genome.fa.s7882.2.7.7.80.10.50.1000.2.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: VEPZ01007882.1 Hibiscus syriacus cultivar Beakdansim tig00110260_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1274288

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 577 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)
338270--338350	35	2.3	35	84	14	98	76	4	18	0	0.96
338282--338356	13	5.9	13	79	14	68	74	5	20	0	1.00
339364--339427	30	2.1	30	88	5	94	42	7	14	35	1.74
340562--340629	18	3.8	18	84	0	82	30	4	17	47	1.68
340562--340629	27	2.5	27	76	9	75	30	4	17	47	1.68
340562--340629	9	7.6	9	81	0	64	30	4	17	47	1.68
341687--341807	38	3.2	38	91	0	179	26	21	23	28	1.99
341879--341968	30	3.0	30	86	0	126	42	11	15	31	1.82
342434--342474	9	4.6	9	87	0	55	51	17	2	29	1.58
342425--342474	18	2.8	18	84	0	64	54	18	2	26	1.54
342678--342747	31	2.3	30	82	4	79	35	24	4	35	1.75
343686--343744	30	2.0	30	86	6	84	33	18	8	38	1.81
351876--351932	21	2.7	20	76	13	60	7	17	0	75	1.02
351894--351972	8	9.9	8	70	23	51	2	12	3	81	0.94
351876--351963	28	3.2	26	82	10	95	4	14	2	78	1.01
351894--351974	37	2.1	38	84	8	103	2	12	3	81	0.92
351896--351974	14	5.7	14	76	14	67	2	12	3	81	0.94
354654--354912	45	5.8	45	92	1	378	28	22	8	39	1.84
354757--354876	25	5.2	25	63	28	77	28	23	10	38	1.87
355017--355098	40	2.0	40	92	0	137	34	24	15	25	1.95
361322--361379	27	2.1	28	84	12	75	39	12	17	31	1.86
361934--362409	131	3.6	130	89	2	686	41	12	13	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
368050--368149	27	3.7	27	95	1	166	26	28	23	23	1.99
368215--368278	19	3.5	18	75	22	62	14	32	26	26	1.94
369512--369560	24	2.0	24	100	0	98	36	12	18	32	1.88
384155--384197	16	2.8	16	85	3	61	81	4	0	13	0.84
384265--384316	9	5.8	9	77	8	52	82	7	1	7	0.91
384226--384318	14	6.4	14	71	20	50	79	5	3	11	1.01
384230--384324	32	2.8	35	72	18	94	78	5	3	12	1.03
384368--384406	15	2.5	15	83	4	51	87	2	0	10	0.65
384367--384406	20	2.0	20	90	9	64	85	5	0	10	0.75
384509--384594	2	45.5	2	78	11	83	56	1	0	41	1.06
384507--384603	8	13.4	7	80	8	81	57	2	0	40	1.10
384554--384705	66	2.3	66	81	10	159	68	3	3	24	1.22
384625--384717	34	2.7	34	77	12	102	69	1	5	23	1.15
384661--384720	8	7.2	8	75	14	50	76	1	3	18	1.00
384645--384717	34	2.2	33	88	7	105	72	1	2	23	1.05
385702--385730	2	15.0	2	92	7	51	51	0	0	48	1.00
386616--387227	85	7.2	85	81	4	664	25	18	21	34	1.96
391535--391581	20	2.4	18	80	16	58	74	6	4	14	1.17
391666--391700	8	4.4	8	86	13	54	88	0	0	11	0.51
391666--391700	15	2.3	15	95	5	61	88	0	0	11	0.51
391803--391880	2	41.5	2	74	12	58	56	1	1	41	1.15
392011--392066	13	4.5	13	73	24	50	78	7	0	14	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392030--392063	16	2.2	15	89	5	50	82	8	0	8	0.85
392257--392338	34	2.4	34	82	13	96	67	1	4	26	1.19
394880--395008	50	2.6	49	78	9	143	41	20	7	31	1.80
395465--395509	21	2.1	21	95	0	81	55	0	4	40	1.20
396572--396634	30	2.1	30	100	0	126	12	11	15	60	1.59
409732--409794	28	2.6	22	74	25	72	52	14	15	17	1.75
409743--409800	28	2.1	28	100	0	116	50	13	17	18	1.79
410521--410561	17	2.4	17	91	0	64	12	26	31	29	1.92
412948--412993	20	2.3	19	85	14	58	50	8	15	26	1.73
420772--420840	23	3.0	23	86	0	93	24	26	28	20	1.99
421050--421118	30	2.3	30	90	5	104	31	24	4	39	1.75
421463--421604	64	2.2	65	83	7	175	27	19	19	33	1.96
427972--428040	30	2.3	30	85	5	95	30	24	5	39	1.79
432058--432103	20	2.3	19	85	14	58	50	8	15	26	1.73
436358--436405	20	2.4	20	92	0	78	10	29	22	37	1.88
439826--439893	34	2.0	34	94	0	118	38	13	22	26	1.91
443764--443807	19	2.2	20	88	4	63	22	40	22	13	1.89
456037--456067	16	2.0	15	93	6	53	58	16	6	19	1.59
457696--457878	21	9.0	21	66	22	74	45	2	3	48	1.32
457696--457895	11	17.9	11	68	20	73	45	2	4	48	1.34
457696--457762	2	34.0	2	77	14	68	46	1	2	49	1.26
457732--457811	19	4.2	20	74	17	64	43	1	5	50	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457737--457868	49	2.7	47	75	20	119	43	2	3	50	1.32
457845--457941	25	4.0	26	70	14	80	45	3	4	47	1.37
457868--458003	47	2.8	48	82	7	143	47	2	6	44	1.41
457947--458002	21	2.8	20	86	5	76	48	0	8	42	1.34
458182--458227	20	2.3	20	85	3	58	45	6	8	39	1.61
458198--458237	17	2.3	17	91	4	62	47	7	2	42	1.45
458239--458356	49	2.4	48	80	4	112	49	10	6	33	1.63
458396--458466	37	2.0	36	83	5	90	39	9	11	39	1.74
458450--458526	22	3.6	22	80	13	81	40	6	9	44	1.62
458431--458525	42	2.2	45	81	7	108	38	7	9	44	1.65
458599--458760	21	7.5	21	65	24	61	44	4	4	46	1.44
458625--458906	15	18.4	14	68	25	98	45	3	3	48	1.34
458679--458740	14	4.4	14	76	11	54	48	6	3	41	1.45
458738--458807	31	2.3	30	84	13	99	42	2	4	50	1.37
458830--458902	6	12.3	6	73	23	50	47	0	1	50	1.09
458793--458927	28	5.0	27	74	19	104	48	0	2	48	1.19
460886--460934	12	3.9	12	79	15	55	14	2	4	79	0.97
460815--460919	41	2.5	42	81	9	117	16	8	4	70	1.29
463503--463593	18	5.1	17	75	19	78	59	2	3	35	1.26
463696--463730	18	2.1	18	89	10	56	31	20	11	37	1.88
463735--463777	15	2.8	15	85	3	50	32	18	23	25	1.97
463870--463912	22	2.0	22	81	9	52	11	20	39	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470661--470695	2	17.5	2	100	0	70	48	0	0	51	1.00
473048--473101	25	2.1	27	89	6	85	55	3	3	37	1.35
473047--473106	27	2.2	28	82	14	81	55	3	5	36	1.38
474217--474249	17	1.9	17	93	0	57	51	0	3	45	1.16
475565--475677	22	5.6	19	72	13	82	30	14	28	26	1.95
475566--475677	41	2.7	41	80	1	134	31	14	27	26	1.95
475999--476231	59	4.0	59	86	2	317	36	11	21	30	1.89
476005--476230	117	1.9	118	89	4	350	36	11	20	30	1.88
481952--482005	22	2.6	20	83	11	72	29	12	33	24	1.92
482328--482440	59	1.9	59	90	3	183	34	10	22	32	1.88
501075--501147	36	2.0	36	100	0	146	26	19	24	30	1.98
503384--503420	19	1.9	19	88	0	56	48	0	13	37	1.43
505472--505516	24	1.9	23	86	4	63	68	2	2	26	1.12
507873--507915	21	2.0	21	91	8	70	20	11	2	65	1.36
507521--508963	720	2.0	720	97	0	2733	27	19	18	34	1.95
511706--511765	16	3.9	14	83	12	66	78	8	13	0	0.96
511716--511765	15	3.4	14	83	10	64	80	6	14	0	0.90
512386--512439	21	2.5	22	93	3	92	38	27	11	22	1.88
513037--514436	106	13.3	106	92	1	2266	33	25	18	22	1.96
515385--515427	21	2.0	21	91	8	70	20	11	2	65	1.36
516104--516146	21	2.0	21	91	8	70	20	11	2	65	1.36
517534--517591	29	2.0	29	82	0	71	34	25	5	34	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517582--517649	31	2.2	31	91	0	109	25	27	14	32	1.95
521895--522079	45	4.1	45	91	0	273	42	6	19	31	1.77
524882--524954	16	4.6	17	74	19	59	80	0	16	2	0.82
524885--524954	11	6.4	11	84	14	83	81	0	15	2	0.81
527846--528030	45	4.1	45	87	0	246	40	8	20	31	1.81
530022--530068	14	3.4	13	83	13	58	82	2	12	2	0.84
530018--530065	17	2.8	17	87	3	69	83	2	12	2	0.83
532928--533149	45	5.0	45	94	0	356	39	7	20	32	1.80
535381--535458	24	3.2	24	76	7	86	43	17	15	23	1.87
537729--537758	14	2.1	15	93	6	53	20	26	40	13	1.89

Tables:   1   2   3   4   5