genome.fa.s1279.2.7.7.80.10.50.1000.24.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

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  24  of  29  ( 3433 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)
5642680--5642725	23	2.0	23	91	0	74	17	23	26	32	1.97
5644270--5644309	20	2.0	21	90	5	64	30	17	0	52	1.45
5644634--5644766	30	4.5	28	76	10	115	36	8	0	55	1.30
5644701--5644758	31	1.9	31	92	3	100	37	12	0	50	1.40
5644743--5644849	18	5.8	18	72	8	72	43	4	2	48	1.38
5644933--5645013	31	2.6	30	79	9	83	28	4	3	62	1.33
5648176--5648213	2	19.0	2	94	0	67	52	0	0	47	1.00
5652871--5652918	16	3.0	16	81	0	60	18	14	31	35	1.91
5662190--5662255	7	9.0	7	83	9	71	77	0	18	4	0.94
5662191--5662259	25	2.9	23	72	21	61	76	0	18	4	0.94
5662201--5662264	16	4.2	15	72	21	53	78	0	17	4	0.92
5662190--5662264	14	5.1	14	81	16	73	77	0	17	5	0.95
5669058--5669153	27	3.6	26	81	2	93	58	1	7	33	1.33
5669050--5669177	54	2.2	59	80	12	142	54	0	6	38	1.31
5671168--5671206	2	19.5	2	100	0	78	48	0	0	51	1.00
5674919--5674962	17	2.5	17	85	3	52	43	9	11	36	1.72
5679631--5679698	25	2.8	25	78	8	70	19	44	20	16	1.87
5679700--5679905	29	7.2	29	82	7	233	34	1	15	48	1.57
5679700--5679884	83	2.2	84	81	7	223	34	1	15	49	1.54
5687091--5687275	29	6.5	28	76	10	155	33	2	16	48	1.58
5689344--5689395	26	2.0	25	85	11	68	75	0	5	19	1.01
5689348--5689386	18	2.2	17	86	13	53	76	0	7	15	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5689386--5689438	3	18.3	3	76	21	51	67	0	1	30	1.01
5689385--5689460	7	9.9	7	71	23	55	67	2	1	28	1.12
5689344--5689409	28	2.4	27	80	12	71	74	0	4	21	1.00
5689396--5689456	26	2.3	26	78	15	72	65	3	1	29	1.18
5689445--5689499	24	2.3	24	78	6	58	72	3	7	16	1.21
5691901--5691951	23	2.2	23	85	0	66	41	13	13	31	1.84
5691944--5692764	169	4.9	168	80	3	722	25	19	23	31	1.98
5691948--5692764	84	9.8	83	78	4	687	25	19	23	31	1.98
5692073--5692764	248	2.8	251	84	3	901	24	19	24	30	1.98
5693897--5694082	95	2.0	94	89	1	282	31	17	16	34	1.92
5696835--5696868	10	3.1	11	87	12	52	73	0	8	17	1.08
5697965--5698022	14	4.5	13	71	18	50	74	0	6	18	1.04
5697956--5698094	39	3.6	38	70	18	108	71	2	5	20	1.18
5697965--5698032	19	3.6	18	75	15	57	72	0	5	22	1.06
5697965--5698022	13	4.5	14	75	18	63	74	0	6	18	1.04
5698310--5698345	19	1.9	18	88	5	54	77	0	8	13	0.98
5698321--5698373	15	3.4	16	77	12	56	73	0	3	22	0.99
5698403--5698440	2	19.5	2	89	5	60	52	2	0	44	1.14
5698538--5698577	12	3.1	13	89	10	64	72	0	0	27	0.85
5700665--5700704	21	1.9	21	89	0	62	35	0	12	52	1.39
5703439--5703475	2	18.5	2	100	0	74	51	0	0	48	1.00
5705129--5705164	18	2.0	18	88	0	54	13	22	22	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5706619--5706666	19	2.5	20	86	3	62	31	14	6	47	1.69
5707652--5707700	19	2.6	19	87	9	66	28	18	28	24	1.98
5707673--5707831	65	2.5	65	87	5	225	32	16	19	32	1.94
5707672--5707873	65	3.1	65	74	14	184	30	16	21	32	1.95
5708678--5708741	20	3.6	20	65	30	63	18	23	26	31	1.98
5708671--5708739	32	2.2	32	100	0	138	18	21	28	30	1.97
5708707--5708828	45	2.8	45	80	13	137	24	20	25	29	1.99
5708729--5708815	23	3.8	23	72	17	83	26	21	24	27	1.99
5708733--5708828	21	4.3	23	73	15	69	27	19	23	29	1.99
5712633--5712674	21	2.0	21	86	9	59	40	7	0	52	1.29
5714583--5714631	19	2.7	17	81	9	53	28	20	28	22	1.98
5714601--5714707	45	2.3	46	87	4	146	32	18	21	27	1.97
5721489--5721529	21	1.9	22	85	5	57	53	2	12	31	1.51
5722084--5722184	30	3.3	31	79	9	109	24	20	19	34	1.96
5723668--5723710	20	2.2	20	86	0	59	30	13	20	34	1.92
5725943--5726113	4	42.8	4	83	0	162	40	22	9	27	1.84
5726923--5726989	27	2.6	26	90	6	102	34	11	19	34	1.88
5729005--5729060	25	2.2	25	90	0	85	30	0	10	58	1.32
5733148--5733242	30	3.2	30	83	7	122	43	1	9	46	1.43
5734250--5734290	12	3.1	13	80	19	57	46	14	17	21	1.84
5734244--5734289	12	3.6	12	81	16	56	45	17	19	17	1.85
5736577--5736616	21	1.9	21	94	0	71	30	15	7	47	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5736611--5736709	33	3.0	33	94	1	164	32	7	15	45	1.73
5736695--5736749	13	4.2	13	75	13	58	34	3	12	49	1.59
5737161--5737194	18	1.9	18	94	5	61	38	11	11	38	1.79
5737288--5737319	16	2.0	17	88	11	50	43	21	21	12	1.86
5738300--5738342	18	2.3	19	80	15	54	53	0	2	44	1.13
5738998--5739083	28	3.0	28	84	5	93	30	41	0	27	1.56
5742397--5742525	66	2.0	65	84	1	168	27	16	13	41	1.86
5742983--5743026	15	2.7	17	75	10	56	27	20	25	27	1.99
5745405--5745430	9	2.9	9	100	0	52	11	23	11	53	1.69
5746343--5746377	18	1.9	18	94	0	61	42	8	5	42	1.59
5749517--5749702	20	9.3	20	80	10	161	40	24	16	19	1.91
5749492--5749702	60	3.5	60	77	16	240	41	23	15	19	1.90
5749814--5749865	20	2.6	20	87	0	77	25	15	23	36	1.93
5749896--5749937	20	2.1	20	90	0	66	33	26	14	26	1.94
5749912--5750075	57	2.9	57	95	0	292	37	21	15	25	1.93
5750075--5750099	13	1.9	13	100	0	50	32	8	24	36	1.84
5750109--5750254	20	7.3	20	76	10	106	19	13	24	42	1.87
5750164--5750240	40	1.9	40	89	0	118	19	12	25	41	1.87
5750248--5750378	20	6.6	20	68	12	65	25	15	26	32	1.95
5750939--5750979	22	1.9	22	85	5	57	58	0	31	9	1.31
5753031--5754009	6	163.2	6	98	0	1917	33	16	0	50	1.46
5758361--5758399	18	2.2	18	95	0	69	28	43	17	10	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5759267--5759301	17	2.0	17	88	5	52	22	2	2	71	1.13
5767368--5767398	15	2.1	15	100	0	62	48	12	25	12	1.77
5768063--5768629	186	3.0	186	93	0	965	32	27	16	23	1.96
5768968--5769002	18	1.9	18	100	0	70	28	45	14	11	1.79
5774950--5775026	37	2.1	37	85	4	102	48	1	3	46	1.28
5775177--5775229	20	2.7	20	96	0	97	22	24	7	45	1.78
5782840--5783098	128	2.0	128	96	1	484	25	27	11	35	1.91
5797548--5797609	26	2.4	25	76	10	63	48	1	1	48	1.21
5798208--5798261	21	2.6	21	94	2	92	55	3	3	37	1.35
5798475--5798525	20	2.8	18	88	11	61	43	9	23	23	1.83
5798669--5798743	37	2.0	37	85	10	100	50	2	1	45	1.24
5800764--5800839	30	2.6	30	89	6	102	10	11	42	35	1.76
5801063--5801136	38	1.9	38	94	0	130	16	10	36	36	1.83
5809158--5809214	6	9.0	6	75	17	53	19	29	3	47	1.66
5819803--5819866	28	2.3	28	100	0	128	15	20	14	50	1.78
5820863--5820889	14	1.9	14	100	0	54	59	11	0	29	1.32
5822362--5822408	24	2.0	24	82	0	58	55	19	2	23	1.54
5822395--5822434	18	2.2	18	90	0	62	55	20	2	22	1.56
5822462--5822557	25	3.8	25	81	0	111	46	17	2	33	1.60
5826548--5826638	44	2.1	44	100	0	182	36	18	15	29	1.92
5830923--5831180	141	1.9	139	85	6	353	51	17	10	20	1.75
5832629--5832658	8	3.8	8	100	0	60	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5832707--5832765	10	5.7	10	84	7	73	67	3	5	23	1.26
5832707--5832765	21	2.8	20	82	7	73	67	3	5	23	1.26
5832897--5832923	14	1.9	14	100	0	54	51	7	3	37	1.48
5834090--5834138	21	2.3	21	100	0	98	30	24	24	20	1.98
5834208--5834411	65	3.2	64	80	11	220	25	18	23	32	1.97
5835005--5835067	2	32.0	2	96	3	119	50	49	0	0	1.00
5835067--5835122	2	28.0	2	100	0	112	50	0	0	50	1.00
5837120--5837201	23	3.6	23	72	8	69	24	21	26	26	2.00
5842982--5843179	83	2.4	82	78	11	215	26	18	24	29	1.98
5843047--5843096	19	2.6	19	96	0	91	20	20	32	28	1.97

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