genome.fa.s190.2.7.7.80.10.50.1000.2.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  2  of  62  ( 7381 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)
325787--325823	2	19.0	2	94	5	67	48	0	0	51	1.00
326128--326158	15	2.1	15	93	0	53	45	3	0	51	1.17
332545--332571	2	13.5	2	100	0	54	0	51	0	48	1.00
340553--340705	60	2.5	60	82	6	175	30	22	4	42	1.74
340837--341021	60	3.1	60	86	1	228	44	3	17	34	1.65
340920--341020	31	3.3	31	67	10	91	46	3	16	32	1.66
343653--343694	21	2.0	21	85	0	57	42	0	2	54	1.13
343667--343704	18	2.2	18	86	9	53	36	0	0	63	0.95
343779--343826	18	2.6	18	84	12	62	66	6	4	22	1.32
348853--348939	31	2.8	31	81	6	88	43	1	3	51	1.26
348886--348928	19	2.2	19	87	8	59	44	2	2	51	1.27
349664--349750	31	2.8	30	79	10	95	51	4	1	42	1.29
349665--349716	10	5.0	10	75	15	52	53	1	1	42	1.23
359615--359866	127	2.0	127	98	0	486	27	19	19	32	1.97
363793--363884	35	2.9	30	82	14	105	40	25	2	32	1.68
363813--363894	35	2.3	35	97	0	155	46	28	2	23	1.65
366645--366727	42	2.0	42	82	0	103	21	33	19	25	1.97
366721--366771	21	2.4	21	93	0	84	17	25	29	27	1.98
367292--367397	34	3.1	34	82	4	126	52	4	3	38	1.40
367302--367447	70	2.1	67	81	10	163	47	6	5	40	1.51
370757--370794	19	2.1	19	85	5	51	39	5	0	55	1.23
371369--371409	14	2.9	14	96	3	73	36	0	24	39	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372300--372329	10	3.0	10	95	0	51	50	16	30	3	1.62
372584--372611	14	2.0	14	100	0	56	42	0	7	50	1.30
377730--377755	10	2.6	10	100	0	52	19	0	0	80	0.71
382538--383298	185	4.2	186	88	6	1026	28	10	19	41	1.84
386326--386355	4	7.5	4	100	0	60	50	23	0	26	1.50
387110--387148	4	9.8	4	94	0	69	23	0	25	51	1.49
389389--389473	40	2.2	36	82	15	109	27	9	9	54	1.63
392265--392298	17	2.0	17	94	0	59	44	0	0	55	0.99
395163--395284	31	4.0	31	82	1	138	36	15	19	28	1.93
410785--410809	11	2.3	11	100	0	50	56	12	8	24	1.62
411754--411799	24	1.9	24	95	0	83	2	39	8	50	1.46
414697--414723	3	9.0	3	100	0	54	66	0	0	33	0.92
414812--414985	37	5.0	37	65	23	135	46	12	12	28	1.78
414715--414985	68	4.0	68	82	4	352	47	10	11	29	1.74
422973--423019	24	2.0	24	84	12	62	34	10	6	48	1.63
422982--423019	13	3.1	13	88	7	53	31	10	7	50	1.66
426498--426647	77	1.9	77	95	0	273	34	6	14	45	1.70
441225--441263	20	1.9	21	89	5	62	33	15	20	30	1.94
445608--445664	24	2.3	24	93	3	96	43	1	8	45	1.45
448042--448071	15	1.9	16	93	6	53	53	0	0	46	1.00
448289--448470	50	3.7	49	83	9	235	23	11	17	47	1.80
474096--474140	17	2.6	17	100	0	90	42	0	4	53	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474774--474825	20	2.6	20	100	0	104	9	21	23	46	1.80
474983--475065	41	2.0	41	88	6	123	39	21	20	18	1.92
495557--495600	22	2.0	22	90	0	70	50	9	27	13	1.72
498497--498754	128	2.0	128	97	0	489	37	14	20	27	1.92
504393--504431	2	19.5	2	100	0	78	48	0	0	51	1.00
508969--509006	2	19.0	2	100	0	76	50	0	0	50	1.00
509314--509373	31	1.9	32	93	3	104	35	11	6	46	1.67
511962--512018	7	8.0	7	73	11	53	40	38	0	21	1.53
514749--514819	30	2.4	29	81	11	74	25	0	22	52	1.48
519189--519314	31	3.8	32	84	9	121	51	2	8	37	1.46
519210--519321	31	3.7	31	84	7	131	50	2	8	38	1.46
519524--519567	19	2.2	20	96	4	81	36	0	4	59	1.18
525361--525729	20	18.5	20	85	4	458	34	26	18	20	1.96
526395--526440	24	2.0	23	87	12	67	26	15	21	36	1.93
528930--529230	33	8.7	33	78	12	218	47	17	20	14	1.82
528959--529253	19	16.5	19	81	13	378	47	16	21	14	1.82
528959--529275	52	6.0	52	91	4	526	47	16	21	14	1.82
529282--529382	19	5.6	19	84	13	142	14	23	17	43	1.87
529487--529522	14	2.6	14	86	4	56	47	22	0	30	1.52
529517--529589	12	6.0	12	67	20	53	57	16	1	24	1.47
529503--529575	38	1.9	38	97	0	137	53	16	1	28	1.51
531367--531465	19	5.4	19	77	12	91	45	26	18	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531423--531479	14	3.7	14	77	20	60	45	24	21	8	1.80
531404--531495	33	2.8	33	96	1	168	46	22	20	9	1.80
531496--531624	19	7.3	19	75	17	125	8	17	28	45	1.77
531496--531587	33	2.8	33	93	3	150	7	18	28	45	1.76
531668--532044	92	4.1	93	97	2	717	46	18	12	22	1.83
531668--532044	183	2.0	185	97	2	715	46	18	12	22	1.83
533729--533818	14	5.7	14	74	23	81	42	23	25	8	1.83
533721--533835	33	3.5	33	95	0	212	45	20	24	9	1.81
533728--533840	19	6.8	18	72	23	88	43	22	24	9	1.83
533852--533906	14	3.6	14	73	21	56	9	27	23	40	1.85
534022--534092	33	2.2	33	92	0	115	47	18	22	11	1.80
534463--534654	20	9.6	20	81	7	212	19	19	26	34	1.96
534708--534759	20	2.6	20	96	0	95	21	13	26	38	1.90
539503--539528	3	8.7	3	100	0	52	69	0	0	30	0.89
546050--546116	16	4.2	16	75	3	55	14	14	28	41	1.86
548054--548136	41	2.0	41	83	0	103	50	8	3	37	1.50
548342--548400	2	30.0	2	93	3	102	50	0	1	47	1.11
556276--556304	2	14.5	2	100	0	58	48	0	0	51	1.00
556657--556814	21	7.8	20	70	7	77	37	24	17	19	1.93
556782--557171	20	19.5	20	83	5	448	35	25	18	20	1.95
557843--557889	24	2.0	24	87	8	69	25	14	21	38	1.92
560358--560731	19	21.4	19	76	19	397	46	18	21	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560358--560753	33	11.5	32	80	16	301	46	18	21	13	1.83
560577--560672	13	7.6	13	65	18	51	46	15	21	15	1.83
560389--560753	52	7.0	52	84	10	476	46	17	21	13	1.83
560746--560836	33	2.8	33	89	3	94	18	21	18	40	1.91
560778--560836	19	3.4	19	73	22	74	13	22	18	45	1.84
560760--560836	14	4.6	17	68	27	58	12	24	19	42	1.86
560943--560979	14	2.6	14	95	0	65	43	21	0	35	1.53
562868--563002	19	7.6	19	75	16	101	45	25	18	10	1.81
562924--562980	14	3.7	14	72	20	51	45	26	19	8	1.79
562905--562997	33	2.8	33	88	0	150	47	23	19	9	1.79
562868--563002	52	2.5	54	77	18	149	45	25	18	10	1.81
562998--563125	19	7.3	19	73	19	116	8	17	28	45	1.78
562998--563088	33	2.8	33	94	1	157	7	18	28	45	1.77
563014--563069	14	3.7	14	72	22	51	7	19	30	42	1.78
563169--563545	91	4.1	93	97	2	717	46	18	12	22	1.83
565247--565336	14	5.7	14	74	23	81	42	23	25	8	1.83
565239--565355	33	3.5	33	95	0	216	44	21	24	9	1.82
565261--565377	19	6.7	19	76	18	119	43	22	23	10	1.84
565389--565443	14	3.6	14	73	21	56	9	25	23	41	1.83
565373--565443	33	2.2	33	94	0	124	8	22	25	43	1.81
565384--565465	33	2.5	33	89	2	119	9	25	21	42	1.84
565396--565484	20	4.8	20	72	19	75	12	24	19	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565564--565634	33	2.2	33	92	0	115	47	16	22	12	1.80
565815--565869	22	2.5	22	81	0	74	20	16	40	23	1.91
566015--566208	20	9.6	20	81	6	212	19	19	25	35	1.95
566015--566208	61	3.2	60	81	5	237	19	19	25	35	1.95
566014--566208	81	2.4	81	83	3	241	18	19	25	35	1.95
576035--576067	2	17.0	2	93	6	59	48	0	0	51	1.00
577345--577480	60	2.3	59	80	3	139	34	15	16	33	1.90
578514--578557	18	2.4	18	88	0	61	15	31	34	18	1.92
578896--578981	35	2.5	35	84	0	100	40	20	1	37	1.61
578950--578992	21	2.0	21	100	0	86	46	13	0	39	1.44

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62