genome.fa.s4578.2.7.7.80.10.50.1000.6.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: VEPZ01004578.1 Hibiscus syriacus cultivar Beakdansim tig00010204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1248949

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 816 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)
997930--998097	61	2.8	61	87	4	243	29	29	20	20	1.98
998917--998970	24	2.2	24	90	0	81	20	16	20	42	1.89
999166--999198	14	2.5	13	86	13	50	48	24	18	9	1.76
999173--999200	14	2.0	14	100	0	56	42	28	14	14	1.84
1000258--1000306	19	2.5	19	86	3	71	32	26	14	26	1.94
1000320--1000413	20	4.6	19	75	10	62	27	22	21	28	1.99
1000381--1000535	41	3.8	41	85	4	127	30	27	21	21	1.98
1000401--1000475	21	3.6	21	76	16	84	30	29	22	17	1.97
1000422--1000548	20	6.3	20	86	8	186	28	29	20	22	1.98
1001369--1001422	24	2.2	24	90	0	81	20	16	20	42	1.89
1001618--1001650	14	2.5	13	86	13	50	48	24	18	9	1.76
1001625--1001652	14	2.0	14	100	0	56	42	28	14	14	1.84
1002710--1002758	19	2.5	19	86	3	71	32	26	14	26	1.94
1002833--1002987	41	3.8	41	85	4	127	30	27	21	21	1.98
1002853--1002927	21	3.6	21	76	16	84	30	29	22	17	1.97
1002874--1003000	20	6.3	20	86	8	186	28	29	20	22	1.98
1003819--1003872	24	2.2	24	90	0	81	20	16	20	42	1.89
1004063--1004095	14	2.5	13	86	13	50	48	24	18	9	1.76
1004070--1004097	14	2.0	14	100	0	56	42	28	14	14	1.84
1006129--1006171	18	2.4	18	88	0	59	48	27	6	16	1.71
1006349--1006643	20	15.7	20	74	14	225	35	22	20	21	1.96
1006433--1006510	34	2.3	34	97	0	147	37	20	23	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006354--1006602	128	2.0	127	87	2	365	36	22	20	20	1.95
1006542--1006677	34	3.9	34	76	12	121	36	20	20	22	1.96
1006522--1006623	53	1.9	54	89	2	161	35	22	18	23	1.96
1006354--1006687	74	4.5	73	75	11	234	36	21	20	21	1.95
1006778--1006857	30	2.4	34	76	20	96	55	13	2	28	1.52
1006793--1006858	30	2.2	30	94	0	114	54	12	1	31	1.46
1008236--1008316	21	3.9	21	74	6	74	24	19	34	20	1.96
1008234--1008343	42	2.6	42	84	5	125	26	17	36	20	1.94
1008853--1008955	20	5.5	20	70	17	69	40	23	16	19	1.91
1008980--1009159	20	9.6	19	72	17	119	20	20	22	37	1.95
1008984--1009105	34	3.4	34	76	12	136	19	21	22	36	1.95
1008977--1009151	74	2.4	74	90	3	289	21	20	21	36	1.95
1011139--1011194	20	2.8	20	91	0	85	50	21	16	12	1.78
1011142--1011247	20	5.7	19	76	13	78	40	23	19	16	1.91
1011589--1011667	22	3.6	22	87	0	122	18	17	43	20	1.89
1011831--1011956	20	6.2	20	83	5	164	24	18	27	29	1.98
1011819--1011936	61	1.9	61	89	0	182	25	18	25	30	1.98
1011847--1011977	41	3.2	41	82	6	185	22	19	28	30	1.98
1012906--1012937	16	2.1	16	94	5	57	43	0	6	50	1.27
1013001--1013049	20	2.3	20	86	6	62	36	12	0	51	1.40
1017484--1017558	31	2.4	30	84	6	96	12	24	32	32	1.91
1025663--1025764	24	4.2	24	77	5	98	18	12	12	55	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025661--1025764	48	2.2	48	84	1	129	18	12	12	56	1.66
1029766--1029832	12	5.6	12	76	0	71	16	14	16	52	1.75
1029761--1029843	36	2.3	36	79	4	87	19	15	13	51	1.75
1029768--1029858	24	3.8	24	79	0	101	18	13	14	53	1.72
1029999--1030073	32	2.4	31	91	4	123	10	20	33	36	1.87
1034151--1034222	32	2.3	32	83	9	94	13	23	30	31	1.94
1035495--1035769	2	137.0	2	62	21	60	46	4	3	45	1.41
1035493--1035660	20	7.9	20	72	20	85	48	5	2	42	1.42
1035500--1035667	11	16.4	11	68	17	69	48	6	2	42	1.44
1035500--1035660	22	7.4	22	67	25	83	47	6	3	42	1.44
1035537--1035607	28	2.6	27	78	14	81	47	9	2	39	1.51
1035621--1035726	31	3.2	32	78	11	85	47	1	2	48	1.27
1035673--1035726	17	3.1	17	81	2	63	46	0	3	50	1.19
1035623--1035770	79	1.9	81	81	8	187	45	2	4	47	1.35
1035564--1035761	22	9.2	22	67	21	75	45	4	3	46	1.39
1035814--1035954	13	10.3	13	65	23	60	47	7	3	41	1.50
1035885--1036150	60	4.6	58	75	13	187	46	6	5	41	1.54
1035982--1036158	18	10.2	18	68	19	65	44	6	7	42	1.57
1036059--1036150	29	3.1	29	73	6	94	45	9	7	36	1.66
1036104--1036194	18	4.6	20	72	20	73	43	7	6	41	1.59
1035920--1036195	20	13.7	19	68	16	85	46	6	5	41	1.54
1036181--1036205	11	2.3	11	100	0	50	56	8	0	36	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036171--1036287	31	3.7	31	78	4	90	45	7	5	41	1.55
1036200--1036280	24	3.2	24	78	13	76	41	6	7	44	1.57
1036257--1036449	7	30.3	6	72	18	76	44	6	3	45	1.47
1036246--1036280	18	1.9	18	88	0	52	45	5	2	45	1.41
1036241--1036321	40	2.0	41	83	7	103	44	8	3	43	1.52
1036189--1036408	20	11.1	20	67	20	88	44	7	4	43	1.53
1036386--1036452	27	2.5	26	78	9	71	47	4	2	44	1.38
1036257--1036449	2	91.0	2	66	23	76	44	6	3	45	1.47
1036291--1036486	94	2.1	93	79	11	204	44	6	4	44	1.49
1036514--1036797	18	16.9	16	71	18	83	45	6	6	41	1.57
1036567--1036600	13	2.6	13	95	0	59	58	5	2	32	1.37
1036585--1036780	36	5.7	36	83	7	169	45	6	6	41	1.55
1036740--1036797	17	3.5	17	69	21	59	41	5	6	46	1.53
1036602--1036780	89	2.1	83	86	6	241	45	6	6	41	1.55
1036585--1036804	122	1.8	119	92	2	368	45	6	6	41	1.57
1036684--1036809	33	3.7	33	86	5	146	44	7	6	42	1.57
1036866--1036999	61	2.2	61	89	2	207	46	5	10	37	1.63
1037632--1037796	6	27.7	6	85	3	217	46	46	3	3	1.35
1041207--1041253	19	2.5	19	86	3	60	59	0	8	31	1.27
1042850--1042896	21	2.2	21	88	7	69	57	0	4	38	1.18
1043754--1043792	21	1.9	20	89	5	60	23	5	5	66	1.32
1046089--1046149	31	2.0	31	87	3	88	32	21	6	39	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047410--1048130	54	13.4	54	88	1	951	26	17	20	35	1.95
1053788--1054175	54	7.2	54	88	0	539	26	17	20	35	1.94
1054463--1054531	16	4.3	16	94	0	102	23	33	8	34	1.85
1054780--1054845	23	2.8	24	83	6	89	53	0	1	45	1.09
1055123--1055169	17	2.9	17	76	17	55	40	6	4	48	1.48
1055541--1055605	7	9.3	7	79	0	58	20	0	29	50	1.48
1056533--1056578	14	3.3	14	81	0	56	23	0	26	50	1.50
1056659--1056742	2	44.0	2	82	9	104	46	0	3	50	1.19
1056791--1056848	14	4.1	14	77	0	53	29	1	24	44	1.63
1057004--1059019	4	506.8	4	93	3	3169	48	23	1	27	1.59
1057206--1057471	109	2.3	119	91	8	435	45	12	1	40	1.51
1059203--1059276	19	3.8	19	75	8	78	25	31	0	43	1.55
1059410--1059482	25	2.9	24	78	17	60	36	5	6	50	1.52
1059435--1059580	13	11.1	13	73	15	88	44	3	3	48	1.36
1059502--1059582	17	4.5	18	74	23	73	45	1	1	51	1.16
1059492--1059579	24	3.7	22	74	19	63	47	1	1	50	1.16
1059497--1059580	11	7.7	11	70	16	52	46	1	1	51	1.16
1060361--1060637	54	5.1	54	92	0	464	25	21	20	32	1.98
1062136--1062193	25	2.3	25	100	0	116	37	22	6	32	1.81
1062339--1062369	2	16.0	2	93	6	55	51	0	0	48	1.00
1072240--1072461	108	2.1	108	85	0	300	38	18	20	21	1.93
1073706--1073844	20	6.8	21	71	8	115	16	20	25	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073703--1073844	41	3.5	41	92	3	241	16	21	24	37	1.94
1073728--1073841	20	5.6	20	77	8	131	14	22	24	38	1.91
1073703--1073869	82	2.0	83	96	1	309	16	21	23	37	1.93
1073710--1073891	82	2.2	81	90	3	285	19	19	23	37	1.94
1073703--1073869	41	4.1	40	87	8	196	16	21	23	37	1.93
1074218--1074268	6	8.5	6	100	0	102	0	15	50	33	1.44
1074377--1074446	20	3.6	20	68	12	56	40	24	20	15	1.91
1074374--1074471	39	2.5	40	90	8	155	37	24	18	19	1.94
1074396--1074467	21	3.6	21	68	11	69	36	26	16	20	1.94
1074504--1074609	20	5.2	20	67	12	63	35	26	19	17	1.95

Tables:   1   2   3   4   5   6   7