genome.fa.s5024.2.7.7.80.10.50.1000.2.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: VEPZ01005024.1 Hibiscus syriacus cultivar Beakdansim tig00011277_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  902903

Tables:   1   2   3   

This is table  2  of  3  ( 355 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)
221530--221606	16	4.8	16	95	0	118	55	19	15	9	1.66
226248--226273	2	13.0	2	100	0	52	50	0	0	50	1.00
229174--229316	79	1.8	76	81	10	173	41	9	4	44	1.57
232111--232152	17	2.5	17	85	11	52	28	16	19	35	1.93
251454--251841	54	7.2	54	86	3	496	27	17	19	36	1.94
251454--251847	161	2.4	162	87	2	533	27	17	19	36	1.94
258062--258468	54	7.5	54	85	1	528	25	16	20	36	1.94
259608--259634	8	3.4	8	100	0	54	11	37	0	51	1.37
266195--266561	182	2.0	184	98	1	720	35	15	16	31	1.90
268873--268933	32	1.9	32	89	0	95	40	8	16	34	1.78
269448--269604	20	7.8	20	84	5	210	36	16	19	26	1.93
269444--269614	40	4.3	40	90	3	281	36	17	19	26	1.94
269444--269634	20	9.6	20	79	11	153	35	18	19	26	1.95
269444--269634	60	3.2	60	80	10	221	35	18	19	26	1.95
270439--270492	24	2.2	24	86	0	72	22	16	18	42	1.89
272996--273143	20	7.7	20	74	11	121	32	20	18	28	1.96
273002--273184	94	1.9	94	87	0	267	35	20	19	25	1.95
273187--273225	20	2.0	20	94	0	69	7	20	23	48	1.75
273339--273400	14	4.3	14	77	6	61	46	14	0	38	1.45
275388--275433	20	2.4	19	89	7	67	39	28	17	15	1.90
277435--277523	20	4.4	20	84	2	81	46	23	15	14	1.83
277905--277960	22	2.6	21	83	8	76	17	16	44	21	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
278124--278237	20	5.7	20	80	0	129	25	21	25	27	2.00
278122--278261	60	2.3	60	82	2	165	26	21	23	28	1.99
278124--278272	40	3.7	40	80	3	138	26	21	24	27	1.99
278347--278383	19	1.9	19	88	0	56	21	18	24	35	1.96
283189--283242	22	2.5	22	96	0	99	24	12	31	31	1.93
290958--291033	34	2.2	36	79	11	88	53	0	2	43	1.14
293844--293874	2	15.5	2	100	0	62	48	0	0	51	1.00
293916--293962	23	2.0	24	87	4	69	25	4	0	70	1.05
304978--305061	43	2.0	43	82	0	105	30	29	15	23	1.95
306523--306574	23	2.2	24	86	10	72	23	3	1	71	1.13
306783--306833	23	2.2	23	82	10	59	15	5	3	74	1.16
308182--308214	9	3.8	9	92	8	59	75	0	0	24	0.80
308278--308348	34	2.1	34	97	0	133	56	11	21	11	1.65
309504--309560	2	31.5	2	77	19	63	52	0	0	47	1.00
310818--311089	54	5.0	54	90	1	411	30	18	17	33	1.94
317583--317885	54	5.6	54	84	1	410	30	19	15	34	1.93
318390--319331	2	541.0	2	69	27	664	57	0	0	40	1.06
318378--319334	5	189.2	5	82	15	1135	58	0	0	40	1.06
322253--322309	25	2.3	25	93	0	96	43	28	10	17	1.82
324332--324384	24	2.2	24	89	0	79	24	18	26	30	1.98
324342--324400	24	2.5	24	85	0	73	23	20	23	32	1.98
326866--326900	18	1.9	18	94	0	61	68	2	2	25	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329221--329345	19	6.6	20	75	17	83	60	0	0	38	1.02
329229--329343	7	15.9	7	76	18	69	60	0	0	39	1.03
329229--329343	17	7.2	15	80	15	92	60	0	0	39	1.03
329261--329356	2	52.5	2	77	20	104	55	1	0	43	1.06
329227--329356	42	3.3	41	83	14	175	58	0	0	40	1.03
339303--339344	20	2.1	20	90	0	66	30	16	19	33	1.94
341081--341131	25	2.0	26	85	11	70	62	0	25	11	1.29
342441--342492	23	2.3	23	83	6	61	44	3	7	44	1.51
345023--345063	15	2.7	15	82	10	57	73	0	2	24	0.96
348045--348146	5	20.0	5	67	7	53	67	2	7	21	1.30
351090--351130	15	2.7	15	82	10	57	73	0	2	24	0.96
351091--351128	18	2.1	18	85	9	51	71	0	2	26	1.00
352910--353000	17	5.2	18	84	13	111	35	9	16	38	1.82
352910--353000	35	2.6	35	94	1	157	35	9	16	38	1.82
352910--353013	52	2.0	52	83	7	131	36	9	17	36	1.82
352921--353029	52	2.1	52	80	10	116	37	10	16	35	1.82
361426--361619	94	2.1	95	85	4	259	41	11	21	25	1.87
362648--362715	34	2.1	34	94	5	122	35	26	7	30	1.84
362771--362820	24	2.1	24	85	7	66	60	14	2	24	1.45
372292--372475	55	3.3	55	93	0	305	35	15	16	32	1.90
372396--372593	97	2.0	98	82	7	235	33	12	18	35	1.88
372432--372517	43	2.0	42	86	6	120	29	12	19	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372475--372604	54	2.4	54	87	5	174	34	10	16	39	1.82
372377--372568	97	2.0	98	91	3	316	32	12	19	35	1.89
372322--372604	152	1.9	153	87	3	428	34	12	16	36	1.87
379206--379561	55	6.5	55	94	0	554	37	10	19	32	1.87
379547--379577	7	4.4	7	95	0	53	67	0	12	19	1.22
379547--379581	14	2.6	14	86	4	54	65	0	11	22	1.24
385756--385790	18	1.9	18	88	11	54	25	34	20	20	1.96
395417--395470	3	18.0	3	88	0	72	62	0	5	31	1.18
395417--395473	24	2.4	24	93	0	96	64	0	5	29	1.15
395898--396144	20	12.3	20	77	12	231	42	22	14	20	1.88
395873--396144	60	4.5	61	80	12	285	42	22	14	20	1.88
398456--398505	21	2.4	21	86	0	73	18	18	30	34	1.94
398586--398631	21	2.2	21	84	0	56	21	17	30	30	1.96
398913--399031	21	5.7	21	79	6	116	21	32	21	25	1.97
400388--400531	66	2.2	65	93	2	245	29	1	17	51	1.54
400357--400531	66	2.6	64	88	8	244	28	2	16	53	1.54
400812--400846	6	5.8	6	86	0	52	17	2	20	60	1.49
400805--400845	18	2.3	18	95	0	73	17	2	24	56	1.53
404072--404120	18	2.7	18	81	6	55	32	14	20	32	1.92
404112--404187	19	3.9	19	85	1	80	36	10	15	36	1.82
404124--404202	38	2.0	39	80	4	88	34	8	18	37	1.82
404188--404392	20	10.3	20	74	14	183	20	13	24	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404184--404440	139	1.8	139	92	0	433	21	13	23	41	1.89
404151--404418	40	6.8	40	70	17	143	22	13	23	41	1.88
404395--404439	20	2.2	21	88	4	65	28	15	17	37	1.91
404748--404875	64	2.0	64	93	0	220	30	21	19	28	1.97
405805--405887	28	2.9	27	82	8	76	26	1	19	53	1.53
405821--405887	28	2.4	28	87	7	91	23	1	22	52	1.56
408529--409010	45	10.7	45	85	2	601	23	20	10	44	1.83
408801--409009	21	9.4	21	63	25	74	21	22	10	45	1.81
409246--409419	55	3.2	54	77	4	170	35	19	9	35	1.85
409264--409426	55	3.0	55	83	1	202	34	17	10	36	1.84
412386--412419	13	2.6	13	90	9	52	47	5	17	29	1.71
417887--417957	32	2.2	32	89	0	115	33	11	35	19	1.88
424043--424221	90	2.0	90	89	0	277	22	21	11	44	1.85
424025--424221	45	4.4	45	85	2	243	22	21	12	43	1.86
424153--424292	71	2.0	71	86	0	199	22	21	12	43	1.85
424105--424337	116	2.0	116	92	0	385	23	21	12	42	1.86
424221--424441	45	4.9	45	91	2	345	22	21	12	43	1.86
424062--424394	161	2.1	161	90	1	524	22	21	12	44	1.85
424347--424413	19	3.2	19	70	25	62	22	20	13	43	1.87
424648--424854	55	3.7	55	82	6	197	34	18	9	37	1.83
425222--425336	34	3.4	34	93	0	194	26	23	15	34	1.95
425258--425444	88	2.1	88	91	0	302	27	25	12	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425343--425411	34	2.0	34	100	0	138	33	23	8	34	1.85
429209--429249	19	2.2	19	86	4	57	41	4	21	31	1.74
429966--430218	54	4.7	54	86	2	330	35	19	17	27	1.94
432690--432733	15	3.0	15	90	3	72	86	0	13	0	0.57
432690--432733	7	6.1	7	87	12	63	86	0	13	0	0.57
434829--435425	260	2.3	259	86	3	799	32	14	16	35	1.90
435873--435916	6	7.5	6	92	5	63	43	0	0	56	0.99
435960--436009	24	2.1	23	85	3	64	44	34	8	14	1.74
441767--441806	18	2.3	18	87	8	57	47	2	2	47	1.29
450166--450190	13	1.9	13	100	0	50	28	40	0	32	1.57

Tables:   1   2   3