genome.fa.s8316.2.7.7.80.10.50.1000.5.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: VEPZ01008316.1 Hibiscus syriacus cultivar Beakdansim tig00111013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2380696

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  5  of  12  ( 1404 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)
884575--884708	54	2.5	55	90	3	200	23	26	22	27	1.99
884578--884708	27	4.8	28	70	17	114	22	27	22	27	1.99
887775--887799	13	1.9	13	100	0	50	28	0	0	72	0.86
890280--890480	65	3.1	63	79	13	196	25	18	23	31	1.98
891144--891173	14	2.1	15	93	6	53	63	26	3	6	1.35
898922--899072	65	2.3	65	85	5	191	27	18	23	30	1.98
898922--899122	65	3.1	63	78	13	187	26	18	23	30	1.98
899763--899792	14	2.1	15	93	6	53	63	26	3	6	1.35
899824--899868	23	2.0	23	100	0	90	40	17	22	20	1.92
901143--901242	14	7.1	14	70	21	75	24	33	21	22	1.98
901145--901250	29	3.8	29	88	3	146	26	30	20	22	1.98
902930--902966	16	2.3	16	90	0	56	43	18	8	29	1.79
903398--903582	97	1.9	97	86	4	266	27	12	17	42	1.86
904140--904167	2	14.0	2	100	0	56	50	0	0	50	1.00
905280--905372	21	4.5	21	78	4	100	39	18	24	17	1.91
905280--905372	41	2.3	41	100	0	186	39	18	24	17	1.91
905299--905433	41	3.3	41	82	6	132	38	20	21	19	1.94
905361--905455	20	4.7	20	80	2	91	34	24	17	23	1.96
905646--905693	22	2.3	21	89	7	71	20	39	14	25	1.91
905950--905987	20	1.9	20	88	0	58	13	15	21	50	1.78
907278--907405	33	4.1	31	82	10	170	42	19	21	15	1.88
907400--907442	20	2.2	20	87	4	61	16	18	23	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
907428--907461	14	2.4	14	85	0	50	8	23	20	47	1.78
908979--909068	41	2.2	41	80	5	103	24	15	38	21	1.92
911052--911222	19	9.1	19	81	10	199	45	21	21	11	1.83
911792--911844	20	2.7	20	93	0	88	26	20	28	24	1.99
911853--911906	20	2.7	20	97	0	99	25	18	24	31	1.97
911793--911909	61	1.9	61	85	0	162	23	17	24	33	1.97
911793--911927	61	2.2	61	81	2	155	22	20	24	32	1.98
911977--912017	21	2.0	21	85	0	55	34	31	17	17	1.93
912555--912615	26	2.3	27	85	5	79	44	0	18	37	1.50
913005--913047	21	2.0	21	100	0	86	37	13	4	44	1.65
915038--915117	30	2.7	30	78	5	90	40	2	8	48	1.47
928625--928649	11	2.3	11	100	0	50	68	0	8	24	1.16
930280--931467	106	11.4	106	89	3	1800	23	19	24	33	1.97
945276--945323	20	2.5	20	90	6	73	25	29	2	43	1.66
945285--945323	20	2.0	20	100	0	78	25	25	2	46	1.66
947287--947333	19	2.5	19	82	6	60	46	4	8	40	1.54
947287--947328	18	2.3	18	87	4	57	42	4	9	42	1.58
949944--950020	40	1.9	40	87	10	113	28	46	15	9	1.76
949994--950030	6	6.5	6	96	3	60	29	54	16	0	1.43
950731--950843	57	2.0	57	82	6	140	38	7	2	50	1.46
951654--951749	11	8.5	11	76	3	93	35	15	19	29	1.93
951673--951749	22	3.5	22	94	1	127	36	14	18	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
955202--955247	21	2.2	21	88	3	67	41	8	4	45	1.55
955654--955735	31	2.6	32	86	7	107	52	7	2	37	1.43
958317--958657	42	8.1	42	93	0	565	28	16	18	37	1.92
961371--961481	23	4.9	23	93	4	199	18	8	21	51	1.72
961371--961481	44	2.5	46	91	5	190	18	8	21	51	1.72
963764--963827	28	2.3	28	91	0	101	20	29	28	21	1.98
964889--964921	2	16.5	2	100	0	66	51	0	0	48	1.00
966010--966068	29	2.0	29	96	0	109	10	35	30	23	1.88
966120--966185	22	3.0	22	93	0	105	15	34	24	25	1.94
977157--977214	23	2.5	22	81	10	62	70	3	3	22	1.17
977178--977212	12	3.0	12	87	8	54	71	0	5	22	1.07
977178--977281	9	12.6	8	74	21	74	72	0	5	22	1.06
977193--977226	17	1.9	18	94	5	61	67	0	8	23	1.18
977154--977280	54	2.5	50	75	15	116	70	1	4	22	1.14
977246--977303	26	2.2	27	84	9	75	77	0	0	22	0.77
978448--978481	15	2.1	17	89	10	54	76	0	2	20	0.92
978459--978508	3	17.3	3	80	12	52	68	2	2	28	1.12
978459--978508	22	2.3	21	83	6	64	68	2	2	28	1.12
978454--978508	19	2.9	19	83	5	67	69	1	1	27	1.09
978526--978650	33	3.8	32	74	19	112	40	4	4	49	1.45
978517--978897	69	5.2	69	76	13	254	43	6	3	46	1.47
978519--978946	37	11.7	35	74	15	250	42	7	3	46	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
978623--978936	76	4.1	75	81	11	336	42	7	4	45	1.52
978566--978959	76	5.3	71	77	12	255	42	8	4	44	1.53
978975--979007	2	16.5	2	87	12	50	48	0	3	48	1.17
980794--980953	65	2.5	64	83	3	196	29	23	18	28	1.98
981983--982013	4	7.5	4	96	3	53	0	22	0	77	0.77
982533--982585	27	2.0	26	82	10	63	49	3	3	43	1.38
984339--984363	4	6.2	4	100	0	50	24	0	0	76	0.80
989832--989895	23	2.8	23	85	0	83	26	25	29	18	1.98
989911--990128	103	2.1	103	96	0	400	37	23	13	25	1.92
995709--995774	23	2.9	23	90	0	105	24	25	28	21	1.99
1006302--1006474	12	13.8	12	69	20	79	72	0	17	9	1.10
1006300--1006418	18	6.6	18	77	14	113	70	0	17	11	1.16
1006322--1006456	58	2.3	56	83	12	175	71	0	17	10	1.12
1006394--1006475	23	3.3	23	76	15	67	74	0	18	7	1.04
1006301--1006475	45	4.1	42	76	19	150	72	0	17	9	1.10
1006301--1006427	6	20.0	6	74	16	53	72	0	17	10	1.11
1006449--1006488	19	2.2	19	86	13	57	77	0	15	7	0.98
1008392--1008545	31	5.0	31	93	1	256	37	20	20	22	1.95
1009412--1009456	21	2.1	21	87	0	63	15	24	28	31	1.96
1012419--1012572	31	5.0	31	93	1	256	37	20	20	22	1.95
1013437--1013481	21	2.1	21	87	0	63	15	24	28	31	1.96
1014217--1014803	55	10.7	55	90	3	880	27	16	24	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017209--1017382	31	5.6	31	91	0	276	40	21	17	20	1.92
1021611--1021704	31	3.0	31	89	3	118	38	22	18	21	1.93
1029544--1029600	21	2.7	21	68	10	53	35	26	15	22	1.94
1030082--1030131	2	25.0	2	95	0	91	48	0	2	50	1.12
1030439--1030478	21	1.9	21	90	10	64	20	32	35	12	1.90
1032565--1032601	18	2.1	17	90	5	56	35	35	13	16	1.88
1034739--1034812	16	4.6	16	93	0	121	40	6	27	25	1.80
1034739--1034812	32	2.3	32	95	0	139	40	6	27	25	1.80
1038895--1038938	21	2.1	21	87	8	63	9	20	11	59	1.59
1038895--1038930	11	3.4	11	96	3	65	8	25	8	58	1.55
1049155--1049181	11	2.5	11	100	0	54	22	11	0	66	1.22
1051585--1051620	14	2.5	14	90	4	54	66	2	2	27	1.19
1053091--1053145	9	6.6	9	78	14	55	30	1	1	65	1.13
1053090--1053138	17	2.9	17	90	3	73	32	2	4	61	1.26
1055792--1055854	28	2.3	26	84	7	81	47	25	6	20	1.73
1056475--1056569	32	3.0	31	79	11	95	23	27	24	25	2.00
1057132--1057809	350	2.0	342	91	2	1104	33	19	16	30	1.94
1058592--1058743	76	2.0	76	87	5	218	34	19	5	40	1.76
1062059--1062134	2	38.0	2	97	0	143	50	1	0	48	1.09
1062111--1063089	326	3.0	326	99	0	1940	40	16	16	25	1.90
1073088--1073113	3	8.7	3	100	0	52	65	0	0	34	0.93
1075644--1075728	2	42.5	2	100	0	170	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076214--1076264	17	3.1	16	81	13	50	15	3	3	76	1.08
1076640--1076752	40	2.8	40	84	4	147	29	24	13	32	1.93
1076689--1076753	20	3.2	20	77	16	71	30	23	12	33	1.91
1077535--1077568	12	2.8	12	90	0	50	55	29	0	14	1.40
1077680--1077747	24	2.8	24	81	0	82	26	17	17	38	1.92
1081796--1081867	21	3.5	20	71	19	58	23	22	31	22	1.98
1081806--1081887	42	2.0	42	88	9	123	24	18	34	23	1.96
1081816--1081887	21	3.4	21	73	17	69	25	20	29	25	1.99
1084559--1084596	20	2.0	20	84	5	51	44	13	13	28	1.81
1084925--1084960	2	18.0	2	100	0	72	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12