genome.fa.s7782.2.7.7.80.10.50.1000.6.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: VEPZ01007782.1 Hibiscus syriacus cultivar Beakdansim tig00110065_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3900615

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  ( 2174 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)
1049632--1049695	27	2.4	27	94	0	110	29	20	15	34	1.94
1050700--1050768	3	23.0	3	77	11	70	40	0	1	57	1.07
1052045--1052074	3	10.0	3	92	0	51	33	3	0	63	1.11
1052348--1052405	30	2.0	30	86	10	84	48	0	0	51	1.00
1058202--1058243	19	2.2	20	86	4	59	83	0	11	4	0.79
1058742--1058803	32	1.9	32	90	6	99	45	17	16	20	1.86
1062641--1062790	50	2.9	50	84	7	169	35	15	22	27	1.94
1063160--1063214	22	2.5	22	87	0	92	36	10	12	40	1.79
1063891--1064129	76	3.1	76	96	0	433	23	19	22	34	1.97
1064092--1064167	38	2.0	38	97	0	143	22	13	19	44	1.85
1064016--1064243	114	2.0	114	98	0	438	21	17	22	38	1.93
1063940--1064319	190	2.0	190	97	0	715	22	18	22	36	1.95
1063891--1064395	266	1.9	266	96	0	940	22	19	22	35	1.96
1064130--1065024	76	11.8	76	94	0	1558	22	19	22	35	1.96
1065180--1065252	24	2.8	25	74	21	71	42	0	0	57	0.98
1065180--1065243	3	22.0	3	80	6	78	40	0	0	59	0.97
1066817--1066856	18	2.1	18	86	9	53	50	0	0	50	1.00
1067091--1067152	33	1.9	31	83	6	79	50	0	0	50	1.00
1083583--1083625	21	2.0	21	90	0	68	27	16	11	44	1.82
1083603--1083701	34	2.9	34	86	10	148	26	16	11	46	1.80
1086795--1086821	13	2.1	13	100	0	54	55	7	14	22	1.64
1087325--1087456	47	2.9	45	84	7	160	32	19	7	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1095715--1095807	1	93.0	1	73	0	60	84	2	10	2	0.78
1095715--1095811	7	13.4	7	78	18	69	84	2	11	2	0.79
1095715--1095815	11	10.0	10	77	13	100	84	1	11	1	0.80
1095756--1095815	19	3.1	19	85	4	93	88	0	11	0	0.52
1095714--1095815	39	2.5	41	86	9	131	83	2	11	1	0.84
1097834--1097939	54	2.0	54	88	3	160	35	15	24	24	1.94
1098855--1098975	40	3.0	40	93	0	206	28	15	13	42	1.84
1098866--1098932	23	3.2	23	61	30	58	28	14	13	43	1.84
1098975--1099053	36	2.2	36	95	0	140	24	24	18	32	1.97
1098991--1099069	36	2.2	36	90	0	122	29	22	15	32	1.95
1098866--1099117	40	6.6	38	81	6	142	28	18	14	37	1.91
1099683--1099741	3	19.7	3	89	6	93	35	0	0	64	0.94
1103116--1103140	11	2.3	11	100	0	50	32	40	8	20	1.81
1104172--1104203	7	4.6	7	100	0	64	15	12	43	28	1.83
1108478--1108543	34	1.9	34	90	0	105	53	7	10	28	1.63
1110472--1110510	20	1.9	21	84	5	53	33	0	38	28	1.57
1110849--1110900	19	2.6	21	90	6	81	46	5	13	34	1.67
1114294--1114365	34	2.2	32	85	11	94	5	16	4	73	1.18
1115081--1115132	19	2.6	21	90	6	81	46	5	13	34	1.67
1118087--1118155	2	34.5	2	100	0	138	50	0	0	49	1.00
1119455--1119488	18	2.0	18	88	11	54	41	2	20	35	1.68
1122915--1122991	25	3.1	25	90	1	120	36	6	0	57	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122928--1122991	17	3.8	17	66	12	51	39	4	0	56	1.20
1128318--1128380	32	2.0	32	81	12	76	47	0	1	50	1.10
1128860--1128951	30	3.1	29	73	7	78	38	9	10	41	1.73
1138551--1138854	124	2.4	124	90	1	457	32	17	26	23	1.96
1139582--1139736	36	4.3	36	89	3	213	36	23	20	20	1.95
1139582--1139769	36	5.2	36	85	5	202	36	22	20	21	1.95
1140151--1141190	51	19.7	51	80	9	938	32	19	25	22	1.97
1140151--1141190	104	9.9	104	80	9	949	32	19	25	22	1.97
1140151--1141190	155	6.6	154	78	11	959	32	19	25	22	1.97
1140139--1141464	51	24.9	53	79	8	791	32	18	24	24	1.97
1140853--1141348	55	9.1	55	80	11	397	31	16	25	26	1.97
1140357--1141460	324	3.4	326	86	7	1373	32	18	25	24	1.97
1140606--1141509	55	16.8	53	79	8	302	32	17	25	25	1.97
1140606--1141393	110	7.3	109	74	15	467	32	17	24	25	1.97
1140252--1141464	379	3.2	378	80	8	1122	32	18	24	24	1.97
1140141--1141514	54	25.8	54	79	8	555	32	18	24	24	1.97
1141679--1141705	14	1.9	14	100	0	54	81	0	11	7	0.87
1146191--1146546	183	1.9	183	90	2	563	43	13	15	28	1.84
1147022--1147073	17	3.1	17	86	2	70	38	13	5	42	1.68
1148559--1148607	20	2.5	20	96	0	89	42	16	10	30	1.81
1152546--1152584	12	3.2	12	77	0	51	38	5	7	48	1.54
1152534--1152598	24	2.7	23	90	9	103	35	3	13	47	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152542--1152580	18	2.2	18	85	0	51	33	2	10	53	1.48
1153107--1153138	3	10.7	3	93	0	55	68	0	0	31	0.90
1154118--1154213	36	2.6	36	82	11	106	70	0	6	22	1.09
1154253--1154294	17	2.4	18	84	11	52	76	0	4	19	0.96
1154885--1155110	76	3.1	73	81	8	244	57	11	1	30	1.42
1156052--1156138	44	2.0	44	95	0	156	52	13	9	24	1.69
1157644--1157690	20	2.3	21	82	14	62	42	0	2	55	1.12
1159972--1160023	25	2.1	24	89	3	77	36	7	0	55	1.29
1163763--1164228	183	2.5	183	91	2	767	41	13	16	28	1.87
1164614--1164665	17	3.1	17	86	2	70	38	13	5	42	1.68
1166151--1166199	20	2.5	20	100	0	98	42	18	10	28	1.83
1170138--1170176	12	3.2	12	77	0	51	38	5	7	48	1.54
1170126--1170190	24	2.7	23	90	9	103	35	3	13	47	1.59
1170134--1170172	18	2.2	18	85	0	51	33	2	10	53	1.48
1171706--1171801	36	2.6	36	82	11	106	70	0	6	22	1.09
1171841--1171883	18	2.4	18	88	7	61	74	0	6	18	1.04
1172473--1172661	76	2.6	75	86	5	244	57	11	0	30	1.39
1172473--1172698	76	3.1	72	80	8	233	56	11	1	30	1.42
1172906--1172994	2	44.5	2	100	0	178	50	0	0	49	1.00
1173712--1173798	44	2.0	44	95	0	156	52	13	9	24	1.69
1174014--1174059	21	2.2	20	85	7	65	23	13	15	47	1.80
1174527--1174788	117	2.2	115	85	4	337	29	19	14	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175308--1175354	20	2.3	21	82	14	62	42	0	2	55	1.12
1177636--1177692	25	2.3	25	87	3	80	35	10	0	54	1.35
1178291--1178385	47	2.0	47	100	0	190	37	10	18	32	1.85
1180409--1180454	20	2.3	20	100	0	92	30	17	28	23	1.97
1182550--1182579	3	10.0	3	92	0	51	63	0	3	33	1.11
1183970--1184023	3	18.7	3	84	7	58	57	0	0	42	0.98
1184487--1185353	113	7.7	113	88	0	1211	27	20	14	37	1.92
1184359--1185353	226	4.4	225	89	2	1350	27	20	15	36	1.92
1186143--1186219	22	3.5	22	92	0	136	41	12	11	33	1.80
1186586--1186691	54	1.9	55	83	5	135	25	23	14	36	1.92
1187560--1187737	74	2.4	73	82	7	198	30	21	15	32	1.94
1188846--1189069	115	2.0	114	90	0	358	29	21	16	33	1.95
1191069--1191131	10	5.7	10	75	17	54	3	14	0	82	0.79
1191068--1191129	17	3.7	16	81	16	72	3	14	0	82	0.80
1191068--1191134	8	8.0	8	78	15	73	2	14	0	82	0.79
1191081--1191134	25	2.3	25	87	9	78	3	12	0	83	0.78
1191119--1191172	26	2.0	26	92	3	90	5	14	11	68	1.37
1193980--1194046	6	11.5	6	79	6	57	56	5	13	23	1.59
1194007--1194046	18	2.2	18	95	0	71	52	7	15	25	1.68
1195582--1195633	20	2.6	20	87	0	77	67	1	0	30	1.02
1195585--1195643	24	2.3	26	81	16	70	67	1	0	30	1.00
1195605--1195657	16	3.3	16	79	10	56	71	0	1	26	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196258--1196299	20	2.2	19	86	4	57	64	2	0	33	1.07
1196483--1196515	3	11.0	3	93	0	57	63	0	3	33	1.10
1196809--1196841	14	2.3	15	89	5	50	42	6	0	51	1.26
1205167--1205230	3	21.3	3	78	12	69	37	1	0	60	1.06
1205161--1205230	37	1.9	36	91	2	113	38	1	0	60	1.06
1205167--1205246	12	7.1	12	72	19	66	40	1	0	58	1.06
1205609--1205634	1	26.0	1	100	0	52	100	0	0	0	0.00
1207229--1207280	20	2.6	21	76	11	56	26	7	0	65	1.20
1214314--1214597	83	3.4	83	96	0	498	28	12	21	37	1.90
1214252--1214597	166	2.0	169	90	6	538	27	13	21	37	1.91

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