genome.fa.s2276.2.7.7.80.10.50.1000.3.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: VEPZ01002276.1 Hibiscus syriacus cultivar Beakdansim tig00004630_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  831455

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 539 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)
530242--530289	11	4.3	11	84	5	51	20	4	4	70	1.21
530514--530553	2	20.5	2	94	5	73	50	0	0	50	1.00
531296--531399	37	2.8	37	86	1	147	39	15	14	30	1.87
532147--532186	21	1.9	22	90	10	66	12	10	40	37	1.77
532213--532254	21	2.0	21	95	4	77	28	28	19	23	1.98
532290--532329	21	1.9	21	94	0	71	17	30	42	10	1.82
532365--532424	19	3.1	19	76	9	66	13	26	33	26	1.93
532513--532573	29	2.0	32	90	9	101	44	16	6	32	1.73
534690--534755	33	2.1	30	88	8	96	22	28	16	31	1.96
534968--535007	21	1.9	22	90	10	66	12	10	40	37	1.77
535035--535077	21	2.0	21	91	8	70	30	27	18	23	1.98
535113--535156	21	2.1	21	95	0	79	15	27	43	13	1.85
535190--535252	20	3.1	20	86	4	90	12	26	36	23	1.91
535190--535252	21	3.0	21	88	2	92	12	26	36	23	1.91
535342--535401	29	2.0	31	93	6	106	43	16	6	33	1.74
535811--535861	25	1.9	28	88	11	81	31	0	1	66	1.03
535880--535920	11	3.6	11	87	6	55	24	4	4	65	1.32
536135--536183	2	24.5	2	100	0	98	48	0	0	51	1.00
536502--536553	23	2.3	23	83	6	61	15	3	0	80	0.85
536920--537024	37	2.8	37	86	0	147	40	15	14	29	1.86
537563--537603	21	2.0	21	90	0	64	31	4	0	63	1.15
537626--537670	21	2.1	21	84	8	56	26	0	2	71	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537685--537714	12	2.6	11	94	5	51	23	6	6	63	1.43
537939--537995	2	28.5	2	96	0	105	49	0	1	49	1.11
538243--538322	11	6.9	11	71	14	63	22	2	3	71	1.14
538293--538362	28	2.5	27	73	17	63	17	4	2	75	1.08
538732--538836	37	2.8	37	88	0	156	40	15	14	30	1.87
539313--539382	34	2.1	32	84	5	86	21	30	17	31	1.96
539661--539703	21	2.0	21	95	0	77	27	27	20	23	1.99
539740--539776	19	1.9	19	94	0	65	18	27	40	13	1.88
539816--539876	20	3.0	20	85	4	86	13	27	34	24	1.93
539816--539876	21	3.0	21	87	2	88	13	27	34	24	1.93
539966--540025	29	2.0	31	93	6	106	43	16	6	33	1.74
542181--542250	34	2.1	32	89	5	104	21	31	15	31	1.95
542462--542501	21	1.9	22	90	10	66	12	10	40	37	1.77
542529--542572	21	2.0	22	87	12	65	29	29	18	22	1.97
542608--542651	21	2.1	21	95	0	79	15	27	43	13	1.85
542685--542747	20	3.1	20	86	4	90	12	26	36	23	1.91
542685--542747	21	3.0	21	88	2	92	12	26	36	23	1.91
542837--542896	29	2.0	31	93	6	106	43	16	6	33	1.74
543366--543406	11	3.6	11	87	6	55	24	4	4	65	1.32
543620--543652	2	16.5	2	100	0	66	48	0	0	51	1.00
544396--544500	37	2.8	37	86	0	147	40	15	14	29	1.86
545014--545082	21	3.3	21	80	8	79	23	5	1	69	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545159--545188	12	2.6	11	94	5	51	23	6	6	63	1.43
545334--545392	28	2.0	28	84	12	75	27	3	1	67	1.16
545418--545460	2	21.5	2	100	0	86	48	0	0	51	1.00
546202--546306	37	2.8	37	88	0	156	40	15	14	30	1.87
546784--546853	34	2.1	32	84	5	86	21	30	17	31	1.96
547068--547107	21	1.9	22	90	10	66	12	10	40	37	1.77
547135--547177	21	2.0	21	95	0	77	27	27	20	23	1.99
547213--547256	21	2.1	21	95	0	79	15	27	43	13	1.85
547292--547334	20	2.2	20	91	0	68	11	23	39	25	1.88
547292--547352	21	3.0	21	85	2	79	14	26	34	24	1.94
547442--547501	29	2.0	31	93	6	106	43	16	6	33	1.74
549941--549980	21	1.9	22	90	10	66	12	10	40	37	1.77
550008--550050	21	2.0	21	91	8	70	30	27	18	23	1.98
550086--550128	21	2.1	21	95	4	79	16	27	41	13	1.86
550162--550224	20	3.1	20	86	4	90	12	26	36	23	1.91
550162--550224	21	3.0	21	88	2	92	12	26	36	23	1.91
550314--550373	29	2.0	31	93	6	106	43	16	6	33	1.74
550788--550831	23	2.0	23	82	13	56	31	0	2	65	1.05
550815--550878	9	6.8	9	75	19	51	17	7	1	73	1.14
551097--551142	2	23.5	2	95	4	85	47	0	0	52	1.00
551868--551970	37	2.7	38	87	1	136	39	15	14	30	1.87
552527--552563	11	3.5	11	78	14	51	32	5	0	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
552547--552615	13	5.1	13	72	16	50	28	5	1	63	1.26
552642--552681	12	3.6	11	87	9	55	25	5	5	65	1.34
552642--552701	23	2.6	23	84	7	68	28	3	5	63	1.31
552795--552842	21	2.3	20	83	16	55	27	6	0	66	1.15
552894--552932	2	19.5	2	94	0	69	46	2	0	51	1.14
553658--553762	37	2.8	37	88	0	156	40	15	15	29	1.88
554303--554342	20	2.0	20	85	9	55	27	7	0	65	1.20
554362--554413	25	2.0	28	88	11	83	28	0	1	69	0.99
554431--554471	11	3.6	11	87	6	55	24	4	4	65	1.32
554978--555019	22	2.0	21	90	4	66	14	0	9	76	1.02
555426--555521	37	2.6	37	88	0	138	42	14	12	30	1.83
556137--556188	24	2.3	22	78	21	63	30	0	1	67	1.02
556138--556183	13	3.4	14	82	11	60	32	0	2	65	1.05
556204--556244	11	3.6	11	87	6	55	24	4	4	65	1.32
556764--556837	30	2.5	30	75	16	73	17	4	2	75	1.07
557210--557306	37	2.6	37	88	0	149	40	16	13	29	1.87
557832--557939	52	2.1	49	81	17	132	26	6	1	64	1.28
557911--557954	21	2.1	21	87	8	63	29	0	2	68	1.02
557966--558001	11	3.2	11	92	4	54	19	8	5	66	1.38
558014--558040	2	13.5	2	100	0	54	48	0	0	51	1.00
558115--558182	23	3.4	19	70	20	57	32	2	0	64	1.08
558097--558191	41	2.3	44	75	14	103	27	4	2	66	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558124--558201	23	3.4	23	77	7	68	29	3	1	65	1.18
558115--558201	21	4.1	21	74	21	67	29	3	1	65	1.16
558222--558254	2	16.5	2	100	0	66	48	0	0	51	1.00
558580--558638	24	2.3	26	75	13	61	18	8	3	69	1.28
558979--559075	37	2.6	37	88	0	149	40	16	13	29	1.87
559690--559735	21	2.1	22	84	11	60	28	0	2	69	1.00
559748--559794	11	4.2	11	86	5	58	21	6	4	68	1.30
560003--560043	2	20.5	2	100	0	82	48	0	0	51	1.00
560258--560291	18	1.9	17	88	5	50	29	2	0	67	1.05
560359--560407	25	1.9	26	84	12	66	20	6	2	71	1.18
561533--561573	20	2.0	20	86	9	57	12	21	0	65	1.25
562677--562720	21	2.1	21	86	0	61	31	27	25	15	1.96
563295--563329	18	1.9	18	88	11	54	54	5	17	22	1.64
563563--563614	2	26.0	2	96	0	95	50	1	0	48	1.12
564372--564416	23	2.0	23	86	0	63	20	24	28	26	1.99
567470--567512	20	2.2	20	86	0	59	32	30	20	16	1.95
568345--568370	2	13.0	2	100	0	52	50	0	0	50	1.00
569127--569171	23	2.0	23	86	0	63	20	24	28	26	1.99
571176--571220	21	2.1	21	87	0	63	31	28	24	15	1.96
571801--571835	18	1.9	18	88	0	52	51	5	20	22	1.68
572067--572108	2	21.0	2	95	0	75	50	2	0	47	1.14
572867--572911	23	2.0	23	81	0	54	22	24	26	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573270--573355	12	6.8	12	67	15	57	27	4	0	67	1.10
573318--573360	21	2.0	23	90	9	72	27	0	0	72	0.85
573369--573413	11	4.2	11	86	10	58	20	6	4	68	1.29
573943--574016	30	2.5	30	75	16	73	17	4	2	75	1.07
574389--574482	37	2.6	36	83	5	120	38	17	13	30	1.88
575159--575199	11	3.6	11	87	6	55	24	4	4	65	1.32
575420--575454	2	17.5	2	100	0	70	48	0	0	51	1.00
576184--576280	37	2.6	37	83	0	131	40	15	12	31	1.84
577009--577075	2	33.5	2	96	0	125	49	0	1	49	1.10
577159--577213	21	2.7	20	77	11	58	30	7	0	61	1.23

Tables:   1   2   3   4   5