50	20	14	23	41	1.89
4685010--4686512	806	1.9	807	91	1	2451	33	14	17	34	1.90
4688195--4688264	12	5.8	12	73	6	52	14	14	20	51	1.76
4688199--4688266	24	2.8	24	90	0	109	14	13	19	52	1.73
4695394--4696493	138	8.0	135	78	7	963	30	12	12	45	1.78
4695394--4696380	276	3.6	276	87	4	1312	30	12	11	45	1.77
4695442--4696472	550	1.9	548	83	6	1363	29	12	12	45	1.78
4698543--4698646	52	2.0	52	98	0	199	47	15	10	26	1.78
4701663--4701697	18	1.9	18	94	0	61	54	8	11	25	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4702923--4703022	43	2.3	43	82	5	112	38	15	16	31	1.89
4702689--4703115	129	3.3	128	78	7	409	37	17	14	30	1.89
4703709--4703767	12	5.2	12	83	8	70	0	13	0	86	0.57
4703709--4703764	28	2.0	29	92	3	96	0	14	0	85	0.59
4703710--4703777	33	2.1	32	88	2	100	1	16	0	82	0.75
4703714--4703777	28	2.3	28	84	7	78	1	17	0	81	0.77
4710264--4710446	89	2.0	91	89	2	280	30	24	22	22	1.99
4712959--4713015	22	2.6	23	83	13	75	22	22	33	21	1.97
4713003--4713027	9	2.8	9	100	0	50	32	24	32	12	1.91
4718234--4718334	27	3.7	27	75	10	82	64	1	16	16	1.39
4718256--4718339	27	3.1	27	78	1	96	67	1	15	15	1.29
4720718--4720803	41	2.1	41	93	0	145	23	18	36	22	1.95
4721301--4721335	18	1.9	18	88	0	52	57	8	11	22	1.61
4721997--4722043	23	2.0	23	91	0	76	21	17	21	40	1.91
4722277--4722315	18	2.2	18	95	0	69	58	12	12	15	1.62
4722749--4722837	31	2.9	31	94	0	151	29	22	12	35	1.91
4723697--4723735	18	2.2	18	95	0	69	58	12	12	15	1.62
4724181--4724247	31	2.2	31	86	5	91	23	26	14	34	1.94
4726155--4726229	31	2.4	31	86	4	98	41	10	21	26	1.86
4727095--4727133	15	2.6	15	91	0	69	38	33	7	20	1.81
4727875--4728081	105	2.0	106	82	2	256	28	12	20	39	1.89
4727827--4728138	54	5.8	54	79	6	271	27	12	20	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4729046--4729118	2	36.5	2	94	0	128	49	1	0	49	1.09
4728804--4729066	129	2.0	127	81	8	309	45	7	8	39	1.62
4729123--4729211	23	3.9	22	82	12	108	65	1	3	30	1.16
4729123--4729199	12	6.7	11	82	10	84	64	1	2	31	1.15
4730632--4730708	39	2.0	39	92	0	127	16	18	42	22	1.89
4730949--4731170	113	2.0	113	93	0	381	27	19	16	37	1.93
4731170--4731363	37	5.3	36	70	5	165	34	12	20	32	1.90
4731202--4731410	36	5.7	37	71	7	176	37	11	20	31	1.87
4731177--4731409	73	3.2	73	95	0	403	35	12	21	31	1.90
4731408--4731728	166	1.9	164	89	6	497	38	12	13	35	1.82
4732231--4732308	22	3.6	21	75	5	84	39	14	11	34	1.82
4739374--4739426	14	3.7	14	87	2	70	54	9	13	22	1.67
4741008--4741065	13	4.5	13	79	14	59	77	0	0	22	0.77
4741024--4741067	10	4.2	10	81	18	54	79	0	0	20	0.73
4741011--4741068	23	2.5	24	83	10	86	77	0	0	22	0.77
4741819--4741855	2	18.5	2	88	0	56	48	2	0	48	1.15
4741577--4741829	129	2.0	127	82	7	307	45	7	8	38	1.64
4741570--4741854	129	2.2	124	79	14	301	45	7	7	40	1.60
4741860--4741948	23	3.9	22	82	12	108	65	1	3	30	1.16
4741860--4741936	12	6.7	11	82	10	84	64	1	2	31	1.15
4743367--4743443	39	2.0	39	92	0	127	16	18	41	23	1.90
4743518--4743602	44	1.9	44	90	0	134	43	10	7	38	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4746216--4746341	59	2.1	59	91	0	198	26	17	24	30	1.97
4757527--4757563	10	3.8	10	92	3	58	40	18	10	29	1.85
4764832--4765491	182	3.6	182	89	0	996	42	13	15	28	1.86
4765547--4765601	21	2.6	21	97	0	101	45	23	12	18	1.83
4767478--4767532	24	2.4	23	80	11	69	45	0	7	47	1.30
4769772--4769820	19	2.6	19	93	0	80	34	2	10	53	1.47
4770690--4771432	199	3.7	198	84	5	989	38	13	15	32	1.86
4771245--4771609	177	2.1	179	85	3	495	39	14	15	30	1.88
4773181--4773228	19	2.5	19	96	0	87	31	6	10	52	1.60
4774955--4775032	24	3.2	24	94	0	138	26	28	25	19	1.99

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   63   64