genome.fa.s686.2.7.7.80.10.50.1000.2.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: VEPZ01000686.1 Hibiscus syriacus cultivar Beakdansim tig00001340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1443669

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 696 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)
217398--217459	13	4.6	13	74	18	56	19	8	0	72	1.09
219164--219601	102	4.3	100	77	8	395	39	13	10	36	1.79
219689--219734	21	2.2	21	88	7	67	19	6	8	65	1.43
224008--224048	20	2.0	20	86	9	57	29	4	9	56	1.53
224970--225012	20	2.2	20	91	4	70	39	9	0	51	1.34
229121--229167	20	2.4	20	92	3	78	38	10	2	48	1.50
233564--233588	2	12.5	2	100	0	50	52	0	0	48	1.00
235212--235303	47	1.9	48	86	6	134	30	10	21	36	1.88
249852--249889	20	2.0	20	89	5	60	18	15	34	31	1.92
255376--255481	55	1.9	57	92	3	180	34	11	20	33	1.88
255765--256128	81	4.5	81	89	1	525	34	11	23	30	1.90
255757--256128	161	2.3	162	87	2	534	34	11	23	30	1.91
257878--257910	16	2.1	16	94	0	57	48	12	15	24	1.78
259865--259930	28	2.4	27	83	14	82	12	3	6	78	1.04
259968--260010	20	2.1	20	86	4	59	67	9	11	11	1.42
266767--266803	13	2.8	14	84	8	51	48	10	5	35	1.61
267746--267784	19	2.1	19	100	0	78	41	20	20	17	1.91
270222--270268	24	2.0	24	100	0	94	21	25	12	40	1.89
275770--275809	17	2.4	17	100	0	80	30	0	30	40	1.57
280856--280893	19	2.0	19	100	0	76	57	5	15	21	1.57
285330--285366	19	1.9	19	100	0	74	37	5	13	43	1.67
290107--290141	18	1.9	19	88	11	56	68	0	8	22	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
291337--291376	12	3.5	12	75	25	50	52	0	5	42	1.23
291327--291376	22	2.3	22	100	0	100	52	0	4	44	1.20
294133--294167	17	2.0	17	88	5	52	62	0	25	11	1.28
294376--294423	19	2.6	18	83	9	60	4	14	0	81	0.84
294380--294423	8	5.5	8	83	0	52	4	13	0	81	0.83
294659--294703	21	2.0	22	87	8	65	66	0	13	20	1.24
300205--300276	2	36.0	2	100	0	144	50	0	0	50	1.00
303151--303217	30	2.2	30	97	0	125	35	23	2	37	1.71
308406--308471	21	2.8	25	71	21	61	31	31	10	25	1.90
308403--308458	21	2.7	21	83	5	69	32	30	10	26	1.90
308589--308630	20	2.0	21	86	4	59	33	16	16	33	1.92
319755--319797	22	2.0	21	90	4	68	53	9	0	37	1.33
327440--327495	20	2.7	21	81	16	71	42	14	16	26	1.86
327482--327560	34	2.3	34	88	0	122	40	10	21	27	1.85
327571--327614	17	2.6	17	100	0	88	29	22	6	40	1.80
327571--327616	9	5.3	9	79	10	60	30	21	6	41	1.78
327945--328068	45	2.8	46	87	4	173	44	12	20	22	1.85
327945--328089	44	3.2	45	88	3	204	45	11	20	22	1.83
341701--341733	15	2.2	15	94	0	57	6	18	9	66	1.40
349708--349740	11	3.0	11	91	8	50	72	0	0	27	0.85
359765--359840	30	2.4	31	84	6	100	28	27	26	17	1.97
364839--364875	19	1.9	19	88	0	56	35	2	2	59	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367599--367639	16	2.6	17	85	11	52	70	2	0	26	0.99
367781--367832	21	2.5	21	90	0	77	36	19	7	36	1.80
367855--367900	3	15.3	3	100	0	92	67	0	0	32	0.91
368400--368461	27	2.3	27	75	8	63	11	32	3	53	1.53
369404--369428	12	2.1	12	100	0	50	36	8	40	16	1.77
370060--370100	21	2.0	21	90	0	64	73	2	4	19	1.13
379519--379913	196	2.0	197	99	0	783	52	13	12	21	1.73
381147--381245	40	2.5	39	86	4	135	22	20	26	31	1.98
381167--381367	42	4.9	40	77	5	170	27	16	23	31	1.96
381359--381937	118	4.9	117	83	6	697	26	22	15	35	1.94
381397--381937	235	2.3	236	87	1	782	26	23	14	35	1.93
383010--383056	1	47.0	1	86	0	67	0	6	0	93	0.34
382998--383057	24	2.5	24	88	2	93	1	10	0	88	0.59
384394--384459	31	2.2	30	83	2	78	57	4	7	30	1.47
385964--386005	21	2.0	22	85	4	59	23	21	28	26	1.99
386449--386663	45	4.8	45	84	5	242	29	18	8	42	1.81
386767--386928	40	4.1	40	86	0	225	37	24	12	24	1.91
388801--388873	30	2.4	30	80	13	87	31	19	9	39	1.84
390662--390699	2	19.0	2	100	0	76	50	0	0	50	1.00
393160--393240	40	2.0	40	95	0	144	33	25	16	24	1.96
402712--402762	26	2.0	26	100	0	102	35	11	19	33	1.88
412530--412680	74	2.0	74	87	5	216	33	11	15	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414223--414261	21	1.9	20	85	15	53	38	7	23	30	1.83
414513--414604	20	4.6	20	80	1	103	40	18	25	16	1.91
414513--414604	40	2.3	41	98	1	177	40	18	25	16	1.91
414639--414690	20	2.6	20	87	0	77	26	26	19	26	1.99
415198--415281	18	4.5	18	93	3	132	50	22	17	9	1.75
415194--415281	37	2.4	37	92	5	142	50	21	18	10	1.76
415277--415366	20	4.7	19	90	8	146	11	21	22	45	1.82
415277--415366	38	2.3	38	94	1	153	11	21	22	45	1.82
415277--415457	19	10.1	18	72	20	132	11	23	22	43	1.85
415311--415433	31	3.6	33	79	11	117	10	24	24	40	1.86
416233--416378	73	2.0	72	98	1	283	23	13	28	33	1.93
416763--416801	15	2.9	13	85	14	53	58	0	0	41	0.98
416765--416803	14	2.7	15	88	8	62	56	0	0	43	0.99
416935--416966	14	2.3	15	89	10	50	34	0	9	56	1.32
422139--422164	4	6.5	4	100	0	52	76	0	0	23	0.78
425297--425348	15	3.4	16	89	7	81	50	0	1	48	1.12
425293--425366	19	3.8	19	83	1	85	51	1	4	43	1.29
425297--425348	2	27.0	2	90	7	81	50	0	1	48	1.12
425528--425568	20	2.1	20	90	4	66	53	14	12	19	1.72
425556--425614	24	2.5	24	86	5	77	45	18	18	16	1.85
426688--426722	18	1.9	18	88	0	52	28	17	0	54	1.43
427997--428042	21	2.2	21	96	0	83	19	19	43	17	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431969--432081	52	2.2	51	84	7	142	61	2	5	30	1.32
432036--432082	20	2.3	19	82	10	58	63	2	4	29	1.25
432888--432918	10	3.1	10	95	0	53	0	22	0	77	0.77
432909--432946	15	2.6	15	95	4	69	5	26	0	68	1.11
433732--433796	33	2.0	33	93	0	112	24	23	18	33	1.96
433923--433998	36	2.1	35	82	2	89	34	14	14	36	1.87
433995--434022	2	14.0	2	100	0	56	50	0	0	50	1.00
434025--434177	36	4.2	36	73	12	143	31	12	15	40	1.85
444045--444287	19	12.5	19	73	6	166	27	15	18	38	1.91
444030--444287	59	4.4	58	79	5	236	27	15	19	37	1.92
444097--444299	20	10.4	20	73	14	140	30	17	16	36	1.92
444030--444324	39	7.6	38	74	9	193	29	14	18	37	1.91
451111--451149	17	2.3	17	100	0	78	38	15	25	20	1.92
452729--452788	3	20.0	3	83	6	77	35	5	0	60	1.19
461936--461968	18	1.9	18	88	11	52	39	21	21	18	1.93
464755--464973	41	5.2	40	79	13	167	37	21	10	30	1.86
464817--465008	41	4.6	41	79	10	138	36	21	10	30	1.88
464903--465089	41	4.5	41	76	7	119	39	19	10	30	1.86
468399--468446	24	2.0	24	100	0	96	37	8	8	45	1.64
469045--469084	21	1.9	21	100	0	80	37	25	12	25	1.91
469044--469096	21	2.5	20	88	8	79	33	22	15	28	1.94
469624--469686	33	1.9	33	87	6	92	31	15	25	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472079--472475	163	2.4	164	93	0	661	36	31	10	21	1.88
475121--475163	17	2.6	15	80	20	50	32	23	27	16	1.96
479273--479309	16	2.3	17	86	9	51	27	2	2	67	1.17
484135--484316	61	3.0	61	87	4	253	24	13	29	31	1.94
484487--484582	42	2.3	41	75	8	95	31	20	18	29	1.97
484635--484885	52	4.6	52	75	14	204	41	17	11	30	1.84
484636--484972	109	3.0	110	84	8	395	40	16	10	31	1.83
484577--484972	112	3.5	112	82	6	428	39	16	10	33	1.83
484577--484973	57	7.1	55	73	14	278	39	16	10	33	1.83
486224--486284	27	2.2	27	85	2	86	22	4	34	37	1.76

Tables:   1   2   3   4   5   6