genome.fa.s8705.2.7.7.80.10.50.1000.5.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: VEPZ01008705.1 Hibiscus syriacus cultivar Beakdansim tig00111745_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1220187

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 577 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)
1006173--1006375	13	15.8	13	71	19	99	17	4	4	73	1.17
1006173--1006375	9	23.2	8	67	22	58	17	4	4	73	1.17
1006245--1006349	55	1.9	54	84	9	142	14	4	4	76	1.12
1014934--1014991	30	2.0	29	89	3	89	60	3	3	32	1.30
1015304--1015342	14	2.8	14	84	0	51	35	28	12	23	1.91
1016190--1016257	34	2.0	34	97	0	127	35	0	25	39	1.56
1017786--1017812	12	2.2	12	100	0	54	51	0	7	40	1.30
1024069--1024281	79	2.7	79	94	2	356	30	15	16	37	1.89
1024119--1024248	38	3.3	38	68	14	120	32	16	16	35	1.91
1024063--1024210	41	3.7	40	69	15	119	29	14	18	37	1.91
1024354--1024530	82	2.1	82	83	1	210	35	14	16	33	1.89
1024297--1024580	41	6.9	41	71	12	150	31	17	18	32	1.94
1024420--1024573	83	1.9	82	84	1	209	32	17	16	33	1.93
1024546--1024867	156	2.1	156	95	2	574	32	13	15	38	1.87
1024925--1025081	45	3.7	42	79	9	149	27	15	18	38	1.91
1024925--1025073	43	3.5	43	81	5	151	25	16	19	38	1.92
1026845--1027027	95	1.9	96	96	1	341	34	9	17	38	1.82
1026955--1027084	26	4.9	26	73	15	104	38	10	14	36	1.81
1026940--1027487	81	6.8	81	78	7	612	37	8	15	39	1.76
1027062--1027341	160	1.8	153	81	11	347	39	6	14	40	1.71
1027357--1027513	26	5.9	26	76	10	156	35	11	16	36	1.85
1026940--1027541	322	1.9	312	85	5	818	38	8	14	38	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1027467--1027655	96	2.0	95	93	2	326	35	7	15	40	1.77
1027659--1027729	31	2.3	31	80	2	88	33	15	7	43	1.74
1032038--1032190	77	2.0	79	83	10	199	42	5	5	47	1.48
1035170--1035208	6	6.3	6	82	5	51	71	0	25	2	0.98
1039415--1039567	77	2.0	79	83	10	199	41	8	5	44	1.57
1056296--1056435	69	2.0	70	98	1	273	27	11	30	31	1.91
1059737--1059778	18	2.3	18	91	0	66	21	47	19	11	1.81
1059768--1059801	15	2.1	16	89	10	52	11	35	29	23	1.90
1060625--1060665	17	2.3	19	87	8	59	43	4	14	36	1.67
1062324--1062439	24	4.8	24	90	4	180	24	13	19	42	1.88
1067297--1067401	24	4.4	24	89	4	158	24	14	20	40	1.89
1087525--1087652	52	2.5	52	94	0	220	27	14	29	28	1.95
1094468--1094593	63	2.0	63	96	0	234	30	19	13	37	1.90
1107650--1107708	21	2.8	21	94	0	100	33	27	13	25	1.93
1123998--1124065	31	2.3	28	85	7	82	38	7	4	50	1.51
1126165--1126208	19	2.4	19	76	3	54	43	0	0	56	0.99
1126463--1126501	2	19.5	2	100	0	78	51	0	0	48	1.00
1127011--1127064	10	5.5	10	83	14	60	64	1	0	33	1.04
1130201--1131778	790	2.0	788	97	1	2961	34	16	20	28	1.94
1133711--1133764	28	2.0	28	82	13	69	50	0	1	48	1.11
1135398--1135455	3	19.0	3	85	3	80	37	0	1	60	1.07
1137023--1137060	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148135--1148284	54	2.8	53	84	4	183	40	11	21	27	1.87
1149052--1149432	45	8.5	45	95	2	669	21	24	20	33	1.97
1149052--1149432	89	4.2	90	94	2	669	21	24	20	33	1.97
1149308--1149382	25	3.2	25	61	24	63	22	25	17	34	1.96
1149052--1149432	133	2.8	135	93	2	669	21	24	20	33	1.97
1149403--1149651	116	2.2	116	90	0	383	29	20	21	28	1.98
1149780--1149846	3	22.7	3	93	3	118	32	0	1	65	1.02
1151107--1151144	15	2.5	15	83	8	51	31	5	5	57	1.43
1157465--1157496	15	2.1	15	100	0	64	28	12	40	18	1.87
1158413--1158586	87	2.0	90	82	3	219	50	3	10	35	1.54
1158412--1158586	30	6.0	29	75	11	124	50	3	10	35	1.54
1158464--1158637	60	2.9	60	80	2	181	54	3	8	33	1.48
1158457--1158623	90	1.9	89	81	8	205	54	3	9	32	1.50
1159690--1159726	12	3.1	12	100	0	74	59	0	0	40	0.97
1165487--1165573	35	2.5	34	78	12	88	56	9	8	26	1.58
1165787--1165849	21	3.0	21	78	0	72	15	34	17	31	1.92
1165782--1165849	15	4.7	15	75	10	61	14	33	17	33	1.91
1165794--1165835	9	4.7	9	87	0	66	14	35	19	30	1.91
1167622--1167663	10	4.2	10	85	11	59	40	0	28	30	1.57
1171014--1171060	14	3.2	14	77	16	51	80	10	2	6	0.96
1171011--1171077	29	2.2	31	82	10	86	80	7	1	10	0.96
1171027--1171079	18	2.9	19	84	13	60	81	5	1	11	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171011--1171077	6	11.2	6	74	15	50	80	7	1	10	0.96
1171910--1171975	2	33.0	2	100	0	132	50	0	0	50	1.00
1172697--1172727	10	3.1	10	95	0	53	48	9	19	22	1.78
1172721--1173074	88	3.9	90	82	6	410	25	20	16	38	1.93
1172724--1173075	92	3.9	92	83	7	416	25	20	16	38	1.92
1173357--1173477	36	3.3	36	75	6	136	35	14	23	26	1.94
1173317--1173541	73	3.0	76	87	4	314	36	13	20	28	1.91
1173341--1173453	37	3.1	37	73	7	131	33	14	23	28	1.94
1173632--1173825	36	5.5	36	76	12	206	36	13	20	29	1.91
1173571--1173882	102	3.0	103	86	7	431	36	13	19	29	1.90
1173571--1173917	102	3.4	102	85	7	429	36	12	19	30	1.90
1174102--1174216	42	2.8	42	81	4	126	32	24	21	21	1.98
1174394--1174458	20	3.2	20	69	4	58	27	23	24	24	2.00
1174394--1174507	42	2.7	40	85	6	138	27	23	23	25	2.00
1174502--1174933	99	4.4	98	91	0	630	37	19	10	31	1.86
1174502--1174933	197	2.2	197	90	0	659	37	19	10	31	1.86
1175148--1175209	32	1.9	32	90	0	97	32	30	12	24	1.93
1176266--1176310	21	2.3	19	84	7	54	2	17	6	73	1.15
1177570--1177606	13	2.6	15	79	16	51	48	8	27	16	1.74
1179763--1179791	12	2.3	13	94	5	51	44	13	0	41	1.44
1179989--1180058	29	2.3	29	80	4	77	75	10	1	12	1.10
1183482--1183536	24	2.2	24	84	15	67	56	1	0	41	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183474--1183536	27	2.5	24	85	12	74	55	3	0	41	1.16
1187178--1187964	388	2.0	391	95	2	1436	25	18	15	39	1.91
1196922--1196961	18	2.2	18	86	0	53	60	2	0	37	1.11
1198356--1198383	5	5.6	5	100	0	56	39	0	0	60	0.97
1198352--1198461	5	20.4	5	75	16	51	23	4	2	69	1.20
1198352--1198434	27	3.1	27	78	10	73	25	3	2	68	1.18
1198921--1198953	2	16.5	2	100	0	66	48	0	0	51	1.00
1199220--1199257	20	1.9	20	94	0	67	55	0	0	44	0.99
1217742--1217800	20	3.0	20	87	5	84	25	15	25	33	1.95

Tables:   1   2   3   4   5

The End!