genome.fa.s8013.2.7.7.80.10.50.1000.5.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: VEPZ01008013.1 Hibiscus syriacus cultivar Beakdansim tig00110478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1461402

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 699 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)
870842--870876	15	2.2	16	90	5	54	57	11	5	25	1.56
871026--871050	2	12.5	2	100	0	50	48	0	0	52	1.00
874635--874709	21	3.6	21	76	1	71	24	24	18	33	1.97
874679--874892	20	10.5	21	79	5	172	33	19	18	28	1.95
874697--874836	41	3.5	41	81	3	142	29	20	17	32	1.95
874679--874890	41	5.2	40	75	8	99	33	19	18	28	1.96
875459--875557	14	5.7	19	68	23	83	45	21	21	12	1.84
875465--875557	33	2.8	33	91	1	141	44	22	21	11	1.85
875558--875672	33	3.5	33	90	2	178	12	20	20	47	1.81
875577--875664	14	5.6	14	69	23	50	11	20	21	46	1.82
875589--875650	19	3.5	19	66	20	62	11	19	22	46	1.81
877358--877733	94	4.1	93	95	2	625	21	12	18	47	1.81
877830--877901	34	2.1	34	92	2	119	54	23	13	8	1.67
877906--878051	19	7.8	19	73	10	122	12	19	19	48	1.80
878452--878540	42	2.1	42	80	0	106	21	38	15	24	1.92
879917--879952	14	2.6	14	95	0	63	33	0	22	44	1.53
880059--880105	19	2.5	19	96	0	85	44	21	21	12	1.85
880134--880227	33	2.8	33	85	6	136	11	22	18	47	1.80
880169--880247	19	4.4	19	69	16	60	13	21	18	45	1.84
880200--880293	20	4.7	20	72	13	68	21	20	23	35	1.96
882762--882815	24	2.2	24	93	0	90	40	20	18	20	1.91
882762--882829	24	2.8	24	84	0	64	38	20	17	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
883677--883783	20	5.3	20	85	5	101	31	16	21	29	1.96
883688--883864	21	8.7	21	85	3	89	31	19	20	28	1.97
883710--883834	20	6.2	20	93	3	182	27	21	19	32	1.97
883710--883865	62	2.6	59	80	9	188	28	21	20	29	1.98
885595--885730	42	3.2	42	91	2	220	19	13	15	50	1.77
886088--886179	27	3.3	27	70	22	66	46	1	3	48	1.25
886180--886224	23	2.0	23	86	0	63	53	2	2	42	1.25
886311--886350	18	2.2	17	86	13	53	60	0	0	40	0.97
895323--895441	63	1.9	63	86	6	170	43	7	5	43	1.54
903343--903414	29	2.5	29	90	0	117	34	13	15	36	1.87
911204--911238	18	2.0	18	88	5	54	37	0	0	62	0.95
911210--911259	25	2.0	25	84	7	66	42	0	0	58	0.98
911967--912049	29	2.8	29	92	1	139	43	9	14	32	1.78
916731--916813	29	2.8	29	92	1	139	43	9	14	32	1.78
918850--918892	15	2.8	15	89	3	59	53	0	4	41	1.21
919809--919859	22	2.3	22	83	6	59	35	13	5	45	1.68
920466--920501	18	2.1	17	89	5	54	22	0	25	52	1.47
920864--920899	15	2.4	15	90	0	54	41	2	0	55	1.14
937707--937805	47	2.1	47	81	3	110	33	11	22	33	1.89
944542--944643	42	2.5	41	81	1	123	24	23	22	29	1.99
944757--944858	42	2.5	41	80	1	114	25	23	21	29	1.99
944972--945048	20	3.8	19	69	14	55	24	22	23	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
944975--945063	42	2.1	42	95	0	160	24	21	21	32	1.98
945178--945437	53	4.9	53	88	4	348	30	21	27	20	1.98
949005--949042	16	2.3	16	83	16	51	34	2	0	63	1.09
959074--959098	12	2.1	12	100	0	50	24	36	24	16	1.94
959289--959364	36	2.1	36	97	0	143	31	10	14	43	1.79
960082--960106	12	2.1	12	100	0	50	24	36	24	16	1.94
960297--960372	36	2.1	36	95	0	134	31	9	14	44	1.76
960793--960822	15	2.0	15	100	0	60	13	26	46	13	1.80
965297--965372	36	2.1	36	95	0	134	31	9	14	44	1.76
966045--966206	75	2.2	74	95	1	288	32	19	17	30	1.95
968737--969215	239	2.0	239	100	0	958	31	22	22	23	1.98
987530--987559	10	3.0	10	100	0	60	40	10	30	20	1.85
989200--989260	32	1.9	32	90	6	97	29	14	16	39	1.88
990487--990517	2	15.5	2	93	0	53	54	0	45	0	0.99
1003141--1003228	23	3.8	23	87	0	113	14	19	14	51	1.77
1007111--1007164	18	3.0	18	97	0	99	33	18	27	20	1.96
1008194--1008497	149	2.0	149	100	0	608	35	21	15	27	1.94
1013243--1013546	149	2.0	149	98	0	590	35	21	15	27	1.93
1015451--1015506	21	2.7	21	97	0	103	35	16	8	39	1.80
1016182--1016241	21	2.9	21	100	0	120	23	30	23	23	1.99
1016513--1016540	2	14.0	2	100	0	56	50	0	0	50	1.00
1017183--1017212	14	2.1	14	100	0	60	30	20	10	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1037274--1037359	36	2.4	36	94	0	154	38	4	10	46	1.59
1037595--1037637	7	6.3	7	86	2	52	69	2	2	25	1.12
1037595--1037637	21	2.0	21	86	0	59	69	2	2	25	1.12
1038742--1038800	28	2.1	28	100	0	118	22	10	28	38	1.86
1041908--1041955	22	2.2	22	82	14	55	54	6	4	35	1.45
1049229--1049318	37	2.4	37	98	0	171	36	18	20	24	1.95
1054456--1054496	19	2.2	19	86	8	57	36	7	0	56	1.27
1054844--1054890	23	2.0	23	95	0	85	46	0	19	34	1.50
1056384--1056411	11	2.5	11	100	0	56	92	0	7	0	0.37
1057997--1058121	45	2.8	44	88	2	178	20	27	17	34	1.95
1058915--1059043	42	3.1	42	85	0	159	20	19	21	38	1.93
1062026--1062070	21	2.1	21	83	0	54	46	13	11	28	1.77
1072222--1072256	17	2.2	16	90	10	54	48	2	5	42	1.41
1080575--1080623	2	25.0	2	87	4	73	44	2	2	51	1.24
1080609--1080982	38	10.5	36	74	13	265	45	3	5	45	1.41
1080872--1080941	31	2.3	31	82	7	88	52	2	2	41	1.31
1080831--1080986	34	4.5	34	71	15	106	46	2	3	46	1.34
1081005--1081055	15	3.4	15	82	15	61	25	1	0	72	0.95
1081006--1081055	11	5.1	10	81	13	52	24	2	0	74	0.93
1080995--1081073	12	6.4	12	76	16	58	24	3	0	72	1.01
1081012--1081084	36	2.1	35	82	12	87	19	2	1	76	0.98
1082743--1082781	15	2.5	15	91	4	60	28	7	33	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1086924--1088181	84	15.2	82	79	7	1321	30	25	19	24	1.98
1086924--1088181	249	5.1	249	94	0	2151	30	25	19	24	1.98
1088723--1088756	12	2.8	12	90	0	50	50	2	5	41	1.42
1088750--1089125	38	10.4	37	74	12	257	45	3	5	45	1.44
1088750--1089024	75	3.7	75	79	8	289	44	4	6	45	1.47
1089009--1089130	35	3.4	36	70	16	103	45	3	3	47	1.35
1094762--1094806	20	2.2	21	84	4	56	68	8	0	22	1.16
1109644--1109686	13	3.3	13	93	0	68	18	44	20	16	1.87
1111093--1111145	26	2.0	26	82	7	63	33	16	20	28	1.95
1112118--1112233	24	4.8	24	85	6	146	26	14	18	39	1.90
1132795--1132842	24	1.9	25	87	8	71	50	0	4	45	1.21
1132795--1132846	26	2.0	26	85	7	70	48	0	5	46	1.26
1133825--1133889	28	2.2	31	86	10	100	47	0	4	47	1.22
1134730--1134789	24	2.5	24	91	0	93	5	20	25	50	1.68
1134796--1134907	31	3.6	31	97	0	215	45	18	12	23	1.83
1134917--1134949	16	2.1	16	100	0	66	6	12	24	57	1.57
1135119--1135160	15	2.7	16	77	7	50	23	2	7	66	1.28
1135986--1136141	31	5.0	31	87	3	217	36	21	20	21	1.95
1135986--1136139	62	2.5	62	91	4	249	36	21	20	21	1.95
1136319--1136365	23	2.0	24	91	4	78	34	21	0	44	1.52
1136965--1137009	21	2.1	21	87	0	63	15	24	28	31	1.96
1143647--1143679	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151706--1151744	20	2.0	20	89	0	60	43	25	20	10	1.83
1151719--1151775	30	1.9	30	92	0	96	36	26	29	7	1.83
1156272--1156319	24	1.9	26	87	8	73	64	4	0	31	1.12
1156281--1156334	20	2.8	20	73	18	51	68	1	0	29	1.00
1162597--1162629	15	2.2	15	100	0	66	33	6	30	30	1.82
1163635--1163745	3	36.0	3	87	5	159	36	0	0	62	1.02
1164163--1164195	15	2.2	15	100	0	66	72	12	15	0	1.12
1164457--1164485	13	2.2	13	100	0	58	0	31	62	6	1.22
1172415--1173011	83	7.2	83	94	0	1043	27	12	20	38	1.90
1175222--1175273	22	2.4	22	96	0	95	36	9	15	38	1.80

Tables:   1   2   3   4   5   6