genome.fa.s8150.2.7.7.80.10.50.1000.5.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: VEPZ01008150.1 Hibiscus syriacus cultivar Beakdansim tig00110716_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3012591

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  5  of  14  ( 1639 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)
1037442--1037638	108	1.8	108	81	2	243	18	14	15	52	1.75
1040450--1040547	43	2.3	44	82	5	119	53	5	18	23	1.64
1047080--1047135	23	2.4	23	91	5	87	12	25	16	46	1.81
1050226--1050304	31	2.6	31	94	4	135	39	21	20	18	1.93
1054531--1054620	30	3.0	30	78	14	105	40	23	16	20	1.91
1055941--1056046	3	35.0	3	82	16	130	66	0	33	0	0.99
1066911--1066958	13	3.6	13	83	5	60	60	0	2	37	1.09
1066909--1066959	21	2.6	19	78	9	57	62	0	1	35	1.06
1067105--1067129	2	12.5	2	100	0	50	52	0	0	48	1.00
1069064--1069139	36	2.2	33	88	9	109	32	5	21	40	1.75
1069298--1069436	65	2.1	66	93	1	235	38	10	17	33	1.84
1069550--1069621	37	1.9	37	85	0	99	37	13	23	25	1.92
1069652--1069824	37	5.0	36	71	17	127	37	13	18	30	1.89
1069421--1069822	201	2.0	204	92	2	677	37	12	19	30	1.89
1069251--1069823	102	5.7	102	85	7	674	37	12	18	30	1.88
1069865--1070186	36	8.9	36	65	6	177	40	14	18	26	1.89
1069822--1070186	72	5.1	72	91	0	577	40	14	18	27	1.89
1071366--1071592	95	2.6	89	82	10	261	30	19	19	30	1.96
1071424--1071605	95	1.9	95	92	2	303	29	18	19	32	1.96
1075951--1075975	2	12.5	2	100	0	50	52	0	0	48	1.00
1076093--1076168	8	9.1	8	71	12	55	72	1	2	23	1.05
1078899--1078933	3	12.0	3	93	6	63	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1082497--1082560	20	3.2	20	72	14	69	45	3	6	45	1.44
1084069--1084107	17	2.3	17	86	8	53	66	7	0	25	1.18
1085862--1086134	105	2.6	105	88	1	413	24	20	17	37	1.94
1087028--1087078	12	3.7	14	78	19	54	9	15	0	74	1.06
1096449--1096486	19	2.0	19	89	0	58	21	36	26	15	1.93
1106346--1106380	14	2.5	14	90	0	52	82	2	0	14	0.77
1112826--1112883	29	1.9	29	86	6	80	63	1	1	32	1.14
1112864--1112974	20	5.2	24	72	27	124	56	0	2	40	1.13
1112858--1112987	22	6.2	21	78	12	133	56	0	2	40	1.12
1112874--1112978	17	5.4	17	68	27	66	55	0	2	41	1.15
1112858--1112981	41	3.0	41	100	0	248	56	0	2	41	1.12
1113956--1114008	20	2.7	20	90	0	79	11	28	32	28	1.91
1114492--1114537	3	15.3	3	82	17	60	63	0	0	36	0.95
1114839--1115399	113	4.9	113	82	6	619	27	21	14	36	1.92
1114753--1115263	237	2.2	235	87	2	724	27	20	13	38	1.90
1122885--1122926	7	6.0	7	79	20	52	54	11	19	14	1.70
1125670--1125792	41	3.0	41	97	2	239	56	0	2	41	1.13
1125671--1125792	40	3.0	40	98	1	235	55	0	2	41	1.13
1125887--1125917	14	2.3	14	94	5	55	58	0	0	41	0.98
1127249--1127294	3	15.3	3	82	17	60	63	0	0	36	0.95
1129402--1129441	21	2.0	21	85	5	55	50	25	0	25	1.50
1132646--1132690	23	2.0	23	82	8	56	48	4	0	46	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1135005--1135366	55	6.6	55	84	5	414	29	20	18	32	1.96
1135004--1135366	110	3.3	110	85	4	484	28	20	18	32	1.96
1135387--1135500	37	3.1	37	86	6	142	22	18	16	42	1.89
1136774--1136849	6	12.2	6	82	17	93	1	15	3	78	0.96
1136776--1136849	13	5.8	13	87	12	102	1	16	4	78	0.97
1136834--1136896	9	6.2	9	75	22	54	11	15	0	73	1.10
1136829--1136911	32	2.6	30	83	11	85	10	14	0	74	1.07
1136829--1136911	33	2.6	31	84	9	96	10	14	0	74	1.07
1136834--1136919	21	3.9	22	80	16	90	11	16	0	72	1.13
1139284--1139464	93	1.9	93	90	0	290	37	9	6	45	1.64
1162071--1162104	17	2.0	17	100	0	68	11	35	5	47	1.65
1163351--1163384	16	2.1	16	94	0	59	67	2	0	29	1.05
1166133--1166203	5	13.8	5	75	10	54	76	1	4	18	1.03
1166138--1166208	25	2.8	26	77	14	85	76	1	5	16	1.05
1166133--1166205	12	5.9	12	78	13	69	76	1	4	17	1.01
1168072--1168500	122	3.5	122	82	2	448	27	14	23	34	1.94
1168538--1168726	83	2.3	83	83	1	227	19	16	29	33	1.94
1173714--1173766	13	3.8	13	80	11	61	3	13	1	81	0.92
1178293--1178361	5	13.8	5	72	15	54	73	1	5	18	1.10
1178300--1178370	24	2.9	24	85	8	81	73	1	7	18	1.13
1179085--1179256	73	2.4	73	90	3	269	52	2	17	27	1.57
1179083--1179252	33	5.0	33	75	12	139	52	2	17	27	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180425--1180450	13	2.0	13	100	0	52	0	15	15	69	1.20
1181590--1181621	14	2.3	14	94	0	55	28	6	25	40	1.79
1181675--1181699	4	6.2	4	100	0	50	24	0	0	76	0.80
1185062--1185092	16	1.9	16	93	0	53	29	0	12	58	1.35
1185203--1185237	18	2.0	17	88	5	52	17	22	37	22	1.94
1185749--1185793	23	2.0	23	100	0	90	42	26	4	26	1.74
1188001--1188045	13	3.5	13	90	0	72	26	17	17	37	1.93
1188027--1188192	85	2.0	85	91	2	271	31	19	16	31	1.95
1188212--1188248	2	18.5	2	100	0	74	48	0	0	51	1.00
1194917--1194958	13	3.2	13	96	0	75	28	19	23	28	1.98
1195982--1196250	5	54.0	5	94	5	483	40	0	0	59	0.97
1207516--1207567	23	2.5	19	75	21	59	7	11	28	51	1.65
1207525--1207576	23	2.3	23	93	0	95	11	11	26	50	1.73
1207536--1207640	23	4.5	23	76	4	68	20	12	20	46	1.82
1208733--1208939	39	5.4	38	80	11	178	42	4	8	44	1.55
1208756--1208809	28	1.9	28	85	7	74	46	3	7	42	1.49
1210179--1210266	41	2.2	39	84	8	113	22	11	1	64	1.32
1212977--1213008	13	2.4	14	85	15	50	28	0	3	68	1.04
1217452--1217627	57	3.1	57	80	11	200	31	16	22	29	1.96
1219366--1219790	46	9.3	46	93	1	719	21	21	10	46	1.81
1219366--1219790	137	3.1	138	94	0	737	21	21	10	46	1.81
1219366--1219791	229	1.9	229	96	1	791	21	21	10	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226319--1226349	5	6.0	5	92	7	53	77	0	0	22	0.77
1237635--1237689	23	2.5	22	80	16	69	29	14	20	36	1.92
1238113--1238155	19	2.2	20	87	4	61	16	0	13	69	1.19
1240003--1240035	12	2.8	12	95	0	57	51	6	6	36	1.51
1247692--1247760	23	2.9	23	80	4	57	24	26	23	26	2.00
1256998--1257040	20	2.2	20	91	0	68	34	16	20	27	1.94
1256964--1257251	77	3.7	77	90	0	450	30	14	19	35	1.92
1257069--1257110	20	2.1	20	95	0	75	30	16	23	28	1.96
1257152--1257194	20	2.2	20	86	0	59	30	13	23	32	1.93
1257243--1257294	20	2.6	20	81	0	68	19	19	19	42	1.90
1257219--1257294	40	1.9	40	86	10	111	25	17	17	40	1.90
1259977--1260011	18	1.9	18	88	0	52	51	8	14	25	1.70
1260716--1260797	43	1.9	43	87	0	119	28	15	20	35	1.94
1263712--1264164	77	5.9	77	77	10	433	28	15	20	36	1.92
1263823--1263871	20	2.5	20	82	0	62	32	14	24	28	1.94
1263898--1263949	21	2.5	20	87	3	77	26	15	26	30	1.96
1263942--1263999	20	2.9	20	92	0	98	22	18	13	44	1.85
1264020--1264142	37	3.3	37	64	15	90	26	16	21	35	1.94
1264078--1264211	57	2.4	57	90	0	205	31	15	17	35	1.92
1264213--1264262	20	2.5	20	90	0	73	16	16	20	48	1.82
1264253--1264317	20	3.2	20	65	8	60	18	13	29	38	1.89
1264248--1264344	40	2.4	40	89	0	158	20	14	27	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1267043--1267077	18	1.9	18	88	0	52	51	8	14	25	1.70
1268580--1268651	8	8.6	9	81	15	68	2	18	0	79	0.86
1268595--1268655	13	4.6	13	77	16	63	3	16	0	80	0.84
1268586--1268656	28	2.6	27	84	10	83	2	16	0	80	0.83
1268580--1268651	7	9.6	8	80	13	59	2	18	0	79	0.86
1270872--1270921	20	2.5	20	90	0	73	28	14	26	32	1.94
1270837--1271367	77	6.8	77	80	5	622	28	15	20	35	1.93
1271024--1271072	20	2.4	21	86	3	64	28	12	24	34	1.91
1271024--1271075	21	2.5	20	84	3	68	28	13	25	32	1.93
1271068--1271125	20	2.9	20	89	0	89	22	18	13	44	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14