genome.fa.s9580.2.7.7.80.10.50.1000.4.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: VEPZ01009580.1 Hibiscus syriacus cultivar Beakdansim tig00116954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1633873

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 709 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)
702903--703044	53	2.7	53	89	2	198	21	26	22	28	1.99
702898--703044	51	2.8	51	87	2	195	21	26	22	29	1.99
703416--703686	114	2.3	118	84	8	342	29	21	18	30	1.97
703527--703607	42	1.9	42	94	0	144	30	20	22	25	1.98
703537--703600	20	3.0	21	70	17	69	31	25	18	25	1.98
703596--703779	93	2.0	93	95	0	332	28	22	17	32	1.96
703743--703822	41	2.0	41	92	0	133	31	22	21	25	1.98
703760--703822	19	3.1	20	70	20	67	28	23	23	23	2.00
703646--704083	134	3.3	135	89	4	689	28	22	18	29	1.98
703752--703814	22	3.0	21	68	21	60	31	25	19	23	1.98
703810--703834	13	1.9	13	100	0	50	24	20	24	32	1.98
704016--704074	19	3.1	19	72	13	66	28	25	18	27	1.98
704024--704119	20	4.7	21	76	15	112	29	25	20	25	1.99
704967--705000	17	1.9	18	94	5	61	11	11	29	47	1.76
713720--714061	170	2.0	173	94	5	604	32	19	16	31	1.94
717241--717267	14	1.9	14	100	0	54	7	48	14	29	1.71
729627--730323	352	2.0	346	97	2	1326	30	19	18	31	1.96
730631--730659	2	14.5	2	100	0	58	48	0	0	51	1.00
733099--733189	31	3.0	29	82	9	92	43	5	7	42	1.56
746978--747021	22	2.0	23	81	4	54	59	2	2	36	1.23
758404--758445	14	2.9	15	85	3	59	35	4	11	47	1.61
758685--758748	31	2.1	31	88	5	94	31	7	18	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
761611--761659	27	1.9	26	84	12	66	24	16	14	44	1.84
767888--767972	38	2.2	38	93	0	143	31	11	9	47	1.72
768200--768276	35	2.2	35	92	0	127	49	12	7	29	1.69
772477--772735	88	3.0	85	87	4	367	31	16	21	30	1.96
792484--793575	105	10.4	105	94	0	1815	33	25	18	22	1.97
795339--795363	2	12.5	2	100	0	50	48	0	0	52	1.00
795362--795411	22	2.3	21	79	3	55	20	8	0	72	1.10
795389--795462	25	3.1	25	70	20	68	20	10	4	64	1.41
795700--795756	24	2.3	26	88	11	84	26	7	1	64	1.28
795696--795759	24	2.4	27	75	24	73	26	6	1	65	1.25
797099--797170	31	2.3	31	85	0	99	36	4	12	47	1.61
810471--810541	29	2.5	27	78	13	79	43	0	7	49	1.29
810471--810553	29	2.9	27	76	13	76	43	0	6	50	1.26
812356--812388	8	4.1	8	100	0	66	39	24	12	24	1.89
823348--823392	14	3.3	14	87	3	56	6	33	0	60	1.23
823362--823397	13	2.8	13	91	8	56	2	27	0	69	1.02
824687--824754	31	2.3	30	77	10	77	36	14	16	32	1.89
824771--824853	31	2.7	31	75	5	80	40	9	13	36	1.77
829525--829549	13	1.9	13	100	0	50	20	0	40	40	1.52
832260--832320	30	2.0	32	90	6	99	54	9	9	26	1.64
833141--833584	220	2.0	222	99	0	874	28	16	24	30	1.96
840268--840316	21	2.4	21	86	3	64	71	10	0	18	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
843001--843183	93	2.0	89	85	14	246	30	14	16	37	1.89
843327--843391	2	32.5	2	100	0	130	49	0	0	50	1.00
851426--852109	345	2.0	339	97	2	1289	25	17	23	33	1.96
866849--867163	156	2.0	157	98	1	614	39	10	9	40	1.73
873838--873888	23	2.2	23	82	0	57	45	1	1	50	1.24
873877--874040	30	5.2	31	73	17	117	51	0	0	48	1.05
873977--874025	21	2.3	20	80	13	53	53	0	0	46	1.00
873989--874038	11	4.5	12	73	19	54	48	0	0	52	1.00
874175--874269	42	2.3	42	90	3	147	50	20	12	16	1.77
879981--880006	6	4.3	6	100	0	52	30	15	38	15	1.88
883796--883837	17	2.5	17	96	0	75	19	23	21	35	1.96
884844--884945	48	2.1	48	94	3	179	37	18	3	40	1.69
886821--887149	167	2.0	163	94	5	585	34	17	15	32	1.92
889599--889632	18	1.9	18	88	5	52	29	20	0	50	1.49
894733--894766	18	1.9	18	88	5	52	29	20	0	50	1.49
898067--898124	22	2.6	23	89	8	84	22	18	8	50	1.74
901698--901728	2	15.5	2	100	0	62	51	0	0	48	1.00
903302--903327	12	2.2	12	100	0	52	15	42	7	34	1.75
910699--910972	136	2.0	137	94	0	487	40	20	11	27	1.86
912899--912938	6	6.7	6	94	0	71	50	30	17	2	1.59
913970--914038	31	2.2	31	86	0	93	47	13	13	26	1.78
914107--914194	38	2.3	38	92	0	140	37	12	14	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
916294--916369	36	2.1	36	85	7	100	48	1	1	48	1.18
974630--974706	37	2.1	37	85	4	102	48	1	3	46	1.28
974852--974889	20	1.9	20	88	0	58	21	26	10	42	1.85
982639--982680	21	2.0	22	85	4	59	21	0	16	61	1.34
991964--992287	160	2.0	164	97	2	620	29	11	22	37	1.88
993731--993766	18	2.0	18	100	0	72	33	5	5	55	1.46
994024--994058	2	18.0	2	94	5	63	48	0	0	51	1.00
997612--997691	40	2.0	42	85	5	110	31	22	5	41	1.75
1003028--1003066	2	19.5	2	100	0	78	48	0	0	51	1.00
1004647--1004744	20	4.8	20	77	3	88	37	22	18	21	1.94
1004647--1004744	41	2.4	41	77	6	110	37	22	18	21	1.94
1004731--1004901	20	8.6	20	84	5	107	35	26	18	20	1.95
1004587--1004763	61	2.9	61	76	6	173	39	24	17	18	1.91
1004711--1004920	60	3.5	58	80	7	208	37	25	17	20	1.94
1004765--1004920	20	7.8	20	87	4	174	35	25	17	21	1.95
1004731--1004920	40	4.8	40	86	5	208	36	25	17	20	1.94
1005601--1005647	24	2.0	24	87	8	69	25	14	21	38	1.92
1005822--1005846	12	2.1	12	100	0	50	72	0	28	0	0.86
1008117--1008475	19	20.4	19	80	16	436	46	18	20	13	1.83
1008117--1008456	33	9.8	33	74	16	262	46	19	20	13	1.83
1008145--1008475	52	6.2	52	94	3	492	46	18	21	13	1.83
1008184--1008497	71	4.5	72	83	14	369	46	18	21	14	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1008117--1008497	142	2.7	142	88	7	523	46	18	21	13	1.84
1008504--1008604	19	5.6	19	84	13	142	14	23	17	43	1.87
1008711--1008746	13	2.6	14	86	4	56	47	22	0	30	1.52
1010670--1010771	19	5.6	19	81	12	106	46	24	18	10	1.81
1010767--1010879	19	6.5	19	74	19	120	7	17	28	46	1.74
1010767--1010858	33	2.8	33	93	3	150	7	18	28	45	1.76
1010942--1011407	93	5.1	93	97	1	886	46	19	12	21	1.83
1010942--1011407	184	2.5	186	97	1	886	46	19	12	21	1.83
1013107--1013196	14	5.7	14	72	23	72	43	23	24	8	1.82
1013099--1013212	33	3.5	33	96	1	212	46	21	22	9	1.80
1013121--1013217	14	5.7	19	70	23	81	44	22	22	10	1.83
1013243--1013331	19	4.9	19	69	15	71	12	22	20	44	1.84
1013213--1013331	33	3.4	33	83	6	139	10	21	21	45	1.83
1013423--1013493	33	2.2	33	94	0	124	47	16	23	11	1.79
1013674--1013728	22	2.5	22	81	0	74	20	16	40	23	1.91
1013875--1014068	20	9.6	20	79	5	203	19	20	24	35	1.95
1013875--1014068	60	3.2	60	83	0	244	19	20	24	35	1.95
1015947--1016005	20	2.8	20	76	5	55	42	0	1	55	1.09
1022147--1022210	32	2.0	32	100	0	128	46	12	0	40	1.42
1023974--1024038	24	2.6	25	78	9	71	49	1	6	43	1.37
1034094--1034138	21	2.1	22	91	4	74	62	15	2	20	1.43
1034165--1034289	65	1.9	68	86	5	184	49	8	11	30	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1037149--1037200	17	3.1	17	70	10	52	25	11	9	53	1.67
1038792--1038909	56	2.1	56	100	0	236	24	33	11	30	1.91
1056345--1056406	23	2.9	21	85	7	81	20	35	25	17	1.95
1060572--1060618	20	2.3	20	85	0	67	36	19	19	25	1.95
1060616--1060654	20	2.0	20	84	0	51	48	23	10	17	1.78
1060677--1060792	19	5.9	19	85	6	92	39	23	13	23	1.90
1060571--1060713	55	2.5	57	76	10	150	39	22	16	21	1.92
1060669--1060754	40	2.1	41	87	6	122	41	25	15	17	1.88
1060737--1060809	19	3.8	19	100	0	146	36	20	10	31	1.87
1062588--1062620	9	3.3	10	87	12	50	21	3	0	75	0.93

Tables:   1   2   3   4   5   6