genome.fa.s7993.2.7.7.80.10.50.1000.6.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: VEPZ01007993.1 Hibiscus syriacus cultivar Beakdansim tig00110443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2245901

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

This is table  6  of  12  ( 1410 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)
1090796--1090851	28	2.0	27	86	10	78	73	3	17	5	1.17
1090794--1090850	22	2.5	23	86	13	82	71	3	19	5	1.19
1090769--1090864	17	5.7	17	71	15	67	72	2	17	7	1.17
1094660--1094781	40	3.0	40	98	0	235	22	16	27	33	1.95
1094885--1095002	47	2.6	44	81	7	146	40	8	19	31	1.81
1096649--1096703	29	1.9	29	85	10	78	21	16	9	52	1.71
1096984--1097020	2	19.0	2	84	15	51	48	0	2	48	1.15
1100751--1100868	60	2.0	60	83	6	150	38	4	9	47	1.55
1101599--1101626	12	2.3	12	100	0	56	17	17	50	14	1.79
1101680--1101810	41	3.2	39	83	9	156	33	17	18	30	1.94
1101705--1102102	42	9.6	42	83	6	447	27	21	19	31	1.97
1101701--1102102	83	4.8	83	86	5	451	27	21	18	32	1.97
1101705--1102102	125	3.2	125	87	2	552	27	21	19	31	1.97
1105992--1106311	85	3.7	85	83	5	362	23	21	21	34	1.97
1105992--1106311	43	7.5	42	82	7	349	23	21	21	34	1.97
1107318--1107355	20	2.0	20	89	5	60	39	2	5	52	1.38
1110553--1110604	21	2.5	21	96	0	95	51	15	15	17	1.76
1111827--1111889	24	2.6	24	82	2	72	34	11	14	39	1.81
1115775--1116339	105	5.4	105	97	0	1076	23	18	24	32	1.97
1117082--1117178	50	1.9	50	85	0	131	14	23	14	47	1.81
1126553--1126586	10	3.4	10	87	0	50	73	0	5	20	1.04
1127907--1127946	19	2.0	21	85	9	57	65	0	5	30	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131797--1131902	46	2.3	46	90	0	167	24	19	13	42	1.87
1132857--1132921	31	2.1	31	85	0	85	38	23	16	21	1.93
1135585--1135616	14	2.3	14	100	0	64	40	21	6	31	1.78
1137588--1137652	31	2.1	31	85	5	87	35	23	20	21	1.96
1138942--1138999	20	2.6	22	86	10	75	25	22	22	29	1.99
1138988--1139038	19	2.7	19	90	0	84	29	33	13	23	1.93
1139070--1139117	19	2.6	19	87	9	64	25	25	16	33	1.96
1139882--1140376	81	6.1	81	92	1	794	30	22	12	34	1.90
1148641--1149206	257	2.2	254	84	7	707	34	15	17	31	1.92
1149362--1149865	44	11.6	44	77	6	463	23	13	20	42	1.87
1149368--1149861	133	3.8	132	80	6	495	23	13	20	42	1.88
1149362--1149861	213	2.3	216	83	5	607	24	13	20	42	1.88
1153286--1153387	42	2.5	41	80	3	123	30	21	23	24	1.99
1153531--1153706	80	2.2	81	90	2	284	32	18	17	31	1.94
1153666--1153816	37	4.1	37	87	1	205	25	17	21	35	1.95
1153876--1155458	37	42.5	37	75	9	1150	23	18	21	36	1.95
1153876--1155448	226	7.0	216	75	12	1020	23	18	21	36	1.95
1153889--1154593	263	2.7	262	91	1	1081	23	18	21	36	1.95
1153670--1155375	263	6.6	256	77	10	967	23	18	21	35	1.95
1154185--1155006	153	5.5	153	78	7	610	23	18	22	36	1.95
1159569--1159607	7	5.9	7	87	6	55	56	15	12	15	1.68
1159875--1160013	21	6.8	21	79	4	151	12	22	18	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159875--1160006	40	3.2	40	89	2	183	13	21	18	46	1.83
1161780--1161823	14	3.1	14	100	0	88	43	13	0	43	1.44
1164324--1164514	45	4.2	45	78	10	185	22	15	18	42	1.88
1164511--1164630	51	2.4	51	87	2	170	24	21	15	38	1.92
1164509--1164651	51	2.8	48	76	13	128	26	20	16	36	1.94
1165262--1165852	134	4.4	134	84	3	726	29	18	20	32	1.96
1168028--1168074	3	15.3	3	86	4	67	27	0	4	68	1.08
1170153--1170213	26	2.3	26	100	0	122	29	3	0	67	1.07
1170376--1170500	20	6.2	20	87	3	171	42	24	13	20	1.87
1170628--1170674	22	2.1	22	92	0	76	25	40	12	21	1.89
1170892--1170923	13	2.5	13	94	0	55	3	6	12	78	1.06
1170952--1170994	20	2.2	20	91	4	70	44	25	18	11	1.84
1172724--1172773	21	2.4	21	89	0	82	18	16	32	34	1.92
1172996--1173037	4	10.5	4	89	0	66	28	0	0	71	0.86
1173181--1173276	21	4.6	21	72	8	61	26	34	14	25	1.94
1174606--1174743	66	2.2	65	83	8	169	31	1	16	50	1.55
1174657--1174696	14	2.9	14	80	0	53	30	0	17	52	1.45
1174853--1174891	20	2.0	20	100	0	78	15	17	25	41	1.89
1175065--1175151	39	2.2	39	93	0	147	17	13	19	49	1.79
1175461--1175497	18	2.1	18	89	0	56	51	10	5	32	1.60
1175884--1175933	25	2.0	25	96	0	91	44	22	8	26	1.80
1176363--1176398	18	2.0	18	94	0	63	16	2	25	55	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1179580--1179690	20	5.7	20	73	9	95	28	13	25	32	1.94
1179580--1179708	19	6.6	20	72	10	97	27	13	25	33	1.93
1193355--1193393	21	1.9	20	89	5	60	33	25	15	25	1.95
1201445--1201478	17	2.1	17	88	5	52	52	11	20	14	1.73
1204390--1204483	3	30.3	3	87	6	116	36	1	2	60	1.16
1206508--1206582	28	2.7	28	85	4	89	25	2	0	72	0.98
1206514--1206583	33	2.2	32	82	12	81	24	2	0	72	0.98
1206539--1206588	23	2.2	23	82	7	57	24	4	2	70	1.15
1209517--1209828	51	6.0	51	84	4	365	30	25	13	30	1.94
1209821--1210256	52	8.4	52	94	0	737	30	25	15	28	1.96
1210252--1210368	55	2.1	55	93	0	198	29	29	13	27	1.94
1211662--1211695	15	2.4	14	95	5	59	0	14	0	85	0.60
1211646--1211775	9	13.7	9	73	20	63	8	12	0	78	1.00
1211653--1211695	12	3.7	12	87	3	61	0	11	2	86	0.67
1211704--1211746	22	2.0	21	86	13	61	13	13	0	72	1.13
1211680--1211790	56	2.0	57	85	8	156	10	12	0	76	1.02
1211689--1211790	9	12.8	8	85	12	106	11	11	0	76	1.02
1211662--1211793	16	7.4	18	70	23	68	9	12	0	78	0.97
1212915--1212952	3	12.3	3	94	5	67	2	34	0	63	1.09
1220361--1220401	3	13.7	3	90	10	66	63	0	0	36	0.95
1222296--1222425	22	5.9	22	96	0	233	28	26	26	19	1.99
1227474--1227629	59	2.6	60	82	6	174	33	10	14	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227980--1228096	61	1.9	61	84	3	155	34	24	17	23	1.96
1227983--1228096	20	5.7	20	82	6	104	32	25	17	24	1.97
1228691--1228807	52	2.2	52	90	0	189	12	23	19	44	1.85
1228746--1228839	33	2.8	33	95	0	170	12	23	19	44	1.85
1228696--1228859	85	1.9	86	88	1	249	13	22	20	43	1.86
1231130--1231156	14	1.9	14	100	0	54	0	29	0	70	0.88
1231331--1231384	24	2.2	24	93	0	90	42	20	14	22	1.88
1231331--1231398	24	2.8	24	86	0	64	39	20	14	25	1.91
1232129--1232179	20	2.5	20	93	0	93	29	17	31	21	1.96
1232392--1232481	20	4.6	20	95	1	164	33	26	23	16	1.96
1232507--1232571	19	3.7	19	82	13	86	12	21	20	46	1.83
1232577--1232615	20	2.0	20	94	0	69	12	10	30	46	1.75
1234603--1234656	20	2.7	20	77	11	65	40	22	22	14	1.90
1234659--1234716	14	3.9	14	75	16	62	46	25	17	10	1.79
1234643--1234732	32	2.8	33	86	6	121	46	25	16	11	1.80
1234750--1234807	14	3.9	14	77	16	62	10	15	22	51	1.73
1234733--1234823	32	2.8	33	88	3	139	13	17	19	49	1.79
1234810--1234854	20	2.2	20	84	0	54	20	22	17	40	1.92
1235344--1235388	18	2.5	18	85	0	63	15	15	42	26	1.87
1236996--1237028	11	3.0	11	90	0	57	69	0	0	30	0.88
1238284--1238349	3	21.3	3	79	11	71	66	1	1	30	1.10
1238277--1238347	13	5.6	13	81	6	92	67	1	2	28	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1238370--1238512	40	3.6	39	74	8	128	48	3	1	46	1.28
1238512--1238536	11	2.3	11	100	0	50	44	8	8	40	1.63
1238495--1238628	38	3.5	40	82	13	158	45	8	3	42	1.51
1238612--1238676	2	32.5	2	100	0	130	50	0	0	49	1.00
1238668--1238751	35	2.3	36	81	6	98	45	7	4	42	1.52
1239453--1240210	84	9.2	81	78	6	783	24	20	24	30	1.99
1239390--1240210	164	5.0	164	88	2	1117	24	20	23	30	1.98
1243608--1243652	19	2.4	19	92	3	74	66	8	13	11	1.44
1244273--1244305	17	1.9	17	93	0	57	72	9	12	6	1.26
1246712--1246770	3	18.3	3	79	10	55	66	1	1	30	1.12

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