genome.fa.s8497.2.7.7.80.10.50.1000.5.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: VEPZ01008497.1 Hibiscus syriacus cultivar Beakdansim tig00111342_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1504768

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 719 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)
950524--950574	25	2.0	25	96	0	93	15	25	37	21	1.93
954414--954464	23	2.2	23	82	0	57	45	1	1	50	1.24
954453--954524	10	7.6	9	73	21	58	48	0	2	48	1.16
954470--954526	27	2.2	27	84	9	75	47	0	1	50	1.11
954567--954664	29	3.4	29	70	18	89	47	0	1	51	1.07
954595--954675	8	10.6	8	70	13	55	44	0	1	54	1.08
954655--954701	24	1.9	24	83	12	60	42	0	0	57	0.98
954585--954692	55	2.0	53	82	14	130	47	0	0	51	1.07
955069--955108	20	1.9	20	90	10	62	42	0	2	55	1.13
955934--955991	25	2.3	24	80	8	62	46	6	3	43	1.47
955982--956028	16	2.8	17	75	18	53	53	0	0	46	1.00
956194--956334	74	1.9	74	89	0	219	43	5	14	36	1.69
957227--957298	21	3.4	21	70	0	54	36	18	16	29	1.93
961873--961912	21	1.9	21	84	0	53	40	0	2	57	1.12
962632--962683	22	2.4	22	83	0	77	28	26	19	25	1.98
969324--969378	21	2.6	21	73	0	56	16	29	49	5	1.68
970096--970154	29	2.0	29	100	0	118	49	13	13	23	1.78
974350--974408	29	2.0	29	100	0	118	23	13	13	49	1.78
979032--979090	29	2.0	29	100	0	118	23	13	13	49	1.78
979754--979812	29	2.0	29	100	0	118	49	13	13	23	1.78
980762--980796	2	17.5	2	100	0	70	48	0	0	51	1.00
985720--985751	6	5.7	6	92	7	50	0	9	0	90	0.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
985720--985752	12	2.8	12	90	0	57	0	9	0	90	0.44
986792--986828	12	3.1	12	96	0	65	43	0	29	27	1.55
987636--987696	27	2.3	27	94	0	95	40	6	8	44	1.60
988659--988709	7	7.3	7	84	0	57	45	29	0	25	1.54
988659--988709	14	3.6	14	83	0	66	45	29	0	25	1.54
988659--988709	21	2.4	21	86	0	75	45	29	0	25	1.54
989001--989044	14	3.1	14	83	0	52	47	29	2	20	1.62
988728--989439	285	2.5	284	89	3	1057	38	25	6	29	1.80
989621--989661	21	2.0	21	90	9	66	58	4	2	34	1.32
989621--989673	21	2.6	19	83	16	63	58	3	1	35	1.27
990238--990314	30	2.6	30	89	4	111	32	16	14	36	1.89
991702--991736	18	1.9	18	88	11	54	51	0	14	34	1.42
995444--995482	19	2.2	19	86	9	55	51	0	5	43	1.24
998131--998191	30	2.0	30	100	0	122	29	40	9	19	1.84
1003709--1003755	6	7.8	6	100	0	94	51	14	17	17	1.77
1003810--1005110	667	2.0	664	83	2	1680	26	22	20	30	1.98
1008889--1008921	6	5.5	6	100	0	66	51	18	15	15	1.77
1015264--1015321	26	2.2	27	84	9	84	41	20	15	22	1.90
1018304--1018357	24	2.2	24	83	6	65	25	12	40	20	1.88
1022229--1022266	15	2.4	16	86	4	51	23	21	26	28	1.99
1023188--1023235	22	2.2	22	96	0	87	47	2	16	33	1.58
1023722--1023753	2	16.5	2	93	6	57	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)
1030553--1030636	13	6.2	13	70	20	57	63	0	0	36	0.95
1030576--1030656	16	5.2	16	69	19	55	60	0	1	38	1.05
1030581--1030688	46	2.5	42	70	22	71	59	0	1	37	1.15
1031069--1031098	4	7.2	4	92	7	51	23	0	3	73	0.98
1037363--1037441	32	2.5	33	83	4	90	58	7	6	27	1.50
1046651--1046732	29	2.8	29	94	1	137	32	14	9	42	1.79
1051412--1051493	29	2.8	29	94	1	137	32	14	9	42	1.79
1067156--1067199	9	4.9	9	97	0	79	40	13	11	34	1.81
1092310--1092344	15	2.3	15	95	0	61	45	14	5	34	1.68
1096512--1096556	21	2.1	21	95	0	81	24	8	20	46	1.78
1106312--1106438	66	1.9	66	88	0	191	9	28	26	35	1.88
1108651--1108716	33	2.1	32	86	8	91	36	24	15	24	1.93
1113392--1113438	24	2.0	24	95	0	85	34	17	0	48	1.47
1114340--1114379	2	20.0	2	89	0	62	47	2	0	50	1.14
1124092--1124142	2	26.0	2	96	4	95	50	0	0	49	1.00
1141426--1141456	2	15.5	2	100	0	62	51	0	0	48	1.00
1144476--1144510	2	17.5	2	100	0	70	51	0	0	48	1.00
1146079--1146103	12	2.1	12	100	0	50	52	0	0	48	1.00
1151985--1153401	472	3.0	472	97	0	2699	29	20	20	28	1.98
1160412--1160438	2	13.5	2	100	0	54	48	0	0	51	1.00
1166830--1166863	16	2.1	16	100	0	68	50	14	29	5	1.67
1167030--1167104	21	3.7	20	70	10	53	22	24	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167113--1167247	20	6.7	20	78	7	121	34	25	17	22	1.96
1167111--1167247	41	3.4	41	85	2	186	35	24	17	21	1.95
1167381--1167414	12	2.9	12	86	4	52	17	41	5	35	1.74
1167969--1168022	24	2.2	24	90	0	81	22	16	20	40	1.91
1170371--1170439	20	3.5	20	97	0	129	33	26	26	14	1.94
1170444--1170496	20	2.7	20	94	2	90	49	16	18	15	1.80
1170576--1170614	20	2.0	20	94	0	69	12	10	30	46	1.75
1170520--1170585	34	2.0	34	93	3	116	13	27	22	36	1.92
1170710--1170746	14	2.6	14	86	0	56	48	21	0	29	1.50
1172156--1172247	41	2.2	41	84	7	132	21	15	41	21	1.90
1172610--1172683	20	3.7	20	78	5	78	44	22	18	13	1.85
1172666--1172696	14	2.3	13	94	5	53	54	25	12	6	1.62
1172706--1172756	19	2.6	19	84	3	66	17	19	13	49	1.80
1172771--1172826	20	2.8	19	86	7	76	16	25	23	35	1.94
1173187--1173233	21	2.2	21	84	0	58	29	29	17	23	1.97
1173395--1173442	18	2.7	18	93	0	87	14	12	45	27	1.81
1174768--1174823	20	2.8	20	91	0	85	50	23	16	10	1.76
1174771--1174839	20	3.5	20	89	0	84	42	24	17	15	1.88
1175460--1175529	21	3.4	21	78	11	90	18	15	25	40	1.90
1175558--1175610	21	2.5	22	75	6	65	35	18	24	20	1.95
1177243--1177282	21	1.9	21	89	0	62	45	25	2	27	1.66
1178871--1178909	19	2.0	20	85	9	55	20	17	2	58	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182782--1182840	3	20.3	3	93	6	104	67	0	0	32	0.91
1183113--1183145	17	1.9	17	93	0	57	45	12	24	18	1.83
1183376--1183480	29	3.6	29	79	6	104	42	9	9	38	1.70
1183463--1183542	31	2.6	31	93	0	133	35	10	7	47	1.65
1191961--1191993	12	2.7	13	90	9	52	78	0	3	18	0.87
1199139--1199180	19	2.3	18	80	15	50	26	30	7	35	1.83
1201089--1201134	22	2.1	21	88	4	65	28	2	10	58	1.43
1206610--1206957	171	2.0	174	91	5	571	22	24	10	42	1.85
1207501--1207537	18	2.1	18	100	0	74	32	24	5	37	1.78
1207966--1208001	12	3.0	12	91	0	54	8	16	16	58	1.61
1211075--1211119	23	2.0	23	86	8	65	33	0	6	60	1.23
1212910--1212979	10	6.7	10	73	15	52	58	20	10	11	1.61
1213233--1213289	24	2.4	24	100	0	114	63	21	3	12	1.43
1213239--1213290	14	4.0	14	73	19	58	61	21	5	11	1.50
1213233--1213308	24	3.2	24	90	0	89	61	18	7	11	1.53
1213704--1213729	13	2.0	13	100	0	52	38	15	7	38	1.76
1216461--1216518	20	2.9	20	97	0	107	56	8	5	29	1.51
1217468--1217501	8	4.1	8	96	3	59	11	2	0	85	0.71
1217695--1217719	12	2.1	12	100	0	50	24	8	36	32	1.84
1230176--1230213	10	3.4	12	82	17	55	50	0	0	50	1.00
1230176--1230219	21	2.2	20	91	4	70	52	0	0	47	1.00
1230749--1230823	20	3.7	20	73	8	55	30	26	8	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1231001--1231070	22	3.2	22	93	0	113	17	51	14	17	1.77
1231157--1231210	24	2.2	24	90	0	81	44	18	16	20	1.87
1231947--1231983	16	2.4	16	86	8	51	64	0	5	29	1.15
1232148--1232329	20	9.1	20	72	8	111	34	12	24	29	1.91
1232152--1232268	40	2.9	41	83	2	130	36	11	23	27	1.90
1232193--1232374	20	9.1	20	68	15	65	33	10	25	30	1.90
1232231--1232389	61	2.6	60	77	10	171	30	11	27	30	1.91
1233238--1233274	15	2.5	15	100	0	74	32	27	5	35	1.79
1233990--1234026	18	2.1	18	94	0	65	13	27	43	16	1.85
1233993--1234033	18	2.3	18	86	0	55	19	29	34	17	1.94

Tables:   1   2   3   4   5   6