genome.fa.s3806.2.7.7.80.10.50.1000.3.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: VEPZ01003806.1 Hibiscus syriacus cultivar Beakdansim tig00008146_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1419252

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 791 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)
456258--456348	31	2.9	31	80	6	112	31	21	20	25	1.98
460476--460571	31	3.1	29	82	8	102	34	25	16	23	1.95
461392--461446	21	2.5	22	82	8	69	27	20	18	34	1.95
464739--464788	24	2.1	24	88	7	75	58	14	2	26	1.47
465917--465943	9	3.0	9	100	0	54	0	11	0	88	0.50
465915--465959	18	2.5	18	82	10	56	6	13	0	80	0.91
465918--465959	9	4.8	9	85	5	50	4	11	0	83	0.79
468871--468899	3	9.7	3	100	0	58	31	0	0	68	0.89
469207--469576	184	2.0	185	98	0	715	41	12	21	24	1.88
470704--470739	14	2.6	14	100	0	72	41	8	5	44	1.58
470855--470898	2	22.0	2	100	0	88	50	0	0	50	1.00
473352--473401	24	2.1	24	88	7	75	58	14	2	26	1.47
483069--483299	108	2.1	107	81	4	277	51	16	13	18	1.76
484219--484255	18	2.1	18	94	0	65	13	0	37	48	1.43
485496--485555	19	3.2	19	78	0	66	48	15	18	18	1.81
487170--487213	21	2.1	21	82	0	52	36	25	20	18	1.95
488065--488650	135	4.4	135	86	2	804	29	19	16	35	1.93
488041--488636	268	2.2	268	85	3	811	28	19	16	35	1.93
489995--490107	54	2.1	54	85	3	147	39	20	10	29	1.86
493380--493419	21	1.9	21	90	10	64	37	12	15	35	1.85
496009--496062	18	2.9	19	79	17	53	25	7	0	66	1.17
498928--498954	11	2.5	11	100	0	54	18	0	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501590--501632	18	2.4	18	88	7	61	25	9	0	65	1.22
504954--505011	18	3.2	18	97	0	107	10	0	37	51	1.36
504963--505031	18	3.3	23	82	11	69	7	1	42	49	1.39
504960--505062	40	2.5	40	87	1	143	9	1	39	48	1.47
511356--511388	2	17.0	2	93	6	59	51	0	0	48	1.00
516464--516496	17	1.9	17	93	0	57	36	15	15	33	1.88
521544--521613	25	2.7	25	75	18	63	68	2	1	27	1.12
521542--521617	26	3.0	25	75	19	70	68	2	1	27	1.11
523059--523169	3	37.0	3	76	3	98	61	0	0	36	1.09
523061--523163	21	4.9	21	84	5	120	60	0	0	37	1.10
523410--523505	39	2.5	39	92	0	156	20	22	9	46	1.79
523427--523500	22	3.6	22	71	17	77	18	24	9	47	1.78
523575--523856	123	2.3	123	88	1	415	26	19	15	38	1.91
523835--524305	114	4.1	114	95	0	847	29	17	12	39	1.87
531380--531421	22	1.9	22	85	0	57	54	4	11	28	1.57
533019--533057	20	2.0	20	85	10	53	71	2	2	23	1.10
533011--533097	21	3.6	25	73	17	69	64	3	4	27	1.29
533042--533112	28	2.6	26	73	6	61	63	2	2	30	1.23
533726--533779	20	2.8	19	76	21	58	55	0	1	42	1.10
535553--535663	3	37.0	3	74	3	80	60	1	0	36	1.14
535579--535654	21	3.6	21	87	0	98	59	2	1	36	1.20
536585--536691	39	2.8	39	88	4	146	42	23	5	28	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537883--537990	32	3.4	32	66	23	91	20	25	27	25	1.99
537844--537993	64	2.3	64	93	0	264	18	26	28	26	1.98
541653--541702	22	2.5	19	76	17	55	42	2	10	46	1.49
541660--541730	22	3.1	21	77	15	70	45	1	8	45	1.42
541680--541731	14	3.9	14	75	14	56	48	1	7	42	1.43
541668--541800	11	11.1	11	66	26	51	42	3	9	44	1.52
542024--542090	35	1.9	35	87	6	100	43	1	7	47	1.40
542040--542090	21	2.4	22	83	3	68	45	0	7	47	1.32
542062--542138	14	5.8	14	77	21	67	42	1	15	40	1.55
542027--542161	14	10.7	11	73	23	51	42	2	11	43	1.52
542062--542115	25	2.2	25	83	6	65	42	0	16	40	1.48
542112--542170	13	4.5	13	71	23	52	42	6	8	42	1.61
542084--542161	28	2.8	28	81	14	83	43	2	12	41	1.56
541548--542250	361	1.9	360	89	4	1085	40	6	8	44	1.62
542269--542345	23	3.5	22	70	13	61	51	5	3	38	1.42
542258--542345	42	2.1	43	89	2	133	51	6	3	38	1.46
542288--542348	19	3.0	20	68	15	52	57	4	4	32	1.41
542267--542355	42	2.1	42	87	4	126	53	4	3	38	1.38
545104--545141	20	1.9	20	100	0	76	21	15	31	31	1.94
546289--546469	82	2.2	79	89	3	272	31	33	17	17	1.94
546446--546510	32	2.2	29	84	13	80	41	29	18	10	1.84
547326--547381	28	2.0	28	86	6	78	35	14	14	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547860--547896	18	2.0	20	84	10	51	45	2	0	51	1.15
548527--548571	23	2.0	23	90	0	72	40	8	17	33	1.81
548486--548648	87	1.9	87	96	0	299	41	12	13	32	1.81
551875--552367	251	2.0	252	85	6	678	31	17	14	37	1.89
555819--555884	33	2.0	33	88	5	98	24	45	0	30	1.53
555918--555961	21	2.1	21	91	0	70	15	31	11	40	1.83
557937--558012	21	3.6	21	89	0	116	19	11	21	47	1.81
558105--558150	20	2.3	19	78	10	56	19	15	10	54	1.70
558079--558304	123	1.8	123	86	3	330	24	15	15	43	1.86
558540--558627	29	3.0	29	93	0	158	38	20	13	27	1.90
559159--559190	12	2.7	12	95	0	55	71	0	0	28	0.86
561634--561928	116	2.5	116	90	1	446	31	3	11	54	1.52
561938--562424	109	4.4	111	75	13	448	29	3	11	55	1.51
561717--562424	331	2.2	331	90	4	1103	30	2	11	55	1.49
563555--563613	21	2.8	21	85	10	68	32	0	3	64	1.10
564495--564538	23	1.9	23	90	0	70	47	9	4	38	1.56
564568--564640	27	2.7	27	97	0	137	42	16	1	39	1.57
564495--564655	90	1.8	86	88	5	232	45	16	2	35	1.60
566422--566476	20	2.6	22	71	23	55	18	3	20	58	1.54
570292--570319	11	2.5	11	100	0	56	50	0	0	50	1.00
574523--574561	16	2.4	16	91	4	60	46	2	7	43	1.46
574590--574730	47	3.0	47	87	5	189	41	9	5	43	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574858--574889	17	1.9	17	93	6	57	53	0	6	40	1.26
575313--575388	28	2.7	28	85	0	107	42	9	6	42	1.63
575677--575823	39	3.8	39	83	7	176	21	25	25	27	1.99
576482--576541	22	2.8	22	80	12	70	38	1	6	53	1.37
576482--576535	7	7.4	7	78	14	56	38	1	5	53	1.35
579293--579541	109	2.3	109	80	6	265	20	15	15	48	1.80
584024--584064	3	13.7	3	100	0	82	68	0	0	31	0.90
584060--584085	4	6.5	4	100	0	52	76	0	0	23	0.78
584281--584357	40	1.9	41	86	2	111	28	14	20	36	1.92
584311--585136	134	6.2	134	85	1	1013	32	20	18	27	1.97
585640--585774	50	2.7	51	80	3	157	40	17	14	27	1.88
585745--586258	45	11.5	44	81	4	552	41	19	17	21	1.91
586276--586600	38	8.6	38	84	3	397	38	17	18	25	1.92
586276--586596	113	2.8	114	80	5	382	38	17	18	25	1.92
586275--586590	151	2.1	151	83	4	404	39	16	18	25	1.91
588085--588138	27	2.0	27	89	7	83	11	7	0	81	0.87
588085--588189	9	11.2	9	74	9	68	6	15	0	77	1.03
588113--588168	21	2.7	20	74	15	60	5	16	1	76	1.05
588120--588166	22	2.2	22	85	7	62	6	19	2	72	1.17
592552--592583	14	2.3	14	94	0	55	28	9	0	62	1.26
596028--596090	11	5.8	11	80	14	69	82	0	15	1	0.74
596027--596090	17	3.9	17	78	15	73	82	0	15	1	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596022--596090	31	2.2	32	82	12	90	82	0	15	1	0.74
597136--597720	140	4.3	140	83	6	739	35	15	21	27	1.94
598385--598981	140	4.3	140	86	2	813	35	15	21	27	1.93
600447--600501	17	3.4	16	83	14	60	18	1	0	80	0.81
612531--612555	13	1.9	13	100	0	50	24	28	32	16	1.96
612531--612559	7	4.3	7	91	8	51	24	27	34	13	1.93
612543--612598	24	2.3	24	96	0	103	26	30	33	8	1.87
616592--616722	65	2.1	62	87	7	183	31	2	10	55	1.46
617397--617439	16	2.8	15	82	6	50	32	0	0	67	0.91
620983--621142	85	1.9	85	85	5	225	31	1	11	55	1.44

Tables:   1   2   3   4   5   6   7