genome.fa.s520.2.7.7.80.10.50.1000.6.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: VEPZ01000520.1 Hibiscus syriacus cultivar Beakdansim tig00000991_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1956684

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

This is table  6  of  11  ( 1212 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)
992132--992229	18	5.2	18	80	12	101	50	7	0	42	1.30
992202--992271	23	3.0	22	80	14	79	51	2	0	45	1.16
992203--992271	25	3.0	24	81	12	81	50	2	0	46	1.16
994058--994169	4	28.2	4	90	1	109	13	0	60	25	1.33
994058--994169	12	9.4	12	92	1	136	13	0	60	25	1.33
994769--994832	29	2.2	28	94	2	110	32	14	21	31	1.93
1000901--1000954	24	2.3	24	93	3	92	44	11	14	29	1.80
1001040--1001179	29	4.7	29	80	7	140	37	10	10	42	1.73
1002543--1002618	12	6.3	12	73	0	62	11	27	17	43	1.84
1002493--1002578	24	3.6	24	74	12	86	9	34	16	39	1.80
1002603--1002731	24	5.4	24	75	3	89	5	34	19	41	1.74
1002566--1002719	84	1.8	84	83	2	202	8	31	17	42	1.79
1002689--1002947	24	10.8	24	74	8	150	7	38	19	34	1.81
1002568--1002743	84	2.1	84	80	2	192	7	32	17	42	1.78
1002704--1002876	36	4.8	36	87	0	238	9	36	19	34	1.84
1004576--1004601	13	2.0	13	100	0	52	7	7	0	84	0.77
1010064--1010247	93	2.0	94	96	3	345	30	20	17	32	1.95
1012167--1012199	16	2.1	16	94	0	57	33	27	6	33	1.81
1023877--1023916	21	1.9	21	89	0	62	25	40	25	10	1.86
1024301--1024329	15	1.9	15	100	0	58	20	3	13	62	1.46
1036271--1036536	131	2.0	133	98	1	518	37	24	15	22	1.93
1037547--1038502	128	7.5	128	85	1	1103	26	17	29	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1037893--1038206	46	7.4	43	71	13	132	26	18	28	26	1.98
1037960--1038293	46	7.7	45	69	15	195	26	17	31	25	1.97
1038456--1038539	40	2.1	40	84	4	107	27	17	30	23	1.97
1038772--1038861	33	2.8	32	80	6	92	30	24	16	28	1.97
1042952--1043012	19	3.2	19	88	6	88	52	13	18	16	1.75
1044385--1044419	18	1.9	18	94	0	61	48	2	11	37	1.54
1047088--1047119	2	16.0	2	100	0	64	50	0	0	50	1.00
1048898--1048945	3	15.7	3	91	4	78	62	0	0	37	0.95
1049269--1049665	119	3.3	118	73	12	354	31	17	23	27	1.97
1049222--1049814	246	2.4	245	84	3	778	29	18	24	27	1.98
1049589--1049878	127	2.4	117	79	11	339	26	19	26	27	1.99
1049633--1049935	127	2.4	126	86	1	401	25	19	27	27	1.99
1050041--1050169	68	2.0	66	84	7	174	37	13	18	31	1.89
1050280--1050359	33	2.4	33	83	8	92	35	13	17	33	1.89
1051853--1052023	6	26.8	6	70	19	75	4	16	3	75	1.11
1051860--1052024	7	22.6	7	68	16	77	4	16	3	75	1.10
1051861--1052008	20	7.2	21	69	15	60	5	15	3	75	1.11
1051928--1051988	23	2.6	24	85	10	74	3	13	1	81	0.88
1051914--1051994	29	2.7	30	81	11	85	3	16	1	79	0.95
1055620--1055652	2	16.5	2	100	0	66	51	0	0	48	1.00
1057093--1057135	16	2.7	16	88	0	68	2	20	44	32	1.65
1063796--1063873	26	2.9	27	73	17	74	56	1	0	42	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1065329--1065384	3	18.0	3	89	7	85	64	0	1	33	1.04
1065510--1066173	45	14.8	45	94	0	1159	34	19	22	23	1.96
1067247--1067363	54	2.2	54	87	3	164	23	24	14	37	1.92
1075845--1075882	2	20.0	2	89	10	62	50	0	0	50	1.00
1077661--1077740	3	26.0	3	85	9	108	67	0	1	31	0.99
1085055--1085189	44	3.1	44	95	0	234	30	18	22	28	1.97
1096516--1096570	21	2.6	21	82	0	74	38	32	9	20	1.84
1096951--1096993	14	2.9	15	79	6	52	65	0	6	27	1.18
1101637--1101739	36	2.9	36	91	0	170	41	15	16	26	1.88
1104423--1104458	18	2.0	18	100	0	72	33	22	5	38	1.77
1109417--1109447	16	1.9	16	93	0	53	35	12	6	45	1.68
1109709--1109764	20	2.8	20	81	10	69	32	17	16	33	1.92
1110005--1110745	41	18.0	41	69	4	398	35	16	12	35	1.87
1110138--1110751	82	7.5	81	79	7	625	35	16	13	35	1.87
1110138--1110746	164	3.7	163	87	4	827	34	15	13	35	1.87
1112399--1112561	68	2.4	68	91	2	265	30	12	9	47	1.73
1114605--1114763	65	2.5	65	85	9	202	30	17	21	30	1.96
1114604--1114811	65	3.2	63	77	12	199	27	17	23	31	1.97
1117458--1117537	22	3.6	22	74	5	81	23	25	25	26	2.00
1117462--1117556	44	2.2	42	83	7	111	24	22	25	28	1.99
1117462--1117556	21	4.4	21	74	9	68	24	22	25	28	1.99
1121329--1121368	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1123330--1123473	64	2.2	65	80	7	161	29	15	20	34	1.94
1136589--1136622	17	1.9	18	88	5	52	26	0	0	73	0.83
1137143--1137334	96	2.0	96	97	2	368	26	20	21	32	1.97
1137706--1138405	41	17.7	40	67	15	221	35	16	12	35	1.86
1137703--1137929	77	2.9	76	71	18	196	36	17	12	33	1.88
1137726--1137997	118	2.3	117	85	6	354	35	17	12	34	1.87
1137904--1138476	80	7.2	82	81	8	641	35	16	11	36	1.86
1137904--1138476	157	3.6	159	85	6	738	35	16	11	36	1.86
1137904--1138476	237	2.4	236	83	6	685	35	16	11	36	1.86
1138554--1138599	20	2.3	20	100	0	92	39	13	0	47	1.42
1140094--1140250	68	2.3	67	90	3	244	28	14	9	47	1.75
1141029--1141069	21	1.9	21	90	5	64	36	17	19	26	1.94
1142231--1142259	4	7.5	4	92	7	51	75	0	0	24	0.80
1142231--1142259	15	1.9	15	100	0	58	75	0	0	24	0.80
1146640--1146690	25	2.0	25	100	0	102	39	15	3	41	1.66
1146882--1146909	2	14.0	2	100	0	56	50	0	0	50	1.00
1147225--1147518	144	2.0	146	96	3	540	39	8	7	45	1.61
1153029--1153239	110	1.9	110	98	0	404	27	18	20	33	1.96
1157231--1157318	31	2.8	32	83	5	92	34	23	17	25	1.96
1157269--1157338	31	2.3	31	85	9	99	35	15	17	31	1.91
1157993--1158141	64	2.3	65	85	6	196	28	17	20	33	1.95
1161372--1161460	30	3.0	30	81	1	99	33	26	20	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161416--1161523	31	3.5	31	81	3	112	35	21	18	25	1.96
1162178--1162326	64	2.3	65	85	6	196	28	17	20	33	1.95
1165316--1165367	16	3.5	15	77	12	54	17	15	7	59	1.58
1175042--1175119	31	2.6	30	80	9	88	44	7	7	39	1.62
1176937--1176979	22	2.0	22	85	0	59	46	0	4	48	1.22
1181920--1181976	29	2.0	28	89	3	87	42	14	5	38	1.68
1184891--1185012	32	3.8	32	87	2	165	36	14	19	29	1.92
1184902--1185033	32	4.1	30	75	18	108	34	15	20	30	1.93
1184902--1185033	64	2.1	64	82	5	160	34	15	20	30	1.93
1197677--1197719	3	14.0	3	95	4	77	0	32	0	67	0.91
1199047--1199073	2	13.5	2	100	0	54	51	0	0	48	1.00
1203207--1203239	10	3.3	10	91	0	57	9	33	0	57	1.30
1203423--1203479	21	2.7	21	83	0	78	26	22	21	29	1.99
1203471--1203510	21	1.9	21	100	0	80	20	27	22	30	1.98
1204193--1204264	21	3.4	21	92	0	117	30	25	23	20	1.99
1206214--1206278	30	2.3	27	87	10	87	53	1	0	44	1.09
1206214--1206278	29	2.2	29	91	5	105	53	1	0	44	1.09
1206281--1206323	14	3.2	13	80	9	50	53	0	2	44	1.13
1206340--1206408	31	2.3	30	82	9	79	50	1	5	42	1.35
1206481--1206580	43	2.4	42	80	6	132	46	2	10	42	1.49
1207350--1207404	18	3.4	18	69	27	59	60	3	0	36	1.15
1207466--1207566	50	2.0	50	98	0	193	35	12	11	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210526--1210578	27	1.9	28	84	3	72	32	5	24	37	1.79
1210799--1210924	23	5.4	23	81	3	137	22	23	25	29	1.99
1210798--1210964	47	3.6	47	81	6	162	22	22	25	30	1.99
1210858--1210980	24	5.2	24	81	3	117	22	22	23	30	1.99
1211061--1211105	19	2.4	19	88	0	63	57	2	6	33	1.37
1212597--1212752	28	5.6	27	70	22	99	23	6	1	67	1.23
1212601--1212643	22	2.0	22	95	0	77	27	4	0	67	1.10
1212602--1212702	13	8.5	13	69	25	55	26	5	0	66	1.21
1212748--1212792	2	23.5	2	91	8	76	46	0	0	53	1.00
1212963--1213008	2	23.5	2	78	12	51	43	4	0	52	1.21

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