genome.fa.s4920.2.7.7.80.10.50.1000.5.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: VEPZ01004920.1 Hibiscus syriacus cultivar Beakdansim tig00011079_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1590857

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 832 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)
937419--937528	19	5.6	20	82	7	118	50	19	17	12	1.77
937434--937529	19	4.9	19	82	6	120	50	19	18	11	1.77
937474--937559	33	2.4	36	84	9	106	47	22	19	10	1.79
937555--937653	19	5.1	19	87	4	144	12	23	19	45	1.83
938700--938744	21	2.1	21	87	0	63	31	28	24	15	1.96
940432--940639	105	2.0	103	89	1	317	29	12	21	36	1.91
940445--940662	105	2.1	105	87	1	314	31	11	19	37	1.88
940663--940730	23	3.0	23	91	0	100	20	27	26	25	1.99
942765--943238	94	5.1	94	96	0	835	21	12	18	47	1.81
943330--943391	20	3.2	20	88	4	99	51	16	20	11	1.74
943328--943387	19	3.1	19	88	4	93	51	16	21	10	1.73
943458--943489	14	2.3	14	100	0	64	9	25	21	43	1.82
943481--943531	21	2.5	20	78	6	59	17	15	19	47	1.83
945401--945436	14	2.6	14	95	0	63	33	0	22	44	1.53
945543--945608	19	3.7	19	73	22	63	45	22	21	10	1.82
945575--945618	19	2.3	19	96	0	79	43	27	15	13	1.85
945614--945731	19	6.7	19	62	19	58	11	22	20	45	1.83
945618--945711	33	2.8	33	90	3	145	11	21	19	47	1.80
945685--945777	20	4.7	19	68	13	62	21	16	23	38	1.92
948202--948255	24	2.2	24	93	0	90	40	20	18	20	1.91
948202--948269	24	2.8	24	84	0	64	38	20	17	23	1.93
949098--949155	20	2.9	20	92	5	91	32	20	20	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
950371--950428	27	2.1	27	90	0	89	44	5	34	15	1.69
951212--951279	33	2.1	33	88	0	100	39	7	30	22	1.81
958811--958854	22	2.0	22	95	0	79	11	22	15	50	1.76
961563--964085	880	2.9	871	90	3	3816	37	18	15	28	1.92
967971--968391	37	11.2	37	85	8	532	44	2	7	45	1.44
968006--968322	154	2.1	154	95	0	573	45	2	7	44	1.45
971336--971373	20	1.9	20	88	0	58	21	26	10	42	1.85
971778--971814	17	2.2	17	90	0	56	43	0	0	56	0.99
971911--971967	25	2.3	25	96	0	105	38	17	29	14	1.89
972298--972393	33	3.1	29	64	15	68	46	2	3	47	1.29
972312--972411	27	3.4	27	66	30	69	46	2	4	48	1.32
972299--972425	63	2.0	63	98	0	245	46	1	4	47	1.33
974665--974792	60	2.1	61	79	4	134	30	25	7	35	1.84
974929--975106	58	3.0	58	76	12	175	40	5	23	30	1.77
975295--975328	17	1.9	18	88	5	52	38	0	0	61	0.96
976654--976700	7	6.9	7	75	4	51	65	2	12	19	1.35
979495--979530	2	18.0	2	94	0	63	50	2	0	47	1.15
983328--983368	18	2.3	18	83	12	57	56	0	0	43	0.99
983759--983800	3	14.0	3	80	9	50	38	2	0	59	1.10
985387--985431	22	2.0	22	86	8	63	42	0	0	57	0.98
985481--985530	23	2.0	26	85	11	70	46	2	0	52	1.12
989371--989402	15	2.1	15	94	0	55	25	18	9	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997727--997776	23	2.0	26	85	11	70	52	0	2	46	1.12
998955--999028	24	3.1	23	80	7	76	2	16	17	63	1.42
999412--999486	3	25.0	3	84	10	91	61	0	1	37	1.05
999625--999910	120	2.4	120	85	4	375	24	17	15	41	1.89
999867--1000053	92	2.1	89	85	6	243	31	17	16	34	1.92
999957--1000342	113	3.3	114	78	13	442	27	20	14	38	1.91
1000284--1000423	40	3.6	40	89	6	216	18	23	9	48	1.77
1000169--1000530	189	1.9	193	86	5	531	25	20	12	41	1.87
1000364--1000569	113	1.9	109	90	4	331	27	16	14	40	1.88
1001250--1001557	115	2.7	113	91	2	481	31	20	15	32	1.93
1001466--1001848	93	4.1	93	96	0	685	34	19	15	29	1.93
1010210--1010241	15	2.1	15	94	0	55	46	9	18	25	1.79
1014074--1014123	23	2.0	26	85	11	70	52	0	2	46	1.12
1015253--1015297	24	1.9	23	86	4	63	2	17	24	55	1.53
1015694--1015763	3	23.7	3	88	8	108	65	0	1	32	1.01
1015681--1015764	9	8.9	10	82	8	81	61	0	1	36	1.04
1016043--1016083	18	2.3	18	83	12	57	56	0	0	43	0.99
1016470--1016527	3	19.3	3	85	7	82	37	1	0	60	1.07
1016528--1016581	26	2.1	25	86	10	74	68	0	0	31	0.90
1016526--1016576	17	3.0	17	81	18	54	68	0	0	31	0.90
1017913--1017941	14	2.0	15	93	6	51	20	3	6	68	1.27
1018121--1018165	22	2.0	22	86	8	63	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018215--1018264	23	2.0	26	85	11	70	46	2	0	52	1.12
1044233--1044265	2	16.5	2	100	0	66	48	0	0	51	1.00
1053462--1053534	37	1.9	38	94	2	130	36	20	15	27	1.92
1056252--1056313	31	2.0	31	83	0	79	38	19	12	29	1.89
1067705--1067736	2	17.0	2	87	12	50	46	0	0	53	1.00
1067703--1067736	13	2.8	13	86	13	54	47	0	0	52	1.00
1069349--1069427	31	2.5	30	80	11	88	43	1	3	51	1.27
1069381--1069430	20	2.5	20	78	12	59	40	2	2	56	1.22
1069350--1069443	11	9.2	10	67	19	52	39	1	3	56	1.22
1070158--1070244	31	2.8	30	79	10	86	55	3	1	40	1.24
1074022--1074085	18	3.6	18	69	23	62	53	29	12	4	1.59
1084415--1084487	31	2.4	31	92	0	119	38	20	6	34	1.79
1087220--1087269	23	2.1	25	92	7	86	36	0	20	44	1.52
1089612--1089714	32	3.2	32	75	9	93	45	22	11	20	1.83
1089630--1089724	32	2.9	32	76	6	102	47	23	10	18	1.80
1089674--1089730	16	3.6	16	70	0	51	49	22	7	21	1.73
1099596--1099640	19	2.4	19	92	3	74	11	13	8	66	1.44
1102210--1102914	84	8.5	83	79	6	741	24	20	25	29	1.99
1102175--1102914	165	4.5	165	87	2	1072	23	20	25	29	1.99
1102168--1102914	333	2.3	330	86	3	1059	24	20	25	29	1.99
1104868--1105038	39	4.5	37	82	8	186	45	4	7	43	1.51
1105008--1105069	26	2.4	26	83	5	81	40	1	6	51	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105111--1105171	16	3.3	19	68	27	51	21	0	3	75	0.94
1105111--1105169	14	4.1	15	79	18	63	22	0	3	74	0.96
1105114--1105174	5	12.4	5	76	13	56	21	0	3	75	0.94
1105114--1105174	9	6.8	9	80	12	56	21	0	3	75	0.94
1109844--1109886	17	2.4	19	88	7	63	41	0	0	58	0.98
1110180--1110289	56	1.9	58	85	5	152	50	6	4	38	1.48
1113091--1113117	2	13.5	2	100	0	54	0	48	0	51	1.00
1116037--1116076	20	2.0	21	86	13	59	22	5	10	62	1.46
1118931--1118978	18	2.7	18	80	9	62	41	0	4	54	1.20
1119445--1119474	14	2.1	14	93	0	51	36	6	20	36	1.79
1119660--1119729	31	2.2	29	77	20	70	47	0	4	48	1.21
1119817--1119960	50	3.0	47	70	11	121	47	2	1	47	1.25
1119911--1120005	49	2.0	48	81	6	111	47	2	1	49	1.20
1119947--1120017	24	2.8	25	81	16	76	45	0	2	52	1.15
1127672--1127699	2	14.0	2	100	0	56	50	0	0	50	1.00
1130747--1130830	20	4.2	19	73	10	60	35	26	13	25	1.92
1130823--1130931	57	1.9	57	94	0	191	28	17	21	33	1.96
1130919--1130972	20	2.7	20	91	0	90	22	16	20	40	1.91
1130997--1131043	20	2.3	20	81	0	67	29	17	21	31	1.96
1130869--1131088	74	2.9	75	77	14	243	28	17	17	36	1.93
1130866--1131120	77	3.4	75	77	11	268	26	17	19	36	1.94
1133034--1133103	23	3.0	23	97	0	131	35	5	17	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1133276--1133563	145	2.0	145	90	0	450	37	10	6	45	1.64
1135016--1135119	53	1.9	53	84	5	138	46	4	12	36	1.63
1146047--1146115	31	2.2	32	82	10	81	20	8	33	37	1.83
1146289--1146316	7	4.0	7	100	0	56	0	14	0	85	0.59
1154489--1154519	2	15.5	2	100	0	62	51	0	0	48	1.00
1155037--1155557	106	4.9	106	89	4	730	23	18	24	33	1.97
1155472--1155695	64	3.5	65	87	3	294	21	18	25	34	1.96
1156932--1156980	22	2.2	22	92	0	80	28	14	24	32	1.94
1156944--1156987	22	2.0	22	86	0	61	31	13	22	31	1.93
1157632--1157676	16	2.8	17	87	9	60	0	20	8	71	1.12

Tables:   1   2   3   4   5   6   7