genome.fa.s2890.2.7.7.80.10.50.1000.5.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  5  of  21  ( 2516 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)
1040419--1040465	18	2.6	17	83	9	58	78	0	6	14	0.93
1048010--1048331	134	2.4	134	86	2	441	32	22	15	29	1.95
1048524--1048558	3	11.7	3	100	0	70	31	0	0	68	0.90
1048557--1048591	3	11.7	3	93	0	61	2	0	28	68	1.04
1048554--1048594	12	3.4	12	93	0	73	7	0	24	68	1.15
1050600--1050965	130	2.8	130	84	4	495	34	11	14	38	1.83
1053185--1054007	56	14.7	56	93	0	1346	32	18	11	36	1.88
1054251--1054322	19	3.6	19	72	18	65	29	26	13	30	1.94
1054776--1054816	22	1.9	21	90	5	64	19	2	36	41	1.65
1056072--1056105	2	17.5	2	87	6	52	50	0	2	47	1.16
1058950--1059017	30	2.3	29	82	9	86	5	14	5	73	1.21
1059317--1059357	22	1.9	21	90	5	64	19	2	36	41	1.65
1060591--1060635	23	2.0	23	86	8	65	55	4	4	35	1.40
1066412--1066740	56	5.9	56	89	2	475	34	17	10	37	1.83
1066714--1066766	26	2.0	27	88	3	81	33	13	9	43	1.76
1066658--1066822	82	2.0	83	86	3	235	32	16	10	39	1.84
1066741--1067255	56	9.3	56	88	2	747	32	18	12	37	1.87
1066602--1066878	138	2.0	139	90	2	432	33	18	11	37	1.86
1066546--1066932	194	2.0	195	90	3	620	33	18	10	37	1.86
1066795--1067255	218	2.1	221	90	4	725	33	18	11	37	1.86
1066741--1067248	274	1.9	273	90	1	811	32	18	12	36	1.88
1067593--1067664	19	3.6	19	79	18	83	27	27	15	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070622--1070657	17	2.1	17	94	0	63	36	0	0	63	0.94
1071475--1071515	2	20.5	2	100	0	82	48	0	0	51	1.00
1072226--1072285	23	2.6	22	74	10	57	35	5	0	60	1.19
1084236--1084326	45	2.0	45	89	4	139	28	12	27	31	1.92
1086357--1086393	18	2.1	18	94	0	65	24	13	5	56	1.58
1086475--1086522	19	2.6	19	77	12	55	39	4	6	50	1.47
1089137--1089549	204	2.0	205	89	1	632	32	18	14	34	1.91
1092029--1092084	23	2.4	23	78	0	58	46	12	14	26	1.80
1092149--1092205	24	2.4	24	81	0	69	36	15	14	33	1.88
1093645--1093683	17	2.3	17	100	0	78	33	25	17	23	1.96
1111234--1111263	11	2.7	11	100	0	60	16	30	10	43	1.81
1111917--1112145	114	2.0	114	98	0	440	39	3	3	52	1.38
1112414--1112468	27	2.0	27	82	6	67	34	3	12	49	1.59
1113614--1113660	21	2.2	21	100	0	94	38	12	23	25	1.90
1114023--1114090	27	2.5	27	82	2	82	29	4	26	39	1.75
1114044--1114114	27	2.6	27	84	4	79	33	1	21	43	1.61
1118443--1118560	42	2.8	42	87	2	166	32	23	20	23	1.98
1118817--1118944	42	3.1	41	81	3	139	28	23	21	26	1.99
1119078--1119205	52	2.5	52	86	5	179	39	16	10	32	1.83
1119286--1119545	74	3.5	75	80	7	276	41	11	16	31	1.84
1119766--1119842	37	2.1	37	83	7	95	45	6	18	29	1.74
1119662--1120044	102	3.8	103	85	3	490	39	8	19	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119971--1120053	37	2.3	35	84	14	98	42	9	15	32	1.80
1127457--1127751	101	2.9	101	82	6	314	38	11	14	35	1.83
1127507--1127751	102	2.4	101	83	2	287	39	11	15	34	1.82
1127775--1127890	36	3.2	37	75	3	101	43	12	14	29	1.83
1130882--1130932	9	5.8	9	78	19	54	0	23	0	76	0.79
1130885--1130929	13	3.4	13	77	17	56	0	24	0	75	0.80
1130885--1130931	17	2.8	17	81	12	53	0	23	0	76	0.78
1132421--1132558	74	1.9	74	89	3	215	28	26	21	23	1.99
1132519--1132556	20	1.9	20	94	0	67	26	31	21	21	1.98
1138350--1138387	20	1.9	20	88	0	58	31	34	18	15	1.92
1138845--1138879	13	2.8	12	91	8	52	40	14	2	42	1.60
1141016--1141053	20	1.9	20	94	0	67	21	36	21	21	1.95
1141167--1141235	30	2.3	30	92	0	120	36	30	11	21	1.89
1142068--1142321	138	1.8	138	86	1	366	40	18	14	26	1.89
1148907--1149237	46	7.2	46	85	2	441	24	20	11	43	1.85
1155931--1156264	46	7.3	46	86	3	449	25	20	12	42	1.86
1158510--1158746	127	1.9	127	86	3	343	38	18	14	28	1.90
1159416--1159467	21	2.5	20	79	11	61	32	21	11	34	1.89
1162830--1162859	15	2.0	15	100	0	60	66	0	6	26	1.16
1163006--1163041	18	1.9	19	88	5	56	41	11	8	38	1.71
1164287--1164320	7	4.9	7	92	0	59	17	0	38	44	1.49
1164287--1164332	21	2.2	21	88	0	65	23	2	32	41	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1164456--1164480	5	5.0	5	100	0	50	80	0	0	20	0.72
1170453--1170485	13	2.4	14	90	10	50	9	39	33	18	1.82
1175088--1175137	19	2.5	20	83	6	66	70	0	8	22	1.13
1177802--1177826	5	5.0	5	100	0	50	80	0	0	20	0.72
1183466--1183515	19	2.5	20	81	12	59	68	0	10	22	1.19
1188927--1188972	12	3.8	12	86	13	67	21	2	4	71	1.14
1191339--1191474	36	3.8	36	81	9	170	19	25	18	36	1.94
1191334--1191479	72	2.0	72	90	0	229	19	23	18	38	1.93
1194517--1194581	34	1.9	33	84	3	85	47	23	6	23	1.73
1198556--1198928	181	2.1	181	85	0	512	31	18	19	30	1.96
1198968--1199072	44	2.4	45	85	9	137	41	20	16	20	1.90
1198992--1199080	43	2.0	45	87	6	130	43	20	17	17	1.88
1198989--1199137	45	3.4	44	80	9	124	44	17	17	20	1.86
1199105--1199351	38	6.7	38	72	9	181	38	17	17	27	1.91
1199164--1199414	105	2.4	105	83	2	299	37	17	18	26	1.93
1199285--1199426	67	2.1	68	81	3	171	34	19	18	28	1.95
1199313--1199484	67	2.6	67	85	0	218	34	18	19	27	1.95
1201408--1201516	12	8.8	12	66	22	57	4	22	1	71	1.14
1201436--1201545	7	15.1	7	69	18	50	7	19	0	72	1.13
1201473--1201524	18	2.8	17	83	13	59	1	23	0	75	0.91
1206572--1206616	20	2.2	20	96	0	81	28	20	35	15	1.93
1208166--1208218	22	2.4	22	93	0	88	9	9	26	54	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1209667--1209720	2	27.0	2	100	0	108	50	0	0	50	1.00
1210474--1210621	76	1.9	76	95	0	269	37	11	12	37	1.80
1212212--1212550	57	5.9	57	90	3	507	34	20	12	32	1.90
1212203--1212550	116	3.0	115	91	1	554	34	20	12	32	1.90
1218422--1218869	57	7.9	58	87	8	629	34	20	12	32	1.90
1218422--1218869	109	3.9	109	82	12	505	34	20	12	32	1.90
1221396--1221451	21	2.7	21	97	0	103	32	10	23	33	1.89
1249595--1249881	38	7.7	37	70	10	192	34	17	13	34	1.88
1249599--1249805	112	1.8	113	91	1	344	34	16	12	35	1.87
1249679--1249878	74	2.7	74	88	2	269	34	18	13	34	1.89
1250884--1251184	38	8.1	38	70	10	192	32	15	14	37	1.88
1250884--1251043	73	2.2	73	94	1	275	33	16	13	36	1.88
1251063--1251302	75	3.2	75	81	3	252	32	16	12	39	1.85
1254953--1254998	2	24.0	2	86	8	69	52	2	0	45	1.13
1258028--1258069	18	2.3	19	87	4	59	19	2	2	76	1.01
1258030--1258068	15	2.7	14	88	7	60	17	2	2	76	1.01
1260715--1260790	36	2.1	37	87	7	111	39	15	14	30	1.88
1261390--1261428	17	2.4	17	91	4	62	15	0	2	82	0.79
1261402--1261426	12	2.1	12	100	0	50	16	0	0	84	0.63
1261523--1261563	21	2.0	21	85	0	55	31	4	2	60	1.30
1261559--1261592	9	3.9	9	88	7	52	41	0	0	58	0.98
1264065--1264133	27	2.6	26	70	20	63	37	5	11	44	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1264829--1264890	23	2.7	22	80	9	72	79	6	14	0	0.93
1264829--1264898	20	3.3	20	82	9	68	78	5	14	1	1.00
1266396--1266500	36	2.9	36	91	2	165	24	23	13	38	1.91
1266396--1266505	37	3.0	37	90	2	168	26	23	12	37	1.91
1266414--1266805	102	3.9	102	95	0	678	29	21	12	37	1.90
1266532--1266602	37	1.9	37	88	0	106	23	21	12	42	1.87
1266618--1266704	37	2.4	37	86	5	115	25	21	13	39	1.90
1266414--1266872	204	2.2	203	89	1	702	29	21	12	36	1.90
1266719--1266805	36	2.4	36	86	0	111	26	21	12	39	1.89
1266747--1266921	67	2.6	67	87	4	237	30	21	11	36	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21