genome.fa.s1095.2.7.7.80.10.50.1000.2.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: VEPZ01001095.1 Hibiscus syriacus cultivar Beakdansim tig00002169_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  842675

Tables:   1   2   3   4   

This is table  2  of  4  ( 410 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)
234394--234591	85	2.3	84	84	5	263	29	19	17	33	1.95
234638--234684	4	11.8	4	90	0	58	40	0	0	59	0.97
234638--234684	10	4.7	10	86	0	58	40	0	0	59	0.97
234642--234685	18	2.4	18	88	0	70	38	0	0	61	0.96
236033--236074	15	2.8	15	89	7	59	11	19	7	61	1.52
238563--238607	20	2.2	21	96	4	83	28	11	0	60	1.31
252482--252513	2	16.0	2	100	0	64	50	0	0	50	1.00
253890--253954	3	21.0	3	79	14	62	60	1	0	38	1.07
254135--254480	39	8.9	39	90	0	458	22	27	10	39	1.87
254135--254832	78	8.8	78	76	8	597	22	27	10	39	1.87
254135--254832	117	5.9	117	86	4	914	22	27	10	39	1.87
254430--254528	48	2.1	48	94	0	171	20	28	7	44	1.77
254390--254566	87	2.0	87	92	0	291	20	27	9	41	1.84
254477--254832	39	9.1	39	89	1	482	21	27	10	40	1.86
254653--254717	20	3.3	20	64	20	55	20	27	7	44	1.78
254838--255024	72	2.6	73	91	3	297	39	11	16	33	1.84
256160--256270	54	2.1	54	87	0	159	28	21	14	35	1.93
256797--256878	38	2.2	36	87	6	112	31	23	15	29	1.95
257755--257824	34	2.1	32	84	10	88	20	31	15	32	1.94
258179--258233	20	2.7	21	91	2	85	27	20	32	20	1.97
258296--258353	21	2.8	21	97	0	107	24	17	36	22	1.95
258435--258494	30	2.0	30	93	0	102	46	18	5	30	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
259566--259626	9	6.9	8	77	15	50	3	14	0	81	0.80
259571--259623	17	2.8	19	76	23	58	3	16	0	79	0.88
259566--259625	20	3.3	18	76	15	61	3	15	0	81	0.81
259566--259626	23	2.7	22	87	5	86	3	14	0	81	0.80
265156--265231	3	24.0	3	76	10	62	64	0	0	35	0.94
265164--265215	13	3.9	13	78	14	61	57	0	0	42	0.98
265145--265225	26	3.1	26	80	15	80	61	0	0	38	0.96
269770--269826	27	2.0	27	86	10	78	57	0	24	17	1.39
278687--278728	2	21.0	2	100	0	84	50	0	0	50	1.00
283834--283882	23	2.1	23	84	0	62	26	34	22	16	1.95
288105--288234	66	2.0	66	83	3	163	33	20	23	23	1.97
292529--292564	19	1.9	19	94	5	65	72	0	5	22	1.05
297064--297111	24	2.0	24	100	0	96	16	33	20	29	1.95
299468--299523	3	18.7	3	89	7	78	37	0	0	62	0.95
299478--299535	27	2.1	27	90	0	89	46	0	0	53	1.00
299484--299535	24	2.2	24	89	0	77	48	0	0	51	1.00
312386--312447	6	10.3	6	79	19	67	85	0	14	0	0.60
312397--312446	5	9.8	5	79	12	57	86	0	14	0	0.58
312389--312446	15	3.9	14	84	13	71	86	0	13	0	0.58
312389--312448	20	3.2	20	88	11	83	86	0	13	0	0.57
312391--312445	26	2.1	26	87	12	78	85	0	14	0	0.60
313400--313767	93	4.1	91	82	11	467	30	14	20	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
315047--315104	17	3.5	16	71	15	55	51	12	18	17	1.75
315037--315123	34	2.5	34	88	7	122	50	11	18	19	1.77
315069--315340	117	2.3	115	81	6	307	43	15	17	24	1.87
315505--315530	3	8.7	3	100	0	52	65	0	0	34	0.93
329616--329674	23	2.6	23	94	0	100	20	27	27	25	1.99
329912--329961	24	2.1	24	88	0	73	8	30	22	40	1.82
340128--340161	14	2.4	14	100	0	68	44	44	0	11	1.40
341363--341409	22	2.2	22	84	3	60	36	12	12	38	1.82
359124--359179	22	2.5	22	82	11	60	32	3	12	51	1.56
359940--359968	15	1.9	15	100	0	58	37	6	0	55	1.27
363208--363246	3	13.0	3	100	0	78	33	0	0	66	0.92
370071--370144	28	2.7	27	80	14	71	64	1	4	29	1.20
371037--371089	22	2.3	23	78	18	56	58	9	3	28	1.47
372317--372372	3	17.7	3	85	10	76	64	0	0	35	0.94
373475--373528	20	2.5	20	85	8	63	27	20	18	33	1.96
375618--375646	10	2.9	10	100	0	58	62	10	27	0	1.28
375777--375843	27	2.5	27	80	7	84	38	16	5	38	1.73
378354--378399	19	2.4	19	96	0	83	21	19	32	26	1.97
378525--378601	24	3.3	24	62	20	63	49	3	16	29	1.64
378476--378677	46	4.4	46	87	3	266	41	5	19	33	1.75
378978--379024	20	2.3	20	88	0	76	14	14	23	46	1.82
379492--379649	38	4.2	37	76	8	133	43	3	5	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379587--379658	37	1.9	38	85	2	101	48	4	5	41	1.45
380089--380120	13	2.5	13	94	0	55	21	37	15	25	1.93
381571--381741	60	2.9	59	74	9	141	35	21	4	38	1.74
385892--385948	20	2.7	23	81	10	68	24	31	21	22	1.98
385969--386020	20	2.6	20	90	0	77	21	23	21	34	1.97
389386--389480	17	4.8	20	77	16	90	22	33	21	23	1.97
389500--389552	20	2.7	20	93	0	88	18	26	24	30	1.98
390480--390554	27	2.8	27	85	4	107	28	13	17	41	1.87
393690--393727	20	1.9	20	84	10	51	36	2	2	57	1.26
393688--393934	135	1.8	135	98	0	476	34	5	10	48	1.61
393920--393967	21	2.3	21	96	3	89	39	0	4	56	1.19
394422--394481	21	2.8	21	97	2	111	23	23	3	50	1.64
403498--403528	13	2.3	14	94	5	55	22	29	32	16	1.95
403518--403554	16	2.2	17	95	4	67	10	24	45	18	1.81
403498--403528	7	4.6	7	92	8	55	22	29	32	16	1.95
405784--405825	21	2.0	21	95	0	75	26	28	21	23	1.99
405931--405978	19	2.5	19	86	0	60	35	14	10	39	1.80
406043--406133	31	3.0	31	93	3	150	42	15	6	35	1.73
406749--406797	26	1.9	25	91	4	80	53	4	10	32	1.54
406818--406851	17	2.0	17	100	0	68	64	0	0	35	0.94
408255--408290	18	2.0	18	100	0	72	33	11	5	50	1.61
408822--408879	22	2.7	22	94	2	100	46	0	1	51	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
410742--410810	22	3.2	22	66	22	65	52	11	4	31	1.57
410734--410825	42	2.2	42	100	0	184	54	13	4	28	1.57
410724--410830	42	2.4	45	84	15	157	55	13	3	28	1.55
412996--413041	24	1.9	24	100	0	92	32	8	13	45	1.73
413362--413417	26	2.2	25	93	3	94	19	8	32	39	1.83
420054--420109	26	2.2	25	90	3	85	17	12	33	35	1.88
420617--420643	2	13.5	2	100	0	54	51	48	0	0	1.00
421566--421615	16	3.1	16	97	2	91	42	8	6	44	1.58
443155--443235	22	3.9	19	89	7	72	40	13	17	28	1.87
443170--443250	22	3.7	22	98	1	155	39	13	19	27	1.89
443698--444234	45	11.9	45	88	0	734	47	12	18	22	1.81
443807--443874	22	3.1	22	66	16	59	50	10	16	23	1.75
449966--450639	45	15.0	45	88	0	934	46	12	18	22	1.82
454002--454403	199	2.0	201	98	1	774	34	23	12	29	1.91
456938--457288	131	2.7	131	82	4	431	41	15	9	33	1.80
457757--457788	5	6.2	5	92	7	55	78	0	3	18	0.89
459418--459542	3	42.0	3	90	4	173	62	0	3	33	1.17
460470--460537	30	2.3	30	97	0	127	30	19	13	36	1.90
463632--463688	28	1.9	28	89	10	87	42	10	8	38	1.71
465109--465304	96	2.0	96	85	1	259	42	15	14	27	1.86
467967--468346	192	2.0	194	98	1	746	36	17	8	37	1.80
471285--471318	18	1.9	17	88	5	50	26	2	20	50	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473895--473928	16	2.0	17	88	11	52	38	11	5	44	1.65
482562--482804	121	2.0	121	100	0	486	27	9	25	36	1.88
485371--485425	22	2.7	20	81	10	74	30	12	29	27	1.93
485837--485985	45	3.3	45	88	1	201	34	8	27	28	1.87
485919--486137	45	4.9	45	83	0	231	38	8	21	31	1.83
485837--486159	90	3.6	90	75	3	211	37	8	22	31	1.84
491990--492216	96	2.4	95	80	4	242	29	14	25	30	1.94
492160--492214	22	2.7	20	83	10	83	29	12	30	27	1.93
492704--492826	45	2.7	45	78	5	122	38	11	22	27	1.89
492616--492779	79	2.1	79	85	4	224	38	11	21	28	1.88

Tables:   1   2   3   4