genome.fa.s8716.2.7.7.80.10.50.1000.4.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  4  of  24  ( 2813 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)
784234--784277	23	1.9	23	86	9	63	54	0	9	36	1.32
784937--784983	15	3.1	14	76	23	51	38	10	0	51	1.37
791875--791983	28	3.9	28	98	0	209	48	14	0	35	1.50
801925--801971	15	2.9	17	75	18	55	51	4	0	44	1.21
809622--809700	37	2.1	38	86	9	108	48	1	2	48	1.23
812350--812386	2	18.5	2	100	0	74	51	0	0	48	1.00
817912--817951	21	1.9	21	89	0	62	27	27	17	27	1.98
826840--826889	23	2.2	23	82	7	57	52	8	14	26	1.68
828316--828370	18	2.9	19	89	10	87	21	21	10	45	1.82
832412--832443	13	2.4	14	90	10	50	68	0	0	31	0.90
836702--836740	17	2.4	15	84	16	51	43	2	0	53	1.14
837466--837578	35	3.2	34	86	5	154	42	21	0	35	1.59
838636--838747	35	3.2	34	87	2	152	34	0	21	42	1.59
838986--839020	18	1.9	18	88	0	52	42	0	2	54	1.15
840459--840522	24	2.5	24	76	16	58	29	10	20	39	1.87
845580--845758	74	2.4	74	87	6	247	23	19	26	30	1.98
849443--849477	3	11.7	3	100	0	70	68	0	0	31	0.90
852737--852850	35	3.3	34	85	4	147	43	21	0	34	1.58
853908--854019	35	3.2	34	87	2	152	34	0	21	42	1.59
858049--858076	2	14.0	2	100	0	56	50	0	0	50	1.00
858997--859053	28	2.1	26	84	12	71	57	7	0	35	1.26
859276--859337	2	31.0	2	100	0	124	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
874819--874885	23	3.0	23	75	16	77	55	0	1	43	1.09
875487--875656	90	1.9	86	92	4	286	45	5	8	40	1.58
876720--876813	48	2.0	46	93	4	161	45	2	5	46	1.37
876720--876799	24	3.3	24	71	13	83	47	1	6	45	1.36
880748--880830	21	3.8	21	74	16	62	16	24	37	21	1.94
880770--880831	22	2.8	22	82	9	72	19	24	35	20	1.96
891417--891451	14	2.5	14	100	0	70	42	0	5	51	1.25
893780--893815	2	18.0	2	100	0	72	50	0	0	50	1.00
893802--893851	21	2.4	20	80	6	55	36	0	6	58	1.23
898946--898992	21	2.2	21	96	0	85	42	10	19	27	1.84
903595--903635	21	2.0	21	100	0	82	41	14	19	24	1.89
904608--904655	25	2.0	25	84	12	64	29	4	6	60	1.40
906440--906495	31	1.9	27	92	3	67	33	26	17	21	1.96
933368--933413	21	2.1	23	84	8	60	47	0	2	50	1.13
935347--935494	71	2.1	73	94	2	264	39	8	27	24	1.84
937400--937443	21	2.1	21	91	0	70	40	0	0	59	0.98
937529--937570	3	14.0	3	80	9	50	71	0	0	28	0.86
937531--937568	9	4.1	9	89	3	58	73	0	0	26	0.83
960385--960441	22	2.6	22	89	8	82	40	10	22	26	1.86
960969--960996	2	14.0	2	100	0	56	50	0	0	50	1.00
960657--961122	236	2.0	228	92	7	769	44	12	7	35	1.70
961123--961436	158	2.0	156	97	2	594	36	16	10	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
962449--962494	20	2.4	19	81	3	56	50	4	0	45	1.21
963887--963913	2	13.5	2	100	0	54	51	0	0	48	1.00
969588--969620	2	17.0	2	93	6	59	48	0	0	51	1.00
971243--971276	17	2.0	17	88	0	50	32	2	8	55	1.45
972612--972684	35	2.1	35	100	0	146	34	8	34	23	1.84
975604--975683	31	2.6	31	95	0	142	36	10	17	36	1.83
983863--983948	19	4.6	19	79	12	72	38	0	0	61	0.96
983893--983924	16	2.0	16	93	0	55	40	0	0	59	0.97
983845--983946	13	8.0	13	76	13	88	37	0	0	61	1.03
983842--983944	22	4.8	22	73	13	97	36	0	0	62	1.02
985949--986099	51	3.0	51	89	1	223	14	31	30	23	1.94
993315--993414	29	3.4	29	100	0	200	11	34	31	24	1.90
993458--993504	14	3.4	14	84	0	67	10	29	38	21	1.87
995064--995113	16	3.3	16	67	16	52	50	6	8	36	1.57
995051--995114	29	2.2	29	88	5	103	46	6	9	37	1.61
997448--997480	6	5.5	6	100	0	66	0	15	54	30	1.41
1002731--1002767	19	1.9	19	94	0	65	18	13	21	45	1.84
1012777--1012905	63	2.1	61	81	9	154	46	10	4	37	1.60
1016500--1016584	29	2.9	29	80	0	89	20	38	27	14	1.90
1016729--1016785	29	2.0	29	92	0	96	12	33	33	21	1.90
1016769--1016831	27	2.4	27	89	2	92	15	14	46	23	1.83
1018066--1018110	20	2.2	20	84	7	56	28	17	8	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018148--1018189	20	2.1	20	86	0	57	35	21	2	40	1.66
1018350--1018472	60	2.0	60	85	3	167	34	9	15	40	1.80
1024281--1024333	18	2.9	18	91	0	79	22	20	32	24	1.98
1025827--1025872	19	2.4	19	82	13	58	52	13	2	32	1.52
1025827--1025869	20	2.2	20	84	12	54	51	13	2	32	1.54
1030029--1030062	16	2.1	17	88	5	52	52	0	11	35	1.38
1031324--1031362	20	2.0	20	84	0	51	46	7	2	43	1.46
1036687--1036730	16	2.8	16	100	0	88	47	4	29	18	1.68
1037624--1037692	2	35.5	2	94	5	124	50	0	0	49	1.00
1037624--1037704	12	7.9	10	88	10	71	49	1	0	49	1.08
1041438--1041611	60	2.9	59	79	6	163	32	19	4	44	1.69
1053354--1053401	8	5.6	8	80	11	51	43	0	2	54	1.12
1053361--1053401	2	21.0	2	90	5	66	46	0	0	53	1.00
1053426--1053691	37	7.2	37	84	7	285	43	4	6	45	1.50
1053432--1053691	38	7.1	35	82	13	221	43	4	6	45	1.51
1053625--1053684	12	4.8	12	70	22	52	41	5	8	45	1.56
1053669--1053755	31	2.7	32	83	3	122	43	3	5	47	1.44
1053717--1053799	42	2.0	42	90	0	130	44	3	3	48	1.37
1053717--1053829	36	2.9	38	77	13	101	42	3	3	50	1.36
1053818--1053896	7	11.4	7	71	22	60	22	5	0	72	1.04
1053822--1053896	29	2.8	27	74	20	77	22	5	0	72	1.05
1054456--1054521	29	2.2	30	81	8	80	60	18	9	12	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054469--1054531	29	2.2	29	94	0	108	52	25	9	12	1.69
1055177--1055218	15	2.7	15	79	13	50	16	7	2	73	1.15
1055291--1055320	2	15.0	2	100	0	60	50	0	0	50	1.00
1055385--1055410	11	2.4	11	100	0	52	7	15	0	76	0.99
1055392--1055460	26	2.8	24	79	14	68	10	4	8	76	1.13
1055453--1055513	19	3.4	18	79	14	65	18	8	3	70	1.26
1062773--1062936	84	1.9	85	85	1	222	35	14	12	37	1.84
1069564--1069694	69	1.9	69	85	3	183	5	45	10	38	1.62
1069684--1069796	33	3.2	33	74	13	102	3	50	0	46	1.18
1069836--1069958	57	2.2	57	92	0	201	8	39	20	31	1.82
1070769--1070857	33	2.7	33	92	0	142	24	31	29	14	1.95
1070773--1070923	80	1.9	80	86	2	214	23	29	33	13	1.92
1070931--1070991	29	2.1	29	96	0	113	21	27	36	14	1.93
1070949--1071029	42	1.9	42	90	5	128	23	29	33	13	1.93
1073234--1073289	29	1.9	29	82	13	71	33	3	7	55	1.45
1075494--1075541	14	3.4	14	77	5	60	22	18	0	58	1.39
1075492--1075540	15	3.3	15	77	5	64	22	18	0	59	1.38
1086656--1086729	31	2.4	31	83	0	103	20	24	16	39	1.92
1088222--1088269	22	2.2	22	85	10	64	10	18	12	58	1.62
1088768--1088980	43	5.0	43	78	8	195	28	16	5	49	1.69
1088751--1088977	86	2.7	84	78	10	237	27	18	5	48	1.69
1091295--1091326	14	2.3	14	94	0	55	25	37	31	6	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091388--1091493	29	3.7	29	96	0	194	24	25	33	16	1.95
1092021--1092055	2	17.5	2	100	0	70	51	0	0	48	1.00
1092542--1092584	21	2.0	21	90	0	68	58	9	0	32	1.30
1092595--1092621	2	13.5	2	100	0	54	51	0	0	48	1.00
1092669--1092712	23	1.9	22	86	9	61	54	18	0	27	1.44
1093392--1093437	22	2.1	22	96	4	85	36	0	0	63	0.95
1102314--1102393	37	2.2	35	83	14	101	27	10	7	55	1.60
1106002--1106100	48	2.1	48	100	0	198	45	2	4	48	1.32
1120208--1120289	31	2.6	31	78	3	94	50	13	2	34	1.55
1120564--1120592	11	2.5	12	94	5	51	51	6	0	41	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24