genome.fa.s9639.2.7.7.80.10.50.1000.34.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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  34  of  62  ( 7398 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)
7356441--7356492	23	2.3	23	96	0	95	26	21	19	32	1.97
7358105--7358160	21	2.7	21	85	0	76	41	28	12	17	1.86
7358391--7358454	23	2.7	24	85	7	78	31	9	20	39	1.84
7362031--7362055	13	1.9	13	100	0	50	24	28	0	48	1.52
7362346--7362433	29	3.0	29	70	9	81	32	15	5	45	1.70
7365712--7365741	5	5.8	5	96	4	51	40	3	0	56	1.16
7368177--7368252	28	2.7	28	95	0	134	46	22	1	30	1.60
7371500--7371635	67	2.0	67	91	0	218	27	19	12	40	1.88
7371567--7371924	81	4.4	81	91	0	590	26	23	12	37	1.91
7371874--7372061	68	2.8	68	89	0	250	29	23	15	30	1.96
7372318--7372412	31	3.2	31	60	14	72	36	16	9	36	1.82
7372290--7372470	59	3.1	59	92	1	303	37	19	11	32	1.87
7372831--7373036	95	2.2	96	84	2	265	24	22	16	35	1.94
7374943--7375120	60	3.0	59	77	4	162	48	3	14	33	1.60
7375319--7375376	20	3.1	19	87	7	82	43	0	1	55	1.10
7375328--7375376	9	5.0	11	75	25	56	44	0	0	55	0.99
7377672--7377713	22	1.9	22	90	0	66	33	9	19	38	1.84
7384114--7384304	39	4.7	39	86	5	229	23	22	30	23	1.99
7384114--7384304	42	4.7	40	87	5	242	23	22	30	23	1.99
7384114--7384304	81	2.4	80	84	5	251	23	22	30	23	1.99
7393615--7393684	30	2.3	30	97	0	131	32	5	5	55	1.47
7395008--7395048	20	2.0	20	95	0	73	14	29	39	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7399898--7399958	20	2.9	21	87	7	79	18	26	34	21	1.96
7405925--7405949	13	1.9	13	100	0	50	44	8	0	48	1.32
7406661--7406718	21	2.8	21	78	0	71	20	24	27	27	1.99
7406747--7406827	20	4.1	20	82	6	103	18	27	33	20	1.96
7406749--7406827	39	2.0	39	85	4	106	17	27	32	21	1.96
7418129--7418158	12	2.5	12	94	0	51	40	30	20	10	1.85
7419004--7419043	21	2.0	20	90	5	62	27	12	20	40	1.88
7426546--7426952	45	9.0	46	79	8	268	25	21	9	43	1.82
7426546--7426679	44	3.0	43	80	8	142	26	20	11	41	1.86
7426608--7426960	45	7.8	45	81	4	388	24	21	9	44	1.81
7426581--7426939	181	2.0	181	87	2	515	25	21	9	43	1.82
7427345--7427494	55	2.8	55	83	2	187	28	20	16	34	1.95
7427447--7427983	54	9.9	54	88	1	754	32	19	18	29	1.95
7433471--7433515	16	2.6	17	86	6	56	31	22	15	31	1.95
7433569--7433619	20	2.5	20	72	9	59	29	17	23	29	1.97
7436972--7437008	15	2.5	15	100	0	74	10	29	16	43	1.82
7438724--7438916	105	1.8	105	82	2	244	40	16	12	30	1.85
7450797--7450869	21	3.5	21	98	0	137	36	5	4	53	1.43
7452996--7453037	16	2.7	15	82	17	50	54	9	0	35	1.33
7465942--7465992	23	2.2	23	100	0	102	47	3	11	37	1.59
7466068--7466157	32	2.8	32	85	6	103	46	5	3	44	1.43
7467158--7467404	130	1.9	128	83	6	320	39	8	6	46	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7468587--7468638	19	2.7	19	85	5	61	48	3	1	46	1.31
7468918--7469063	58	2.5	57	83	4	177	59	4	6	28	1.44
7471699--7471739	21	1.9	21	90	5	64	17	9	9	63	1.51
7472617--7472647	15	2.1	15	93	0	53	41	3	19	35	1.67
7473762--7473866	37	2.8	37	83	0	129	43	13	12	30	1.80
7474223--7474262	18	2.3	18	83	8	57	25	5	2	67	1.23
7478830--7479366	183	2.9	183	95	0	941	27	20	21	30	1.98
7480510--7480679	72	2.3	76	84	8	219	27	18	12	41	1.87
7480521--7480716	72	2.7	72	82	8	168	27	17	14	41	1.88
7480773--7480847	39	1.9	39	83	5	98	26	22	13	37	1.91
7480750--7480960	105	2.0	105	93	0	361	30	20	11	37	1.88
7480880--7480961	39	2.1	40	81	2	94	28	20	10	40	1.86
7480960--7481029	36	1.9	36	88	0	104	24	24	14	37	1.92
7481234--7481759	105	5.0	104	89	3	736	33	26	18	21	1.96
7482306--7482369	21	3.3	21	62	20	57	45	14	12	28	1.81
7482302--7482406	37	2.8	37	86	0	138	42	13	13	30	1.82
7482763--7482802	18	2.3	18	83	8	57	25	5	2	67	1.23
7486374--7486474	44	2.3	44	86	3	132	32	17	20	28	1.96
7486814--7486850	17	2.1	18	90	5	58	51	5	5	37	1.48
7486961--7487000	13	3.1	13	92	0	62	45	7	7	40	1.61
7489239--7489278	20	2.0	20	85	5	53	32	12	17	37	1.87
7497064--7497357	46	6.4	46	90	0	462	23	24	12	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7497357--7497750	81	5.0	81	84	4	527	29	20	14	35	1.92
7497602--7497745	72	2.0	72	88	0	216	29	20	15	34	1.94
7498275--7498320	21	2.3	20	85	7	58	36	19	6	36	1.78
7502899--7503254	46	7.7	46	88	0	496	23	21	13	41	1.89
7503254--7503645	81	5.0	81	82	8	423	30	22	11	34	1.90
7503315--7503645	80	4.2	81	84	9	461	30	21	12	34	1.91
7503506--7503640	72	1.9	71	93	1	234	31	23	11	33	1.91
7503703--7503743	21	1.9	22	90	5	66	56	4	0	39	1.21
7503715--7503746	16	2.0	16	93	0	55	53	6	0	40	1.26
7509552--7509625	32	2.3	32	81	4	87	28	17	25	28	1.98
7511277--7511332	17	3.3	17	70	9	51	28	17	12	41	1.86
7511360--7511429	17	4.1	17	79	3	70	41	11	8	38	1.72
7511360--7511429	34	2.1	34	83	5	88	41	11	8	38	1.72
7511326--7511422	51	1.9	51	82	0	122	38	12	9	40	1.75
7516689--7516737	18	2.7	18	93	0	71	36	14	24	24	1.93
7516697--7516737	18	2.3	18	100	0	82	36	12	21	29	1.90
7521876--7521924	24	2.0	24	92	0	80	28	26	18	26	1.98
7524834--7524957	68	1.9	62	83	9	158	42	3	8	45	1.49
7536195--7536357	84	2.0	82	87	4	238	29	3	9	57	1.49
7538887--7538933	24	2.0	24	95	0	85	12	19	17	51	1.77
7544995--7545117	54	2.3	54	89	0	183	37	17	13	31	1.89
7552555--7552652	47	2.1	47	90	0	151	28	11	26	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7552641--7552915	53	5.2	53	92	3	455	32	18	16	32	1.93
7552756--7552843	30	3.2	30	62	26	75	31	18	17	32	1.94
7556689--7556903	53	4.1	53	85	2	306	33	17	15	33	1.91
7556689--7556903	106	2.0	106	90	3	344	33	17	15	33	1.91
7564147--7564276	20	6.6	20	89	0	147	39	24	13	22	1.91
7564147--7564276	40	3.3	40	89	4	176	39	24	13	22	1.91
7564066--7564295	20	11.6	20	74	12	145	35	24	14	25	1.94
7564456--7564486	16	1.9	16	93	0	53	29	3	0	67	1.06
7567352--7567387	18	2.0	18	88	0	54	55	22	2	19	1.56
7567705--7567793	34	2.6	34	90	0	133	21	21	19	38	1.94
7567774--7567813	20	2.0	20	90	0	62	20	20	22	37	1.94
7567738--7567847	54	2.0	54	91	0	175	20	20	20	37	1.95
7567788--7567873	34	2.5	34	100	0	172	18	19	22	39	1.92
7567705--7567872	88	1.9	88	93	0	291	20	20	20	38	1.93
7569423--7569497	21	3.6	21	73	7	71	25	17	34	22	1.96
7572143--7572200	20	2.9	20	89	5	91	17	15	25	41	1.89
7572192--7572274	21	4.0	21	100	0	166	33	18	24	24	1.96
7572582--7572763	91	2.0	91	97	0	346	32	26	15	25	1.95
7574327--7574398	15	4.5	16	77	11	76	15	25	30	29	1.96
7587002--7587069	34	2.0	34	83	13	86	23	10	17	48	1.78
7590125--7590183	21	2.7	21	80	15	59	25	6	0	67	1.15
7590118--7590185	24	2.9	24	79	14	70	26	5	0	67	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7590254--7590336	20	4.3	18	72	11	67	27	4	1	66	1.19
7590465--7590500	11	3.4	11	96	3	65	13	8	0	77	0.98
7590561--7590599	18	2.2	17	82	13	51	17	2	2	76	1.01
7590580--7590606	12	2.2	12	100	0	54	14	0	0	85	0.61
7593742--7593805	13	5.0	13	80	16	71	78	4	15	1	1.00
7593742--7593806	26	2.5	27	87	7	91	76	4	15	3	1.07
7594914--7595019	32	3.4	31	82	3	122	28	12	21	37	1.90
7594921--7595014	31	2.9	32	85	4	127	30	10	20	38	1.86
7595891--7596080	36	5.5	35	73	14	160	27	19	12	40	1.88
7595795--7595995	65	3.1	65	80	2	269	32	16	10	39	1.83

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