genome.fa.s1736.2.7.7.80.10.50.1000.6.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: VEPZ01001736.1 Hibiscus syriacus cultivar Beakdansim tig00003507_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1778036

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 999 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)
1047711--1048896	593	2.0	593	97	0	2228	37	9	19	32	1.85
1053183--1053227	19	2.4	19	81	3	56	33	2	11	53	1.49
1061687--1062748	528	2.0	533	98	1	2055	29	18	25	27	1.98
1067908--1067955	20	2.4	20	100	0	96	31	4	25	39	1.74
1068520--1068555	16	2.2	16	100	0	72	36	19	27	16	1.93
1070979--1071148	87	2.0	86	81	5	200	50	8	16	24	1.74
1071037--1071156	44	2.8	43	82	6	136	51	9	14	25	1.71
1070997--1071156	43	3.7	43	76	8	148	52	8	15	23	1.69
1071254--1071354	20	4.7	21	63	16	55	62	5	5	25	1.41
1071254--1071355	22	4.7	22	66	22	56	62	5	5	25	1.41
1076926--1076971	23	2.0	23	82	0	56	34	19	15	30	1.93
1077564--1077906	139	2.5	138	80	2	364	44	11	12	30	1.79
1078902--1078962	28	2.3	25	83	16	70	59	0	4	36	1.19
1078949--1078982	16	2.1	16	88	0	50	64	5	0	29	1.17
1079691--1079762	29	2.5	29	93	0	126	34	12	13	38	1.83
1082045--1082084	14	3.1	13	82	10	55	57	2	0	40	1.12
1085678--1085760	31	2.7	32	92	3	134	56	4	31	7	1.47
1104530--1104574	19	2.4	19	100	0	90	37	40	8	13	1.76
1116124--1116224	30	3.3	29	67	21	80	49	4	3	41	1.43
1116122--1116246	63	2.0	64	88	4	191	49	6	5	38	1.52
1118258--1118332	14	5.8	13	72	17	59	44	0	1	54	1.08
1118303--1118388	21	4.1	21	71	22	65	39	1	0	59	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118328--1118389	19	3.3	19	78	15	58	37	1	0	61	1.06
1119253--1119296	22	2.0	22	95	0	79	38	0	11	50	1.39
1119321--1119379	31	1.9	31	92	0	100	42	8	8	40	1.66
1120227--1120313	31	2.8	31	82	3	104	56	2	1	40	1.19
1123113--1123156	18	2.5	18	92	3	72	22	9	27	40	1.84
1123125--1123175	18	2.8	18	84	0	57	21	19	25	33	1.97
1125890--1125935	2	23.0	2	100	0	92	50	0	0	50	1.00
1126747--1126796	22	2.3	22	89	6	75	34	18	10	38	1.84
1127948--1128043	20	4.8	20	90	2	147	40	20	20	17	1.91
1127948--1128043	41	2.4	40	91	1	147	40	20	20	17	1.91
1128576--1128653	20	3.9	21	80	9	83	51	20	16	11	1.75
1128665--1128805	20	7.8	19	71	20	115	9	21	19	49	1.76
1128665--1128797	33	3.8	33	80	12	142	9	21	20	48	1.77
1130560--1130585	12	2.2	12	100	0	52	0	7	15	76	0.99
1130498--1130873	94	4.1	93	94	3	618	21	12	18	47	1.81
1130968--1131015	16	2.8	17	82	14	62	47	22	22	6	1.73
1130985--1131044	19	2.9	19	83	13	75	50	26	18	5	1.67
1131053--1131109	14	3.7	14	70	20	51	8	22	22	45	1.80
1131067--1131190	19	6.6	19	75	12	114	11	20	20	47	1.80
1131050--1131166	33	3.4	33	82	13	153	9	23	21	46	1.80
1131060--1131190	39	3.5	38	82	11	130	11	21	19	48	1.80
1131643--1131709	21	3.2	21	66	6	55	23	35	20	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131591--1131709	42	2.8	42	81	5	107	22	36	18	22	1.95
1133062--1133097	14	2.6	14	95	0	63	33	0	22	44	1.53
1133243--1133313	19	3.7	19	86	1	88	14	22	19	43	1.87
1133258--1133320	19	3.3	19	86	2	72	17	22	19	41	1.90
1135827--1135880	24	2.2	24	90	0	81	40	20	20	18	1.91
1136743--1136854	41	2.8	40	88	6	165	36	18	18	25	1.94
1136743--1136852	20	5.4	20	91	4	161	35	19	19	26	1.95
1139059--1139124	3	22.3	3	93	3	116	65	0	0	34	0.93
1139335--1139665	43	7.6	43	69	14	196	25	16	30	26	1.97
1139321--1139724	131	3.1	131	90	1	614	27	16	30	25	1.97
1139802--1139917	33	3.4	34	75	8	119	36	13	18	31	1.90
1139823--1139952	36	3.7	35	77	11	140	40	12	18	29	1.87
1139820--1139962	69	2.1	69	95	0	259	36	11	19	32	1.87
1139958--1140101	36	4.0	36	79	1	137	41	11	21	25	1.87
1139821--1140009	69	2.8	67	84	7	195	38	12	20	29	1.89
1139984--1140117	72	1.9	72	82	0	169	44	11	20	23	1.84
1140056--1140125	36	1.9	36	85	5	97	48	11	17	22	1.79
1140065--1140192	67	1.9	67	83	0	166	42	14	15	28	1.86
1140314--1140383	37	1.9	36	82	8	88	35	11	17	35	1.85
1140502--1140590	32	2.8	32	87	5	126	30	21	16	31	1.96
1142335--1142391	27	2.2	24	78	21	71	49	5	8	36	1.57
1142345--1142404	27	2.2	27	96	0	111	45	6	10	38	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145925--1145958	3	11.3	3	100	0	68	64	0	0	35	0.94
1150568--1150651	26	3.5	23	70	23	66	48	1	1	48	1.16
1150556--1150603	16	3.2	15	82	5	53	52	0	0	47	1.00
1150625--1150692	22	3.0	22	75	8	64	50	2	1	45	1.26
1150781--1150821	14	2.9	14	88	3	55	60	0	0	39	0.96
1150681--1150822	37	3.7	38	75	10	130	54	0	1	44	1.09
1150911--1150969	29	2.0	29	80	6	66	52	3	5	38	1.40
1151017--1151094	28	2.7	28	76	13	79	51	1	2	44	1.23
1150974--1151067	43	2.2	44	80	16	108	54	2	1	42	1.19
1152443--1152529	3	29.0	3	100	0	174	66	0	0	33	0.92
1157080--1157141	3	21.3	3	74	12	58	43	0	0	56	0.99
1158355--1158393	19	2.0	20	85	5	53	25	2	2	69	1.14
1159305--1159366	27	2.3	27	100	0	124	35	6	16	41	1.74
1177333--1177369	18	2.1	18	89	0	56	21	0	13	64	1.27
1177338--1177376	18	2.2	18	86	4	53	20	2	10	66	1.33
1178661--1178727	14	4.8	14	92	0	107	10	13	17	58	1.63
1179164--1179227	23	2.8	23	92	0	92	17	12	12	57	1.64
1179261--1179323	24	2.6	25	79	20	80	12	11	15	60	1.59
1181939--1181971	14	2.4	14	94	0	57	51	0	9	39	1.34
1183119--1183193	37	2.0	37	89	0	114	41	20	17	21	1.90
1187806--1187838	2	16.5	2	100	0	66	51	0	0	48	1.00
1188138--1188187	17	3.1	17	68	26	54	20	6	22	52	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188361--1188391	11	2.8	11	95	0	53	19	48	9	22	1.78
1193685--1193735	20	2.5	21	81	9	61	27	27	15	29	1.96
1196749--1196784	19	1.9	19	94	5	65	47	11	25	16	1.79
1197864--1197895	16	2.1	15	94	5	55	43	0	0	56	0.99
1200969--1201045	37	2.1	37	85	4	102	48	1	3	46	1.28
1204198--1204222	2	12.5	2	100	0	50	48	0	0	52	1.00
1209459--1209505	2	23.0	2	81	12	51	46	2	6	44	1.40
1209459--1209516	29	2.0	29	96	0	107	44	5	10	39	1.61
1209706--1209934	43	5.3	43	72	11	121	27	21	21	29	1.99
1209706--1209914	86	2.4	85	78	4	195	26	20	22	30	1.98
1209747--1209908	43	3.8	42	77	8	139	26	21	20	30	1.98
1209875--1209978	43	2.3	45	80	11	124	27	21	21	29	1.98
1210314--1210375	21	3.0	21	80	4	72	3	40	16	40	1.64
1210312--1210381	21	3.3	20	80	4	68	2	40	15	41	1.62
1210363--1210411	21	2.3	21	79	6	55	6	36	18	38	1.76
1219407--1219680	81	3.4	81	89	4	383	32	22	16	29	1.95
1219407--1219703	41	7.3	41	71	14	204	31	22	15	29	1.95
1219407--1219717	81	3.8	80	86	5	349	31	22	16	29	1.95
1222427--1222470	23	1.9	23	90	0	70	6	13	40	38	1.71
1224411--1224466	24	2.3	24	100	0	112	28	17	16	37	1.91
1224689--1224754	30	2.2	30	88	0	96	10	28	24	36	1.89
1225215--1225289	39	1.9	39	86	5	107	34	17	0	48	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228337--1228382	14	3.4	13	85	8	65	36	21	23	17	1.94
1240680--1240751	31	2.3	31	87	0	108	29	9	11	50	1.70
1241512--1241598	25	3.5	25	77	21	78	42	5	0	51	1.25
1241563--1241613	23	2.3	22	90	6	77	41	0	0	58	0.98
1242262--1242296	18	1.9	18	88	0	52	51	0	0	48	1.00
1242343--1242416	38	1.9	38	86	0	103	24	6	33	35	1.82
1242675--1242730	11	5.1	11	95	0	103	46	8	16	28	1.77
1264049--1264073	9	2.8	9	100	0	50	8	20	0	72	1.10
1276775--1276958	101	1.8	101	97	1	350	46	15	14	24	1.82
1289780--1289853	30	2.5	30	86	0	103	31	29	14	24	1.95

Tables:   1   2   3   4   5   6   7   8   9