genome.fa.s8122.2.7.7.80.10.50.1000.4.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: VEPZ01008122.1 Hibiscus syriacus cultivar Beakdansim tig00110676_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2511854

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 956 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)
884767--884825	29	2.1	28	90	3	91	35	11	8	44	1.72
889438--889497	29	2.1	28	96	3	111	28	13	10	48	1.74
892583--892641	31	1.9	31	89	0	91	50	18	5	25	1.67
893110--893215	55	1.9	55	88	3	160	41	11	15	32	1.82
906072--906112	20	2.0	20	95	0	73	17	19	26	36	1.94
911694--911725	15	2.1	15	94	0	55	40	15	3	40	1.63
911826--911871	23	2.0	24	83	12	60	8	15	17	58	1.61
914615--914985	192	2.0	190	96	3	696	36	19	16	27	1.93
923298--923350	17	3.4	17	65	20	51	24	3	5	66	1.31
923254--923355	50	2.0	50	81	7	118	24	1	6	66	1.26
924690--924725	16	2.2	16	100	0	72	36	0	19	44	1.51
933115--933258	72	2.0	72	94	0	252	26	15	12	45	1.82
947371--947656	144	2.0	144	100	0	572	38	16	18	26	1.92
948423--948497	26	2.8	26	87	4	114	46	4	1	48	1.29
953232--953301	13	5.4	13	82	0	95	35	0	17	47	1.48
960025--960135	2	60.0	2	72	15	96	50	0	0	49	1.00
960027--960135	19	5.7	19	74	16	100	50	0	0	49	1.00
961971--962591	21	29.8	20	87	5	549	19	22	23	33	1.97
962133--962588	63	7.2	63	93	0	750	18	23	24	33	1.97
962133--962581	42	10.7	42	94	0	736	18	23	24	33	1.97
963848--963885	15	2.5	15	83	8	51	0	10	28	60	1.30
964423--964657	38	6.7	37	82	11	241	45	5	3	45	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
964460--964682	38	6.3	35	82	11	167	43	6	4	45	1.50
965400--966025	84	7.5	84	85	2	848	24	20	24	30	1.99
965355--966025	165	4.0	166	87	2	798	25	20	24	30	1.99
965400--966025	169	3.7	168	88	1	839	24	20	24	30	1.99
965400--966025	253	2.5	249	92	1	1011	24	20	24	30	1.99
971254--971291	15	2.5	15	83	8	51	0	10	28	60	1.30
971830--972064	38	6.7	37	82	11	241	45	5	3	45	1.43
971867--972089	38	6.3	35	82	11	167	43	6	4	45	1.50
972361--972438	39	2.0	38	90	2	120	11	17	35	34	1.86
972526--972582	29	2.0	29	96	0	105	38	24	21	15	1.92
972593--972647	21	2.6	21	82	0	74	36	29	16	18	1.92
988154--988202	13	3.3	16	70	18	52	14	16	4	65	1.42
988153--988200	14	3.4	14	72	16	53	16	14	4	64	1.43
991119--991420	8	38.9	8	88	5	352	32	30	11	25	1.91
999428--999473	5	9.2	5	100	0	92	19	60	0	19	1.36
1019971--1019996	2	13.0	2	100	0	52	50	0	0	50	1.00
1027310--1027349	21	2.0	21	90	5	64	37	10	5	47	1.59
1028004--1028110	49	2.2	49	81	0	124	28	20	20	29	1.98
1028874--1028934	21	3.0	19	69	17	59	36	21	19	22	1.95
1030374--1030419	20	2.4	19	82	13	58	28	17	10	43	1.82
1035010--1035082	37	2.0	37	91	0	119	45	2	21	30	1.66
1040187--1040245	31	1.9	30	93	3	100	25	28	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040632--1040699	19	3.5	19	91	4	100	22	17	19	41	1.91
1041319--1041354	6	6.5	6	90	9	51	0	16	52	30	1.44
1041450--1041557	43	2.6	41	81	5	135	39	24	17	18	1.92
1041531--1041578	19	2.5	19	89	0	69	45	20	16	16	1.85
1041466--1041599	22	6.4	21	75	10	96	41	24	15	18	1.90
1044404--1044453	21	2.2	21	86	10	64	74	2	0	24	0.93
1046389--1046427	19	2.1	19	90	0	60	30	28	15	25	1.96
1046615--1046645	6	5.2	6	100	0	62	35	48	16	0	1.46
1047299--1047507	104	2.0	104	98	0	400	33	18	11	37	1.86
1056482--1056536	23	2.4	23	78	6	58	56	5	12	25	1.58
1067632--1067743	37	3.0	37	94	0	197	29	7	24	39	1.82
1083601--1083639	16	2.4	16	91	0	60	46	17	12	23	1.83
1083713--1083751	16	2.4	16	91	0	60	46	17	12	23	1.83
1083536--1083811	112	2.5	112	99	0	543	44	15	11	28	1.82
1088502--1088596	47	2.0	47	100	0	190	21	27	14	36	1.92
1095310--1095353	23	2.0	23	86	4	63	11	4	18	65	1.40
1098186--1098245	2	30.5	2	96	3	113	50	0	0	50	1.00
1121585--1121628	21	2.1	21	84	12	56	34	6	11	47	1.66
1124478--1124540	31	2.0	31	82	11	76	55	6	6	31	1.50
1134788--1135103	150	2.1	150	95	1	573	26	17	21	34	1.96
1135071--1135115	23	2.0	23	86	0	63	20	26	26	26	1.99
1136463--1136568	29	3.7	29	81	0	122	43	21	8	26	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136576--1136628	18	3.0	18	91	2	81	15	20	47	16	1.83
1143843--1143910	29	2.3	29	87	0	91	41	22	7	29	1.80
1143888--1143968	29	2.8	29	96	0	144	44	22	11	22	1.84
1143976--1144014	18	2.2	17	90	4	60	12	23	46	17	1.83
1149609--1149637	15	2.0	15	93	6	51	37	6	0	55	1.27
1150396--1150421	2	13.0	2	100	0	52	50	0	0	50	1.00
1161620--1161678	31	1.9	31	89	6	93	28	15	18	37	1.91
1169606--1169741	69	2.0	70	91	1	220	27	25	11	36	1.90
1171922--1171967	20	2.2	20	81	11	58	45	15	2	36	1.58
1174300--1174347	24	2.0	24	84	11	64	45	0	0	54	0.99
1174306--1174357	23	2.3	23	77	9	54	50	3	0	46	1.20
1174642--1174709	19	3.5	19	86	6	91	41	0	7	51	1.30
1174642--1174709	20	3.5	20	85	2	93	41	0	7	51	1.30
1176158--1176317	53	3.0	53	98	0	302	29	21	14	35	1.93
1186731--1186835	33	3.2	33	95	1	194	19	12	29	39	1.88
1189699--1189750	2	26.0	2	100	0	104	50	0	0	50	1.00
1189730--1189903	86	2.0	87	96	1	323	41	13	16	28	1.87
1190631--1190658	7	4.0	7	100	0	56	14	28	14	42	1.84
1191923--1191970	19	2.5	19	100	0	96	41	0	0	58	0.98
1194469--1194518	20	2.5	20	96	0	91	24	16	24	36	1.94
1201652--1201744	27	3.4	27	71	12	82	41	16	13	27	1.86
1206773--1206803	16	1.9	16	93	0	53	41	12	16	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207271--1207328	29	2.1	28	81	9	66	46	10	15	27	1.78
1208611--1208638	2	14.0	2	100	0	56	50	0	0	50	1.00
1208637--1208674	17	2.2	17	100	0	76	39	10	10	39	1.74
1209521--1209553	2	16.5	2	100	0	66	48	0	0	51	1.00
1210609--1210662	15	3.3	16	85	12	58	66	0	0	33	0.92
1217252--1217332	35	2.3	35	84	0	99	23	9	17	49	1.76
1219824--1219856	2	16.5	2	100	0	66	51	0	0	48	1.00
1221490--1221552	19	3.0	21	71	19	53	39	4	9	46	1.58
1221497--1221576	39	2.1	39	90	0	124	43	5	7	43	1.54
1228995--1229053	20	3.0	20	69	16	52	40	3	8	47	1.51
1229081--1229110	2	15.0	2	100	0	60	50	0	0	50	1.00
1233922--1234022	53	1.9	52	86	8	141	26	14	12	45	1.81
1239587--1239648	28	2.2	28	85	0	79	37	19	4	38	1.73
1241144--1241200	25	2.3	24	80	14	64	43	1	3	50	1.29
1241027--1241176	78	1.9	79	81	9	182	44	5	7	43	1.55
1241900--1241950	19	2.7	18	79	8	57	35	0	0	64	0.94
1242357--1242389	2	16.5	2	100	0	66	51	0	0	48	1.00
1245384--1245411	6	4.7	6	100	0	56	0	85	0	14	0.59
1248308--1248355	20	2.4	20	100	0	96	50	6	8	35	1.58
1251545--1251580	16	2.2	17	95	5	65	36	0	19	44	1.51
1258015--1258076	32	1.9	32	87	6	90	41	0	4	53	1.22
1261214--1261247	2	17.0	2	100	0	68	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)
1280439--1280479	21	2.0	21	90	0	64	48	2	7	41	1.44
1281051--1281088	16	2.2	17	86	9	51	23	0	2	73	0.95
1283279--1283340	30	2.1	30	87	0	88	37	16	37	9	1.81
1284228--1284278	26	1.9	26	88	4	75	21	1	21	54	1.54
1285159--1285604	83	5.4	83	76	4	362	31	17	15	35	1.91
1285687--1285731	16	2.8	16	86	6	65	40	24	4	31	1.75
1290476--1290523	13	3.5	14	77	11	55	60	0	0	39	0.97
1290485--1290539	17	3.3	18	76	21	57	61	0	1	36	1.06
1300308--1300349	16	2.4	18	84	7	61	21	4	4	69	1.26
1300896--1301003	53	2.0	53	92	7	184	26	12	13	46	1.80

Tables:   1   2   3   4   5   6   7   8