genome.fa.s5466.2.7.7.80.10.50.1000.4.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: VEPZ01005466.1 Hibiscus syriacus cultivar Beakdansim tig00012523_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1151987

Tables:   1   2   3   4   

This is table  4  of  4  ( 456 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)
870509--870591	40	2.0	41	86	6	116	33	0	3	62	1.12
870539--870563	6	4.2	6	100	0	50	16	0	0	84	0.63
871117--871186	21	3.3	20	90	5	95	18	27	35	18	1.94
871190--871237	21	2.3	21	85	0	60	22	12	39	25	1.89
872965--873039	31	2.4	33	77	11	84	60	1	0	38	1.06
872962--873041	34	2.5	31	83	8	97	61	1	0	37	1.04
873489--873540	27	1.9	27	100	0	104	34	15	30	19	1.93
883887--883917	2	15.5	2	100	0	62	51	0	48	0	1.00
884398--884442	20	2.3	19	81	7	63	26	4	8	60	1.46
885113--885168	24	2.3	23	84	6	67	23	8	1	66	1.30
886717--886766	3	16.7	3	100	0	100	34	0	0	66	0.92
887776--887817	14	3.0	14	92	0	75	21	40	28	9	1.84
887804--887903	33	3.2	32	83	5	114	29	30	32	9	1.88
887822--887903	10	7.7	10	71	12	56	29	29	32	8	1.87
887963--888022	23	2.6	23	84	5	77	10	38	28	23	1.87
888010--888066	10	5.7	10	76	15	64	10	24	36	28	1.88
888010--888067	20	2.9	20	92	0	98	10	25	36	27	1.89
888106--888163	29	2.0	29	89	0	89	24	25	36	13	1.92
901368--901530	30	5.4	30	94	0	281	33	22	19	24	1.97
901368--901555	90	2.1	91	88	1	279	34	23	18	23	1.96
901516--901608	31	3.0	31	79	3	98	34	21	17	26	1.95
901783--901811	4	7.2	4	100	0	58	48	24	0	27	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
902640--902716	20	3.7	20	79	14	75	24	24	23	27	2.00
905141--905195	19	2.8	19	81	10	67	40	12	16	30	1.86
905801--905869	36	1.9	35	88	8	104	40	5	23	30	1.78
905834--905878	15	3.1	15	74	6	56	42	4	20	33	1.72
906036--906134	49	2.0	50	80	9	114	48	3	0	48	1.17
906113--906180	28	2.2	32	85	10	90	47	0	4	48	1.22
906221--906265	23	2.0	23	90	0	72	44	0	2	53	1.13
906275--906332	27	2.1	27	87	9	82	50	1	0	48	1.11
906275--906371	30	3.3	30	76	15	80	50	3	0	46	1.17
906376--906425	14	3.3	15	86	11	66	46	0	0	54	1.00
906385--906428	22	2.0	23	86	4	63	50	0	0	50	1.00
906354--906425	14	4.2	17	74	25	62	43	0	1	55	1.08
907579--907767	93	2.0	92	97	1	360	27	17	18	35	1.94
909623--909716	33	2.8	33	81	0	125	28	30	12	27	1.93
909888--910141	27	9.0	27	78	9	193	27	15	30	26	1.96
909915--910178	113	2.3	115	83	6	318	28	15	29	26	1.96
934045--934097	20	2.7	20	88	2	81	16	18	32	32	1.94
936223--936290	23	3.0	22	82	6	91	26	25	27	20	1.99
936306--936511	101	2.1	97	87	8	290	36	23	14	26	1.92
939769--939799	15	2.1	15	100	0	62	32	6	6	54	1.51
940060--940202	36	3.9	36	85	6	182	49	14	5	30	1.66
940572--940635	28	2.3	28	89	2	94	39	12	15	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
948894--948926	17	1.9	17	93	0	57	45	12	9	33	1.73
952424--952457	16	2.1	17	94	5	61	35	11	23	29	1.90
978874--978930	3	19.0	3	100	0	114	66	0	33	0	0.92
984479--984553	19	3.9	19	77	18	75	69	0	5	25	1.09
984486--984556	28	2.5	27	76	17	81	70	0	5	23	1.08
985329--985406	23	3.3	23	80	1	84	33	23	19	24	1.97
985416--985630	103	2.1	103	95	0	385	36	23	13	26	1.91
986607--986663	21	2.7	21	94	0	96	28	19	22	29	1.98
988811--988855	2	22.5	2	100	0	90	51	0	0	48	1.00
991228--991305	23	3.3	23	81	1	84	34	21	17	25	1.96
991312--991529	103	2.1	103	94	0	382	36	22	13	27	1.92
992507--992562	21	2.7	21	91	0	94	26	19	23	30	1.98
993929--993968	20	2.0	20	85	9	55	55	15	0	30	1.41
993953--994011	24	2.5	24	77	0	64	61	11	1	25	1.40
993901--994177	84	3.4	81	78	12	277	56	13	1	28	1.46
1007279--1007305	14	1.9	14	100	0	54	44	14	7	33	1.73
1011906--1011953	24	2.0	24	100	0	96	20	12	29	37	1.90
1014148--1014206	31	1.9	31	86	6	84	47	3	18	30	1.65
1015719--1015775	30	1.9	30	85	7	80	47	14	10	28	1.76
1015719--1015786	30	2.3	30	82	5	75	44	13	11	30	1.79
1016535--1016623	44	2.0	44	97	0	169	67	0	22	10	1.20
1016857--1016882	3	8.7	3	100	0	52	65	0	34	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021569--1021623	27	2.0	27	100	0	110	36	21	10	30	1.88
1025141--1025454	103	3.1	103	95	0	560	26	13	23	36	1.92
1025471--1025538	23	3.0	23	88	0	91	20	29	25	25	1.99
1025860--1025919	20	2.9	21	81	15	72	30	0	26	43	1.55
1033930--1033954	8	3.1	8	100	0	50	0	0	52	48	1.00
1034028--1034065	20	1.9	20	88	0	58	13	26	36	23	1.91
1040151--1040344	103	1.9	103	96	0	361	26	13	23	36	1.92
1040361--1040405	23	2.0	23	100	0	90	17	33	26	22	1.96
1040727--1040786	20	2.9	21	81	15	72	30	0	26	43	1.55
1045904--1046127	113	2.0	113	97	0	421	32	21	13	32	1.92
1050495--1050582	39	2.3	37	80	9	97	53	2	1	43	1.20
1050506--1050558	18	2.9	18	68	2	52	47	3	0	49	1.19
1055348--1055714	182	2.0	184	98	1	720	34	16	16	32	1.92
1074619--1074694	39	1.9	39	86	0	107	18	22	26	32	1.97
1076977--1077047	18	3.8	18	80	7	79	23	16	28	30	1.97
1083471--1083539	18	3.8	17	71	16	57	21	17	27	33	1.96
1083487--1083544	18	3.1	19	75	9	64	25	17	25	31	1.97
1083471--1083544	38	1.9	38	86	0	103	24	17	27	31	1.97
1084576--1084629	23	2.3	23	87	0	72	35	22	16	25	1.95
1084592--1084650	23	2.7	21	79	7	57	35	23	16	23	1.95
1084659--1084870	100	2.1	100	93	1	363	37	24	14	24	1.92
1089526--1089574	21	2.3	21	82	0	62	71	0	8	20	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1097943--1097976	16	2.1	16	94	0	59	32	26	8	32	1.87
1112948--1112982	18	1.9	18	94	0	61	34	14	11	40	1.82
1121172--1121262	47	1.9	47	88	0	137	24	28	24	23	1.99
1123954--1123982	4	7.2	4	100	0	58	75	0	0	24	0.80
1134993--1135213	110	2.0	110	96	0	406	38	10	23	27	1.88
1138858--1139521	6	104.8	6	93	5	979	0	31	52	16	1.45
1138858--1139521	37	17.5	37	93	6	995	0	31	52	16	1.45
1139498--1151092	7	1692.4	7	94	5	13808	14	7	42	35	1.73

Tables:   1   2   3   4

The End!