genome.fa.s8926.2.7.7.80.10.50.1000.6.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: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4069050

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

This is table  6  of  20  ( 2371 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)
1138660--1138755	35	2.7	34	79	14	104	79	0	16	4	0.89
1138661--1138756	20	4.5	22	75	20	73	80	0	15	4	0.86
1138664--1138756	24	3.6	27	73	25	76	79	0	16	4	0.88
1141396--1142328	42	21.7	42	72	10	481	28	17	14	39	1.89
1141396--1142375	45	22.7	44	72	10	492	27	17	14	39	1.89
1141396--1142232	87	9.8	87	73	9	420	28	18	14	38	1.90
1141428--1141932	261	1.9	260	81	5	599	28	18	14	39	1.90
1141396--1142253	129	6.7	128	73	10	597	28	18	14	39	1.90
1142022--1142089	34	2.0	34	88	0	100	19	25	10	45	1.81
1142632--1142687	20	2.8	20	91	0	85	23	23	7	46	1.76
1149123--1149156	15	2.2	16	90	10	54	17	14	0	67	1.23
1152108--1152162	5	10.8	5	81	11	67	5	20	54	20	1.63
1152124--1152162	19	2.1	19	90	0	60	5	20	53	20	1.64
1158212--1158256	22	2.1	22	87	4	65	75	4	8	11	1.17
1158682--1158990	64	4.9	64	84	4	421	35	20	12	32	1.89
1159002--1159177	65	2.8	63	85	5	216	35	22	16	26	1.95
1159137--1159415	125	2.2	124	90	0	432	36	24	13	25	1.92
1165370--1165406	19	1.9	19	88	0	56	24	35	27	13	1.93
1165329--1165412	19	4.2	19	70	18	53	23	30	28	16	1.96
1168135--1168185	20	2.5	21	84	15	79	17	41	21	19	1.91
1185396--1185484	31	2.9	31	87	0	124	56	1	15	26	1.47
1187434--1187478	22	2.0	24	82	8	58	26	6	2	64	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189905--1190129	95	2.4	92	81	8	238	31	16	25	26	1.96
1190071--1190128	22	2.7	21	85	12	82	31	17	27	24	1.97
1190511--1190821	79	3.9	79	91	2	482	34	11	26	28	1.91
1191503--1191615	45	2.5	45	84	8	133	53	6	17	23	1.66
1193392--1193462	2	35.5	2	100	0	142	50	0	0	49	1.00
1194930--1194972	19	2.3	19	100	0	86	9	30	4	55	1.52
1195593--1195667	20	3.7	20	76	15	82	29	16	30	24	1.96
1195542--1195764	95	2.3	94	80	5	234	33	16	24	26	1.96
1196145--1196466	79	4.1	79	87	2	441	35	9	23	31	1.88
1196145--1196466	157	2.0	158	85	3	443	35	9	23	31	1.88
1197150--1197242	44	2.1	44	84	6	116	51	11	19	17	1.75
1197903--1199502	81	19.8	81	87	1	2094	34	11	21	31	1.90
1199510--1199606	49	2.0	49	87	4	142	28	13	24	32	1.93
1199621--1199794	46	3.8	46	87	0	231	46	9	17	25	1.79
1203805--1203860	19	2.9	19	85	12	78	16	21	28	33	1.95
1203805--1203853	10	4.8	11	83	16	70	16	20	26	36	1.93
1203806--1203860	9	5.6	10	83	12	78	14	21	29	34	1.93
1203873--1203903	13	2.4	13	94	0	53	16	48	19	16	1.81
1203906--1203936	7	4.4	7	100	0	62	12	32	29	25	1.93
1203936--1204011	29	2.6	29	87	0	98	21	9	27	42	1.83
1211087--1211142	19	2.9	19	85	12	78	16	21	28	33	1.95
1211087--1211135	10	4.8	11	83	16	70	16	20	26	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211088--1211142	9	5.6	10	83	12	78	14	21	29	34	1.93
1211146--1211217	7	9.5	8	74	17	57	15	40	23	20	1.91
1211134--1211220	39	2.2	38	78	8	95	14	37	25	21	1.92
1211162--1211196	18	1.9	18	100	0	70	17	48	22	11	1.79
1211155--1211185	13	2.4	13	100	0	62	16	48	22	12	1.80
1211188--1211218	7	4.4	7	100	0	62	12	32	29	25	1.93
1211218--1211293	29	2.6	29	87	0	98	21	9	27	42	1.83
1217715--1217739	12	2.1	12	100	0	50	40	44	0	16	1.47
1221144--1221188	24	1.9	24	90	4	74	80	0	11	8	0.92
1222072--1222451	116	3.3	115	82	3	467	40	17	20	22	1.92
1222594--1222675	3	27.3	3	100	0	164	34	0	0	65	0.93
1222999--1223061	20	3.5	18	71	20	60	76	0	3	20	0.93
1222976--1223081	3	36.0	3	72	22	57	73	0	1	24	0.93
1222976--1223081	8	12.8	8	76	18	85	73	0	1	24	0.93
1222979--1223079	34	2.9	35	85	10	127	74	0	1	23	0.92
1223009--1223061	28	2.0	25	78	10	52	77	0	3	18	0.92
1223121--1223163	18	2.4	18	88	0	59	69	0	6	23	1.12
1223768--1223871	24	4.4	24	66	21	58	54	14	0	30	1.40
1223757--1223945	76	2.6	73	85	8	242	56	13	1	29	1.44
1223816--1223854	19	2.1	19	85	0	51	56	15	0	28	1.40
1223757--1223981	76	3.1	71	80	9	231	56	12	1	30	1.46
1225417--1225529	5	21.8	5	68	13	68	69	1	7	21	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1225473--1225530	11	5.5	11	75	8	57	75	1	6	15	1.09
1225475--1225542	21	3.2	21	82	2	91	72	2	8	16	1.22
1229532--1229610	35	2.2	38	84	6	101	70	0	7	21	1.11
1229527--1229609	38	2.2	39	79	16	95	71	0	7	21	1.10
1229655--1229696	17	2.4	18	92	4	68	71	0	4	23	1.05
1230336--1230363	12	2.3	12	100	0	56	53	7	0	39	1.28
1230290--1230476	76	2.5	75	83	6	238	56	11	2	29	1.47
1230292--1230501	76	2.8	73	76	9	201	57	10	2	29	1.46
1231799--1231854	19	3.0	20	69	12	55	26	10	1	60	1.40
1232265--1232309	22	2.0	24	82	8	58	26	6	2	64	1.30
1232401--1232466	3	22.3	3	76	14	66	42	0	0	57	0.98
1232412--1232466	22	2.5	22	80	17	69	41	0	0	58	0.98
1232401--1232466	19	3.3	21	80	18	79	42	0	0	57	0.98
1233872--1233908	18	2.1	18	90	10	58	59	0	0	40	0.97
1234156--1234210	27	2.0	27	86	6	76	49	1	0	49	1.11
1234696--1234737	11	3.8	11	78	12	50	26	0	0	73	0.83
1236805--1236889	36	2.4	36	88	7	120	18	20	5	55	1.63
1241030--1241243	114	1.9	114	90	1	340	33	16	20	29	1.94
1243355--1243495	50	2.7	51	80	8	169	41	12	19	25	1.87
1243338--1243495	54	3.0	54	79	8	182	40	14	20	24	1.90
1243862--1243916	22	2.5	22	84	0	74	34	14	12	38	1.84
1244590--1245076	76	6.4	76	96	0	893	23	19	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245230--1245303	3	24.3	3	81	10	80	41	0	0	58	0.98
1245230--1245303	24	3.2	24	81	16	93	41	0	0	58	0.98
1246685--1246722	3	12.3	3	84	15	51	31	0	0	68	0.90
1246685--1246725	19	2.2	19	91	8	66	31	0	0	68	0.90
1246688--1246722	13	2.5	14	86	13	54	31	0	0	68	0.90
1246685--1246725	9	4.3	10	90	9	68	31	0	0	68	0.90
1246954--1247008	27	2.0	27	86	6	76	49	1	0	49	1.11
1249591--1249672	40	2.1	38	82	6	94	32	17	14	35	1.90
1250026--1250064	19	2.1	19	85	0	51	30	2	2	64	1.21
1251848--1251916	33	2.1	32	83	2	84	24	27	15	31	1.96
1252435--1252493	20	3.0	20	78	16	77	28	16	23	30	1.97
1252722--1252778	21	2.9	19	78	14	71	47	10	10	31	1.72
1252722--1252779	18	3.1	18	80	11	71	48	10	10	31	1.71
1253939--1253987	19	2.5	20	80	12	57	32	8	4	55	1.48
1256080--1256139	20	3.0	20	73	11	68	26	15	25	33	1.95
1256526--1256558	13	2.6	13	90	4	50	45	0	0	54	0.99
1257312--1257352	16	2.6	16	88	3	57	29	21	12	36	1.90
1267969--1267999	2	15.5	2	100	0	62	0	48	0	51	1.00
1268018--1268044	14	1.9	14	100	0	54	51	33	0	14	1.43
1268976--1269022	14	3.4	14	88	5	78	40	2	12	44	1.54
1268977--1269018	13	3.2	13	89	3	66	40	2	14	42	1.58
1269577--1269700	20	6.2	20	73	12	101	40	13	17	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1275003--1275031	15	1.9	15	100	0	58	17	6	27	48	1.72
1282106--1282188	30	2.8	30	81	5	98	46	4	19	28	1.70
1286280--1286319	12	3.3	12	85	0	53	10	0	2	87	0.63
1287392--1288219	227	3.7	225	89	1	1246	38	13	16	31	1.87
1287806--1288194	115	3.4	113	68	16	298	39	13	17	29	1.88
1288519--1288569	20	2.5	21	93	6	95	29	9	15	45	1.79
1288739--1288793	21	2.6	21	97	0	101	29	10	16	43	1.82
1288437--1288995	222	2.5	221	85	4	747	33	11	13	41	1.80
1288767--1289155	201	1.9	201	85	2	539	34	12	14	39	1.83
1289246--1289406	76	2.1	74	90	4	252	32	13	12	42	1.81

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