genome.fa.s7912.2.7.7.80.10.50.1000.5.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: VEPZ01007912.1 Hibiscus syriacus cultivar Beakdansim tig00110313_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1361188

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 666 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)
1066598--1066644	24	2.0	24	87	8	69	38	21	14	25	1.92
1067326--1067555	20	11.5	20	84	1	228	20	17	24	36	1.94
1067522--1067619	21	4.7	21	75	6	74	22	18	21	37	1.94
1067522--1067620	42	2.4	43	77	11	100	22	18	22	37	1.94
1069095--1069124	12	2.5	12	94	0	51	26	26	10	36	1.88
1073449--1073562	44	2.7	43	81	8	128	14	27	37	21	1.91
1073435--1073571	20	6.7	20	79	10	145	16	22	38	21	1.93
1074191--1074285	29	3.3	30	75	18	85	23	11	3	62	1.43
1074276--1074857	298	2.0	288	86	4	808	23	13	7	56	1.62
1075553--1075622	31	2.3	31	84	0	95	31	27	10	31	1.89
1075564--1075629	31	2.1	31	94	0	114	24	30	13	31	1.94
1077854--1077923	31	2.3	31	85	5	88	25	25	14	34	1.94
1077872--1077934	31	2.1	31	90	3	101	23	25	15	34	1.95
1078532--1078602	36	2.0	36	88	0	106	30	9	40	18	1.83
1078538--1078614	36	2.1	36	85	0	100	32	11	40	15	1.84
1078675--1078709	2	17.5	2	100	0	70	51	0	0	48	1.00
1078703--1078771	32	2.2	33	80	12	83	53	0	0	46	1.00
1079124--1079161	16	2.3	17	86	4	51	31	13	2	52	1.54
1079303--1079329	13	2.1	13	100	0	54	55	0	0	44	0.99
1079303--1079345	13	3.1	14	86	6	52	55	0	2	41	1.12
1079384--1079437	23	2.3	24	90	3	83	38	3	11	46	1.57
1083272--1083331	7	8.6	7	76	7	59	23	0	28	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083272--1083331	14	4.3	14	84	0	75	23	0	28	48	1.51
1083272--1083331	28	2.1	28	87	0	84	23	0	28	48	1.51
1083378--1083632	2	129.5	2	80	10	285	47	4	0	47	1.28
1083610--1084932	4	333.8	4	97	1	2526	50	24	0	25	1.50
1084930--1084955	2	13.0	2	100	0	52	50	0	0	50	1.00
1084930--1084969	10	3.9	11	87	9	50	52	0	0	47	1.00
1084996--1085055	13	4.5	13	77	8	57	45	6	1	46	1.39
1084998--1085046	15	3.4	15	75	11	57	46	6	2	44	1.39
1084998--1085079	28	2.9	28	82	10	87	47	4	2	45	1.37
1085062--1085095	18	1.9	17	94	5	59	47	0	5	47	1.26
1091181--1091283	15	6.4	15	76	17	100	77	0	21	0	0.82
1091205--1091294	7	13.0	7	71	19	55	75	0	24	0	0.80
1091181--1091281	5	20.8	5	71	16	70	77	0	21	0	0.83
1091181--1091310	53	2.4	52	81	10	147	75	0	23	1	0.89
1091230--1091304	37	2.0	37	89	5	116	76	0	24	0	0.80
1091218--1091283	9	7.2	9	81	6	71	80	0	19	0	0.72
1091190--1091292	14	6.9	14	71	16	57	75	0	23	0	0.86
1091185--1091311	28	4.5	28	72	14	84	74	0	23	1	0.90
1091438--1091689	116	2.2	116	81	2	283	28	14	19	37	1.91
1092986--1093571	44	13.3	44	68	10	234	32	17	17	32	1.94
1092986--1093281	133	2.3	129	84	4	371	32	18	17	31	1.94
1093099--1093268	90	1.9	87	80	5	198	31	17	18	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093948--1093990	3	14.3	3	90	0	68	32	0	4	62	1.15
1093989--1094023	3	11.7	3	87	0	52	34	37	0	28	1.58
1101505--1101609	40	2.6	39	86	3	138	24	16	25	33	1.96
1102169--1102230	31	2.0	31	87	0	88	29	12	25	32	1.93
1108992--1109101	40	2.8	40	88	0	157	25	14	24	35	1.93
1113192--1113553	180	2.0	182	98	1	710	38	11	21	28	1.89
1117149--1117383	6	39.3	6	81	2	186	45	7	4	42	1.52
1117149--1117383	10	23.6	10	82	2	186	45	7	4	42	1.52
1118346--1118509	29	5.7	28	73	13	102	34	6	13	46	1.68
1118337--1118531	86	2.3	86	80	4	205	32	5	14	47	1.67
1119934--1119971	18	2.0	21	85	15	55	44	5	2	47	1.39
1125792--1126004	29	7.4	29	84	6	238	33	3	14	48	1.61
1129230--1129258	10	2.9	10	100	0	58	20	0	10	68	1.18
1135215--1135338	45	2.8	45	83	3	153	28	20	7	43	1.78
1135443--1135551	40	2.7	40	90	2	157	33	25	14	25	1.94
1142049--1142087	12	3.3	12	92	3	62	33	25	17	23	1.96
1142441--1142565	45	2.8	45	85	2	153	28	20	7	43	1.78
1142670--1142779	40	2.8	40	81	0	139	31	26	16	25	1.96
1145961--1146047	27	3.2	27	88	1	120	48	19	10	21	1.79
1149474--1149533	28	2.2	28	78	3	68	46	16	13	23	1.82
1150359--1150421	24	2.6	24	70	9	56	25	12	14	47	1.79
1150578--1150649	32	2.3	32	88	4	103	12	20	36	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150577--1150659	31	2.7	29	80	12	103	12	25	34	27	1.91
1151776--1152035	54	4.8	54	82	3	299	32	18	18	30	1.95
1152061--1152693	327	1.9	327	94	1	1108	32	20	9	36	1.86
1153457--1153549	46	2.0	46	87	0	132	23	20	9	46	1.80
1153872--1154151	54	5.2	54	86	4	361	33	16	16	33	1.92
1154495--1154535	22	1.9	21	85	5	55	31	26	9	31	1.89
1154574--1154643	19	3.5	19	74	5	59	27	25	14	32	1.94
1154613--1154662	20	2.4	21	87	9	68	30	22	14	34	1.93
1159307--1159399	46	2.0	46	91	0	150	26	18	9	45	1.80
1159703--1159960	54	4.8	54	81	7	276	31	17	18	32	1.94
1159703--1159960	107	2.4	108	85	4	326	31	17	18	32	1.94
1160297--1160340	22	2.0	21	86	4	61	31	27	9	31	1.88
1162293--1162324	14	2.1	16	88	11	50	53	15	0	31	1.43
1164424--1164489	30	2.2	30	83	0	78	12	25	25	36	1.91
1164435--1164508	30	2.4	29	82	10	78	8	24	27	40	1.83
1164463--1164509	20	2.3	20	85	0	67	8	25	25	40	1.84
1171391--1171505	61	1.9	61	90	0	185	26	18	26	28	1.98
1171575--1171916	47	7.3	47	92	0	531	38	7	19	33	1.80
1173616--1173705	5	16.4	5	75	20	74	80	1	14	4	0.93
1173623--1173706	23	3.7	23	79	17	88	80	0	14	4	0.86
1173601--1173708	34	3.2	33	84	11	130	79	0	13	5	0.95
1175747--1175809	29	2.1	30	85	2	83	39	6	19	34	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176789--1176903	61	1.9	61	90	0	185	26	18	26	28	1.98
1176973--1177310	47	7.2	47	91	0	541	39	7	19	34	1.79
1180172--1180272	24	4.1	26	75	22	69	76	0	16	5	1.04
1180191--1180269	15	5.1	16	73	17	53	75	0	17	6	1.00
1180192--1180259	23	3.0	23	87	10	95	75	0	17	7	1.03
1180182--1180269	34	2.6	34	81	12	103	76	0	17	6	1.00
1180208--1180290	41	2.0	41	86	9	116	73	0	16	9	1.08
1180205--1180286	24	3.1	28	77	17	72	74	0	17	8	1.06
1181164--1181243	24	3.3	24	78	0	88	48	15	13	22	1.79
1189725--1189812	24	3.7	24	82	0	104	47	15	14	21	1.82
1189723--1189826	48	2.2	48	84	3	138	49	15	15	20	1.80
1189730--1189789	12	5.0	12	69	15	52	48	16	15	20	1.81
1189744--1189826	24	3.5	24	78	3	87	45	15	16	21	1.85
1193264--1193487	112	2.0	112	89	1	342	38	20	13	27	1.90
1193920--1193944	2	12.5	2	100	0	50	52	0	0	48	1.00
1194111--1194202	12	7.8	12	69	11	55	51	17	13	18	1.77
1194109--1194216	24	4.5	24	72	9	96	50	16	14	18	1.79
1196690--1196725	12	2.8	13	87	4	56	22	22	38	16	1.93
1198085--1198308	112	2.0	112	94	0	394	38	19	15	26	1.91
1198967--1199024	24	2.4	24	82	0	80	50	13	13	22	1.77
1199669--1199761	21	4.5	21	77	4	100	40	17	24	17	1.90
1199750--1199864	20	5.7	20	82	6	115	31	26	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199669--1199761	41	2.3	41	96	0	168	40	17	24	17	1.90
1199747--1199884	41	3.4	41	79	6	154	34	24	17	23	1.96
1200052--1200095	22	2.0	22	95	0	79	20	45	15	18	1.85
1200359--1200396	20	1.9	20	88	0	58	13	15	21	50	1.78
1201716--1201760	18	2.5	18	88	0	72	26	44	15	13	1.83
1202242--1202287	20	2.3	20	88	0	65	36	26	21	15	1.93
1202297--1202354	14	3.9	14	77	16	62	50	22	15	12	1.77
1202281--1202371	32	2.8	33	88	3	139	48	19	17	14	1.81
1202395--1202490	19	4.9	19	79	6	77	14	19	20	44	1.86
1202413--1202487	20	3.8	19	80	5	69	16	22	21	40	1.91

Tables:   1   2   3   4   5   6