genome.fa.s8031.2.7.7.80.10.50.1000.6.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: VEPZ01008031.1 Hibiscus syriacus cultivar Beakdansim tig00110511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1788856

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1016 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)
1154837--1154954	21	5.6	21	95	2	202	16	17	20	45	1.85
1158391--1158426	3	12.7	3	88	11	58	66	0	0	33	0.92
1159628--1159953	39	8.5	39	77	13	231	44	4	5	45	1.46
1159744--1159793	2	25.0	2	100	0	100	50	0	0	50	1.00
1159971--1160046	37	2.0	39	82	10	95	50	2	3	43	1.34
1160065--1160106	19	2.4	17	84	11	50	40	0	0	59	0.97
1160638--1160686	22	2.1	24	81	11	57	59	34	2	4	1.28
1161483--1161544	20	3.2	19	72	9	54	17	3	4	74	1.13
1161457--1161540	33	2.5	33	81	11	84	16	7	4	71	1.26
1161485--1161561	27	2.9	27	79	7	86	22	3	3	70	1.20
1164813--1164866	26	2.1	26	100	0	108	25	11	27	35	1.90
1164978--1165232	95	2.7	95	88	4	351	32	17	18	31	1.94
1166316--1167513	84	14.3	84	82	2	1306	32	24	19	23	1.98
1168040--1168084	2	23.0	2	90	4	74	48	2	0	48	1.13
1168108--1168220	40	2.9	38	83	10	131	46	5	6	41	1.51
1168250--1168429	39	4.8	39	87	10	250	43	4	6	45	1.50
1168245--1168429	75	2.5	74	86	5	257	43	4	6	45	1.49
1168383--1168463	28	3.0	27	79	12	94	46	2	4	45	1.37
1168401--1168465	29	2.3	28	84	7	87	47	1	4	46	1.32
1170868--1170893	3	8.7	3	100	0	52	69	0	0	30	0.89
1171271--1171413	21	7.4	21	71	19	123	34	11	27	26	1.91
1171108--1171855	36	21.4	36	73	14	494	38	13	21	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171108--1171460	145	2.4	147	83	6	421	38	13	23	24	1.91
1171108--1171855	101	7.1	109	74	12	466	38	13	21	26	1.90
1171400--1171648	65	3.8	65	79	11	262	37	13	20	28	1.90
1171600--1171911	172	1.8	171	86	4	459	38	13	19	27	1.90
1172037--1172139	37	2.9	36	71	9	93	34	13	17	33	1.89
1173278--1173349	12	5.9	12	76	23	71	0	15	5	79	0.91
1173280--1173355	11	6.8	11	72	24	61	0	14	5	80	0.88
1173279--1173355	23	3.5	22	78	18	79	0	14	5	80	0.87
1173302--1173333	15	2.1	15	100	0	64	0	12	6	81	0.87
1174763--1175044	149	1.9	146	81	5	334	19	21	18	40	1.92
1177640--1177670	15	2.1	15	93	0	53	54	0	9	35	1.33
1183611--1183648	20	1.9	20	84	10	51	36	10	23	28	1.88
1183676--1183722	21	2.4	18	78	18	58	38	10	25	25	1.88
1183686--1183733	21	2.3	21	96	0	87	39	10	20	29	1.86
1191226--1191265	20	2.0	21	85	14	57	42	5	7	45	1.54
1191496--1191534	19	2.1	19	95	0	69	20	38	15	25	1.92
1191482--1191642	65	2.5	65	85	3	209	30	25	16	27	1.96
1191482--1191662	64	2.8	64	83	2	211	29	25	17	27	1.97
1197430--1197485	22	2.7	21	83	10	62	30	23	17	28	1.97
1199003--1199046	21	2.1	21	86	0	61	9	36	15	38	1.80
1199536--1199575	20	2.0	21	85	14	57	42	5	7	45	1.54
1199806--1199844	19	2.1	19	95	0	69	20	38	15	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199792--1199952	65	2.5	65	86	3	218	30	26	16	27	1.96
1199792--1199972	64	2.8	64	83	2	220	29	26	17	27	1.97
1206425--1206584	53	3.1	52	87	2	225	47	13	14	24	1.80
1206425--1206620	104	1.9	103	87	1	284	44	13	15	26	1.84
1207644--1209296	832	2.0	834	98	0	3229	35	17	16	30	1.92
1210105--1210133	12	2.3	13	94	5	51	24	17	0	58	1.38
1213194--1213226	2	16.5	2	100	0	66	51	0	0	48	1.00
1213558--1213587	4	7.5	4	100	0	60	73	0	0	26	0.84
1216646--1216681	12	2.9	12	91	4	54	44	11	0	44	1.39
1219037--1219062	2	13.0	2	100	0	52	50	0	0	50	1.00
1222687--1222723	2	18.5	2	100	0	74	48	0	0	51	1.00
1225923--1225971	20	2.5	20	75	0	53	40	16	12	30	1.85
1226002--1226071	35	2.0	35	86	5	97	28	18	30	22	1.98
1227171--1227226	23	2.4	23	85	5	69	39	0	23	37	1.55
1227171--1227239	23	3.0	22	79	12	61	36	2	21	39	1.69
1230602--1230627	3	8.7	3	100	0	52	69	0	0	30	0.89
1230638--1230751	23	5.2	23	69	23	77	73	4	5	16	1.18
1230639--1230727	21	4.2	20	77	11	81	71	4	5	17	1.22
1230667--1230745	41	2.0	41	82	5	99	72	5	5	17	1.22
1230653--1230749	41	2.3	41	78	8	97	74	4	4	17	1.14
1230875--1230913	5	7.6	5	83	16	53	82	0	0	17	0.68
1230867--1230915	21	2.4	21	90	6	75	79	0	2	18	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237690--1237743	20	2.7	19	94	5	90	35	14	33	16	1.90
1238660--1238764	53	2.0	53	94	0	183	24	15	19	40	1.90
1240123--1240157	18	1.9	18	88	0	52	25	8	40	25	1.84
1243897--1243940	22	2.0	23	81	4	54	52	6	0	40	1.28
1245068--1245165	49	2.0	49	100	0	196	42	12	16	28	1.84
1245617--1245786	56	3.0	56	97	0	313	30	20	14	34	1.93
1251473--1251515	18	2.4	18	92	0	68	46	18	9	25	1.79
1252995--1253171	90	2.0	90	91	4	286	37	9	6	46	1.62
1253133--1253202	22	3.3	21	70	16	63	50	2	4	42	1.37
1262769--1262805	16	2.4	15	86	8	56	21	10	5	62	1.48
1264777--1264824	13	3.7	13	94	0	78	29	20	14	35	1.93
1264777--1264831	13	4.2	13	92	0	74	27	21	14	36	1.93
1264803--1264968	85	2.0	85	82	7	203	30	19	18	31	1.96
1264988--1265020	2	16.5	2	100	0	66	48	0	0	51	1.00
1269623--1269969	59	5.9	59	90	1	536	35	19	11	33	1.88
1269624--1269970	117	2.9	117	89	2	543	36	19	11	33	1.88
1271921--1272054	29	4.6	28	85	6	169	53	8	3	33	1.50
1271921--1272054	58	2.3	58	88	2	189	53	8	3	33	1.50
1271951--1272084	29	4.6	29	87	5	164	55	10	2	31	1.46
1271840--1272083	87	2.8	84	74	11	206	52	7	5	33	1.54
1271921--1272085	29	5.7	29	82	9	160	53	9	4	32	1.52
1282340--1282566	50	4.7	50	83	9	260	30	21	7	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282340--1282568	102	2.4	98	81	11	274	30	21	7	40	1.81
1282673--1282794	40	3.0	40	98	0	235	32	27	16	23	1.96
1286438--1286564	6	21.3	6	69	13	75	3	18	3	74	1.08
1286435--1286564	17	7.8	16	79	12	111	3	18	3	75	1.07
1286418--1286547	51	2.4	53	79	13	124	5	18	2	73	1.13
1286485--1286535	21	2.4	21	87	12	70	3	19	3	72	1.16
1286432--1286552	34	3.6	34	89	8	160	4	19	2	73	1.11
1286435--1286567	55	2.5	54	79	14	136	3	18	3	75	1.07
1289422--1289607	50	3.8	50	86	8	240	31	20	7	40	1.81
1289380--1289609	50	4.8	46	82	9	187	31	20	6	40	1.79
1289714--1289834	40	3.0	40	97	2	235	33	26	17	23	1.96
1293946--1293970	13	1.9	13	100	0	50	44	8	8	40	1.63
1297055--1297125	34	2.1	33	81	2	79	23	26	15	33	1.95
1297592--1297661	36	1.9	37	85	2	97	27	18	25	28	1.98
1302096--1302566	59	8.0	59	88	3	671	35	19	10	34	1.86
1302465--1302563	31	3.3	31	61	13	80	34	20	10	35	1.86
1306392--1306551	3	53.7	3	98	1	313	66	0	0	33	0.92
1307779--1307807	2	15.0	2	92	7	51	48	0	0	51	1.00
1314540--1314702	81	2.0	81	92	0	272	20	29	18	31	1.96
1314821--1314913	27	3.4	27	70	14	91	23	29	21	25	1.99
1314814--1315115	54	5.5	55	80	7	317	26	25	22	25	2.00
1314817--1315029	114	1.9	115	91	1	356	26	25	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314986--1315115	27	4.8	28	68	21	96	25	27	20	26	1.99
1317656--1317698	18	2.4	18	92	0	68	20	6	0	72	1.08
1317768--1317797	15	1.9	16	93	6	53	10	6	3	80	1.01
1317765--1317836	36	2.0	37	88	2	110	11	11	2	75	1.16
1317921--1317971	27	2.0	27	85	11	72	21	3	1	72	1.11
1323475--1323698	123	1.8	123	86	1	324	37	22	14	24	1.92
1324496--1324524	12	2.3	13	94	5	51	37	3	0	58	1.15
1325118--1325161	18	2.4	19	92	3	72	22	4	0	72	1.02
1325231--1325260	15	1.9	16	93	6	53	13	6	3	76	1.11
1325268--1325301	5	6.8	5	93	0	50	11	0	5	82	0.83

Tables:   1   2   3   4   5   6   7   8   9