genome.fa.s7936.2.7.7.80.10.50.1000.5.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: VEPZ01007936.1 Hibiscus syriacus cultivar Beakdansim tig00110346_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2869312

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

This is table  5  of  11  ( 1292 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)
968539--968588	23	2.2	23	82	13	59	54	2	4	40	1.31
969857--969901	23	2.0	23	82	4	56	37	2	11	48	1.51
971181--971542	37	9.8	36	85	10	432	43	4	7	44	1.51
971381--971405	13	1.9	13	100	0	50	40	8	8	44	1.63
971181--971536	112	3.2	108	85	9	436	44	4	7	43	1.52
971567--971611	19	2.3	20	80	3	56	22	2	2	73	1.05
972390--972554	6	26.7	6	65	19	54	21	4	0	73	1.05
972487--972520	3	11.7	3	87	6	52	35	0	0	64	0.94
972390--972554	14	11.1	15	67	18	64	21	4	0	73	1.05
974205--974258	22	2.4	23	84	12	76	31	12	3	51	1.57
974217--974264	22	2.2	21	82	10	53	43	12	2	41	1.54
977545--977709	86	1.9	86	90	2	260	29	27	23	20	1.99
977776--978060	85	3.4	83	77	7	277	36	21	16	25	1.94
978779--978811	10	3.2	11	87	12	52	24	0	0	75	0.80
978827--978859	15	2.2	15	89	10	50	33	0	9	57	1.30
978856--979253	37	10.8	37	81	12	403	44	5	6	43	1.52
979282--979330	9	5.2	9	80	7	53	22	2	2	73	1.04
979369--979419	19	2.7	19	87	0	75	13	29	37	19	1.90
980514--980560	21	2.2	21	84	3	58	19	8	0	72	1.10
980529--980600	10	7.0	11	75	19	59	18	4	0	77	0.92
980533--980609	8	8.6	8	78	18	57	16	2	0	80	0.82
980535--980603	30	2.4	27	81	11	84	17	2	0	79	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980532--980608	11	6.9	11	72	20	54	16	2	0	80	0.82
980533--980625	46	2.0	48	81	8	111	19	2	2	76	0.99
981302--981344	21	2.0	21	82	8	52	9	2	27	60	1.40
981836--981986	37	4.2	36	76	10	159	45	5	3	46	1.42
981839--981983	35	4.2	34	76	14	93	44	5	3	46	1.43
981944--982040	28	3.5	28	77	13	103	44	5	3	47	1.41
983788--983828	21	1.9	22	85	5	57	48	4	14	31	1.65
988070--988272	101	2.0	101	94	0	352	27	10	13	49	1.74
996691--996727	13	2.8	13	87	0	56	56	2	35	5	1.36
1002608--1002652	21	2.1	21	95	0	81	28	26	8	35	1.87
1003839--1003883	21	2.1	21	95	0	81	28	26	8	35	1.87
1005123--1005167	23	2.0	23	95	0	81	51	4	8	35	1.54
1005616--1005681	20	3.2	20	81	8	78	36	15	18	30	1.91
1037197--1037229	11	3.0	11	95	0	57	21	45	0	33	1.52
1061108--1061146	17	2.3	17	86	0	51	64	5	10	20	1.44
1068882--1068930	22	2.2	22	96	0	89	30	12	34	22	1.91
1069275--1069316	16	2.6	16	92	0	66	23	21	16	38	1.93
1069584--1069638	20	2.8	20	88	0	74	40	14	16	29	1.88
1081566--1081616	20	2.6	19	84	12	59	17	27	17	37	1.93
1085033--1085071	13	2.9	14	88	7	62	71	0	7	20	1.10
1088039--1088106	22	3.0	22	83	12	84	75	0	8	16	1.05
1096198--1096237	20	2.0	20	85	0	53	75	5	0	20	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1097588--1097747	66	2.4	65	84	3	203	35	11	17	35	1.87
1097648--1097848	102	2.0	102	80	5	228	37	11	17	33	1.86
1097759--1097954	67	3.0	66	86	4	236	36	14	19	30	1.91
1097971--1098095	36	3.7	35	70	15	109	37	13	19	29	1.90
1097941--1098099	66	2.4	66	92	3	266	37	13	19	29	1.90
1097911--1098050	30	4.5	30	76	13	147	37	12	20	29	1.89
1097844--1098050	97	2.1	97	91	2	328	37	13	20	28	1.90
1098883--1098920	19	2.0	20	84	5	51	28	10	13	47	1.76
1108140--1108164	13	1.9	13	100	0	50	40	16	4	40	1.67
1108459--1108509	21	2.4	21	90	0	75	17	43	21	17	1.88
1113441--1113472	10	2.8	12	81	18	50	25	15	21	37	1.93
1113513--1113548	13	2.8	13	91	8	56	16	22	22	38	1.93
1115805--1116338	268	2.0	266	90	2	831	39	5	14	40	1.70
1122224--1122413	45	4.2	45	90	1	283	44	12	20	22	1.85
1127062--1127251	45	4.2	45	91	1	301	43	13	21	22	1.86
1134253--1134386	68	2.0	68	92	0	223	50	14	8	26	1.71
1138859--1138887	5	5.8	5	100	0	58	41	20	0	37	1.53
1139045--1139111	22	3.0	22	80	4	82	32	23	19	23	1.97
1150343--1150394	22	2.5	21	84	9	63	36	15	15	32	1.89
1150739--1150901	57	2.9	57	89	1	249	33	7	21	36	1.83
1150734--1150937	55	3.7	55	85	3	232	36	8	20	34	1.84
1156569--1156641	30	2.4	30	93	2	119	24	4	23	47	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1157037--1157090	19	2.6	21	82	8	67	37	16	16	29	1.91
1157426--1157766	57	6.0	57	90	1	517	34	9	20	35	1.86
1157426--1157757	113	2.9	113	90	2	508	34	9	19	35	1.85
1157426--1157766	170	2.0	169	91	1	549	34	9	20	35	1.86
1163790--1163828	21	1.9	21	84	5	53	28	15	20	35	1.93
1179413--1179459	21	2.2	21	84	0	58	42	17	12	27	1.85
1190433--1190576	79	1.9	76	81	10	175	40	8	5	45	1.57
1198607--1198681	36	2.1	36	100	0	150	30	16	16	37	1.90
1213634--1213671	20	1.9	20	88	0	58	21	26	10	42	1.85
1216939--1217602	54	12.4	54	85	3	815	34	20	17	27	1.95
1217137--1217223	27	3.2	27	64	23	65	32	20	18	28	1.96
1217625--1217797	48	3.6	47	76	9	177	36	14	23	25	1.93
1223096--1223876	54	14.4	54	86	2	1073	33	20	18	27	1.96
1223400--1223485	27	3.2	27	64	23	72	30	18	22	29	1.97
1223400--1223539	27	5.2	27	61	27	64	31	18	21	28	1.97
1223892--1224046	49	3.2	48	75	6	168	33	13	23	29	1.93
1231406--1231452	24	1.9	25	82	4	60	29	21	19	29	1.97
1232705--1232737	17	1.9	17	93	0	57	69	0	9	21	1.15
1233254--1233292	20	2.0	20	85	10	53	61	15	10	12	1.56
1233735--1233779	18	2.3	20	74	14	58	22	0	20	57	1.40
1234176--1234220	11	3.9	12	78	18	51	37	0	0	62	0.96
1234173--1234220	17	2.9	16	76	11	53	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234173--1234221	20	2.5	18	78	18	53	36	0	0	63	0.95
1234179--1234220	23	2.0	20	86	13	57	38	0	0	61	0.96
1241198--1241273	23	3.3	23	81	1	73	42	21	14	22	1.89
1252677--1252745	23	3.0	23	80	0	93	34	23	21	20	1.96
1258260--1258298	20	2.0	20	94	0	69	30	30	15	23	1.95
1258318--1258369	26	2.0	26	92	0	86	25	23	19	32	1.97
1266037--1266125	45	2.0	46	86	2	126	29	23	19	28	1.98
1266227--1266277	21	2.4	21	96	0	93	23	27	27	21	1.99
1280439--1280486	18	2.7	18	86	0	69	31	10	18	39	1.85
1281973--1282492	81	6.4	81	87	1	664	31	20	11	36	1.89
1288740--1289259	81	6.4	80	86	1	626	32	20	10	36	1.88
1288729--1289259	243	2.2	243	85	2	697	32	20	10	36	1.87
1289670--1289718	22	2.2	22	100	0	98	24	18	16	40	1.90
1289690--1289867	94	1.9	95	89	3	279	24	21	14	40	1.90
1290814--1290942	59	2.2	59	84	0	168	29	24	17	28	1.97
1296338--1296379	20	2.1	20	86	0	57	23	0	23	52	1.47
1296400--1296472	24	3.2	24	64	25	66	34	9	23	32	1.87
1296947--1296982	7	5.3	7	90	6	56	19	27	11	41	1.85
1296948--1296973	13	2.0	13	100	0	52	15	23	15	46	1.83
1299261--1299362	6	16.8	6	79	6	107	75	1	20	1	1.00
1303259--1303331	24	3.2	24	64	25	66	34	9	23	32	1.87
1306176--1306247	36	2.0	36	83	8	92	75	0	18	6	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306174--1306250	6	12.7	6	75	8	66	76	0	16	6	0.98
1306914--1306958	20	2.2	20	92	0	72	17	4	24	53	1.62
1315099--1315213	10	10.7	10	66	26	58	26	36	26	10	1.89
1315102--1315173	14	5.0	14	70	29	62	25	38	27	8	1.84
1315116--1315213	20	4.7	20	82	9	124	27	35	26	10	1.89
1315099--1315200	44	2.3	44	94	3	179	27	37	25	9	1.87
1315202--1315232	14	2.2	14	94	0	53	25	35	32	6	1.82
1315116--1315213	10	9.4	10	68	24	60	27	35	26	10	1.89
1315214--1315298	33	2.6	33	90	0	125	25	27	37	9	1.87
1315331--1315396	32	2.1	31	86	8	89	13	37	21	27	1.91

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