genome.fa.s8685.2.7.7.80.10.50.1000.6.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: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3669133

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  6  of  19  ( 2244 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)
1056344--1056390	24	2.0	24	87	8	69	44	25	0	29	1.54
1056346--1056396	16	3.2	16	75	5	50	49	23	0	27	1.51
1059603--1059743	57	2.5	57	92	0	237	52	4	18	24	1.65
1059708--1059780	37	2.0	37	88	0	110	49	2	16	31	1.60
1059759--1059860	49	2.1	49	94	0	177	49	5	17	27	1.70
1059606--1059879	143	1.9	145	90	6	435	50	5	18	26	1.68
1062435--1062481	15	3.2	15	84	3	60	46	4	0	48	1.21
1063483--1063527	20	2.3	20	82	17	67	60	0	4	35	1.17
1063485--1063525	19	2.2	19	91	8	66	60	0	4	34	1.18
1066847--1066880	16	2.1	16	94	0	59	35	20	8	35	1.84
1074590--1074615	2	13.0	2	100	0	52	50	0	0	50	1.00
1075220--1075246	12	2.2	12	100	0	54	0	14	59	25	1.36
1075383--1075550	30	5.3	30	78	10	165	13	46	23	16	1.83
1087050--1087074	3	8.3	3	100	0	50	32	0	0	68	0.90
1088857--1089114	101	2.5	105	84	6	339	26	18	16	38	1.92
1089296--1089396	41	2.5	40	88	3	141	21	24	7	45	1.78
1089338--1089657	113	2.8	113	92	0	514	25	22	14	38	1.92
1091550--1091647	36	2.7	36	78	6	101	30	27	17	24	1.97
1099223--1099247	3	8.3	3	100	0	50	32	0	0	68	0.90
1099293--1099321	3	9.7	3	100	0	58	65	0	0	34	0.93
1099299--1099360	15	4.3	13	76	15	52	67	1	0	30	1.00
1099331--1099360	14	2.2	14	94	5	53	73	3	0	23	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103892--1103986	48	2.0	48	95	0	172	30	23	21	25	1.99
1106048--1106085	20	1.9	19	89	5	58	47	2	0	50	1.15
1106214--1106277	24	2.8	22	81	13	67	48	1	0	50	1.10
1119147--1119241	48	2.0	48	89	0	145	26	14	21	37	1.92
1120005--1120070	31	2.1	32	88	2	98	39	18	15	27	1.90
1120478--1120635	78	2.0	78	86	4	221	43	12	10	34	1.76
1123660--1123704	22	2.0	23	95	4	83	26	8	31	33	1.87
1126799--1126880	20	4.0	21	73	6	69	28	28	14	29	1.95
1130137--1130172	18	2.0	18	94	0	63	55	25	2	16	1.55
1130460--1130541	20	4.1	20	80	0	83	20	19	23	36	1.95
1130600--1130746	63	2.3	64	91	2	235	51	17	2	28	1.57
1132089--1132224	21	6.5	21	79	3	112	22	19	35	22	1.96
1132089--1132223	42	3.2	41	81	9	139	22	19	34	22	1.96
1134281--1134326	20	2.3	20	80	0	56	15	15	21	47	1.81
1134642--1134699	22	2.6	22	86	0	80	20	18	41	18	1.91
1135096--1135143	22	2.2	22	92	0	78	20	14	43	20	1.87
1134455--1135307	451	1.9	451	93	0	1483	34	11	21	32	1.90
1135298--1135345	20	2.5	20	83	6	64	22	10	20	45	1.81
1141828--1141860	11	2.8	12	90	9	50	33	9	6	51	1.58
1145337--1145405	23	3.0	23	79	10	70	18	20	23	37	1.94
1150609--1150677	23	3.0	23	79	10	79	18	21	23	36	1.95
1151559--1151596	20	1.9	20	89	10	60	15	0	23	60	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1157736--1157787	24	2.1	25	82	3	61	50	15	21	13	1.78
1158541--1158573	10	3.4	10	87	8	50	12	0	0	87	0.53
1158541--1158575	9	3.9	9	88	0	52	17	0	0	82	0.66
1163940--1164000	24	2.5	24	100	0	122	47	18	24	9	1.78
1170152--1170203	24	2.1	25	85	3	70	48	17	21	13	1.81
1171360--1171405	21	2.3	21	85	7	60	28	6	4	60	1.40
1173727--1173763	18	2.1	18	94	0	65	27	13	24	35	1.93
1176904--1177060	41	3.8	41	85	3	208	27	16	17	38	1.92
1176981--1177049	22	3.3	22	63	19	56	27	17	17	37	1.92
1176900--1177056	82	1.9	82	89	0	242	27	16	17	38	1.91
1176915--1177081	41	4.1	41	82	3	120	25	20	16	38	1.92
1176915--1177081	82	2.0	82	83	0	208	25	20	16	38	1.92
1177546--1177593	21	2.3	21	96	0	87	27	18	12	41	1.86
1182163--1182210	21	2.3	21	96	0	87	27	18	12	41	1.86
1183271--1183356	40	2.1	40	86	2	118	24	12	22	40	1.89
1184038--1184079	21	2.0	21	85	0	57	30	14	21	33	1.93
1186883--1187174	77	3.8	77	84	4	333	34	10	17	36	1.85
1187276--1187499	124	1.8	124	88	0	342	40	9	7	41	1.66
1187531--1187564	17	2.0	17	100	0	68	11	17	11	58	1.62
1187592--1187924	77	4.4	77	82	4	363	38	15	7	38	1.76
1187592--1187929	154	2.2	152	83	4	412	38	15	7	38	1.76
1187725--1187925	40	5.2	40	63	18	102	39	15	7	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205722--1205770	24	2.0	24	100	0	98	48	4	26	20	1.67
1206109--1206240	20	6.6	20	80	8	108	40	20	16	21	1.91
1206095--1206240	40	3.7	39	76	9	125	41	20	16	21	1.90
1206097--1206240	60	2.4	60	76	9	148	42	20	16	20	1.89
1206350--1206392	22	2.0	20	82	8	50	16	39	18	25	1.91
1208958--1209056	21	4.7	21	76	9	85	25	34	17	23	1.96
1208958--1209055	42	2.3	41	76	11	99	25	34	16	23	1.95
1208985--1209076	42	2.2	42	84	3	114	21	38	21	18	1.94
1210392--1210567	66	2.6	65	89	8	257	27	2	15	53	1.54
1210630--1210678	20	2.5	20	80	6	64	46	16	22	14	1.82
1213402--1213455	24	2.2	24	83	0	63	37	16	18	27	1.93
1213565--1213598	12	2.8	12	90	0	50	14	0	29	55	1.40
1214369--1214415	18	2.6	18	82	3	58	31	14	23	29	1.95
1214408--1214459	19	2.7	19	85	8	61	34	9	21	34	1.86
1214451--1214493	20	2.2	20	95	0	77	16	13	25	44	1.85
1214511--1214560	20	2.5	20	96	0	91	34	10	28	28	1.89
1214505--1214574	20	3.5	20	86	0	86	27	11	31	30	1.91
1216915--1216950	2	18.0	2	100	0	72	50	0	50	0	1.00
1218345--1218397	20	2.6	21	76	11	56	64	5	3	26	1.33
1219766--1219817	3	18.0	3	84	7	72	69	0	0	30	0.89
1219773--1219831	9	6.9	8	81	14	57	71	1	0	27	0.96
1220929--1221083	80	1.9	79	90	1	247	24	4	23	47	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223358--1223392	18	1.9	18	88	0	52	28	14	20	37	1.91
1227897--1227963	34	2.0	34	93	0	116	29	16	20	32	1.95
1241093--1241138	18	2.6	18	78	0	56	36	13	23	26	1.91
1241805--1241845	20	2.0	20	85	0	55	29	19	31	19	1.96
1245172--1245209	19	2.1	19	90	5	60	28	21	10	39	1.86
1251183--1251232	22	2.3	22	96	0	91	36	30	4	30	1.76
1257855--1257914	27	2.5	22	72	27	59	5	3	26	65	1.29
1257865--1257931	27	2.5	26	90	2	98	5	5	26	61	1.43
1258414--1258497	29	2.9	29	85	5	109	46	2	9	41	1.49
1259093--1259166	20	3.5	20	75	14	69	54	1	2	41	1.23
1259517--1259892	188	2.0	188	100	0	752	26	23	18	30	1.98
1261450--1261609	84	1.9	85	98	1	313	41	13	22	22	1.88
1264178--1264216	18	2.2	18	90	4	62	35	0	2	61	1.10
1265894--1265993	50	2.0	50	94	3	175	29	36	16	19	1.93
1269684--1269768	34	2.5	34	96	0	152	15	24	24	35	1.94
1269844--1269887	23	1.9	23	100	0	88	9	25	40	25	1.84
1269841--1269894	23	2.4	22	84	9	81	11	24	42	22	1.85
1270042--1270119	41	1.9	41	94	0	138	34	14	30	20	1.92
1270592--1270632	20	2.0	20	86	9	57	31	7	12	48	1.68
1270362--1270720	172	2.1	173	90	3	564	40	4	17	37	1.70
1272959--1273642	14	48.3	14	67	19	99	49	5	3	41	1.45
1272965--1273559	8	81.8	8	66	24	216	49	6	3	40	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273130--1273524	35	11.0	37	80	17	426	49	6	4	40	1.47
1273169--1273317	22	6.5	22	76	11	140	48	6	4	41	1.46
1272993--1273628	129	4.9	130	81	12	718	49	5	3	41	1.46
1273402--1273675	71	3.9	73	80	11	272	49	5	3	41	1.43
1273589--1273648	28	2.1	29	96	3	113	48	3	5	43	1.41
1273043--1273644	229	2.7	227	81	14	759	49	6	3	40	1.46
1273611--1273675	20	3.3	19	71	16	60	50	1	3	44	1.26
1273585--1273675	14	6.6	14	73	15	66	49	2	3	45	1.30
1277014--1277101	42	2.1	42	91	4	142	31	32	18	17	1.94
1279390--1279457	21	3.1	22	75	8	75	32	25	22	20	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19