genome.fa.s9072.2.7.7.80.10.50.1000.6.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: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2600608

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1560 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)
947354--948457	248	4.4	249	87	2	1495	24	19	24	31	1.98
947354--948457	498	2.2	498	87	2	1560	24	19	24	31	1.98
953816--953849	11	3.0	11	87	8	50	73	0	0	26	0.83
953818--953854	16	2.3	16	95	0	65	70	0	0	29	0.88
954873--954934	5	11.8	5	83	10	52	69	0	4	25	1.08
954874--954933	15	4.2	14	75	12	59	68	0	5	26	1.10
955019--955314	37	8.2	35	71	20	186	43	7	3	44	1.49
958202--958250	24	2.1	25	85	11	68	57	6	10	26	1.55
959681--959724	22	2.0	22	86	13	63	40	13	0	45	1.44
959681--959722	21	1.9	23	85	9	61	40	14	0	45	1.45
959748--959789	22	1.9	22	90	0	66	66	9	9	14	1.44
964005--964072	23	3.0	23	80	0	73	19	25	23	32	1.97
967934--968002	23	3.0	23	89	0	102	20	24	26	28	1.99
971161--971229	24	3.0	24	76	17	67	31	17	26	24	1.97
971430--971462	17	1.9	17	100	0	66	30	6	12	51	1.63
972350--972414	23	2.8	23	80	0	67	21	24	21	32	1.98
975299--975360	21	3.0	21	78	0	61	4	38	12	43	1.64
979391--979456	33	2.0	33	100	0	132	18	15	18	48	1.81
981196--981231	2	18.5	2	94	5	65	50	0	0	50	1.00
982549--982965	209	2.0	208	99	0	816	23	17	25	33	1.96
986542--986567	2	13.0	2	100	0	52	50	0	0	50	1.00
991277--991313	18	2.1	18	94	0	65	18	48	21	10	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
991290--991315	13	2.0	13	100	0	52	15	46	23	15	1.83
991254--991312	31	1.9	31	92	0	100	20	47	20	11	1.81
995452--995501	22	2.3	22	79	3	57	44	2	2	52	1.24
995470--995525	13	4.0	13	72	22	51	46	0	1	51	1.11
997056--997096	21	1.9	22	85	5	57	53	7	2	36	1.42
999549--999696	73	2.0	73	94	2	262	32	20	11	35	1.89
1000327--1000367	17	2.4	17	83	4	55	43	12	19	24	1.85
1002761--1002798	16	2.4	16	79	16	51	76	0	7	15	1.01
1003774--1003799	12	2.2	12	100	0	52	69	7	0	23	1.14
1004693--1005141	106	4.2	106	90	1	641	23	19	24	33	1.97
1004694--1005346	212	3.2	212	86	6	813	23	18	24	33	1.97
1005050--1005229	88	2.0	88	95	0	324	22	19	24	33	1.97
1004946--1005315	194	1.9	194	94	0	650	22	18	24	33	1.96
1006861--1006904	22	2.0	22	90	0	70	25	11	22	40	1.87
1007547--1007616	7	9.7	7	76	11	61	0	18	1	80	0.80
1007546--1007617	8	9.8	8	82	11	84	0	18	1	80	0.78
1007546--1007616	15	4.9	15	80	11	85	0	18	1	80	0.79
1007539--1007618	24	3.2	24	80	15	99	0	16	3	80	0.86
1010641--1010678	16	2.4	16	79	16	51	76	0	7	15	1.01
1011871--1011909	17	2.3	16	83	12	51	71	2	0	25	0.98
1012946--1012995	2	25.0	2	100	0	100	50	0	0	50	1.00
1016643--1016699	21	2.7	21	76	10	71	36	14	10	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1016707--1016798	46	2.0	46	86	0	130	39	15	15	30	1.88
1020255--1020289	12	2.9	12	91	0	52	31	0	0	68	0.90
1022930--1023383	58	7.8	58	92	0	755	34	19	11	34	1.88
1025282--1025323	19	2.2	18	84	16	50	52	9	0	38	1.34
1027221--1027289	22	3.1	22	74	19	63	26	4	1	68	1.17
1027254--1027303	24	2.1	24	82	14	59	32	4	0	64	1.12
1030310--1030348	8	5.0	8	84	6	53	10	17	12	58	1.61
1031530--1031590	17	3.8	17	71	20	58	81	6	11	0	0.85
1031538--1031583	12	3.8	12	88	11	67	84	6	8	0	0.77
1031538--1031590	13	4.2	13	83	11	67	84	5	9	0	0.76
1031532--1031590	12	5.0	11	79	16	57	84	5	10	0	0.76
1031523--1031600	31	2.5	32	77	6	88	78	6	15	0	0.95
1032191--1032230	21	1.9	21	90	10	64	37	22	12	27	1.90
1033183--1033306	36	3.4	36	82	6	160	25	20	13	40	1.89
1033282--1033438	68	2.4	68	84	7	198	31	22	8	36	1.85
1034080--1034796	105	7.0	105	90	4	1072	33	27	17	22	1.96
1034080--1034796	208	3.5	209	88	5	1077	33	27	17	22	1.96
1037884--1037998	59	2.0	58	82	1	140	33	16	20	30	1.94
1038819--1038853	17	2.0	17	88	5	52	57	0	5	37	1.23
1040506--1040688	90	2.0	90	100	0	366	25	19	26	28	1.99
1048699--1048786	11	8.3	10	72	14	54	80	3	12	3	0.96
1048732--1048758	10	2.7	10	100	0	54	85	0	14	0	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1048697--1048749	14	3.7	14	80	12	63	79	3	15	1	0.96
1048720--1048785	24	2.8	23	86	4	87	83	1	12	3	0.83
1048697--1048774	14	5.8	13	72	27	58	79	3	14	2	0.98
1048728--1048785	19	3.2	18	78	7	55	84	1	10	3	0.81
1050132--1050292	64	2.5	64	85	0	178	34	19	19	26	1.96
1052248--1052289	2	21.5	2	82	4	50	52	4	0	42	1.22
1055356--1055388	3	11.3	3	87	6	50	60	0	0	39	0.97
1055344--1055402	6	10.0	6	78	9	50	54	1	1	42	1.20
1055691--1055884	55	3.5	55	89	3	277	29	25	13	31	1.94
1055735--1056050	55	5.8	55	83	8	233	25	25	15	34	1.95
1055669--1056046	110	3.5	107	78	7	361	24	25	15	33	1.95
1055858--1056049	54	3.5	54	86	3	253	23	24	17	33	1.96
1070140--1070172	3	11.3	3	87	6	50	60	0	0	39	0.97
1070127--1070186	6	10.2	6	78	8	52	53	1	1	43	1.20
1076340--1076375	11	3.4	11	96	3	65	22	30	30	16	1.96
1081502--1081540	20	1.9	20	84	5	51	38	0	2	58	1.12
1082468--1082523	24	2.3	24	87	0	76	16	8	19	55	1.67
1083940--1084004	16	4.1	16	87	0	103	9	10	21	58	1.59
1084074--1084105	16	2.0	16	100	0	64	6	12	25	56	1.59
1084407--1084432	2	13.0	2	100	0	52	50	0	0	50	1.00
1085622--1085657	2	18.0	2	100	0	72	50	0	0	50	1.00
1087267--1087378	51	2.2	51	90	0	170	20	24	31	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1089029--1089054	2	13.0	2	100	0	52	50	0	0	50	1.00
1090242--1090273	2	16.0	2	100	0	64	50	0	0	50	1.00
1091881--1091992	51	2.2	51	90	0	170	20	24	31	24	1.98
1098030--1098094	17	3.9	17	69	17	55	70	3	0	26	1.01
1098023--1098083	33	2.0	32	87	12	92	68	3	0	27	1.05
1099834--1099961	59	2.2	60	80	9	140	39	13	11	35	1.81
1110033--1110104	37	1.9	37	88	5	110	23	16	22	37	1.94
1120063--1120132	25	2.7	27	75	14	67	48	4	4	42	1.42
1120997--1121035	18	2.1	18	86	13	53	58	0	0	41	0.98
1123382--1123444	30	2.1	30	82	5	74	60	1	0	38	1.07
1129756--1129803	18	2.7	18	80	9	53	62	2	2	33	1.18
1134028--1134317	55	5.3	55	90	2	372	32	24	17	25	1.97
1135656--1135786	7	19.7	7	79	15	120	10	11	0	77	0.98
1135655--1135724	27	2.9	23	87	12	104	11	14	0	74	1.08
1135640--1135772	34	4.1	32	79	15	132	10	12	0	76	1.01
1135663--1135787	27	4.8	26	73	22	77	10	11	0	78	0.97
1135706--1135787	25	3.5	24	74	19	66	9	8	0	81	0.87
1135663--1135786	20	6.3	19	78	15	119	10	11	0	78	0.97
1135663--1135787	61	2.1	59	82	11	146	10	11	0	78	0.97
1146144--1146188	22	2.0	22	87	8	65	62	2	0	35	1.08
1151062--1151118	21	2.8	21	94	2	98	31	29	22	15	1.95
1153453--1153505	23	2.3	22	75	9	52	15	0	13	71	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153738--1153799	3	20.7	3	100	0	124	67	0	0	32	0.91
1156060--1156084	5	5.0	5	100	0	50	80	20	0	0	0.72
1156224--1156248	13	1.9	13	100	0	50	48	32	0	20	1.50
1163071--1163118	21	2.3	21	100	0	96	47	8	14	29	1.73
1168325--1168372	19	2.5	20	86	10	73	8	14	0	77	0.99
1168329--1168387	18	3.2	19	85	7	77	5	15	0	79	0.89
1168348--1168413	31	2.1	33	83	10	86	9	9	0	81	0.87
1170420--1170468	15	3.1	15	85	5	62	24	34	4	36	1.75
1171490--1171534	5	8.6	5	85	9	54	42	2	2	53	1.25
1176885--1176909	12	2.1	12	100	0	50	40	16	16	28	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13