genome.fa.s8032.2.7.7.80.10.50.1000.4.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: VEPZ01008032.1 Hibiscus syriacus cultivar Beakdansim tig00110514_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1200719

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 598 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)
763184--763215	2	16.0	2	100	0	64	50	0	0	50	1.00
763526--763555	2	15.5	2	93	6	53	50	0	0	50	1.00
769745--769965	1	221.0	1	70	0	145	85	0	14	0	0.64
769746--769969	7	31.4	7	87	10	314	84	0	14	0	0.64
769746--769969	10	20.9	11	74	22	185	84	0	14	0	0.64
772024--772128	54	1.9	54	96	0	192	36	12	25	25	1.91
786070--786193	59	2.1	59	86	0	176	29	25	16	29	1.96
786674--786750	34	2.3	34	93	0	127	45	7	2	44	1.46
796177--796248	24	3.0	24	95	0	126	34	23	23	18	1.96
813390--813424	13	2.7	13	95	0	61	34	14	20	31	1.92
822587--822656	29	2.3	31	85	9	90	20	15	8	55	1.66
827756--827948	36	5.2	36	68	7	143	29	17	13	40	1.87
827670--828029	75	4.8	75	84	5	410	29	16	12	41	1.85
827670--828030	150	2.4	149	83	6	469	29	16	12	41	1.86
828643--828840	95	2.1	95	81	5	222	34	19	16	29	1.94
833841--834148	154	2.0	154	100	0	616	32	17	20	29	1.95
840740--840949	99	2.1	99	88	3	307	33	15	16	34	1.91
848741--848812	35	2.1	33	85	12	92	15	16	6	61	1.55
851070--851244	85	2.1	85	81	4	210	39	17	16	26	1.90
852189--852290	20	5.0	21	71	16	79	37	4	7	50	1.53
852182--852317	59	2.3	60	80	7	154	37	7	5	49	1.55
852300--852348	25	1.9	26	84	12	66	34	4	2	59	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
860641--860984	55	6.3	54	80	10	351	28	18	18	34	1.95
860665--860989	110	3.0	109	82	5	388	28	18	18	34	1.94
860665--860983	165	1.9	165	89	3	491	28	18	18	34	1.94
861409--861459	20	2.5	21	84	9	70	17	27	17	37	1.93
864012--864053	21	2.0	20	82	13	50	71	11	4	11	1.29
867517--867562	20	2.2	20	88	3	65	2	19	0	78	0.86
867717--867743	4	6.8	4	100	0	54	77	0	22	0	0.76
871470--871541	23	3.5	19	75	17	56	18	27	29	25	1.98
889173--889224	20	2.6	20	84	6	70	32	15	32	19	1.93
889244--889281	19	2.1	19	85	14	53	39	15	18	26	1.91
889727--890006	57	4.9	57	90	2	420	31	14	20	33	1.92
892623--892669	22	2.1	22	96	0	85	27	14	38	19	1.91
901054--901096	20	2.2	20	100	0	86	48	0	20	30	1.50
904684--904726	22	2.0	22	90	0	68	44	2	0	53	1.13
907947--907994	20	2.2	22	85	10	64	62	6	10	20	1.49
909173--909222	3	15.7	3	80	12	55	62	0	0	38	0.96
909175--909220	7	7.0	7	78	11	53	58	0	0	41	0.98
909175--909222	10	4.9	10	80	14	64	60	0	0	39	0.97
909175--909222	13	3.8	12	81	13	60	60	0	0	39	0.97
909176--909222	16	2.9	16	83	3	58	61	0	0	38	0.96
909173--909228	26	2.2	26	87	6	78	60	3	0	35	1.14
910899--910967	33	2.1	33	83	5	86	31	1	36	30	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
913599--913708	57	1.9	56	92	1	184	37	8	24	30	1.84
913795--913893	22	4.5	22	96	0	171	36	9	14	40	1.77
914448--914510	21	3.0	21	69	17	67	23	22	17	36	1.95
914601--914643	20	2.2	20	91	0	68	25	9	23	41	1.84
915279--915316	20	1.9	19	94	5	67	39	0	2	57	1.12
928540--928573	16	2.1	17	88	5	52	41	17	2	38	1.65
929220--929361	21	6.8	21	76	6	135	31	26	17	24	1.97
929220--929361	42	3.4	42	78	0	149	31	26	17	24	1.97
929220--929361	63	2.3	63	92	0	230	31	26	17	24	1.97
929374--929462	21	4.2	21	76	0	88	40	21	12	25	1.88
930204--930402	95	2.1	95	84	1	256	35	15	22	27	1.93
930814--931361	47	11.6	47	87	1	772	42	10	22	23	1.85
930814--931361	95	5.8	93	87	3	747	42	10	22	23	1.85
930923--931097	20	7.7	20	64	24	62	41	10	24	23	1.86
930814--931361	142	3.9	141	88	2	758	42	10	22	23	1.85
931180--931313	20	5.4	27	66	23	98	43	11	24	20	1.85
931275--931390	27	4.5	27	71	15	93	43	11	22	23	1.85
931297--931439	75	1.9	77	88	5	220	44	9	20	25	1.81
932336--932385	25	2.0	25	84	11	66	44	18	4	34	1.68
936007--936064	21	2.8	21	94	0	98	34	31	18	15	1.93
937971--938395	210	2.0	215	97	2	815	32	27	5	35	1.79
940410--940467	21	2.8	21	89	0	80	36	27	15	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
940874--940923	25	2.0	26	84	11	68	44	20	4	32	1.70
941323--941391	30	2.4	29	83	11	88	50	7	11	30	1.65
943444--943479	18	2.0	18	94	0	63	22	30	22	25	1.99
950194--950218	11	2.3	11	100	0	50	32	16	0	52	1.44
950383--950444	29	2.1	29	85	5	81	32	17	8	41	1.79
954919--954947	2	15.0	2	92	7	51	48	0	0	51	1.00
956312--956602	148	2.0	146	98	1	564	23	24	18	32	1.97
961929--961967	21	1.9	20	89	5	60	25	15	20	38	1.92
978619--978670	25	2.1	25	96	0	95	28	21	13	36	1.91
982204--982533	81	4.1	80	88	3	464	30	22	10	36	1.88
982204--982533	161	2.0	162	88	0	482	30	22	10	36	1.88
982886--983031	20	6.7	20	71	17	94	23	23	9	43	1.83
982906--983044	46	3.0	46	91	0	224	23	22	10	43	1.83
983491--983534	19	2.3	19	92	0	70	22	25	20	31	1.98
983556--983607	19	2.7	20	84	3	70	25	28	15	30	1.96
983663--983699	14	2.6	14	91	0	65	29	18	8	43	1.79
986323--986483	80	2.0	81	96	1	297	32	18	12	37	1.88
987183--987289	47	2.3	46	82	4	126	28	16	9	45	1.78
987170--987289	47	2.6	44	79	7	123	26	19	9	45	1.80
987319--987534	87	2.6	87	85	4	282	30	22	10	37	1.87
987869--987902	12	2.8	12	86	4	50	14	17	0	67	1.23
987947--988077	26	5.5	24	66	20	80	22	24	9	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
987915--988151	46	5.2	46	85	3	291	23	23	8	44	1.81
987918--988151	92	2.6	92	87	3	321	23	23	8	44	1.81
988117--988177	29	2.1	29	93	0	104	21	22	8	47	1.77
991567--991594	14	2.0	14	100	0	56	64	0	0	35	0.94
993641--993729	21	4.2	21	89	0	142	30	8	17	42	1.80
993737--993960	96	2.3	96	82	6	235	35	13	23	28	1.92
994302--994672	57	6.5	57	90	0	553	37	10	18	33	1.85
994302--994672	172	2.2	171	91	0	580	37	10	18	33	1.85
994302--994731	114	3.8	112	85	3	491	36	10	19	33	1.85
995348--995445	45	2.2	46	84	1	126	45	6	22	25	1.75
998140--998372	116	2.0	116	100	0	466	40	14	19	24	1.89
998272--998446	96	1.8	96	82	6	228	37	14	23	24	1.93
998731--999324	57	10.4	57	89	1	859	37	9	18	34	1.84
999992--1000088	45	2.2	45	84	0	122	49	6	19	24	1.71
1001266--1001296	16	1.9	16	93	0	53	58	12	0	29	1.35
1004721--1004793	26	2.9	26	88	6	107	36	31	13	17	1.89
1007999--1008101	3	35.7	3	74	14	83	37	2	0	58	1.20
1007999--1008101	11	9.2	11	75	19	81	37	2	0	58	1.20
1008007--1008101	36	2.8	33	84	10	113	37	3	1	57	1.21
1015859--1015919	20	3.0	20	86	9	86	32	14	18	34	1.91
1015854--1015928	22	3.5	22	85	8	84	32	14	17	36	1.90
1016526--1016759	118	2.0	119	88	0	353	33	14	17	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1016909--1017007	3	33.7	3	71	15	64	40	4	0	55	1.19
1016909--1017007	8	12.6	8	75	20	70	40	4	0	55	1.19
1016909--1017005	9	10.1	10	73	21	75	40	4	0	55	1.19
1016930--1017007	14	5.4	14	80	20	81	39	3	0	56	1.18
1016909--1017003	22	4.8	20	77	21	85	40	4	0	55	1.19
1016928--1017005	22	3.4	23	82	12	99	39	3	0	56	1.18
1033790--1033886	21	4.7	20	77	6	68	30	20	19	28	1.97
1033874--1033981	20	5.3	20	76	6	92	33	25	15	25	1.95
1033871--1034008	41	3.4	41	77	2	134	37	23	15	23	1.93
1034643--1034697	25	2.2	24	78	15	58	20	9	18	52	1.71

Tables:   1   2   3   4   5