genome.fa.s7754.2.7.7.80.10.50.1000.5.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: VEPZ01007754.1 Hibiscus syriacus cultivar Beakdansim tig00110020_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3698414

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  5  of  15  ( 1710 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)
878086--878120	16	2.1	18	89	10	56	25	8	0	65	1.21
881863--881903	21	2.0	21	95	0	73	43	2	7	46	1.44
884775--884837	23	2.7	23	87	4	83	22	26	25	25	2.00
886983--887322	168	2.0	168	98	0	664	26	11	20	41	1.86
891822--891869	22	2.2	22	100	0	96	52	16	0	31	1.45
893502--893541	20	2.0	21	85	14	57	42	5	7	45	1.54
893769--893807	19	2.1	19	95	0	69	25	35	15	23	1.94
893709--893918	65	3.2	64	84	7	230	30	25	17	26	1.97
901294--901337	21	2.1	21	86	0	61	9	36	15	38	1.80
902035--902074	20	2.0	21	85	14	57	42	5	7	45	1.54
902294--902332	19	2.1	19	95	0	69	25	35	15	23	1.94
902283--902443	65	2.5	65	87	3	227	31	26	16	26	1.96
917602--917634	2	16.5	2	100	0	66	48	0	0	51	1.00
918541--918598	31	1.9	30	82	10	73	34	3	0	62	1.12
918543--918646	54	1.9	53	81	14	124	35	2	0	60	1.18
919223--919248	2	13.0	2	100	0	52	50	0	0	50	1.00
922082--922145	25	2.3	28	84	15	89	45	4	0	50	1.22
923200--923232	12	2.8	12	90	4	50	51	3	0	45	1.16
924287--924426	70	2.0	70	87	4	201	25	10	8	55	1.63
924689--924738	23	2.1	23	82	10	57	44	6	0	50	1.26
925561--925597	12	2.9	13	88	8	58	40	8	10	40	1.70
925807--925840	16	2.1	16	100	0	68	29	17	23	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
927070--927109	22	1.9	21	85	10	55	50	10	5	35	1.58
927896--927925	16	1.9	16	93	6	53	50	10	13	26	1.73
928879--929001	60	2.0	61	90	3	194	38	22	10	28	1.88
930279--930309	13	2.4	13	100	0	62	22	25	9	41	1.84
933023--933067	2	22.5	2	100	0	90	51	0	0	48	1.00
933067--933092	2	13.0	2	100	0	52	50	0	50	0	1.00
934419--934738	171	1.8	173	90	5	518	38	18	20	23	1.93
945635--945672	2	19.5	2	83	5	51	55	0	0	44	0.99
947437--947528	43	2.2	43	84	9	118	56	4	11	27	1.54
951956--952074	35	3.3	36	90	4	188	31	5	20	43	1.73
956570--956653	37	2.3	37	89	2	125	32	4	19	44	1.71
965041--965072	2	16.0	2	100	0	64	50	0	0	50	1.00
967664--967726	26	2.4	26	100	0	126	26	11	20	41	1.86
969719--969818	2	50.0	2	71	18	66	49	4	3	44	1.36
975612--975645	2	17.0	2	100	0	68	50	0	0	50	1.00
975917--975963	15	3.1	15	78	0	58	46	8	14	29	1.74
982086--982147	6	10.3	6	98	0	97	45	33	4	16	1.68
985525--985549	3	8.3	3	100	0	50	68	0	32	0	0.90
989693--989719	12	2.2	12	100	0	54	44	0	7	48	1.31
991449--991493	21	2.1	21	95	0	81	28	24	15	31	1.96
991491--991536	22	2.1	22	95	0	83	39	32	19	8	1.82
992387--992436	24	2.1	24	85	7	66	26	2	12	60	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992911--992944	17	2.1	16	88	5	50	14	8	0	76	1.01
999295--999338	20	2.2	20	80	4	54	18	15	0	65	1.27
1002617--1002666	24	2.1	24	85	7	66	26	2	12	60	1.43
1003141--1003174	17	2.1	16	88	5	50	14	8	0	76	1.01
1006075--1006867	405	1.9	412	95	2	1431	38	17	13	30	1.88
1008413--1008446	17	2.0	17	100	0	68	11	17	29	41	1.85
1008967--1009002	2	19.5	2	83	16	51	47	0	0	52	1.00
1008962--1009002	8	4.8	9	85	14	52	43	2	0	53	1.13
1018127--1018152	2	13.0	2	100	0	52	50	0	0	50	1.00
1026503--1026574	36	2.0	36	81	10	85	44	4	2	48	1.36
1027758--1027807	2	25.0	2	100	0	100	50	0	0	50	1.00
1032792--1032889	21	4.8	20	76	6	79	38	22	17	21	1.93
1032856--1033085	20	11.5	20	82	3	230	37	24	18	19	1.94
1033765--1033811	24	2.0	24	87	8	69	25	14	21	38	1.92
1033986--1034010	12	2.1	12	100	0	50	72	0	28	0	0.86
1035793--1035900	33	3.2	33	87	7	173	47	19	20	12	1.82
1035807--1035957	19	8.7	19	72	21	143	45	18	20	15	1.85
1035835--1035957	52	2.3	52	95	1	219	45	17	21	15	1.85
1035947--1036063	53	2.2	53	96	1	218	13	23	17	45	1.84
1035966--1036063	19	5.4	19	83	13	134	14	21	17	46	1.83
1036170--1036205	13	2.6	14	82	8	56	44	22	0	33	1.53
1038118--1038290	19	9.6	19	79	12	168	46	23	19	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038212--1038268	14	3.7	14	77	20	60	45	22	21	10	1.82
1038193--1038285	33	2.8	33	95	0	168	47	21	20	10	1.80
1038286--1038414	19	7.3	19	75	17	125	8	17	28	45	1.77
1038286--1038377	33	2.8	33	93	3	150	7	18	28	45	1.76
1038462--1039115	93	7.1	93	98	0	1267	46	19	12	22	1.83
1038462--1039115	278	2.4	279	98	0	1267	46	19	12	22	1.83
1040813--1040876	20	3.2	20	82	4	92	46	15	25	12	1.81
1040811--1040875	21	3.1	21	82	4	96	47	15	26	10	1.78
1040917--1040973	14	3.7	14	75	20	60	8	24	22	43	1.81
1040901--1040981	33	2.5	33	95	0	144	8	22	22	46	1.78
1040958--1041033	21	3.7	21	82	3	100	11	23	17	47	1.80
1040957--1041034	41	1.9	41	94	0	138	12	24	16	46	1.82
1041113--1041183	33	2.2	33	92	0	115	47	18	22	11	1.80
1041565--1041758	20	9.6	20	82	5	221	19	19	25	35	1.95
1041565--1041758	60	3.2	60	83	0	253	19	19	25	35	1.95
1041745--1041827	21	4.0	21	73	6	78	25	16	24	33	1.96
1041725--1041823	42	2.4	43	77	11	100	21	18	23	37	1.94
1042915--1043027	55	2.0	56	89	1	174	46	9	8	35	1.68
1046987--1047017	14	2.2	14	100	0	62	87	0	0	12	0.55
1046987--1047030	22	2.0	23	86	4	63	79	0	4	15	0.89
1052096--1052542	227	2.0	226	94	1	788	45	8	7	39	1.61
1054430--1054492	23	2.7	23	90	0	90	36	6	19	38	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054430--1054502	23	3.2	23	86	3	85	35	5	19	39	1.75
1061403--1061479	33	2.3	33	88	0	109	28	5	19	46	1.71
1066066--1066108	20	2.0	22	86	8	63	65	11	0	23	1.25
1081363--1081443	30	2.6	30	82	9	92	46	3	4	44	1.42
1082893--1082953	23	2.7	23	82	10	79	44	6	13	36	1.69
1083291--1083350	31	2.0	31	86	3	86	55	8	10	26	1.61
1084036--1084180	60	2.4	59	76	10	143	35	13	15	36	1.86
1087046--1087078	11	3.0	11	95	0	57	15	21	0	63	1.30
1088595--1088658	17	3.7	18	75	6	62	29	1	3	65	1.17
1088682--1088738	30	1.9	30	88	0	87	49	8	8	33	1.65
1103785--1103869	37	2.3	37	86	6	120	42	20	4	32	1.72
1108356--1108440	37	2.3	37	86	6	120	42	20	4	32	1.72
1108899--1108963	31	2.1	30	94	2	112	33	15	27	23	1.95
1111075--1111148	31	2.4	31	93	0	121	35	13	25	25	1.93
1112648--1112941	99	3.0	100	87	2	405	33	12	10	44	1.76
1112861--1113090	74	3.1	73	78	12	254	32	13	9	44	1.75
1112861--1113087	73	3.1	70	79	12	253	32	13	9	44	1.76
1113108--1113266	76	2.1	76	85	2	212	31	8	9	50	1.65
1115539--1115788	82	3.0	83	91	1	403	42	12	10	34	1.77
1120459--1120502	14	3.1	14	83	0	61	70	2	0	27	0.99
1120726--1120758	17	2.0	17	88	5	50	51	3	0	45	1.16
1121139--1121182	21	2.0	22	82	8	54	38	0	4	56	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126940--1126997	28	2.1	28	100	0	116	20	27	3	48	1.66
1130970--1130999	15	2.0	15	93	0	51	60	3	3	33	1.30
1146434--1146487	28	1.9	28	100	0	108	29	9	20	40	1.83
1167510--1167947	221	2.0	221	94	0	779	23	18	16	41	1.90
1174910--1174954	13	3.5	13	81	0	54	68	13	2	15	1.30
1177640--1177710	31	2.3	31	90	0	106	35	2	14	47	1.58
1177750--1177881	31	4.3	31	78	6	110	42	7	5	44	1.55
1178571--1178605	16	2.2	16	94	0	61	31	0	14	54	1.40
1178812--1178845	15	2.3	15	94	0	59	35	0	8	55	1.31
1178812--1178845	8	4.5	8	89	10	54	35	0	8	55	1.31

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15