genome.fa.s73.2.7.7.80.10.50.1000.6.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: VEPZ01000073.1 Hibiscus syriacus cultivar Beakdansim tig00000132_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1402814

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 807 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)
975588--975666	21	4.0	21	74	23	73	32	0	1	65	1.00
975615--975671	17	3.4	17	87	4	71	33	0	0	66	0.92
977728--977777	12	4.4	12	73	14	52	36	22	34	8	1.83
977728--977781	15	3.4	15	79	7	54	35	22	33	9	1.86
977995--978061	34	2.0	33	83	13	84	22	2	10	64	1.39
981339--981369	16	1.9	16	93	0	53	64	3	3	29	1.25
988308--988405	48	2.0	48	92	0	160	32	10	7	50	1.64
988943--988967	13	1.9	13	100	0	50	32	4	0	64	1.12
998951--998982	5	6.4	5	100	0	64	0	59	0	40	0.97
999598--999629	2	16.5	2	93	6	57	50	0	0	50	1.00
1001758--1002474	227	3.1	228	97	0	1357	44	7	8	39	1.63
1002523--1002569	20	2.4	19	89	10	76	55	10	17	17	1.69
1002704--1002750	20	2.4	19	82	10	67	53	10	17	19	1.72
1002713--1002755	20	2.3	19	88	11	63	51	11	16	20	1.75
1006269--1006317	19	2.6	19	93	0	80	30	2	10	57	1.43
1006436--1008202	199	8.9	200	97	1	3263	36	15	17	31	1.91
1006436--1008202	596	3.0	597	96	1	3280	36	15	17	31	1.91
1009665--1009743	18	4.6	18	73	7	74	37	8	34	18	1.82
1009680--1009751	3	24.0	3	72	0	54	36	6	34	22	1.81
1009665--1009747	39	2.2	39	85	6	118	38	8	33	19	1.82
1009680--1009750	21	3.2	21	80	6	70	36	7	35	21	1.80
1009676--1009747	12	6.2	12	79	9	78	36	8	34	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011248--1011739	183	2.7	182	92	1	833	34	15	17	33	1.90
1014185--1014249	25	2.6	25	77	0	76	36	7	13	41	1.74
1014595--1014667	23	3.2	23	88	0	101	34	4	21	39	1.73
1015095--1015131	18	2.1	18	89	0	56	32	5	10	51	1.60
1015087--1015133	24	2.0	24	86	0	67	34	4	14	46	1.64
1015389--1015475	39	2.2	39	91	0	147	48	19	13	18	1.81
1015894--1015966	23	3.2	23	88	0	101	34	4	21	39	1.73
1016325--1016388	23	2.8	23	87	0	92	37	4	20	37	1.74
1016325--1016397	23	3.2	23	82	7	85	35	4	20	39	1.72
1015691--1016747	431	2.5	430	96	0	1947	42	7	11	38	1.70
1016543--1016609	30	2.2	29	82	10	73	52	4	0	43	1.21
1017674--1017776	36	2.8	37	74	2	100	34	16	16	32	1.91
1024128--1024167	21	1.9	21	89	0	62	55	7	7	30	1.56
1028504--1028537	13	2.6	13	100	0	68	38	14	5	41	1.70
1041203--1041272	3	24.0	3	80	11	83	60	0	0	40	0.97
1041192--1041271	18	4.6	18	82	13	105	57	0	0	42	0.98
1041399--1041500	45	2.3	45	93	3	170	37	20	19	22	1.95
1041434--1042161	76	9.6	76	95	0	1289	35	22	18	23	1.96
1042838--1042914	22	3.5	22	96	0	145	40	14	11	33	1.82
1043277--1043371	50	2.1	41	72	26	93	28	20	13	37	1.90
1045451--1045664	114	1.9	114	95	0	383	29	19	16	34	1.94
1047695--1047727	13	2.4	14	90	10	50	3	15	0	81	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055048--1055121	3	25.3	3	81	10	91	59	0	0	40	0.97
1055037--1055121	27	3.3	26	82	9	111	57	0	0	42	0.98
1065826--1065850	7	3.6	7	100	0	50	16	28	16	40	1.89
1067597--1067649	25	2.1	25	96	0	97	39	11	18	30	1.86
1070489--1070552	23	2.5	25	82	12	78	59	7	29	3	1.41
1071102--1071134	2	16.5	2	100	0	66	48	0	0	51	1.00
1076385--1076490	18	6.1	17	78	5	104	43	12	10	33	1.76
1076385--1076490	35	3.0	35	84	2	133	43	12	10	33	1.76
1078455--1078493	17	2.4	17	95	4	71	43	0	5	51	1.24
1079077--1079152	23	3.3	23	96	0	134	32	28	6	31	1.83
1080340--1080390	21	2.5	21	78	6	61	56	1	0	41	1.10
1080757--1080824	23	3.0	23	76	18	61	33	1	4	60	1.26
1082701--1082746	18	2.6	18	96	0	83	15	26	32	26	1.95
1083300--1083473	86	2.0	86	100	0	348	32	14	16	36	1.89
1085102--1085158	30	1.9	30	89	7	89	36	24	31	7	1.82
1086251--1086297	23	2.0	23	91	0	76	17	23	12	46	1.82
1087913--1088771	22	39.5	22	79	9	723	47	9	0	43	1.37
1087913--1088771	44	19.8	44	84	7	877	47	9	0	43	1.37
1087913--1088771	66	13.2	64	80	10	856	47	9	0	43	1.37
1088218--1088244	14	1.9	14	100	0	54	44	7	0	48	1.31
1096620--1096661	14	3.0	14	85	0	66	7	28	40	23	1.81
1105790--1105845	28	2.0	28	89	0	85	37	1	7	53	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106174--1106206	2	16.5	2	100	0	66	51	0	0	48	1.00
1110353--1110384	2	16.0	2	100	0	64	50	0	0	50	1.00
1112725--1112752	14	2.0	14	100	0	56	14	21	14	50	1.78
1114512--1114612	51	2.0	51	96	0	184	31	21	11	34	1.90
1116836--1116864	14	2.1	14	100	0	58	13	20	17	48	1.81
1126654--1126696	2	21.5	2	100	0	86	0	48	0	51	1.00
1129716--1129771	28	2.0	28	96	0	103	46	16	12	25	1.81
1135090--1135152	33	1.9	33	93	0	108	38	25	14	22	1.92
1137219--1137250	15	2.1	15	100	0	64	6	43	28	21	1.77
1138142--1138174	17	1.9	18	88	11	52	21	12	9	57	1.62
1138142--1138174	16	2.0	17	88	5	50	21	12	9	57	1.62
1152181--1152222	23	1.9	21	85	9	57	69	2	2	26	1.13
1153270--1153303	15	2.2	16	89	5	52	76	5	2	14	1.09
1154969--1155011	19	2.2	20	83	4	52	62	4	2	30	1.28
1156469--1156522	23	2.5	22	88	8	83	7	12	0	79	0.92
1156477--1156522	16	2.8	16	83	3	56	4	15	0	80	0.86
1156492--1156554	34	1.9	31	84	12	81	9	17	0	73	1.09
1168180--1168213	15	2.2	16	89	5	52	76	5	2	14	1.09
1169882--1169924	19	2.2	20	83	4	52	62	4	2	30	1.28
1177582--1177614	15	2.2	15	94	0	57	9	21	63	6	1.45
1180942--1180983	22	1.9	22	90	0	66	45	16	9	28	1.79
1184656--1184724	31	2.3	30	84	2	93	31	8	27	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1184959--1185022	28	2.3	28	89	7	96	53	9	4	32	1.54
1197208--1197250	6	7.2	6	100	0	86	0	51	0	48	1.00
1198760--1198818	31	1.9	31	92	0	100	38	10	8	42	1.69
1203260--1203305	22	2.1	22	84	8	58	34	0	2	63	1.07
1204809--1204882	20	3.5	20	72	13	76	47	10	21	20	1.80
1204822--1204889	18	3.3	18	68	27	55	50	8	22	19	1.75
1204803--1204889	44	2.0	44	100	0	174	47	9	22	20	1.79
1211561--1211585	2	12.5	2	100	0	50	52	0	0	48	1.00
1215074--1215129	2	28.0	2	88	0	85	0	50	5	44	1.25
1219158--1219198	4	9.8	4	89	10	64	21	2	0	75	0.92
1222858--1225890	110	26.5	110	78	10	2796	36	22	17	24	1.95
1223587--1223690	43	2.4	43	95	0	190	39	24	17	19	1.92
1223479--1223796	153	2.1	149	91	2	510	36	22	18	22	1.95
1224286--1224389	43	2.4	43	95	0	190	39	24	17	19	1.92
1222928--1225742	699	4.0	699	96	0	5022	36	22	17	24	1.94
1224178--1224495	153	2.1	149	91	2	510	36	22	18	22	1.95
1224985--1225088	43	2.4	43	91	0	181	39	23	17	20	1.92
1224877--1225194	153	2.1	149	89	2	501	36	22	18	22	1.95
1226050--1226316	84	3.2	82	76	4	286	29	24	21	24	1.99
1226631--1226690	12	4.6	13	81	10	61	28	1	0	70	0.97
1230848--1230886	17	2.3	17	86	0	51	20	2	2	74	1.06
1238936--1238998	32	2.0	32	87	0	90	50	3	7	38	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245842--1246090	123	2.0	123	83	3	311	31	12	20	35	1.90
1247526--1247799	146	1.9	146	97	0	521	25	10	27	36	1.89
1247746--1247852	53	2.0	53	100	0	214	29	7	33	28	1.85
1255305--1255338	17	1.9	18	94	5	61	35	26	20	17	1.95
1262812--1262948	60	2.3	60	78	7	145	35	18	13	32	1.91
1277633--1277659	12	2.2	12	100	0	54	55	25	18	0	1.43
1278401--1278681	43	6.5	44	80	3	315	22	16	21	39	1.92
1282267--1282392	43	3.0	43	76	10	145	26	22	19	32	1.97
1282392--1282537	41	3.6	41	68	17	79	33	13	19	33	1.91
1282408--1282633	83	2.7	84	81	2	231	37	15	17	29	1.91

Tables:   1   2   3   4   5   6   7