genome.fa.s8531.2.7.7.80.10.50.1000.5.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: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3817888

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

This is table  5  of  19  ( 2279 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)
919324--919867	134	4.1	133	80	7	586	30	19	18	31	1.96
920222--920284	3	20.0	3	81	12	65	36	0	3	60	1.13
930530--930580	20	2.5	20	81	9	59	39	15	11	33	1.84
930671--930742	20	3.6	20	82	0	81	40	23	9	26	1.85
930685--930748	33	1.9	33	84	6	85	40	20	9	29	1.84
931118--931173	24	2.3	24	84	0	76	37	12	16	33	1.86
939439--939479	17	2.4	17	95	0	73	46	0	7	46	1.30
939449--939546	51	1.9	52	91	2	162	41	5	5	47	1.47
939542--939576	18	2.1	16	89	10	52	40	0	2	57	1.14
940375--940425	20	2.5	20	80	0	66	56	17	15	9	1.65
940414--940445	10	3.2	10	95	0	55	50	21	21	6	1.71
940584--940613	13	2.3	13	94	0	51	40	26	0	33	1.57
941496--941537	21	2.0	21	100	0	84	38	23	14	23	1.92
943345--943554	65	3.3	63	83	11	248	27	18	23	30	1.98
946191--946271	23	3.6	22	76	8	83	25	23	25	24	2.00
946194--946290	44	2.2	44	83	7	117	26	20	25	26	1.99
952674--952731	16	3.7	16	68	21	50	50	17	6	25	1.71
952682--953116	31	14.1	31	91	1	642	49	22	4	24	1.67
953105--953168	32	2.0	32	93	0	110	59	9	0	31	1.29
953151--953187	2	18.5	2	100	0	74	48	0	0	51	1.00
953427--953526	17	5.7	16	72	16	56	13	2	43	42	1.54
953482--953543	6	10.7	6	71	25	53	14	1	48	35	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
953482--953543	17	3.6	16	81	12	70	14	1	48	35	1.54
953681--954010	111	3.0	111	84	7	429	35	5	27	31	1.80
954438--954566	58	2.4	51	86	10	159	42	5	8	43	1.58
954452--954682	58	4.0	58	79	15	262	42	7	7	42	1.60
954440--954808	18	21.2	18	66	18	156	43	5	6	44	1.53
954485--954532	25	1.9	25	86	0	69	41	6	8	43	1.60
954510--954631	65	1.9	65	92	0	208	41	8	8	41	1.64
954510--954633	33	3.8	33	77	6	135	41	8	8	41	1.64
954574--954803	51	4.5	51	76	12	236	44	5	5	44	1.48
954451--954682	116	1.9	120	85	7	321	42	7	7	43	1.60
954658--954808	69	2.2	70	85	4	207	46	3	4	45	1.40
954633--954854	104	2.1	102	78	9	216	45	4	5	44	1.45
954890--954960	20	3.5	19	77	9	70	47	4	5	42	1.46
954951--955157	33	5.8	33	75	19	143	40	7	10	42	1.66
955018--955166	18	8.4	18	67	22	84	41	6	9	42	1.63
955099--955172	33	2.3	32	90	4	114	43	5	8	43	1.57
954931--955217	148	1.9	146	82	8	348	43	6	9	40	1.63
955212--955269	21	2.8	21	75	12	66	44	29	1	24	1.63
955209--955265	14	4.1	14	77	8	62	43	31	1	22	1.64
955268--955325	22	2.5	23	84	13	75	48	3	1	46	1.29
955466--955599	2	67.0	2	83	8	157	45	2	2	50	1.26
955667--956586	211	4.3	210	88	5	1332	29	11	8	50	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
955680--956586	426	2.1	426	91	1	1453	29	11	8	50	1.67
957393--957541	61	2.4	62	81	4	178	19	22	32	25	1.97
957822--957870	15	3.1	15	75	11	53	38	0	0	61	0.96
957807--957878	29	2.4	29	86	6	92	40	0	0	59	0.97
958950--958984	17	2.1	17	89	10	54	42	0	5	51	1.25
959540--959631	42	2.2	42	86	3	132	25	34	19	20	1.96
960053--960089	11	2.9	14	76	23	53	35	0	13	51	1.41
962394--962505	24	4.7	24	83	2	118	43	19	8	27	1.81
967115--967214	24	4.2	24	86	0	119	44	20	11	25	1.84
974351--974383	15	2.3	15	89	5	50	18	3	3	75	1.06
974357--974398	18	2.3	18	88	8	59	14	2	7	76	1.10
975324--975427	31	3.2	31	63	15	75	35	23	19	22	1.96
981798--981861	14	4.6	14	82	0	74	28	17	26	28	1.97
981798--981861	28	2.3	28	86	0	92	28	17	26	28	1.97
983973--984009	20	1.9	19	89	10	58	21	8	16	54	1.68
993039--993083	22	2.0	22	100	0	90	64	8	8	17	1.47
993721--993756	14	2.6	14	90	0	54	27	16	0	55	1.42
1002901--1003010	42	2.6	42	85	2	141	27	16	20	36	1.93
1003156--1003237	42	2.0	42	82	4	103	29	20	18	31	1.96
1003931--1003973	17	2.5	17	92	0	68	44	11	16	27	1.82
1003809--1004096	140	2.1	140	88	0	423	41	15	14	28	1.86
1004153--1004251	41	2.5	39	87	9	130	47	10	23	19	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005697--1005732	14	2.6	14	90	0	54	27	16	0	55	1.42
1005702--1005825	59	2.1	59	82	7	144	25	12	0	62	1.29
1009209--1009301	3	31.0	3	100	0	186	0	33	0	66	0.92
1009462--1009566	3	35.0	3	98	0	201	0	33	0	65	0.99
1009050--1009554	253	2.0	253	99	0	1001	17	22	13	45	1.84
1009892--1009942	7	7.1	7	76	12	50	19	0	35	45	1.51
1010352--1010422	23	3.2	23	62	18	60	43	4	5	46	1.46
1010322--1010454	43	3.1	43	98	1	259	45	6	6	41	1.57
1024277--1024313	19	1.9	19	88	0	56	32	29	13	24	1.93
1024358--1024535	41	4.3	41	91	0	284	36	25	15	22	1.94
1024339--1024513	20	8.6	20	75	13	160	33	26	16	23	1.96
1024378--1024534	21	7.7	20	68	12	86	38	24	15	21	1.92
1024679--1024729	22	2.3	22	93	0	84	21	45	13	19	1.85
1025113--1025240	20	6.8	20	75	11	92	14	17	22	46	1.83
1027118--1027186	20	3.5	20	83	0	93	36	23	21	18	1.95
1027208--1027241	14	2.4	14	90	0	50	47	20	17	14	1.83
1027775--1027840	21	3.1	21	80	8	80	18	33	21	27	1.96
1027775--1027855	42	1.9	42	85	5	110	20	34	19	24	1.96
1029211--1029272	14	4.3	14	79	6	70	38	0	14	46	1.45
1029213--1029267	29	1.9	29	85	3	76	36	0	16	47	1.47
1029202--1029374	79	2.2	77	93	2	292	29	2	15	52	1.58
1029246--1029374	36	3.4	36	69	16	98	28	3	14	53	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029292--1029328	14	2.6	14	100	0	74	29	0	21	48	1.50
1029448--1029525	20	3.9	20	83	6	95	43	25	17	12	1.85
1029448--1029525	40	2.0	40	87	5	113	43	25	17	12	1.85
1029564--1029660	20	4.8	20	90	0	149	28	20	19	30	1.97
1029631--1029913	140	2.0	140	94	0	494	44	14	12	28	1.81
1029971--1030005	18	1.9	18	94	0	61	17	2	25	54	1.57
1033051--1033098	20	2.4	20	96	0	87	22	20	31	25	1.98
1039020--1039190	66	2.6	67	85	2	222	42	13	18	25	1.87
1039300--1039374	37	2.1	35	85	9	100	41	6	18	33	1.77
1039682--1039721	16	2.5	16	95	0	71	22	0	27	50	1.50
1043741--1043890	23	6.4	23	75	7	108	19	22	24	34	1.96
1043741--1043830	47	1.9	47	88	0	135	18	21	25	34	1.96
1043834--1043892	24	2.5	23	81	8	66	20	23	22	33	1.97
1050737--1050803	24	2.9	23	81	2	80	19	17	25	37	1.94
1050796--1050856	23	2.6	23	81	5	77	16	21	22	39	1.92
1053144--1053182	20	1.9	20	89	5	60	48	7	5	38	1.54
1055557--1055611	3	18.3	3	81	7	67	61	0	3	34	1.13
1055553--1055586	12	2.8	12	95	0	59	61	0	0	38	0.96
1056874--1056914	20	2.0	20	90	4	64	46	7	4	41	1.53
1058573--1058605	12	2.6	13	80	9	50	6	12	6	75	1.16
1059300--1059360	3	19.7	3	90	6	95	62	0	1	36	1.05
1060246--1060343	41	2.4	41	81	5	101	23	15	20	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060286--1060383	39	2.4	40	83	5	108	26	11	17	44	1.82
1064021--1064062	17	2.5	17	100	0	84	52	0	19	28	1.46
1064753--1064791	20	2.0	20	85	10	53	41	0	7	51	1.31
1064753--1064800	21	2.3	21	82	10	55	43	0	6	50	1.27
1069187--1069240	17	3.1	17	82	12	56	42	5	1	50	1.36
1069812--1069914	40	2.6	40	84	6	129	29	16	14	39	1.88
1071712--1071806	49	2.0	48	91	2	154	24	13	23	38	1.91
1072906--1072945	21	1.9	21	100	0	80	25	15	5	55	1.60
1074242--1074321	40	2.0	40	95	0	142	46	16	21	16	1.84
1075975--1076016	18	2.4	18	76	4	50	54	4	16	23	1.61

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