genome.fa.s1978.2.7.7.80.10.50.1000.4.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: VEPZ01001978.1 Hibiscus syriacus cultivar Beakdansim tig00004013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2594977

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

This is table  4  of  10  ( 1125 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)
879551--879624	20	3.3	20	68	22	58	40	12	27	20	1.87
879291--879730	47	9.4	47	89	0	648	42	12	22	21	1.87
880190--880277	29	3.0	28	90	6	124	50	6	21	21	1.72
882291--882316	2	13.0	2	100	0	52	50	0	0	50	1.00
884767--884854	45	2.0	45	95	0	158	34	10	27	28	1.89
884842--884909	34	2.0	34	85	0	91	36	10	23	29	1.88
884981--885052	20	3.2	20	69	23	63	38	12	27	20	1.89
885227--885319	27	3.7	27	69	19	92	45	15	21	18	1.85
884888--885339	47	9.6	47	86	2	602	42	12	22	22	1.86
886794--886838	18	2.5	18	85	0	63	26	40	20	13	1.89
902668--902764	42	2.3	41	83	1	122	20	23	23	31	1.98
902517--902987	227	2.1	225	84	5	592	31	15	19	33	1.93
902898--902968	20	3.5	19	67	16	52	25	19	22	32	1.98
902897--903440	42	13.1	42	66	19	185	30	16	21	31	1.96
902905--903374	122	3.8	122	83	8	569	30	16	21	31	1.96
903277--903440	84	2.0	84	86	0	229	28	16	20	34	1.94
903378--903506	66	2.0	66	88	0	195	31	16	20	32	1.94
903510--903589	37	2.2	37	88	4	117	36	25	15	23	1.93
903766--903808	12	3.6	12	80	0	50	44	0	0	55	0.99
903927--903971	18	2.5	18	88	0	72	24	40	22	13	1.90
906871--906908	2	19.0	2	100	0	76	50	0	0	50	1.00
909588--909620	13	2.5	13	90	9	50	42	3	18	36	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
909798--909835	15	2.4	16	82	4	51	39	0	7	52	1.31
912677--912717	3	13.3	3	89	5	64	31	0	0	68	0.90
918510--918547	20	1.9	20	94	0	67	28	21	15	34	1.94
920228--920297	36	1.9	36	91	0	113	40	7	15	37	1.75
923449--923478	6	5.0	6	100	0	60	16	16	33	33	1.92
925256--925294	2	19.5	2	100	0	78	51	0	0	48	1.00
930526--930563	20	1.9	20	100	0	76	36	10	28	23	1.88
932130--932169	20	1.9	22	90	10	66	40	37	10	12	1.77
933101--933143	22	1.9	23	95	4	79	4	11	2	81	0.93
933101--933149	22	2.2	23	88	3	73	10	10	2	77	1.07
933745--933781	14	2.8	14	84	8	51	83	0	2	13	0.74
936116--936278	59	2.8	58	84	4	211	33	12	18	35	1.88
936806--936910	32	3.2	32	65	24	81	30	14	22	32	1.94
936642--936966	68	4.8	68	92	0	535	31	14	24	30	1.94
936917--937095	81	2.2	81	87	2	261	35	12	22	29	1.91
936917--937125	81	2.6	81	84	6	246	36	11	22	29	1.90
940468--940629	59	2.8	58	85	7	213	32	12	18	36	1.89
949799--949861	24	2.7	24	82	2	83	36	23	17	22	1.95
949825--949914	23	3.9	23	80	4	92	35	27	17	18	1.94
956446--956529	24	3.5	24	82	9	102	33	25	21	20	1.97
961804--961904	39	2.6	39	88	3	141	23	21	7	46	1.77
961843--962394	112	4.8	112	82	7	678	27	19	14	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
961942--962379	236	1.9	236	95	0	788	27	19	14	38	1.91
963955--963987	10	3.3	10	84	16	50	6	12	0	81	0.85
966784--966821	18	2.1	19	85	9	53	42	18	18	21	1.90
971226--971257	16	2.1	16	88	11	50	31	3	12	53	1.54
976548--976606	22	2.7	22	97	0	109	23	22	28	25	1.99
976802--976872	3	24.0	3	88	8	110	67	0	1	30	0.99
981499--981554	23	2.4	23	84	0	67	42	23	16	17	1.88
982764--982790	13	2.1	13	100	0	54	29	22	0	48	1.51
986373--986418	21	2.2	21	100	0	92	41	8	4	45	1.55
986660--986778	45	2.5	46	82	6	123	44	7	8	39	1.63
987004--987087	34	2.4	34	82	11	91	48	2	0	48	1.14
987486--987567	41	2.0	41	100	0	164	31	12	17	39	1.86
999315--999447	20	6.7	20	72	10	92	27	24	20	28	1.99
999619--999663	22	2.0	23	91	4	74	24	42	15	17	1.88
1000059--1000108	20	2.6	19	87	3	64	14	14	22	50	1.77
1000042--1000116	19	3.8	20	80	5	73	16	14	21	48	1.81
1001735--1001784	15	3.1	15	91	8	73	32	16	6	46	1.71
1001900--1001956	20	2.8	20	94	0	96	22	15	21	40	1.91
1002440--1002550	42	2.6	42	77	5	109	21	37	16	24	1.93
1004120--1004158	20	2.0	20	89	0	60	48	20	20	10	1.78
1004167--1004303	34	3.9	34	79	11	148	23	21	21	33	1.97
1004201--1004391	20	9.9	20	79	6	205	28	18	20	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1004157--1004375	54	3.9	56	75	12	191	26	20	21	32	1.97
1004161--1004338	74	2.4	74	88	0	248	24	19	21	34	1.96
1004161--1004391	40	6.1	40	77	9	216	26	19	20	33	1.96
1004362--1004631	140	1.9	140	96	0	504	42	14	12	29	1.83
1006750--1006786	14	2.6	14	91	4	56	5	21	21	51	1.68
1007853--1007915	20	3.2	20	93	0	99	28	19	23	28	1.98
1007860--1007919	20	3.0	20	95	0	102	30	16	23	30	1.96
1007888--1007995	20	5.4	20	85	2	137	26	16	14	41	1.87
1009009--1009057	16	3.1	16	85	5	55	53	8	2	36	1.43
1017277--1017327	20	2.6	20	87	3	68	35	7	21	35	1.83
1017394--1017444	21	2.4	21	96	0	93	31	25	15	27	1.96
1019147--1019748	299	2.0	299	99	0	1177	39	19	16	24	1.92
1022386--1022518	45	2.8	48	80	6	130	37	6	9	46	1.62
1022546--1022635	33	2.8	33	78	9	87	36	4	6	52	1.48
1022690--1022727	18	2.1	18	90	0	58	31	7	5	55	1.51
1022672--1022777	55	1.9	55	84	7	144	39	6	8	45	1.61
1022443--1023139	199	3.5	197	79	6	522	38	5	7	47	1.56
1023160--1023202	20	2.2	20	86	0	59	58	9	6	25	1.54
1026270--1026355	2	43.0	2	100	0	172	50	0	0	50	1.00
1028155--1028210	24	2.3	23	79	11	58	51	10	1	35	1.47
1028664--1028870	105	2.0	105	86	3	292	47	13	11	27	1.77
1034440--1034472	5	6.8	5	96	3	59	78	0	0	21	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036173--1036211	17	2.3	17	86	8	53	41	12	0	46	1.42
1036357--1036390	3	11.3	3	93	0	59	64	2	0	32	1.08
1041402--1041445	19	2.3	19	100	0	88	45	0	20	34	1.51
1044445--1044487	21	2.0	21	100	0	86	48	23	9	18	1.76
1047440--1047506	13	4.8	13	73	20	55	73	2	5	17	1.17
1047678--1047721	19	2.2	20	84	11	56	72	0	9	18	1.10
1047678--1047714	18	2.0	20	89	10	60	70	0	10	18	1.16
1048860--1048918	12	5.2	12	76	19	65	55	0	1	42	1.09
1048871--1048915	7	6.9	7	75	14	51	55	0	0	44	0.99
1048862--1048918	27	2.1	27	84	12	73	56	0	1	42	1.10
1049365--1049420	29	1.9	29	85	0	76	33	12	17	35	1.88
1049417--1049462	21	2.2	21	92	0	74	43	15	17	23	1.87
1049484--1049934	37	13.0	37	66	18	245	38	11	18	30	1.87
1049438--1049774	102	3.3	102	94	0	566	39	11	18	31	1.85
1049385--1049543	86	1.9	84	85	11	220	38	12	16	31	1.87
1049690--1049838	73	2.0	73	96	0	271	39	13	18	28	1.88
1049588--1049948	174	2.1	175	91	2	584	39	11	18	29	1.86
1049762--1050005	101	2.4	102	89	2	377	38	11	18	31	1.86
1049486--1050005	276	1.9	276	91	1	864	38	11	18	31	1.86
1050085--1050145	32	1.9	32	86	6	88	29	14	22	32	1.94
1051400--1051577	95	1.9	95	92	0	302	29	18	19	33	1.95
1055432--1055478	12	3.7	13	78	13	53	72	6	0	21	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055500--1055567	13	4.9	13	73	19	57	73	2	5	17	1.16
1055742--1055785	19	2.2	20	84	11	56	72	0	9	18	1.10
1055742--1055778	18	2.0	20	89	10	60	70	0	10	18	1.16
1056923--1056976	12	4.4	12	84	9	65	55	0	1	42	1.10
1056926--1056973	25	2.0	24	87	4	69	54	0	2	43	1.12
1056925--1056979	25	2.3	23	80	14	67	56	0	1	41	1.10
1057917--1058063	60	2.5	59	76	7	138	38	13	4	42	1.65
1058542--1058585	18	2.4	18	92	0	70	40	36	0	22	1.54
1064022--1064110	9	9.7	9	70	20	51	71	4	3	20	1.17
1070782--1070829	14	3.2	16	77	11	57	47	4	10	37	1.57

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