genome.fa.s7716.2.7.7.80.10.50.1000.16.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: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4364108

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  16  of  17  ( 1966 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)
4022978--4023590	271	2.3	271	84	5	790	30	26	14	29	1.95
4023764--4023962	55	3.6	54	79	5	204	32	20	11	36	1.87
4023817--4023974	55	2.9	55	88	1	228	31	22	12	34	1.91
4027958--4028269	45	6.9	45	88	0	453	29	24	12	33	1.92
4028197--4028503	45	6.8	45	86	2	393	27	22	6	43	1.78
4027958--4028488	90	5.9	90	84	2	383	28	22	9	39	1.85
4027967--4028439	135	3.5	134	80	5	402	28	22	10	38	1.87
4028536--4028762	68	3.3	68	79	6	201	29	25	12	31	1.93
4028767--4028881	58	2.0	58	84	3	151	28	22	13	35	1.92
4028824--4029103	68	4.1	68	81	1	337	28	24	16	30	1.96
4029317--4029476	55	2.9	55	91	2	250	33	21	11	33	1.90
4029896--4029946	19	2.6	19	82	11	59	23	31	13	31	1.93
4037464--4037816	45	7.9	45	85	0	474	27	23	14	33	1.94
4037744--4038005	45	5.8	45	86	2	330	27	22	8	42	1.81
4037465--4037948	90	5.4	89	78	7	424	27	22	11	37	1.90
4037472--4037859	135	2.9	135	81	3	487	27	22	13	35	1.92
4037465--4038005	135	4.0	135	79	5	479	27	22	11	38	1.89
4038038--4038436	68	6.0	69	82	8	470	29	26	15	29	1.96
4038235--4038346	58	1.9	58	92	0	188	29	25	14	31	1.94
4038167--4038396	126	1.8	126	87	1	345	29	26	14	30	1.95
4051972--4052001	15	2.0	15	93	0	51	36	6	10	46	1.64
4052058--4052480	54	7.8	54	87	2	564	34	16	17	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4052058--4052480	162	2.6	162	88	1	625	34	16	17	30	1.93
4052706--4052766	32	1.9	32	100	0	122	27	9	11	50	1.70
4070437--4070492	29	1.9	29	85	7	78	41	7	17	33	1.77
4070544--4070582	20	2.0	21	85	10	55	28	0	30	41	1.57
4072226--4072296	25	2.7	25	85	10	81	50	0	25	23	1.49
4072249--4072297	19	2.6	19	87	6	73	53	0	26	20	1.46
4072343--4072425	39	2.1	39	88	0	121	27	7	18	46	1.75
4078760--4078817	21	2.8	21	97	0	107	32	24	15	27	1.95
4079388--4079431	17	2.5	17	85	14	54	68	0	29	2	1.02
4079985--4080017	16	2.1	17	88	11	52	54	0	12	33	1.37
4083245--4083302	21	2.8	20	78	2	62	36	22	17	24	1.95
4091135--4091231	43	2.3	43	87	3	142	32	21	18	26	1.97
4092213--4092389	40	4.4	40	80	5	212	36	19	16	27	1.93
4092170--4092389	40	5.4	40	79	8	203	35	18	18	28	1.94
4092171--4092369	82	2.4	82	86	4	294	33	18	19	29	1.95
4115826--4115883	29	2.0	29	96	0	107	17	5	15	62	1.50
4118163--4118212	25	2.0	25	88	7	75	24	12	38	26	1.90
4118690--4118814	28	4.8	26	75	19	109	48	5	0	44	1.31
4119698--4119791	43	2.2	42	86	7	136	27	4	20	47	1.68
4120010--4120063	23	2.5	22	77	19	60	38	3	3	53	1.36
4120041--4120184	47	2.9	50	70	21	117	44	1	2	52	1.21
4120146--4120185	19	2.1	19	85	0	53	45	2	0	52	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4121722--4121795	20	3.7	20	78	3	76	29	22	25	21	1.99
4121816--4121935	20	5.8	20	77	14	127	24	20	30	24	1.99
4121835--4121956	22	5.7	22	79	14	148	22	21	31	23	1.98
4121816--4121956	42	3.4	42	95	0	255	24	20	31	24	1.98
4121816--4121977	84	1.9	85	92	1	272	24	19	32	24	1.98
4121816--4121994	42	4.3	41	89	4	227	23	18	34	23	1.97
4122774--4122813	21	1.9	21	94	0	71	22	25	25	27	2.00
4123603--4123663	22	2.8	22	87	0	86	26	24	19	29	1.99
4146182--4146245	28	2.3	28	86	5	94	43	3	6	46	1.44
4147347--4147391	22	1.9	25	86	13	69	51	0	0	48	1.00
4147350--4147422	13	5.9	13	68	19	50	50	2	1	45	1.24
4147522--4147562	13	3.2	13	82	10	57	39	2	0	58	1.11
4149424--4149464	21	2.0	21	85	9	57	34	0	2	63	1.08
4150357--4150473	60	2.0	59	83	5	146	27	23	23	24	2.00
4154902--4155354	125	3.7	125	85	3	546	26	19	15	38	1.91
4155356--4155682	73	4.5	73	92	2	509	40	11	15	32	1.84
4155357--4155682	145	2.2	145	91	3	514	40	11	15	32	1.83
4155752--4155796	20	2.2	20	88	7	65	22	15	31	31	1.95
4157533--4157755	104	2.2	101	85	5	288	24	25	16	34	1.95
4157533--4157760	52	4.4	52	86	4	259	25	24	16	33	1.95
4159229--4159345	7	16.4	7	79	15	116	2	15	0	82	0.79
4159229--4159344	43	2.7	42	83	9	137	2	15	0	81	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4159290--4159346	1	57.0	1	75	0	51	0	12	0	87	0.54
4159231--4159343	57	2.0	57	87	6	167	2	15	0	81	0.80
4162297--4162378	42	2.0	41	85	7	112	23	15	10	50	1.76
4162704--4162736	14	2.2	16	89	10	52	66	9	12	12	1.44
4165497--4165541	21	2.1	22	84	12	58	60	4	0	35	1.17
4166956--4166985	4	7.5	4	100	0	60	76	0	0	23	0.78
4167466--4167503	17	2.2	17	95	0	67	73	13	0	13	1.09
4167482--4167530	26	1.9	25	91	4	80	65	10	2	22	1.34
4167542--4167580	19	2.1	19	85	0	51	56	7	2	33	1.41
4168067--4168123	21	2.7	21	83	0	78	26	15	28	29	1.96
4170804--4170838	17	2.1	17	88	0	52	54	0	0	45	0.99
4172766--4172800	18	2.0	18	88	5	54	71	8	11	8	1.31
4178314--4178361	21	2.3	20	93	6	87	56	14	4	25	1.56
4179395--4179430	13	2.8	13	86	0	54	30	0	8	61	1.26
4179985--4180011	2	13.5	2	100	0	54	51	0	0	48	1.00
4182035--4182075	14	2.9	14	85	3	55	60	0	0	39	0.96
4182112--4182158	24	1.9	25	86	4	69	46	2	2	48	1.25
4191987--4192041	28	1.9	28	85	10	76	43	7	3	45	1.49
4212850--4212881	14	2.3	14	100	0	64	21	0	0	78	0.76
4215101--4215489	194	2.0	195	99	0	771	38	20	20	20	1.94
4216420--4216467	20	2.3	21	82	13	64	77	6	14	2	1.06
4218295--4218366	37	1.9	37	85	0	99	26	20	12	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4218749--4219169	106	4.0	106	87	3	602	34	23	19	22	1.96
4218749--4219150	208	1.9	209	89	2	617	35	23	17	22	1.95
4220493--4220539	24	2.0	24	84	8	62	38	6	6	48	1.54
4222100--4222358	113	2.3	112	85	2	349	28	12	12	46	1.78
4222449--4223375	73	12.7	72	85	6	1129	34	13	12	39	1.82
4222449--4223375	147	6.3	145	85	5	1167	34	13	12	39	1.82
4223721--4223818	45	2.3	41	86	10	128	35	12	27	24	1.91
4223734--4223818	45	1.9	44	90	2	134	35	11	28	24	1.91
4224735--4224858	63	2.0	62	85	7	171	46	5	5	41	1.51
4224799--4224897	34	2.9	35	73	14	89	46	5	6	42	1.50
4228777--4228834	23	2.5	23	86	5	73	56	10	6	25	1.57
4235515--4235693	64	2.8	62	78	9	182	29	17	24	28	1.98
4236045--4236072	12	2.3	12	100	0	56	53	0	7	39	1.28
4242214--4242253	21	1.9	21	89	0	62	30	7	7	55	1.56
4243948--4244127	64	2.8	63	81	8	211	29	17	23	28	1.97
4243968--4244154	64	2.9	63	78	9	175	29	16	22	31	1.95
4244858--4244903	20	2.3	20	80	0	56	34	15	6	43	1.72
4245375--4245528	77	2.0	77	93	0	263	36	8	21	33	1.84
4260774--4260932	56	2.8	57	80	7	205	27	17	23	31	1.97
4260751--4260928	59	3.1	58	81	6	218	28	16	23	32	1.96
4262462--4262631	56	2.9	58	78	5	164	29	18	20	31	1.97
4265027--4265080	20	2.7	20	97	2	99	18	11	22	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4289375--4289453	12	6.3	12	74	9	61	48	2	0	49	1.14
4289579--4289633	23	2.4	21	77	16	56	52	3	0	43	1.18
4289595--4289641	21	2.1	23	84	7	62	48	0	0	51	1.00
4289615--4289698	29	2.9	29	72	17	75	46	1	4	47	1.31
4289745--4289799	23	2.5	21	80	11	65	45	0	1	52	1.11
4290280--4290333	14	3.5	15	85	10	56	42	0	0	57	0.98
4294581--4294662	42	2.0	42	87	0	119	50	12	17	20	1.78
4294858--4295191	165	2.0	165	98	0	650	39	14	18	27	1.89
4297775--4297898	7	16.9	7	77	14	90	76	0	22	0	0.84
4297758--4297899	29	4.8	28	77	12	124	76	0	23	0	0.84

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17