genome.fa.s7864.2.7.7.80.10.50.1000.6.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: VEPZ01007864.1 Hibiscus syriacus cultivar Beakdansim tig00110236_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1537186

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 870 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)
1090149--1090202	23	2.3	24	93	3	92	40	0	11	48	1.39
1090389--1090443	20	2.8	20	83	2	76	23	29	12	34	1.92
1090438--1090580	6	25.2	6	67	23	62	49	1	0	48	1.15
1090438--1090522	11	7.9	10	72	20	57	51	1	0	47	1.08
1090438--1090551	34	3.4	34	78	18	116	49	0	0	50	1.06
1090469--1090549	15	5.0	16	76	18	87	46	1	0	51	1.08
1090535--1090721	31	5.8	30	71	19	126	49	4	3	42	1.40
1090542--1090588	24	1.9	25	82	4	60	55	4	2	38	1.31
1090540--1090721	66	2.7	65	77	11	188	49	4	3	42	1.41
1090620--1090670	16	3.2	16	78	10	52	45	1	5	47	1.38
1090733--1090785	21	2.5	21	81	0	70	47	7	7	37	1.60
1090860--1090937	22	3.4	22	75	13	75	42	10	6	41	1.64
1090860--1090939	26	3.2	25	70	20	69	42	10	6	41	1.63
1090838--1090939	48	2.1	50	83	7	129	44	8	6	40	1.62
1091097--1091176	7	11.6	7	79	2	72	21	1	31	46	1.59
1091126--1091163	20	1.9	20	88	0	58	23	0	23	52	1.47
1093768--1093800	4	8.5	4	93	6	59	0	21	0	78	0.75
1093821--1093861	13	3.1	14	77	22	52	4	14	2	78	1.03
1093956--1093996	16	2.6	16	84	0	55	7	21	43	26	1.79
1094242--1094323	2	40.5	2	74	11	60	42	3	6	47	1.45
1094247--1094326	11	7.1	12	74	17	64	40	3	7	48	1.49
1094262--1094301	20	2.0	20	100	0	80	40	5	5	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094328--1094370	7	6.1	7	80	0	50	20	0	32	46	1.51
1094340--1094385	21	2.2	21	88	0	65	21	0	30	47	1.51
1094516--1094598	2	44.5	2	73	17	72	48	2	0	49	1.14
1094522--1094627	19	5.6	18	70	18	56	48	1	0	49	1.18
1094521--1094627	53	2.0	55	94	3	191	48	1	0	48	1.18
1096662--1096695	8	4.1	8	85	7	50	14	0	0	85	0.60
1096662--1096695	17	2.0	17	94	0	59	14	0	0	85	0.60
1100179--1100211	14	2.3	15	89	5	50	78	9	12	0	0.95
1101796--1101865	36	1.9	36	97	0	131	27	22	14	35	1.93
1101849--1101907	32	1.9	32	86	10	88	38	18	10	32	1.84
1102044--1102115	37	1.9	37	82	0	90	26	22	11	40	1.87
1102733--1103158	106	4.0	106	93	0	690	35	24	19	21	1.96
1105342--1105389	18	2.7	18	96	0	87	43	2	6	47	1.40
1105377--1105406	13	2.3	13	100	0	60	40	0	6	53	1.27
1105305--1105406	15	6.5	15	77	13	75	44	3	3	48	1.40
1106935--1107111	68	2.6	70	92	1	304	51	18	15	15	1.77
1107735--1107790	24	2.3	24	84	0	67	16	10	16	57	1.65
1108807--1108873	16	4.3	16	92	3	102	10	10	19	59	1.58
1108805--1108865	32	1.9	32	96	0	113	8	13	22	55	1.64
1108935--1108967	16	2.1	16	94	0	57	9	12	21	57	1.62
1110075--1110180	11	9.8	10	71	17	52	76	2	4	16	1.07
1110086--1110247	6	25.8	6	75	19	70	74	1	4	19	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1110082--1110120	16	2.4	16	87	8	53	79	5	0	15	0.90
1110078--1110157	20	3.8	20	75	16	63	76	3	3	16	1.08
1110122--1110230	19	5.6	20	74	21	74	74	0	6	19	1.03
1110142--1110225	44	1.9	44	77	15	77	73	0	5	20	1.03
1110073--1110247	25	7.2	24	73	18	89	73	1	4	20	1.08
1110140--1110239	16	6.4	15	75	19	64	74	0	5	21	1.01
1110213--1110289	6	12.5	6	78	9	59	61	2	2	33	1.24
1110265--1110305	21	1.9	21	90	5	64	58	2	0	39	1.11
1110257--1110309	25	2.1	27	86	10	76	58	1	0	39	1.09
1112830--1112867	19	2.0	19	100	0	76	36	10	21	31	1.87
1113588--1113641	8	6.5	8	82	16	58	3	18	1	75	1.03
1113609--1113644	10	3.7	10	88	7	56	5	19	0	75	1.00
1113595--1113642	9	5.4	9	82	7	55	4	16	2	77	1.03
1120778--1120814	16	2.2	18	90	9	60	70	5	8	16	1.30
1124142--1124248	15	7.2	15	74	15	89	76	0	6	15	1.04
1124146--1124225	26	3.1	24	74	15	54	77	1	7	13	1.04
1124162--1124218	20	2.9	19	85	12	64	75	0	10	14	1.05
1124142--1124250	14	7.1	14	71	20	69	77	0	6	15	1.02
1124138--1124259	24	4.8	25	70	16	72	75	0	5	18	1.05
1124303--1124350	2	25.5	2	81	12	57	54	2	0	43	1.12
1124313--1124357	21	2.2	20	88	8	63	60	2	0	37	1.09
1124309--1124358	25	2.0	26	88	11	79	60	2	0	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132405--1132437	15	2.1	16	88	5	50	9	24	15	51	1.72
1133187--1133221	16	2.1	17	94	5	63	34	25	8	31	1.86
1136063--1136107	23	2.0	21	91	8	72	55	0	0	44	0.99
1138115--1138142	2	14.0	2	100	0	56	50	0	0	50	1.00
1149964--1149997	14	2.5	14	90	4	52	70	2	20	5	1.21
1152358--1152401	3	14.7	3	100	0	88	65	0	0	34	0.93
1152674--1152715	21	2.0	21	85	4	57	61	4	0	33	1.17
1156846--1156980	39	3.6	38	77	11	136	41	2	8	46	1.50
1156846--1156983	36	3.7	37	76	12	131	42	2	8	45	1.50
1158131--1158169	18	2.2	18	95	0	69	20	5	2	71	1.17
1158425--1158524	11	8.5	11	72	21	53	13	6	2	79	1.01
1158424--1158527	22	4.5	23	69	23	74	13	5	1	78	1.01
1158438--1158537	34	2.9	34	80	15	98	13	7	2	78	1.04
1160790--1160825	15	2.5	15	86	4	56	63	11	11	13	1.51
1166004--1166126	36	3.3	38	85	10	175	41	3	8	47	1.49
1166141--1166185	4	10.8	4	81	9	54	20	6	0	73	1.05
1166139--1166194	17	3.3	17	78	14	53	19	5	1	73	1.12
1167279--1167323	18	2.5	18	92	0	72	24	6	0	68	1.13
1167345--1167402	15	3.8	16	80	15	68	24	3	0	72	1.00
1167330--1167403	36	2.1	36	85	10	98	25	5	0	68	1.10
1167343--1167400	20	3.0	20	78	14	68	24	3	0	72	1.00
1167578--1167608	16	1.9	16	93	0	53	16	0	3	80	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167622--1167753	66	2.0	67	85	7	180	22	8	0	68	1.21
1167715--1167798	32	2.7	30	77	12	89	29	3	2	64	1.23
1171349--1171387	19	2.1	19	100	0	78	30	10	5	53	1.56
1178510--1178660	40	3.8	40	93	0	257	23	17	25	33	1.96
1178510--1178660	80	1.9	80	98	0	293	23	17	25	33	1.96
1178816--1178870	20	2.8	20	74	0	65	38	20	18	23	1.93
1184513--1184540	3	9.3	3	100	0	56	64	0	0	35	0.94
1185523--1185854	109	3.0	108	84	4	384	25	17	11	46	1.80
1185922--1185977	28	2.0	28	82	10	69	21	10	5	62	1.47
1185964--1186021	27	2.0	28	83	9	73	22	8	5	63	1.42
1191380--1191451	17	4.2	16	81	16	83	81	0	16	1	0.75
1191392--1191451	9	7.0	9	83	9	72	85	0	13	1	0.69
1191364--1191459	33	2.8	33	84	9	104	80	2	14	3	0.93
1191371--1191448	23	3.4	23	75	15	56	82	0	15	2	0.79
1193679--1193711	15	2.2	16	89	10	52	48	18	9	24	1.76
1196428--1196725	43	7.2	43	83	7	355	19	18	21	40	1.91
1196486--1196551	33	2.0	33	90	0	105	15	16	27	40	1.88
1199502--1199544	10	4.1	11	82	8	54	53	2	0	44	1.13
1199502--1199541	21	2.0	20	85	5	53	52	2	0	45	1.14
1199953--1200089	40	3.3	40	87	3	157	38	24	16	21	1.92
1199953--1200131	41	4.4	41	83	6	202	36	22	17	23	1.94
1200152--1200199	24	2.0	24	100	0	96	29	16	20	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1200179--1200366	41	4.6	40	82	3	205	30	20	20	28	1.98
1200176--1200366	81	2.3	82	88	1	267	30	20	20	28	1.98
1205960--1205991	16	2.1	16	94	5	57	12	37	12	37	1.81
1207185--1207216	16	2.1	16	94	5	57	12	37	12	37	1.81
1209942--1210378	39	11.4	39	84	3	564	32	16	15	35	1.90
1209942--1210378	192	2.3	193	86	2	619	32	16	15	35	1.90
1209942--1210378	77	5.7	76	84	4	556	32	16	15	35	1.90
1211765--1212054	110	2.6	110	85	3	368	25	17	11	45	1.82
1211785--1212088	110	2.8	110	84	2	290	27	14	11	46	1.79
1212171--1212302	50	2.7	48	77	11	117	21	12	7	58	1.58

Tables:   1   2   3   4   5   6   7   8