genome.fa.s9234.2.7.7.80.10.50.1000.3.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: VEPZ01009234.1 Hibiscus syriacus cultivar Beakdansim tig00112856_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  912649

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 489 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)
490186--490301	60	1.9	60	82	3	144	38	13	12	35	1.82
490842--490927	31	2.8	32	75	8	88	48	10	1	39	1.45
492942--493016	30	2.5	30	91	2	125	36	14	34	14	1.87
493086--493175	42	2.2	40	90	4	135	50	1	0	48	1.08
493125--493175	17	3.1	17	77	11	61	49	0	0	50	1.00
494702--494863	60	2.7	60	83	5	179	35	25	2	36	1.69
497488--497555	31	2.2	31	89	0	100	30	11	10	47	1.74
498050--498116	31	2.2	31	94	2	118	55	2	11	29	1.51
503769--503848	4	21.0	4	87	10	123	23	1	51	23	1.56
508786--508944	60	2.6	58	78	14	162	32	21	4	42	1.73
509065--509238	59	2.9	59	77	5	188	45	4	17	32	1.67
511030--511058	11	2.7	11	94	5	51	6	24	6	62	1.45
516953--516985	15	2.2	15	100	0	66	45	6	15	33	1.70
523298--523322	4	6.2	4	100	0	50	24	0	0	76	0.80
524259--524296	17	2.1	18	85	9	51	42	2	2	52	1.29
530875--530908	17	2.1	16	88	5	50	76	0	8	14	1.01
541105--541138	16	2.2	15	89	5	50	73	0	8	17	1.08
544105--544137	2	16.5	2	100	0	66	48	0	0	51	1.00
544409--544488	31	2.5	31	71	13	83	21	18	20	40	1.92
544723--544748	13	2.0	13	100	0	52	61	0	0	38	0.96
548429--548479	2	25.5	2	100	0	102	50	0	0	49	1.00
565986--566034	18	2.6	19	70	3	55	46	2	4	46	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566605--566656	15	3.2	17	72	22	58	36	21	0	42	1.53
566913--566991	30	2.7	30	92	2	124	50	10	13	25	1.73
571992--572025	16	2.1	17	88	5	52	35	0	0	64	0.94
573777--573811	14	2.5	14	90	0	52	34	0	0	65	0.93
573895--573945	23	2.2	23	82	0	57	45	0	1	52	1.12
573926--574069	54	2.6	51	74	20	123	45	1	0	52	1.14
574117--574161	22	2.0	23	86	4	65	53	0	0	46	1.00
574118--574169	22	2.3	22	83	6	59	53	0	0	46	1.00
574074--574232	52	3.1	51	75	12	130	48	2	1	47	1.23
575719--575792	36	2.0	37	81	2	87	51	4	1	43	1.29
579833--579857	12	2.1	12	100	0	50	44	0	40	16	1.47
583283--583316	18	1.9	17	88	5	50	38	23	32	5	1.79
586970--587050	32	2.6	32	75	14	80	48	2	1	48	1.23
587108--587149	2	21.0	2	100	0	84	50	0	0	50	1.00
592805--592839	2	17.5	2	100	0	70	51	0	0	48	1.00
599484--599540	13	4.3	12	79	14	51	54	0	1	43	1.10
599484--599530	13	3.5	14	78	16	55	55	0	0	44	0.99
599492--599546	13	4.2	13	76	17	51	56	0	1	41	1.10
599492--599531	15	2.8	15	75	24	50	55	0	0	45	0.99
601556--601602	21	2.2	21	92	0	76	65	10	10	12	1.46
602118--602162	23	2.0	23	86	0	63	42	2	0	55	1.12
602173--602202	15	2.0	15	93	0	51	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608325--608370	21	2.1	22	84	4	58	43	0	0	56	0.99
610856--610887	6	5.5	6	92	7	57	18	31	34	15	1.93
610947--611029	40	2.2	36	83	12	96	44	1	3	50	1.27
613016--613105	32	2.8	33	86	6	123	46	3	1	48	1.25
613018--613141	32	3.9	32	80	8	112	47	6	1	44	1.38
613017--613141	64	2.0	64	81	10	150	47	6	1	44	1.38
622207--622236	15	2.0	15	93	0	51	63	0	16	20	1.31
622263--622313	15	3.3	15	73	10	50	70	3	11	13	1.29
622323--622443	13	8.9	13	69	17	52	74	0	4	19	1.05
622324--622385	21	3.0	21	77	13	65	75	1	6	16	1.08
622346--622424	25	3.2	22	72	22	52	73	1	5	20	1.09
622354--622481	21	5.8	21	70	17	55	70	1	3	25	1.11
622381--622460	35	2.4	33	81	10	99	70	0	2	27	1.01
622377--622454	36	2.2	34	86	11	111	70	0	2	26	1.00
622375--622426	19	2.5	20	74	25	54	75	0	1	23	0.91
622366--622452	27	2.9	31	75	19	94	72	1	2	24	1.03
622506--622566	23	2.8	21	74	16	54	67	4	6	21	1.33
622868--622969	34	2.9	36	89	7	172	27	14	13	44	1.83
623516--623970	105	4.3	105	88	1	597	22	19	26	32	1.97
624529--624729	68	3.0	67	80	5	219	36	9	22	31	1.86
624536--624755	65	3.3	67	79	7	189	37	9	21	31	1.85
624705--624985	36	8.0	35	78	12	272	41	13	19	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624653--624959	138	2.2	137	84	2	393	40	12	19	27	1.88
624741--624929	102	1.9	102	89	2	299	41	13	18	26	1.87
624847--625019	36	4.9	35	81	9	163	40	15	20	23	1.91
625007--625122	36	3.2	36	70	3	101	42	14	17	25	1.87
625882--625930	22	2.2	22	96	0	89	26	12	24	36	1.91
626561--626626	23	3.0	23	82	4	73	0	16	6	77	0.96
626575--626618	8	5.7	7	84	12	52	0	15	2	81	0.78
626558--626618	7	8.3	7	74	16	52	0	14	4	80	0.87
626575--626627	16	3.4	16	82	10	65	0	16	3	79	0.88
626562--626627	15	4.3	15	77	7	62	0	15	6	78	0.93
627793--627823	15	2.1	15	93	0	53	58	12	16	12	1.64
630291--630320	15	2.0	15	93	0	51	63	0	16	20	1.31
630407--630505	47	2.1	47	81	10	114	74	1	5	19	1.06
630408--630521	50	2.2	53	79	17	134	76	0	4	18	1.00
630408--630519	21	5.5	19	72	12	71	76	0	4	17	1.00
630465--630593	68	1.9	68	80	6	154	67	1	1	29	1.09
630583--630643	23	2.8	21	74	16	54	67	4	6	21	1.33
630946--631047	34	2.9	36	89	7	172	27	14	13	44	1.83
632114--632193	35	2.3	35	91	0	124	35	0	23	41	1.55
632738--632800	29	2.2	29	88	0	90	47	9	19	23	1.78
633850--633888	20	2.0	20	94	0	69	43	12	17	25	1.85
636218--636262	22	2.0	22	86	8	63	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
637739--637789	3	17.7	3	84	15	72	68	0	0	31	0.90
637739--637789	11	4.5	11	92	7	84	68	0	0	31	0.90
638027--638733	224	3.2	225	86	4	1000	29	19	12	39	1.88
638027--638770	113	6.6	113	82	7	881	29	19	12	38	1.88
638783--638873	35	2.6	34	93	6	157	19	20	9	49	1.77
638818--638875	19	3.2	19	65	25	52	18	24	8	48	1.76
638569--639020	243	1.8	245	91	3	750	26	19	14	40	1.89
638815--639020	112	1.9	108	91	6	342	27	18	15	38	1.91
639808--639997	93	2.0	93	95	0	344	34	21	14	30	1.92
639705--640205	208	2.4	208	96	0	923	32	20	14	32	1.93
639901--640112	115	1.8	115	93	0	370	33	20	13	33	1.92
640016--640585	93	6.1	93	95	0	989	35	20	14	29	1.92
641584--641677	6	15.5	6	77	16	88	0	18	1	80	0.76
641585--641677	8	11.0	8	75	18	66	0	17	1	81	0.75
641585--641673	28	3.2	28	77	13	78	0	16	1	82	0.74
652807--652848	21	2.0	22	85	4	59	54	0	0	45	0.99
654307--654367	3	20.7	3	83	9	72	65	0	0	34	0.93
654294--654367	27	2.8	26	82	13	96	62	0	0	37	0.96
654294--654367	18	4.1	18	76	11	71	62	0	0	37	0.96
658974--659000	12	2.2	12	100	0	54	37	11	37	14	1.82
660310--660356	20	2.3	20	88	0	76	44	19	23	12	1.85
660335--660451	56	2.1	56	87	3	164	42	19	15	22	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
660402--660488	36	2.4	37	90	1	140	43	21	13	20	1.87
660766--660812	20	2.3	20	92	0	76	12	21	21	44	1.85
660724--660869	77	1.9	77	91	0	238	17	19	21	40	1.91
660786--660926	57	2.5	57	97	0	264	19	19	20	41	1.91
662065--662258	20	9.6	20	76	8	76	35	25	19	19	1.95
662065--662258	40	4.8	39	82	3	199	35	25	19	19	1.95
662065--662257	60	3.2	60	83	0	251	35	25	19	19	1.95
662638--662708	33	2.2	33	92	0	115	11	22	18	47	1.80
662829--662883	14	3.6	14	73	21	56	41	23	25	9	1.83
662894--663011	14	7.1	18	67	25	80	10	24	21	44	1.83

Tables:   1   2   3   4   5