genome.fa.s5680.2.7.7.80.10.50.1000.5.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: VEPZ01005680.1 Hibiscus syriacus cultivar Beakdansim tig00013285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1821426

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 720 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)
996595--996624	15	1.9	16	93	6	53	40	0	6	53	1.27
996567--996643	25	3.0	25	72	7	73	45	2	5	46	1.39
996615--996800	38	5.0	35	76	13	131	45	4	5	44	1.47
998078--998119	11	3.8	11	87	6	59	33	0	0	66	0.92
998156--998184	3	9.7	3	100	0	58	31	0	0	68	0.89
1001567--1001604	20	1.9	20	88	0	58	26	26	5	42	1.76
1009540--1009573	13	2.6	13	95	0	59	17	5	2	73	1.16
1016668--1017187	43	12.3	42	75	10	359	25	22	5	47	1.71
1016690--1017167	85	5.6	87	73	15	247	24	22	5	47	1.72
1016711--1017189	169	2.8	167	77	11	408	24	22	5	47	1.71
1017012--1017114	42	2.6	39	80	15	113	27	24	2	45	1.67
1019019--1019077	16	3.8	16	90	2	84	33	6	20	38	1.79
1027560--1027590	16	1.9	16	93	0	53	19	9	16	54	1.68
1038253--1038344	32	2.9	31	73	12	96	47	13	2	36	1.54
1046884--1046934	22	2.3	22	100	0	102	37	19	11	31	1.88
1047190--1047238	2	25.0	2	91	4	82	46	0	2	51	1.12
1053102--1053142	19	2.2	19	86	8	57	41	0	4	53	1.22
1054676--1054730	20	2.8	20	91	0	83	34	16	20	29	1.94
1065784--1066158	189	2.0	189	93	1	635	28	24	10	37	1.88
1079915--1079963	14	3.8	14	76	20	52	51	24	16	8	1.71
1079918--1079988	24	3.0	23	80	11	81	46	23	18	11	1.81
1085782--1085812	11	2.9	11	95	4	55	38	0	54	6	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1086221--1086277	29	2.0	29	86	6	80	47	10	0	42	1.38
1089201--1089236	2	18.5	2	94	5	65	50	0	0	50	1.00
1089204--1089233	15	2.0	15	100	0	60	53	0	0	46	1.00
1089202--1089235	17	2.0	17	100	0	68	52	0	0	47	1.00
1092708--1092963	128	2.0	125	94	5	451	22	21	33	22	1.98
1094126--1094198	2	36.5	2	89	10	114	47	2	0	49	1.15
1100983--1101095	60	1.9	60	87	3	165	43	13	7	35	1.73
1101238--1101479	119	2.0	120	99	0	477	29	16	26	28	1.97
1103839--1103879	17	2.4	17	87	0	55	58	4	2	34	1.32
1106393--1106570	87	2.0	90	95	4	326	13	41	14	30	1.85
1107520--1107555	16	2.2	16	90	0	54	33	5	19	41	1.75
1112038--1112108	34	2.0	36	94	5	128	35	8	16	39	1.79
1128828--1128886	20	2.9	21	85	7	86	18	27	23	30	1.98
1128849--1128918	10	7.3	10	72	24	62	15	30	28	25	1.96
1128849--1128916	19	3.5	20	88	9	90	16	27	29	26	1.97
1128879--1128918	9	4.3	9	84	6	53	15	30	30	25	1.95
1128915--1128972	5	10.8	5	78	14	62	18	51	22	6	1.70
1128915--1128979	22	3.0	22	100	0	130	18	49	23	9	1.76
1128969--1128999	7	4.4	7	100	0	62	16	29	29	25	1.96
1136148--1136201	9	5.8	9	76	8	54	18	25	29	25	1.98
1136148--1136205	19	3.0	20	92	5	86	18	25	29	25	1.98
1136168--1136207	9	4.3	9	84	6	53	15	30	30	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136221--1136283	5	11.8	5	80	12	72	19	52	22	6	1.68
1136204--1136290	22	4.0	22	98	0	165	19	49	21	9	1.76
1136280--1136310	7	4.4	7	100	0	62	16	29	29	25	1.96
1147122--1147177	24	2.5	22	83	13	78	25	30	25	19	1.98
1163395--1163437	22	2.0	22	90	9	70	41	9	9	39	1.69
1170330--1170384	23	2.4	23	96	0	101	1	25	18	54	1.53
1171159--1171186	14	2.0	14	100	0	56	42	0	7	50	1.30
1184368--1184401	3	11.3	3	100	0	68	32	32	35	0	1.58
1201688--1201867	69	2.6	69	86	2	243	16	11	45	27	1.81
1201643--1201870	36	6.4	36	83	8	254	17	10	44	26	1.82
1202441--1202513	24	3.0	24	89	0	101	16	15	39	28	1.89
1206097--1206130	16	2.1	16	94	0	59	35	0	2	61	1.11
1208376--1208412	20	1.9	19	89	10	58	45	10	24	18	1.81
1213273--1213305	17	2.0	17	88	5	50	6	12	9	72	1.26
1213445--1213495	17	2.9	17	78	13	50	68	3	1	25	1.17
1217824--1217862	12	2.9	14	81	14	55	51	33	7	7	1.59
1219600--1219642	18	2.5	17	77	7	50	13	4	2	79	1.00
1220097--1220134	19	2.0	19	85	10	51	39	0	7	52	1.31
1220810--1220912	7	14.7	7	100	0	206	27	14	29	29	1.95
1227675--1227716	18	2.3	18	87	4	57	64	11	7	16	1.48
1228049--1228146	33	2.9	34	84	7	128	36	22	7	33	1.82
1228049--1228152	36	3.0	36	87	4	142	36	22	7	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229005--1229037	2	17.0	2	93	6	59	48	0	0	51	1.00
1231459--1231593	54	2.5	54	86	2	173	33	17	19	29	1.95
1235344--1235396	21	2.5	21	96	0	97	26	16	28	28	1.97
1235424--1235630	41	5.2	41	70	17	150	18	18	23	40	1.92
1235520--1235568	20	2.5	20	89	0	71	12	22	22	42	1.86
1235560--1235608	22	2.2	22	96	0	89	18	18	26	36	1.94
1236346--1236434	19	4.5	20	77	10	67	39	22	17	20	1.92
1236365--1236415	19	2.5	22	75	18	72	35	27	17	19	1.94
1236782--1236814	14	2.3	15	89	5	50	42	3	0	54	1.15
1256597--1256649	2	26.0	2	92	3	88	49	3	0	47	1.19
1271906--1271997	40	2.3	40	94	0	166	32	19	19	28	1.96
1271984--1272059	21	3.7	21	76	13	77	36	23	17	22	1.94
1271915--1272060	20	7.2	20	70	12	93	34	20	18	26	1.96
1272203--1272260	22	2.7	22	84	5	84	20	41	12	25	1.87
1274424--1274474	19	2.7	19	96	0	93	25	23	27	23	2.00
1275188--1275249	21	2.8	23	73	9	65	20	22	27	29	1.99
1281928--1281990	23	2.7	23	87	4	92	20	26	26	25	1.99
1283197--1283250	24	2.2	24	86	0	72	38	18	20	22	1.93
1284046--1284176	41	3.2	41	77	12	135	27	16	23	32	1.96
1284075--1284132	21	2.8	21	77	12	75	22	18	27	31	1.97
1284075--1284174	20	4.9	20	69	15	71	28	18	23	31	1.97
1284200--1284236	19	1.9	19	88	0	56	24	16	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1288862--1288902	20	2.0	22	85	9	59	60	2	0	36	1.10
1289031--1289074	21	2.1	21	83	8	54	34	9	11	45	1.72
1289450--1289538	44	2.0	44	100	0	178	20	20	15	43	1.87
1295976--1296043	31	2.2	32	81	7	77	47	8	4	39	1.55
1298181--1298210	13	2.3	13	100	0	60	30	6	26	36	1.82
1319264--1319299	18	2.0	18	88	0	54	47	30	19	2	1.64
1321404--1321433	2	15.5	2	93	6	53	50	0	0	50	1.00
1323652--1323810	78	2.0	78	100	0	318	33	10	11	45	1.74
1329352--1329402	26	2.0	25	88	7	75	31	15	5	47	1.70
1331301--1331352	15	3.5	15	97	0	95	7	69	17	5	1.33
1339084--1339137	22	2.5	22	81	3	65	66	5	9	18	1.39
1340526--1340625	50	2.0	50	96	0	182	43	11	13	33	1.78
1357939--1358129	99	1.9	99	91	2	312	19	15	15	49	1.79
1359290--1359350	31	2.0	31	83	0	77	52	9	9	27	1.66
1361953--1362315	184	2.0	184	91	4	590	45	8	3	42	1.52
1373652--1373695	22	2.0	22	82	8	54	36	4	2	56	1.32
1374783--1374835	24	2.2	24	82	3	61	30	1	7	60	1.35
1381800--1381837	10	3.8	10	86	10	51	63	0	2	34	1.09
1383782--1383818	17	2.1	18	95	5	67	27	29	18	24	1.98
1394232--1394376	70	2.0	71	81	10	170	35	5	10	48	1.61
1406642--1406707	18	3.6	19	80	15	77	12	36	12	39	1.80
1417404--1417563	64	2.5	63	85	6	198	33	18	21	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1418930--1418970	21	2.0	21	90	0	64	29	24	24	21	1.99
1418941--1418995	22	2.5	22	91	2	85	27	25	23	23	2.00
1427362--1427408	19	2.5	19	92	0	76	10	10	0	78	0.96
1428032--1428072	21	1.9	22	85	5	57	34	2	9	53	1.47
1440460--1440527	29	2.3	29	100	0	136	25	11	13	50	1.75
1445133--1445192	29	2.1	29	100	0	120	23	13	13	50	1.77
1451858--1451886	6	4.8	6	100	0	58	48	0	0	51	1.00
1454363--1454389	2	13.5	2	100	0	54	51	0	0	48	1.00
1455571--1455659	20	4.4	21	76	5	76	33	30	12	23	1.92
1455570--1455668	41	2.4	41	84	1	119	32	29	14	24	1.94

Tables:   1   2   3   4   5   6