genome.fa.s8339.2.7.7.80.10.50.1000.4.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: VEPZ01008339.1 Hibiscus syriacus cultivar Beakdansim tig00111061_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1048908

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 733 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)
466373--466415	19	2.2	20	84	8	54	58	2	4	34	1.32
466739--466802	2	32.0	2	100	0	128	50	0	0	50	1.00
471664--471702	20	2.0	20	89	0	60	56	2	2	38	1.27
472718--472760	20	2.2	20	86	0	59	16	4	11	67	1.38
477094--477203	20	5.4	20	90	2	157	34	21	25	18	1.96
477094--477203	41	2.7	40	90	1	157	34	21	25	18	1.96
477242--477284	22	1.9	23	90	4	70	20	20	32	25	1.97
477228--477410	21	8.7	21	86	6	264	21	19	37	20	1.94
477491--477548	30	2.0	29	86	10	82	43	17	5	34	1.71
480959--481096	73	1.9	73	90	0	222	46	10	7	36	1.65
481032--481668	58	10.9	58	73	10	393	46	10	7	35	1.67
481057--481360	117	2.6	113	81	5	308	46	10	7	35	1.67
481474--481659	57	3.2	56	77	8	178	46	12	6	33	1.68
482191--482286	37	2.6	37	85	3	122	43	13	10	32	1.78
482712--482759	23	2.0	24	84	11	64	27	2	0	70	0.98
483010--483050	16	2.4	16	88	12	55	26	0	0	73	0.84
483010--483050	9	4.7	9	82	14	50	26	0	0	73	0.84
483030--483081	22	2.5	20	82	17	70	25	3	0	71	1.03
483158--483203	19	2.5	19	83	13	60	15	8	2	73	1.16
487744--487814	19	3.8	18	75	21	67	78	7	12	1	1.00
487750--487816	24	2.7	24	79	11	64	79	5	13	1	0.99
487745--487816	13	5.3	13	72	19	58	80	5	12	1	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489414--491321	106	18.0	106	92	1	2970	34	24	18	22	1.96
492070--492165	36	2.6	36	83	1	120	39	16	11	32	1.84
492589--492627	4	10.0	4	83	5	53	28	0	0	71	0.86
492653--492701	5	9.2	5	82	8	53	36	4	0	59	1.17
492758--492782	2	12.5	2	100	0	50	48	0	0	52	1.00
492906--492968	31	2.2	31	83	11	80	25	1	0	73	0.93
492906--492952	18	2.5	18	83	13	51	25	0	0	74	0.82
492916--492967	9	5.9	9	78	10	54	25	1	0	73	0.94
493057--493102	19	2.5	19	83	13	60	17	8	0	73	1.07
498318--498575	45	5.6	45	78	11	204	40	14	8	36	1.78
498721--498751	14	2.1	15	94	5	55	32	9	6	51	1.60
500062--500101	2	20.0	2	100	0	80	50	0	0	50	1.00
500582--500620	21	1.9	20	84	5	51	30	2	2	64	1.21
500931--500973	19	2.1	21	83	8	54	37	4	0	58	1.19
501188--501228	18	2.3	18	83	4	57	73	0	0	26	0.84
503851--503915	33	2.0	33	96	0	121	13	9	35	41	1.77
504438--504484	18	2.7	17	83	3	58	25	29	8	36	1.86
504696--504745	19	2.5	20	90	3	75	48	10	10	32	1.70
504999--505030	15	2.1	15	94	0	55	18	40	18	21	1.91
508132--508185	20	2.9	17	75	20	54	33	12	7	46	1.70
510570--510601	16	2.0	16	100	0	64	18	43	6	31	1.75
517824--517854	2	15.5	2	93	0	53	45	0	3	51	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519752--519906	58	2.7	58	80	7	145	41	15	12	30	1.84
521238--521280	23	2.0	21	81	9	50	25	37	6	30	1.82
528115--528185	21	3.4	21	96	0	133	28	19	23	28	1.99
535774--535831	26	2.2	26	87	6	82	10	18	5	65	1.41
535765--535831	26	2.6	25	85	7	80	11	17	4	65	1.41
536690--536769	41	1.9	42	84	2	108	40	17	16	26	1.90
536689--536793	42	2.5	42	80	11	110	36	17	17	29	1.92
536478--537386	260	3.6	254	82	7	1022	34	16	15	33	1.91
539458--539494	17	2.2	17	100	0	74	24	16	13	45	1.83
542449--542487	19	2.2	19	86	9	55	66	15	5	12	1.41
544131--544244	59	1.9	59	92	0	192	24	16	21	36	1.94
550071--550109	19	2.1	19	95	0	69	41	5	12	41	1.65
556538--556580	20	2.1	21	86	4	61	37	4	0	58	1.19
557024--557074	22	2.4	21	90	6	77	52	1	3	41	1.31
557187--557263	3	25.3	3	87	7	111	37	0	0	62	0.96
557188--557301	51	2.2	52	78	9	126	44	0	0	54	1.06
557253--557300	17	2.9	16	77	17	53	54	2	0	43	1.12
557383--557424	16	2.7	16	88	3	59	11	50	19	19	1.78
557395--557430	16	2.2	16	100	0	72	8	55	16	19	1.66
557620--557658	17	2.2	17	86	9	51	64	12	20	2	1.40
557620--557661	19	2.2	19	83	8	50	64	11	21	2	1.38
558249--558327	25	3.1	26	81	7	90	24	0	25	50	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559226--559251	13	2.0	13	100	0	52	15	23	23	38	1.92
560970--561095	35	3.6	35	82	7	166	33	20	14	31	1.92
563772--563806	18	1.9	18	88	0	52	14	31	31	22	1.94
567067--567118	21	2.4	22	87	9	72	23	30	17	28	1.97
567952--568031	31	2.6	31	84	2	90	25	7	8	58	1.54
568150--568200	24	2.1	25	92	3	86	54	21	1	21	1.54
568179--568238	31	1.9	31	86	10	86	53	21	0	25	1.46
568646--568703	29	1.9	31	82	6	75	55	6	5	32	1.49
572708--572743	15	2.2	18	80	19	51	44	0	0	55	0.99
572710--572743	17	2.1	17	89	10	54	44	0	0	55	0.99
572842--572911	36	1.9	37	91	8	117	41	15	15	27	1.88
574928--574972	21	2.1	21	83	0	54	26	20	4	48	1.68
575668--576094	211	2.0	210	97	2	766	31	19	19	29	1.97
576118--576155	17	2.2	17	100	0	76	21	10	15	52	1.72
576307--576357	22	2.4	21	80	9	59	76	5	15	1	1.07
576336--576366	13	2.4	13	94	0	53	80	9	9	0	0.90
577757--577865	35	3.0	37	87	5	159	26	22	12	37	1.91
577820--577987	84	2.0	84	100	0	336	32	19	9	39	1.83
577976--578045	36	1.9	37	88	2	106	25	21	11	41	1.86
578061--578147	37	2.4	37	88	5	124	25	20	13	40	1.89
577904--578248	101	3.4	102	94	1	595	30	20	12	37	1.89
578162--578248	36	2.4	36	86	0	111	26	21	12	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578190--578348	67	2.4	67	88	4	232	32	22	11	34	1.89
578927--579398	109	4.4	109	84	2	542	32	25	19	22	1.97
578927--579555	218	2.9	213	79	6	553	32	24	20	22	1.98
579025--579558	109	5.0	104	80	7	400	32	24	20	22	1.97
578927--579558	109	5.9	103	80	8	379	32	25	20	22	1.98
580019--580088	36	1.9	37	88	8	108	41	15	14	28	1.86
581290--581356	28	2.4	28	100	0	134	59	0	4	35	1.18
593944--593981	18	2.1	18	90	0	58	28	7	0	63	1.23
596514--596564	8	6.4	8	74	17	52	11	5	0	82	0.83
596514--596563	15	3.3	15	88	8	66	12	6	0	82	0.85
596513--596564	21	2.5	20	82	14	61	13	5	0	80	0.88
597014--597336	159	2.0	159	98	1	621	29	38	11	20	1.87
601245--601281	18	2.1	18	100	0	74	40	16	10	32	1.83
605389--605428	15	2.6	15	92	4	62	15	30	30	25	1.95
606149--606377	83	2.8	83	79	3	221	29	14	24	31	1.95
606808--606846	20	1.9	20	84	5	51	46	5	17	30	1.70
609006--609064	3	19.0	3	89	6	91	33	1	0	64	1.04
609014--609064	19	2.7	19	93	0	84	35	1	0	62	1.06
609477--609587	50	2.3	47	90	7	168	52	24	20	2	1.60
609498--609602	50	2.1	50	89	7	160	50	24	23	0	1.55
610031--610093	11	5.8	11	78	17	78	28	1	0	69	0.97
610034--610096	19	3.4	18	80	20	69	28	1	0	69	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610031--610093	23	2.9	23	79	15	80	28	1	0	69	0.97
610053--610093	12	3.5	12	96	3	75	29	0	0	70	0.87
610272--610345	23	3.2	22	77	19	62	39	0	2	58	1.13
610724--610799	24	3.2	24	100	0	152	31	11	7	48	1.68
611770--611844	34	2.2	34	100	0	150	21	10	5	62	1.47
615064--615125	32	1.9	32	100	0	124	45	17	17	19	1.86
619339--619396	22	2.6	23	89	5	84	39	10	10	39	1.74
620050--620211	45	3.6	45	91	3	254	24	23	19	32	1.98
620385--620454	3	23.3	3	91	5	115	34	1	0	64	1.03
620549--620616	3	23.0	3	88	8	104	35	1	0	63	1.04

Tables:   1   2   3   4   5   6   7