genome.fa.s7967.2.7.7.80.10.50.1000.6.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: VEPZ01007967.1 Hibiscus syriacus cultivar Beakdansim tig00110402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2476418

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

This is table  6  of  11  ( 1301 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)
1014120--1014181	31	2.0	31	93	0	106	24	14	37	24	1.93
1014186--1014236	22	2.4	22	96	3	95	21	29	35	13	1.92
1014234--1014277	22	2.0	23	86	4	63	25	20	47	6	1.74
1014282--1014369	29	3.0	29	83	0	113	19	31	32	15	1.93
1016726--1016756	2	15.5	2	100	0	62	48	0	0	51	1.00
1019985--1020034	24	2.1	24	96	0	91	52	0	12	36	1.39
1028248--1028287	21	1.9	21	89	0	62	25	40	25	10	1.86
1031876--1031908	17	1.9	17	88	11	50	33	0	0	66	0.92
1036684--1036775	30	3.0	31	78	9	109	26	16	20	36	1.93
1036756--1036814	22	2.6	23	86	5	75	25	20	25	28	1.99
1041695--1041752	11	5.5	10	79	16	55	70	1	1	25	1.06
1042388--1042491	37	2.8	37	86	0	136	29	14	13	42	1.84
1043035--1043559	105	5.0	105	89	3	738	22	17	26	33	1.96
1043766--1043834	36	1.9	36	90	0	111	40	15	20	23	1.91
1043734--1044054	106	3.1	103	90	3	484	37	11	20	30	1.89
1043957--1044031	39	1.9	39	83	5	98	37	13	22	26	1.91
1044170--1044283	36	3.2	36	73	2	104	44	14	14	26	1.83
1044124--1044294	72	2.3	75	82	6	197	42	13	16	27	1.86
1045442--1045976	183	2.9	183	92	1	878	31	20	20	28	1.97
1051645--1051696	14	3.7	14	75	10	52	73	1	1	23	1.04
1051641--1051706	18	3.6	18	72	19	57	72	1	1	24	1.01
1051953--1051995	18	2.5	17	85	7	61	67	2	4	25	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052352--1052449	37	2.6	37	83	0	115	29	12	13	44	1.80
1058392--1058455	32	2.0	32	90	0	101	43	14	21	20	1.87
1059150--1059278	59	2.2	60	81	4	145	44	8	16	30	1.77
1063666--1063843	47	3.6	47	81	11	164	25	11	14	47	1.78
1063693--1063842	47	3.1	49	82	13	195	26	12	13	48	1.78
1064058--1064085	2	14.0	2	100	0	56	50	0	0	50	1.00
1067620--1067703	37	2.3	36	80	11	98	45	4	10	39	1.60
1072442--1072681	116	2.1	118	84	3	315	27	11	5	55	1.56
1076716--1076758	4	10.8	4	89	0	68	51	18	0	30	1.47
1076720--1076783	4	16.0	4	93	0	65	50	10	0	39	1.38
1076716--1076783	12	5.7	12	92	0	82	50	11	0	38	1.39
1081562--1082245	344	2.0	344	96	2	1259	27	15	17	39	1.90
1084072--1084117	19	2.4	19	96	3	83	43	0	15	41	1.46
1086092--1086145	24	2.2	24	80	9	65	53	7	7	31	1.56
1087847--1089158	656	2.0	657	91	4	2150	33	15	14	36	1.88
1091017--1091064	24	2.0	24	95	0	87	41	14	0	43	1.45
1091891--1091928	3	12.7	3	100	0	76	0	31	0	68	0.90
1099709--1099754	18	2.6	18	85	0	56	43	8	8	39	1.66
1099855--1100204	183	1.9	183	91	3	571	47	7	3	42	1.47
1100318--1100373	31	1.9	30	82	13	73	44	7	19	28	1.77
1101047--1101168	31	3.9	31	93	1	199	17	18	9	55	1.67
1101049--1101168	63	1.9	63	93	1	206	17	17	8	56	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1101597--1102133	43	12.3	42	75	13	275	25	18	6	49	1.72
1101714--1101900	94	2.0	95	89	4	288	22	20	6	50	1.72
1101814--1102134	44	7.4	44	80	4	332	25	20	7	46	1.77
1101810--1102134	87	3.8	84	80	4	328	25	20	7	46	1.76
1101814--1102128	131	2.4	129	88	2	452	25	20	7	46	1.76
1106011--1106039	14	2.0	15	93	6	51	13	10	27	48	1.75
1110265--1110327	26	2.4	26	100	0	126	44	20	11	23	1.83
1120123--1120178	6	8.7	6	90	9	76	32	0	67	0	0.91
1120123--1120176	20	2.7	19	91	8	90	29	0	70	0	0.88
1120124--1120178	26	2.1	26	93	6	94	32	0	67	0	0.91
1128647--1128997	180	2.0	179	90	5	557	41	3	10	43	1.57
1129466--1129626	80	2.0	79	91	1	259	22	13	6	57	1.59
1133179--1133213	15	2.3	15	95	0	61	17	11	28	42	1.83
1138634--1138864	115	2.0	116	99	0	455	38	13	22	25	1.91
1140329--1140372	20	2.2	20	84	4	63	68	0	18	13	1.22
1147239--1147288	24	2.1	24	85	7	66	62	12	2	24	1.40
1156190--1156253	20	3.2	20	93	0	110	35	15	28	20	1.93
1166392--1166445	22	2.5	21	75	16	65	44	9	7	38	1.65
1166531--1166561	16	1.9	16	93	0	53	35	0	12	51	1.40
1168504--1168559	23	2.4	23	90	0	85	30	16	10	42	1.82
1174119--1174406	4	72.2	4	85	2	220	0	60	1	37	1.08
1174119--1174406	16	18.7	16	82	11	264	0	60	1	37	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183050--1183096	20	2.3	20	92	0	76	27	0	17	55	1.42
1183285--1183345	30	2.0	30	83	0	77	26	19	24	29	1.99
1185525--1185683	63	2.5	62	85	2	192	31	19	21	27	1.97
1187081--1187395	149	2.1	149	97	1	596	27	15	21	34	1.94
1187363--1187407	23	2.0	23	90	0	72	22	26	26	24	2.00
1190766--1190924	63	2.5	62	85	2	192	31	19	21	27	1.97
1192323--1192628	149	2.1	149	98	0	594	28	15	20	34	1.94
1196015--1196173	63	2.5	62	85	2	192	31	19	21	27	1.97
1197572--1197877	149	2.1	149	98	0	585	28	15	20	35	1.93
1198577--1198678	20	5.1	20	81	7	116	30	26	20	22	1.98
1198631--1198687	20	2.8	20	94	0	96	24	28	21	26	1.99
1198910--1198965	20	2.8	20	97	0	103	39	23	23	14	1.91
1198984--1199048	19	3.7	19	82	13	86	13	20	18	47	1.82
1200627--1200718	42	2.2	42	88	1	141	20	15	42	21	1.89
1200654--1200714	21	2.9	21	73	9	70	21	13	42	22	1.87
1201054--1201106	20	2.7	20	87	0	70	33	28	13	24	1.93
1201060--1201166	20	5.4	20	86	1	108	35	25	22	16	1.95
1201155--1201213	14	3.9	14	76	20	64	50	23	15	10	1.74
1201139--1201229	33	2.8	33	93	0	146	48	24	16	10	1.78
1201139--1201229	19	5.4	17	71	24	68	48	24	16	10	1.78
1201225--1201341	19	6.6	19	73	19	101	13	20	21	44	1.86
1201247--1201305	14	3.9	14	76	20	64	10	16	23	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201230--1201321	33	2.8	33	98	0	175	11	18	21	47	1.80
1201306--1201349	20	2.3	19	92	4	70	20	22	18	38	1.93
1203332--1203371	14	2.9	14	92	0	62	10	15	22	52	1.71
1203576--1203619	22	2.0	22	95	0	79	18	15	45	20	1.85
1203826--1203903	41	1.9	41	94	0	138	19	17	25	37	1.94
1203806--1203900	20	4.7	20	82	7	111	21	18	26	33	1.96
1203889--1203982	21	4.5	21	90	1	136	21	24	15	38	1.92
1203828--1203963	41	3.3	41	82	5	123	21	22	20	36	1.96
1203982--1204039	21	2.7	21	97	2	107	43	17	24	15	1.87
1206522--1206561	20	2.0	20	90	0	62	37	0	2	60	1.11
1207038--1207115	36	2.1	38	81	15	92	56	5	5	33	1.43
1209641--1209687	20	2.3	20	85	0	67	29	0	14	55	1.40
1209873--1209933	30	2.0	30	87	0	86	24	21	24	29	1.99
1221906--1221954	21	2.6	17	84	15	53	28	30	20	20	1.98
1231393--1231427	18	1.9	18	94	0	61	48	2	8	40	1.49
1231621--1231704	28	3.0	28	80	3	105	52	1	9	36	1.42
1231618--1231709	29	3.2	28	81	4	96	50	2	9	38	1.48
1245223--1245267	23	1.9	24	95	4	83	51	8	13	26	1.70
1251725--1252094	185	2.0	185	100	0	740	28	12	22	36	1.91
1257685--1257730	20	2.3	20	96	0	83	19	17	26	36	1.94
1258041--1258079	21	1.9	21	89	5	62	33	0	12	53	1.39
1258073--1258104	16	2.0	16	93	0	55	34	0	18	46	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259970--1260012	2	21.5	2	95	0	77	48	0	2	48	1.14
1261259--1261350	24	3.8	24	81	5	114	41	7	6	44	1.59
1261321--1261451	60	2.2	60	90	1	210	47	9	5	38	1.58
1261356--1261417	24	2.8	21	69	21	54	51	9	3	35	1.51
1261401--1261429	15	1.9	15	100	0	58	55	10	0	34	1.34
1262202--1262232	14	2.2	14	100	0	62	51	22	0	25	1.48
1273011--1273147	64	2.2	63	81	4	168	32	20	24	23	1.98
1283643--1283748	50	2.1	51	91	8	171	30	9	8	51	1.64
1283851--1283890	4	9.2	4	86	10	53	25	2	0	72	0.97
1283857--1283893	19	1.9	19	100	0	74	27	2	0	70	1.01

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