genome.fa.s8136.2.7.7.80.10.50.1000.4.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: VEPZ01008136.1 Hibiscus syriacus cultivar Beakdansim tig00110691_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1585607

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1001 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)
589929--590094	51	3.1	51	65	18	120	38	10	2	48	1.50
589926--590277	118	3.0	116	83	9	420	38	9	3	48	1.54
590432--590802	123	3.0	120	80	8	433	37	10	5	46	1.62
597724--597753	13	2.3	13	94	0	51	43	6	20	30	1.77
598301--598361	18	3.4	18	70	17	63	13	42	21	22	1.87
598294--598365	36	2.0	36	100	0	144	13	41	22	22	1.89
598947--598994	20	2.4	20	82	0	60	33	16	10	39	1.83
598947--598996	10	5.0	10	81	13	50	34	16	10	40	1.81
599265--599310	18	2.6	18	82	0	56	67	0	6	26	1.15
599270--599297	14	2.0	14	100	0	56	71	0	7	21	1.09
599339--599562	5	44.8	5	96	0	394	40	16	0	42	1.49
604092--604134	21	2.0	21	100	0	86	67	27	0	4	1.10
604792--604856	3	21.0	3	76	17	62	3	27	0	69	1.03
604793--604886	14	7.0	13	77	17	86	3	27	0	69	1.04
604819--604885	18	3.7	18	73	11	57	2	26	0	70	1.02
604793--604885	40	2.3	40	87	9	127	3	27	0	68	1.04
606360--606415	23	2.4	23	84	0	76	19	44	19	16	1.87
624042--624075	2	17.0	2	100	0	68	50	0	0	50	1.00
626053--626112	30	2.0	30	96	0	111	28	21	6	43	1.78
630395--631174	138	5.6	137	84	5	945	23	21	23	31	1.98
630829--631116	148	2.0	147	87	0	362	24	22	22	29	1.99
631254--631312	29	2.0	29	96	0	109	49	6	8	35	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631632--631704	34	2.1	34	97	0	137	35	5	6	52	1.52
632295--632376	42	2.0	42	82	4	103	26	19	30	23	1.98
634100--634155	25	2.2	25	74	0	58	57	0	0	42	0.99
634362--634492	60	2.2	61	88	4	194	21	38	25	14	1.91
640651--640693	20	2.2	20	86	0	59	32	13	18	34	1.90
642226--642266	22	2.0	22	90	9	68	31	29	2	36	1.71
655438--655494	19	3.0	19	89	0	87	38	26	3	31	1.73
659090--659134	18	2.5	18	92	0	72	51	15	24	8	1.72
659886--659919	17	2.0	17	94	0	59	29	20	29	20	1.98
663730--663767	13	3.1	13	81	14	53	28	7	7	55	1.57
663730--663762	11	2.8	12	90	9	50	33	9	6	51	1.58
665163--665228	23	2.9	24	76	12	59	18	0	25	56	1.42
669721--669758	19	2.0	19	94	0	67	36	28	5	28	1.79
671120--671158	15	2.6	15	87	0	51	61	2	0	35	1.10
671291--671336	24	1.9	24	86	0	65	45	4	6	43	1.49
672612--672651	19	2.1	19	100	0	80	50	20	5	25	1.68
678554--678586	17	2.0	17	94	5	59	54	0	0	45	0.99
679140--679166	13	2.1	13	100	0	54	22	25	14	37	1.93
683311--683335	13	1.9	13	100	0	50	44	16	16	24	1.86
683696--683739	23	1.9	23	95	0	79	43	0	9	47	1.35
683700--683750	23	2.2	23	85	0	66	49	1	9	39	1.47
683777--683826	2	26.5	2	84	11	70	44	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
683770--683837	12	6.8	10	79	18	63	41	0	1	57	1.08
683774--683847	23	3.0	23	80	14	85	37	0	2	59	1.12
683833--683868	9	3.8	9	92	7	54	13	0	2	83	0.76
685024--685068	10	4.4	10	88	5	63	15	2	0	82	0.77
685030--685063	16	2.1	17	94	5	61	17	0	0	82	0.67
685029--685076	21	2.2	22	77	3	53	22	2	2	72	1.05
685283--685316	12	2.8	12	95	0	59	35	0	2	61	1.11
686674--686753	40	2.0	40	95	0	142	38	17	25	18	1.92
687896--688074	99	1.8	99	87	4	272	32	17	18	31	1.95
689388--690045	85	7.7	85	89	0	949	36	19	18	25	1.94
689388--690045	256	2.6	254	88	0	992	36	19	18	25	1.94
689896--690184	139	2.1	141	90	1	456	34	20	19	25	1.96
689981--690097	54	2.1	56	93	3	202	34	22	18	24	1.96
689810--690265	224	2.0	226	90	2	720	35	21	18	25	1.96
690039--690265	85	2.7	85	88	1	332	34	21	17	26	1.95
690846--691272	37	11.6	36	76	14	247	44	2	7	45	1.45
691087--691195	34	3.3	31	82	7	76	44	0	7	46	1.37
691106--691272	35	4.8	33	85	5	199	44	3	7	44	1.48
691131--691195	21	3.5	21	65	30	65	44	1	7	46	1.41
690904--691266	80	4.9	70	78	15	245	46	2	6	44	1.42
691285--691333	15	3.7	13	77	22	57	38	0	4	57	1.18
694931--695285	182	2.0	182	92	1	595	27	14	19	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
696711--696766	24	2.4	23	76	5	60	50	1	5	42	1.35
696675--696828	76	2.0	79	86	7	217	53	5	7	34	1.51
696852--697007	77	2.0	80	80	8	178	46	9	8	35	1.68
698410--698543	32	4.1	32	75	18	118	20	3	1	73	1.06
698463--698535	13	6.0	12	75	15	53	24	4	0	71	1.04
698464--698521	24	2.4	24	85	8	73	25	3	0	70	1.03
698422--698543	10	11.4	10	71	18	63	22	4	0	72	1.06
701498--701576	12	6.6	11	81	11	68	81	2	16	0	0.81
701503--701589	7	12.6	7	76	10	72	80	2	16	1	0.88
701503--701589	20	4.2	20	77	13	77	80	2	16	1	0.88
701509--701599	43	2.1	43	82	8	105	79	3	16	1	0.93
702200--702250	22	2.3	22	96	0	93	35	27	11	25	1.91
702995--704253	106	11.9	106	95	0	2234	33	24	18	23	1.97
704211--704666	252	1.8	251	79	6	528	32	23	19	25	1.98
706089--706221	32	4.1	31	75	20	114	21	3	1	72	1.08
706143--706197	24	2.3	24	79	20	62	27	3	0	69	1.05
706101--706221	10	11.4	10	72	17	61	23	4	0	71	1.08
708324--708443	42	2.9	42	86	1	161	20	15	15	49	1.80
708614--708694	22	3.5	22	71	15	65	51	1	1	45	1.16
708774--708818	23	2.0	23	86	0	63	53	2	4	40	1.33
709438--709466	14	2.0	15	93	6	51	51	0	0	48	1.00
709462--709492	3	10.3	3	92	0	53	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
713820--713929	48	2.3	48	98	0	211	40	11	13	34	1.81
714189--714244	27	2.1	27	100	0	112	57	10	10	21	1.63
714636--714707	37	1.9	37	91	0	117	50	25	8	16	1.73
718835--718873	15	2.6	14	84	11	51	30	0	7	61	1.24
719329--719364	2	18.0	2	100	0	72	50	0	0	50	1.00
720336--720398	18	3.3	18	79	14	72	47	0	3	49	1.17
721924--722008	32	2.8	29	80	13	100	22	32	12	31	1.92
722110--722163	22	2.5	22	79	11	58	24	9	5	61	1.48
723450--723544	39	2.4	40	80	3	104	35	25	18	20	1.95
723509--723636	39	3.3	39	82	10	149	30	21	30	17	1.96
723444--723633	78	2.4	77	79	6	186	32	22	25	19	1.98
724941--725002	29	2.1	30	85	5	83	38	17	9	33	1.83
730428--730560	39	3.4	39	82	2	133	30	24	24	20	1.98
731339--731371	14	2.4	14	94	0	57	27	9	30	33	1.88
737239--737307	24	2.9	24	82	0	84	52	15	11	20	1.74
743840--743883	2	22.5	2	95	4	81	52	0	0	47	1.00
748009--748059	25	2.0	25	88	7	77	56	0	0	43	0.99
749073--749102	2	14.5	2	93	6	51	46	0	3	50	1.18
749207--749284	25	3.1	25	88	0	111	25	14	15	44	1.84
752352--752405	21	2.8	18	81	15	56	62	3	3	29	1.29
752356--752406	18	2.6	19	79	11	59	62	3	3	29	1.31
752385--752467	29	2.6	33	74	18	84	67	7	2	22	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
752666--752714	23	2.1	24	81	11	57	57	0	8	34	1.29
753188--753284	37	2.6	37	88	0	149	31	12	15	40	1.84
753933--755401	106	14.0	106	88	3	2059	23	18	24	33	1.96
756207--756283	22	3.5	22	90	0	127	22	14	25	37	1.92
756678--757024	172	2.0	173	90	3	556	25	17	20	36	1.94
757071--757129	17	3.7	15	75	22	50	1	13	6	77	1.03
761695--761724	4	7.2	4	92	7	51	73	0	3	23	0.98
761722--761759	2	19.5	2	94	5	69	50	0	0	50	1.00
762034--762066	15	2.2	15	89	10	50	63	0	3	33	1.10
762076--762124	23	2.1	24	81	11	57	57	0	8	34	1.29

Tables:   1   2   3   4   5   6   7   8   9