genome.fa.s8162.2.7.7.80.10.50.1000.5.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: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3688897

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  5  of  16  ( 1865 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)
925961--926037	20	3.7	20	69	17	57	12	10	1	75	1.11
925924--925994	9	7.4	9	75	13	54	12	5	1	80	0.95
928943--929054	37	3.0	37	90	0	179	33	11	13	41	1.81
929555--929810	83	3.1	83	80	6	286	23	18	22	34	1.96
929813--929874	30	2.1	30	84	0	79	30	8	12	48	1.70
929877--929991	36	3.2	36	81	9	144	40	13	19	26	1.89
929909--930095	102	1.8	102	85	4	261	40	12	19	27	1.88
930004--930105	36	2.8	37	84	4	152	38	13	20	27	1.90
930177--930254	29	2.7	29	79	0	93	37	8	24	29	1.86
934994--935078	34	2.5	34	98	0	161	40	0	0	60	0.97
937175--937367	64	2.9	67	78	13	200	44	8	6	39	1.62
944847--945084	109	2.2	108	79	5	243	19	15	15	48	1.81
946629--946711	38	2.2	38	85	8	116	12	10	38	38	1.78
946858--946936	38	2.1	38	85	7	106	13	7	34	44	1.73
947463--947508	18	2.7	18	93	6	78	28	32	6	32	1.83
947656--947701	18	2.8	16	86	6	65	28	34	6	30	1.82
947410--947799	193	2.0	194	97	0	746	32	24	15	26	1.96
958057--958172	59	2.0	59	82	3	144	32	10	18	38	1.84
958142--958288	55	2.7	55	81	7	160	30	9	17	42	1.81
958462--958851	197	1.9	200	85	4	527	28	21	16	34	1.95
971038--971192	80	1.9	83	89	6	246	40	20	14	25	1.90
972160--972202	12	3.6	12	87	0	50	2	46	0	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
972166--972202	6	6.2	6	87	0	56	2	45	0	51	1.15
972760--972831	29	2.4	29	75	11	74	66	1	11	20	1.30
974339--974376	3	13.0	3	88	5	60	63	0	0	36	0.95
975239--975374	71	1.9	71	84	0	182	30	17	16	35	1.93
975309--975877	85	6.7	85	87	0	753	25	17	20	36	1.94
977596--977815	94	2.5	89	82	13	269	31	20	19	29	1.97
977644--977842	94	2.1	96	86	4	287	33	17	17	32	1.93
981791--981865	23	2.9	27	76	11	68	68	0	13	18	1.22
981939--982008	27	2.7	26	78	10	72	71	2	2	22	1.13
982003--982063	30	2.0	32	81	12	74	59	8	11	21	1.58
983364--983392	2	15.0	2	92	7	51	51	0	0	48	1.00
988195--988246	20	2.6	20	100	0	104	26	15	19	38	1.91
992512--992570	31	2.0	29	83	12	75	50	0	1	47	1.11
992629--992667	20	2.0	20	89	0	60	69	0	0	30	0.89
992539--992769	120	1.9	120	84	5	308	45	8	8	37	1.65
993777--993816	21	2.0	20	90	5	62	2	30	0	67	1.04
994246--994298	3	19.0	3	77	14	51	67	1	0	30	1.01
994220--994301	22	4.0	20	75	12	76	63	1	0	35	1.02
994216--994304	16	5.3	17	67	20	62	65	1	0	33	1.00
994220--994275	19	2.7	22	78	10	73	60	0	0	39	0.97
994246--994309	22	2.9	22	77	13	69	68	3	0	28	1.04
994511--994644	68	2.0	69	86	1	189	21	18	14	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
994658--995404	112	6.8	109	81	9	828	27	18	14	38	1.91
994658--995397	225	3.4	223	85	5	881	28	18	14	38	1.91
995402--995557	76	2.1	76	93	0	267	33	17	21	26	1.96
996235--996307	22	3.3	22	86	0	101	41	10	12	35	1.78
998796--999009	114	1.9	114	96	0	392	29	20	16	32	1.95
1001034--1001073	18	2.2	18	95	0	71	0	22	0	77	0.77
1003369--1003407	8	5.1	8	81	12	55	64	7	15	12	1.49
1003369--1003407	15	2.6	15	95	0	69	64	7	15	12	1.49
1005462--1005694	120	2.0	120	83	8	298	44	9	8	37	1.67
1005729--1005770	18	2.3	18	87	4	57	47	0	0	52	1.00
1007208--1007260	3	19.0	3	81	14	60	66	1	0	32	1.03
1007208--1007263	19	3.0	18	79	7	67	66	1	0	32	1.03
1007186--1007264	22	3.8	21	77	14	74	62	1	0	36	1.04
1007208--1007271	22	2.9	22	77	13	69	67	3	0	29	1.06
1007379--1007426	24	2.0	24	100	0	96	20	12	12	54	1.70
1011322--1011347	9	2.9	9	100	0	52	42	11	11	34	1.77
1030755--1030784	14	2.2	13	94	5	51	33	36	6	23	1.81
1038513--1038550	14	2.6	14	84	15	51	73	5	7	13	1.22
1052708--1052766	26	2.3	26	100	0	118	28	11	18	40	1.86
1055420--1055490	33	2.2	33	84	2	90	36	2	0	60	1.11
1056184--1056240	27	2.2	26	81	9	62	56	5	5	33	1.44
1056593--1056635	18	2.4	18	80	7	52	37	13	4	44	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1058085--1058133	21	2.3	21	86	6	64	75	2	4	18	1.06
1058368--1058401	3	11.3	3	100	0	68	67	0	0	32	0.91
1058442--1058490	16	3.3	15	83	11	57	71	0	4	24	1.03
1058456--1058590	33	4.1	32	74	17	98	60	0	6	31	1.28
1059771--1059808	20	1.9	20	84	10	51	47	2	7	42	1.46
1061486--1061537	13	4.3	12	79	11	54	3	17	1	76	1.02
1061577--1061624	23	2.1	23	88	7	71	0	22	0	77	0.78
1061577--1061623	11	4.2	11	81	10	51	0	23	0	76	0.78
1061580--1061624	17	2.5	18	92	7	74	0	22	0	77	0.76
1061586--1061623	6	6.7	6	88	8	53	0	23	0	76	0.79
1071381--1071434	26	2.1	25	83	10	65	81	7	1	9	0.94
1071713--1071751	12	3.2	12	86	10	53	71	0	0	28	0.86
1071704--1071784	16	5.2	15	77	18	69	69	1	1	28	1.04
1071718--1071811	46	2.0	46	80	11	104	67	2	3	27	1.18
1073062--1073099	20	1.9	20	84	10	51	47	2	7	42	1.46
1076277--1076314	18	2.1	18	90	0	58	39	13	5	42	1.66
1082634--1082671	17	2.1	19	85	9	53	39	0	5	55	1.23
1089354--1089419	21	3.0	21	74	14	53	68	0	3	28	1.05
1089443--1089491	22	2.2	23	88	3	73	75	0	4	20	0.96
1090042--1090101	21	2.9	21	78	7	61	53	16	1	28	1.53
1090058--1090257	70	3.0	69	82	11	229	59	11	1	28	1.41
1091711--1091748	18	2.2	17	90	4	58	7	15	13	63	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091711--1091748	17	2.2	18	90	4	60	7	15	13	63	1.51
1091957--1092009	22	2.5	21	76	14	54	77	5	3	13	1.09
1098032--1098085	19	2.7	20	74	5	56	62	7	0	29	1.22
1097990--1098128	64	2.2	62	82	11	165	56	10	1	31	1.43
1103888--1103978	46	2.0	46	95	0	164	37	24	10	27	1.89
1105990--1106019	5	6.0	5	100	0	60	60	40	0	0	0.97
1106393--1106663	147	1.8	147	93	0	470	36	18	9	36	1.83
1109050--1109107	21	2.7	21	86	5	71	51	5	5	37	1.46
1121171--1121223	20	2.6	20	88	8	72	28	20	22	28	1.99
1121257--1121306	18	2.6	19	84	6	66	28	20	26	26	1.99
1124515--1124573	30	2.0	30	100	0	118	38	13	13	33	1.84
1124497--1124567	30	2.6	25	74	19	70	36	12	12	38	1.82
1124626--1124685	31	2.0	30	83	9	77	36	3	23	36	1.71
1124906--1124965	23	2.6	23	84	5	77	18	25	23	33	1.97
1124916--1124974	23	2.6	23	83	0	55	18	22	23	35	1.96
1131460--1131527	27	2.7	24	80	14	82	35	11	11	41	1.78
1131455--1131543	25	3.4	25	78	15	83	35	12	10	41	1.76
1131482--1131563	25	3.0	27	76	20	66	37	12	12	37	1.80
1131878--1131922	23	2.0	23	86	0	63	17	28	24	28	1.97
1131879--1131928	23	2.2	23	81	0	55	22	28	22	28	1.99
1135274--1135320	20	2.3	20	85	0	58	29	21	19	29	1.97
1145197--1145228	2	16.0	2	100	0	64	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)
1146737--1146784	4	12.5	4	82	8	64	50	20	25	4	1.66
1146782--1153106	4	1604.2	4	95	3	11248	49	0	24	24	1.54
1153104--1153132	2	14.5	2	100	0	58	51	0	0	48	1.00
1158605--1158629	13	1.9	13	100	0	50	48	0	20	32	1.50
1163128--1163182	25	2.2	25	96	0	101	38	27	10	23	1.88
1164723--1164792	31	2.3	31	89	0	104	30	27	28	14	1.95
1166548--1166591	18	2.4	18	81	11	54	47	13	11	27	1.77
1166794--1166834	13	3.1	13	89	6	64	24	14	29	31	1.95
1169428--1169476	23	2.1	23	85	7	64	59	12	2	26	1.44
1171784--1171826	14	3.0	15	83	10	54	76	6	0	16	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16