genome.fa.s8342.2.7.7.80.10.50.1000.5.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: VEPZ01008342.1 Hibiscus syriacus cultivar Beakdansim tig00111069_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1228932

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 636 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)
1027396--1027430	13	2.8	12	87	12	52	20	45	22	11	1.82
1027377--1027415	18	2.2	18	95	0	69	17	46	23	12	1.83
1027462--1027502	20	2.0	20	100	0	82	24	4	26	43	1.74
1029912--1029985	36	2.1	36	86	0	103	33	1	16	48	1.54
1037093--1037138	2	23.0	2	100	0	92	50	0	0	50	1.00
1047589--1047664	34	2.2	34	97	0	143	39	13	18	28	1.88
1048713--1048742	15	2.0	15	100	0	60	33	33	20	13	1.91
1057897--1057926	13	2.4	13	94	5	53	56	0	0	43	0.99
1065026--1065099	29	2.5	29	80	2	76	25	18	10	44	1.82
1065139--1065213	39	1.9	39	83	5	98	53	6	8	32	1.56
1066349--1066391	21	2.0	22	90	4	70	20	23	16	39	1.92
1066387--1066456	20	3.5	20	94	0	113	44	18	15	21	1.87
1066658--1066723	22	3.0	22	88	0	96	27	39	12	21	1.88
1067059--1067197	20	7.4	19	73	13	99	17	19	22	40	1.92
1067167--1067222	20	2.8	20	86	0	76	10	16	23	50	1.76
1067042--1067222	93	2.0	92	82	3	220	16	18	22	42	1.89
1067186--1067229	20	2.2	20	87	0	61	9	13	22	54	1.67
1069111--1069267	20	8.5	20	73	18	108	42	21	17	19	1.90
1069134--1069288	34	4.4	34	73	13	134	42	21	18	17	1.89
1069134--1069214	33	2.4	33	83	2	99	45	23	18	12	1.83
1069312--1069356	20	2.2	20	100	0	90	13	20	26	40	1.89
1071469--1071563	33	2.8	33	82	1	118	14	21	18	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1071536--1071627	19	4.7	20	92	6	145	18	20	25	35	1.95
1071536--1071627	39	2.4	39	90	7	143	18	20	25	35	1.95
1074888--1075015	20	6.4	20	87	0	148	28	17	24	29	1.98
1074889--1075015	40	3.2	40	86	0	173	27	18	24	29	1.98
1074889--1075015	60	2.1	60	88	0	182	27	18	24	29	1.98
1074907--1075034	40	3.2	40	78	8	136	25	19	24	31	1.98
1075024--1075076	21	2.5	21	90	0	79	35	15	24	24	1.94
1075512--1075825	75	4.2	74	88	3	396	42	11	12	33	1.79
1075831--1075889	23	2.6	23	75	5	57	38	10	5	45	1.60
1076381--1076623	105	2.3	107	79	2	265	32	13	12	40	1.83
1076426--1076641	108	2.0	106	85	3	290	33	13	12	40	1.81
1076530--1076942	224	1.8	226	81	7	518	34	14	11	39	1.83
1078000--1078047	4	12.5	4	89	8	73	29	0	20	50	1.49
1082148--1082210	23	2.6	24	78	19	60	50	1	0	47	1.10
1082174--1082256	32	2.6	32	76	16	82	45	2	0	51	1.14
1082281--1082339	15	3.9	15	77	6	57	54	0	0	45	0.99
1082695--1082792	21	4.8	20	76	10	74	37	21	19	21	1.94
1082760--1082953	20	9.6	20	81	7	214	36	27	18	17	1.93
1082760--1082953	40	4.8	40	86	5	257	36	27	18	17	1.93
1083331--1083400	33	2.2	33	89	2	106	11	22	17	48	1.79
1083480--1083553	21	3.5	20	80	8	94	47	17	20	14	1.83
1083541--1083597	14	3.7	14	70	20	51	43	21	24	10	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083534--1083613	33	2.4	33	91	0	133	47	21	21	10	1.79
1083609--1083736	19	7.1	19	71	19	87	10	25	18	45	1.82
1083631--1083687	14	3.7	14	75	20	60	8	24	22	43	1.81
1083614--1083736	33	3.5	33	88	10	165	10	24	18	46	1.81
1083672--1083736	21	3.1	21	82	4	96	10	26	15	47	1.78
1085416--1085962	93	6.1	93	93	6	973	22	12	19	45	1.84
1085491--1085939	92	5.1	83	91	8	586	22	12	19	45	1.84
1085416--1085939	175	3.0	175	92	7	912	22	12	19	45	1.84
1085437--1085962	275	1.9	263	93	6	867	22	12	19	45	1.84
1086042--1086133	19	5.4	17	71	24	70	48	27	16	7	1.72
1086010--1086133	33	3.7	33	88	3	169	47	26	16	8	1.76
1086091--1086117	14	1.9	14	100	0	54	48	29	14	7	1.71
1086129--1086300	19	9.6	19	75	14	150	9	20	23	45	1.81
1086134--1086225	33	2.8	33	93	1	159	9	21	21	46	1.80
1086165--1086284	51	2.2	54	84	8	147	8	20	24	47	1.77
1086134--1086238	33	3.2	30	80	14	104	8	20	22	47	1.77
1088209--1088244	14	2.6	14	95	0	63	33	0	22	44	1.53
1088351--1088448	19	5.4	19	83	13	134	46	17	21	14	1.83
1088351--1088467	53	2.2	53	96	1	218	45	17	23	13	1.84
1088457--1088660	19	11.7	19	71	21	178	15	22	17	45	1.85
1088457--1088574	52	2.2	52	95	1	209	15	22	17	44	1.86
1088463--1088674	86	2.5	86	90	3	338	15	22	16	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088514--1088607	34	2.8	33	93	3	161	14	23	15	45	1.84
1088495--1088660	53	3.2	53	84	9	189	15	21	16	46	1.84
1088598--1088674	33	2.3	31	81	14	100	15	20	18	45	1.85
1090258--1090282	12	2.1	12	100	0	50	0	28	0	72	0.86
1091188--1091416	20	11.4	20	87	1	253	19	17	25	36	1.94
1091410--1091459	21	2.4	20	80	9	55	26	18	20	36	1.95
1091761--1091794	2	17.0	2	100	0	68	50	0	0	50	1.00
1092146--1092198	2	26.5	2	100	0	106	49	0	0	50	1.00
1092860--1092884	9	2.8	9	100	0	50	68	0	0	32	0.90
1097294--1097459	31	5.4	31	83	2	183	14	25	28	30	1.95
1097314--1097459	62	2.4	61	87	2	211	15	26	28	30	1.95
1102553--1102596	22	2.0	22	90	0	70	38	15	29	15	1.89
1110403--1110454	23	2.2	23	96	3	95	42	0	13	44	1.44
1110403--1110454	12	4.2	13	81	18	67	42	0	13	44	1.44
1110403--1110468	23	2.8	23	88	4	78	42	0	12	45	1.41
1110870--1110934	26	2.5	26	79	2	76	35	33	6	24	1.80
1112640--1112681	12	3.6	12	81	18	61	45	0	11	42	1.41
1112640--1112684	23	2.0	23	100	0	90	44	0	11	44	1.39
1116255--1116296	6	7.2	6	81	13	52	66	0	0	33	0.92
1116261--1116295	16	2.2	16	94	0	61	65	0	0	34	0.93
1116450--1116477	2	14.0	2	100	0	56	50	0	0	50	1.00
1116751--1116850	50	2.0	50	90	0	155	39	8	17	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125167--1125231	21	3.3	20	85	8	80	64	0	4	30	1.14
1125184--1125243	21	2.9	21	87	5	68	61	0	3	35	1.12
1125225--1125299	18	4.2	17	70	9	60	61	2	5	30	1.32
1125180--1125277	29	3.4	28	78	12	85	62	1	4	32	1.21
1127568--1127592	5	5.0	5	100	0	50	0	0	20	80	0.72
1129611--1129636	13	2.0	13	100	0	52	53	0	0	46	1.00
1135787--1135879	23	4.0	23	88	0	150	23	37	15	23	1.93
1136474--1136524	3	17.7	3	78	8	52	58	1	3	35	1.28
1136476--1136525	17	2.9	17	78	0	64	58	2	4	36	1.29
1136474--1136524	20	2.5	20	83	0	66	58	1	3	35	1.28
1136667--1136751	40	2.1	40	84	4	109	31	22	18	27	1.97
1136674--1136761	20	4.4	20	80	5	97	30	18	22	28	1.97
1136678--1136761	40	2.1	40	90	0	132	30	19	21	28	1.97
1136718--1137237	119	4.4	119	90	2	805	32	17	16	33	1.93
1136718--1137346	238	2.6	239	87	7	852	32	17	16	33	1.93
1137204--1137257	20	2.7	20	94	0	99	35	24	20	20	1.96
1137086--1137356	139	1.9	139	92	0	452	31	19	17	31	1.95
1137245--1137554	99	3.1	99	89	0	469	30	17	16	35	1.92
1137596--1137694	20	4.9	20	83	0	126	32	18	22	27	1.97
1140625--1140685	24	2.6	23	85	14	88	0	21	0	78	0.75
1140627--1140686	13	4.8	13	73	17	56	0	21	0	78	0.75
1147754--1147813	3	20.7	3	84	6	79	60	0	3	36	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1147754--1147810	20	2.8	20	86	0	87	59	0	3	36	1.14
1148071--1148120	26	2.0	26	88	4	75	58	0	2	40	1.10
1157088--1157428	171	2.0	173	88	2	517	40	15	11	31	1.83
1162321--1162386	26	2.4	26	85	7	78	37	33	6	22	1.79
1162336--1162387	26	2.0	26	92	3	86	36	30	3	28	1.75
1162436--1162479	19	2.3	20	84	7	56	52	2	0	45	1.13
1164259--1164292	6	5.7	6	85	0	50	47	17	2	32	1.63
1166599--1166640	21	2.0	21	100	0	84	42	0	14	42	1.45
1167223--1167446	112	2.0	112	99	0	439	36	19	12	31	1.89
1168773--1168825	21	2.5	21	96	0	97	22	26	5	45	1.74

Tables:   1   2   3   4   5   6