genome.fa.s422.2.7.7.80.10.50.1000.2.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: VEPZ01000422.1 Hibiscus syriacus cultivar Beakdansim tig00000773_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2457469

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  2  of  12  ( 1325 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)
234641--234705	2	35.0	2	85	14	95	49	0	0	50	1.00
236791--236850	31	2.0	31	96	3	113	33	5	18	43	1.72
236930--236987	21	2.7	22	91	5	100	20	39	18	20	1.92
238376--238442	21	3.3	21	71	8	59	55	2	13	28	1.53
239568--239628	31	2.0	30	93	3	104	32	6	16	44	1.73
239708--239825	20	5.7	19	77	19	112	22	33	20	23	1.97
239845--239906	20	3.1	20	88	0	88	14	30	25	29	1.95
240258--240327	34	2.1	32	84	5	86	31	15	28	24	1.96
244991--245017	2	13.5	2	100	0	54	51	0	0	48	1.00
251719--251757	15	2.6	15	100	0	78	20	53	17	7	1.68
255996--256045	21	2.3	22	93	3	84	40	10	20	30	1.85
267830--267890	19	3.2	19	75	11	61	22	31	29	16	1.96
272573--272658	43	2.0	43	97	0	163	53	3	16	26	1.59
273016--273069	27	1.9	29	85	7	76	46	1	0	51	1.11
274453--274553	43	2.3	44	94	1	177	21	2	4	70	1.20
275340--275401	11	5.5	12	85	11	78	22	24	35	17	1.95
275341--275401	17	3.6	17	100	0	122	22	22	36	18	1.95
277774--277799	12	2.2	12	100	0	52	23	7	15	53	1.67
278450--278494	15	2.8	17	76	13	58	46	4	4	44	1.43
278536--278614	3	26.7	3	77	12	83	34	1	0	64	1.02
280038--280074	3	12.3	3	100	0	74	35	0	0	64	0.94
280904--280959	27	2.2	25	78	12	60	35	3	0	60	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
292141--292197	23	2.5	23	77	11	62	8	26	14	50	1.71
293103--293178	29	2.8	27	78	7	75	48	1	2	47	1.24
293211--293260	8	6.2	8	77	9	57	38	0	0	62	0.96
293213--293243	15	2.1	15	93	0	53	35	0	0	64	0.94
293521--293549	14	2.1	14	93	6	51	68	0	0	31	0.89
293556--293594	14	2.8	14	88	0	51	28	7	7	56	1.55
300696--301014	162	2.0	161	90	1	505	28	15	10	45	1.80
301071--301123	20	2.7	20	72	0	61	15	13	13	58	1.64
301036--301497	112	4.1	112	91	2	687	27	14	12	45	1.81
301036--301497	223	2.1	224	89	1	703	27	14	12	45	1.81
302126--302219	20	4.7	20	80	7	100	34	24	18	23	1.96
302794--302876	33	2.5	33	88	2	121	13	26	21	38	1.90
302855--302901	20	2.3	20	75	13	51	14	25	12	46	1.80
305047--305113	21	3.2	21	66	6	55	23	35	20	19	1.95
304995--305113	42	2.8	42	81	5	107	22	36	18	22	1.95
306463--306498	14	2.6	14	95	0	63	30	0	25	44	1.54
306613--306668	19	3.2	19	73	21	68	44	21	25	8	1.81
306704--306768	19	3.7	19	74	19	77	13	23	18	44	1.85
309051--309075	12	2.1	12	100	0	50	0	28	0	72	0.86
310039--310126	20	4.3	20	80	8	97	27	18	22	31	1.97
310053--310147	41	2.3	41	85	3	120	23	21	21	34	1.97
310560--310611	13	3.8	13	78	9	59	32	3	3	59	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310560--310619	13	4.4	13	75	10	57	31	3	3	61	1.28
312827--312880	20	2.7	20	94	0	90	24	37	20	18	1.94
312916--312995	20	3.9	21	84	11	103	27	26	18	27	1.98
315899--315967	33	2.1	33	88	0	102	34	28	0	36	1.58
319303--319340	19	2.0	19	94	0	67	44	10	7	36	1.68
319334--319375	21	2.0	21	100	0	84	42	9	19	28	1.82
325725--325806	23	3.6	22	72	8	76	30	21	26	20	1.98
325706--325825	44	2.7	42	80	11	118	30	21	25	22	1.99
329627--329666	21	1.9	21	85	10	55	35	7	2	55	1.42
331647--331726	20	3.7	20	69	18	70	23	21	25	30	1.99
331648--331779	46	2.9	46	94	1	221	28	20	22	28	1.99
332156--332227	31	2.4	31	83	2	92	59	6	5	27	1.46
332439--332502	13	4.5	13	73	19	56	62	7	3	26	1.38
332439--332502	31	2.1	30	88	2	92	62	7	3	26	1.38
332522--332673	77	2.0	78	89	6	238	56	3	12	26	1.53
333641--333684	3	15.0	3	84	13	56	38	0	0	61	0.96
333636--333678	15	2.9	14	86	10	59	39	0	0	60	0.97
333636--333684	17	2.9	17	88	11	66	38	0	0	61	0.96
340512--340579	8	8.9	8	73	15	54	83	0	13	2	0.75
340522--340578	25	2.3	23	75	18	53	82	0	15	1	0.75
340512--340580	30	2.3	31	83	14	90	84	0	13	2	0.74
340522--340580	24	2.5	24	83	8	68	83	0	15	1	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
343738--343819	42	2.0	42	90	0	128	24	18	21	35	1.96
343657--344585	249	3.7	249	89	2	1384	31	16	16	36	1.91
344476--344580	42	2.5	42	82	3	113	29	17	17	36	1.92
344754--344794	3	14.0	3	87	5	57	36	2	0	60	1.10
344883--344917	17	2.1	17	88	0	52	22	31	25	20	1.98
346116--346275	62	2.6	62	90	0	257	53	9	8	29	1.62
346430--346462	9	3.8	9	84	8	50	45	0	0	54	0.99
347439--347472	17	2.0	18	88	11	54	50	0	0	50	1.00
357131--357213	42	2.0	42	97	0	157	15	19	39	25	1.91
358408--358541	29	4.5	29	76	7	124	16	25	34	23	1.95
358395--358511	62	1.9	61	87	1	171	17	27	34	21	1.95
359345--359532	60	3.1	59	78	8	175	32	20	3	44	1.67
362273--362308	19	1.9	18	88	5	54	61	5	19	13	1.52
378067--378107	21	2.0	21	90	4	66	31	19	9	39	1.84
382491--382538	20	2.6	18	81	12	60	29	22	20	27	1.99
385106--385141	2	18.0	2	100	0	72	50	0	0	50	1.00
386375--386427	26	2.0	26	100	0	106	15	24	26	33	1.95
390243--390322	29	2.8	29	88	7	121	41	12	13	32	1.82
394703--395019	158	2.0	153	95	4	564	43	18	8	29	1.79
394987--395066	29	2.7	29	96	1	142	41	12	15	31	1.84
398517--398685	82	2.1	81	95	4	304	23	18	14	43	1.87
401814--401851	19	2.0	19	89	0	58	52	15	0	31	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401740--401955	76	2.9	76	88	2	301	58	12	0	28	1.40
402859--402932	37	2.1	36	82	7	89	25	8	22	43	1.81
403888--403937	5	10.4	5	76	8	50	72	4	4	20	1.18
403888--403937	19	2.6	19	81	6	57	72	4	4	20	1.18
410244--410452	75	2.8	75	86	5	289	56	13	0	28	1.43
420297--420351	22	2.6	21	82	5	65	45	21	21	10	1.82
420638--420696	23	2.6	23	86	0	82	23	15	22	38	1.92
425261--425293	4	8.8	4	87	12	52	27	0	21	51	1.48
427345--427779	54	8.1	54	80	10	371	52	12	0	34	1.40
427265--427378	22	4.7	23	70	17	81	52	13	0	34	1.40
427396--427444	22	2.2	22	85	3	62	55	12	0	32	1.37
427416--427523	32	3.7	32	76	23	146	51	11	0	37	1.37
427448--427490	22	2.0	22	95	0	77	51	11	0	37	1.39
427450--427498	22	2.2	22	85	3	62	55	12	0	32	1.37
427255--427779	188	2.8	187	88	7	743	52	12	0	34	1.40
427270--427779	134	3.8	134	90	6	742	52	13	0	34	1.40
427504--427578	22	3.2	22	75	14	69	54	16	0	29	1.42
427550--427779	32	8.3	31	66	30	148	52	13	0	34	1.40
427582--427624	22	2.0	22	90	0	68	51	13	0	34	1.42
427638--427712	22	3.2	22	75	14	69	54	16	0	29	1.42
427716--427816	22	4.5	22	71	20	91	50	9	0	39	1.36
427761--427923	15	10.5	15	81	9	166	50	1	0	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
427707--427863	69	2.3	67	84	5	201	50	6	0	42	1.27
427804--427923	30	4.0	30	91	0	195	49	0	0	50	1.06
427803--427923	45	2.7	45	86	0	188	49	0	0	49	1.06
430355--430381	3	9.0	3	100	0	54	0	33	0	66	0.92
434959--435004	23	2.0	23	86	0	65	56	10	15	17	1.67
435240--435266	14	1.9	14	100	0	54	7	29	22	40	1.81
439636--439705	21	3.4	21	75	11	74	30	22	15	31	1.95
439571--439772	105	1.9	105	81	9	243	31	20	16	31	1.95
439862--439914	21	2.6	19	74	11	52	32	20	24	22	1.98
441933--442007	35	2.1	35	90	0	114	32	0	24	44	1.54

Tables:   1   2   3   4   5   6   7   8   9   10   11   12