genome.fa.s9587.2.7.7.80.10.50.1000.21.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  21  of  29  ( 3457 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)
4592130--4592162	16	2.0	17	88	5	50	48	6	18	27	1.71
4592693--4592719	14	1.9	14	100	0	54	51	0	0	48	1.00
4594661--4594710	21	2.4	21	96	0	91	28	28	20	24	1.99
4594744--4595064	42	7.8	42	88	6	489	21	19	22	37	1.95
4595960--4596088	19	6.4	19	75	13	114	37	20	18	23	1.94
4595960--4596088	61	2.1	61	92	0	213	37	20	18	23	1.94
4596003--4596088	42	2.2	38	87	8	118	38	19	19	22	1.94
4596083--4596251	77	2.2	78	88	4	250	24	20	26	28	1.99
4596105--4596234	40	3.3	40	64	21	94	25	20	26	28	1.99
4599690--4600049	137	2.6	137	79	6	372	26	17	30	25	1.97
4603355--4603440	2	43.0	2	100	0	172	50	0	0	50	1.00
4614314--4614340	2	13.5	2	100	0	54	51	0	0	48	1.00
4614734--4614770	13	2.8	13	91	4	56	10	5	5	78	1.08
4631811--4631862	17	3.2	17	75	10	54	50	13	3	32	1.60
4632189--4632226	16	2.4	17	82	13	53	42	13	0	44	1.43
4632198--4632228	16	1.9	16	100	0	62	45	16	0	38	1.47
4639409--4639441	16	2.1	16	94	0	57	60	24	3	12	1.46
4639452--4639501	24	2.2	24	89	7	77	36	28	14	22	1.92
4639472--4639537	34	2.0	33	84	3	87	34	22	15	27	1.94
4641376--4641538	7	23.4	7	74	3	105	23	1	31	42	1.65
4641376--4641496	28	4.3	28	80	0	116	24	1	30	42	1.64
4645437--4645518	20	4.0	20	70	14	58	20	23	29	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4655078--4655124	23	2.0	24	83	8	60	57	17	8	17	1.63
4655588--4655636	15	3.1	17	75	24	61	38	18	0	42	1.50
4655582--4655629	15	3.2	14	76	23	53	39	14	0	45	1.45
4656489--4656540	23	2.3	23	86	0	77	40	21	17	21	1.91
4658036--4658060	2	12.5	2	100	0	50	48	0	0	52	1.00
4662060--4662141	2	40.0	2	80	4	92	46	4	3	45	1.42
4662246--4662329	27	3.0	27	84	5	105	40	3	8	47	1.51
4662253--4662344	29	3.2	29	84	4	107	41	3	8	46	1.51
4662309--4662541	37	6.3	37	83	11	273	45	3	4	45	1.42
4662613--4662672	3	19.3	3	83	6	75	28	1	0	70	0.97
4662613--4662672	25	2.4	25	91	0	93	28	1	0	70	0.97
4662615--4662677	16	4.1	15	82	8	74	25	1	0	73	0.93
4663958--4664002	23	1.9	24	86	4	65	22	6	0	71	1.09
4664028--4664054	3	9.0	3	100	0	54	33	0	0	66	0.92
4666224--4666798	287	2.0	287	95	0	1042	29	22	20	26	1.98
4667720--4667959	95	2.7	95	86	10	326	29	19	20	30	1.97
4669077--4669882	84	9.7	84	80	5	917	29	24	20	25	1.99
4669077--4669882	164	4.9	162	81	5	697	29	24	20	25	1.99
4669077--4669882	248	3.2	246	88	3	1152	29	24	20	25	1.99
4670505--4670569	2	32.5	2	87	6	96	47	1	3	47	1.27
4670583--4670793	98	2.1	98	78	17	222	43	3	7	45	1.49
4670629--4670757	62	2.1	63	86	4	181	39	3	6	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4670681--4670974	38	7.8	37	79	14	255	44	3	5	46	1.42
4671046--4671099	3	17.3	3	81	7	63	27	1	0	70	0.98
4671020--4671089	25	2.9	25	81	10	74	34	1	2	61	1.20
4671046--4671099	25	2.2	25	89	0	81	27	1	0	70	0.98
4671046--4671104	16	3.8	16	82	6	61	25	1	0	72	0.93
4672354--4672418	15	4.3	15	75	5	60	20	4	0	75	0.98
4673051--4673342	110	2.7	110	90	0	449	34	23	16	26	1.95
4673665--4674294	252	2.5	251	87	1	902	33	23	18	24	1.97
4675250--4675277	13	2.2	13	100	0	56	7	7	28	57	1.52
4675324--4675396	2	39.5	2	80	15	77	45	0	0	54	0.99
4675338--4675433	33	2.8	35	86	12	137	41	0	0	58	0.98
4675350--4675433	34	2.5	34	96	1	152	40	0	0	59	0.97
4675322--4675428	23	4.6	24	64	25	52	43	0	0	56	0.99
4676436--4676480	20	2.2	20	80	7	56	22	6	8	62	1.48
4679818--4679930	50	2.3	50	82	1	138	17	36	26	19	1.94
4680054--4680088	10	3.5	10	85	14	54	34	25	0	40	1.56
4680220--4680546	105	3.0	111	91	4	540	37	7	10	45	1.66
4682430--4682459	9	3.3	9	95	0	51	30	13	36	20	1.90
4682673--4682756	35	2.4	32	76	16	87	26	5	10	57	1.56
4702333--4702369	20	1.9	19	89	10	58	45	10	24	18	1.81
4702518--4702592	37	2.1	37	87	7	109	45	4	0	50	1.20
4703473--4703682	72	2.9	72	92	3	343	30	18	21	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4705972--4706060	43	2.1	43	89	0	133	21	12	19	47	1.82
4708107--4708152	14	3.3	14	82	11	58	73	2	0	23	0.94
4720120--4720176	27	2.1	27	100	0	114	33	24	24	17	1.96
4721471--4721589	59	2.0	59	85	3	159	42	8	21	27	1.81
4721681--4721782	31	3.3	31	91	0	159	22	17	19	40	1.92
4722548--4722588	22	1.9	22	90	5	66	17	24	34	24	1.96
4722619--4722677	12	4.9	12	76	15	59	20	23	20	35	1.96
4727187--4727215	10	2.9	10	100	0	58	72	0	0	27	0.85
4737707--4737741	4	8.5	4	87	6	52	22	5	0	71	1.07
4737758--4737879	39	3.2	38	82	6	156	45	13	5	36	1.67
4737895--4737970	39	1.9	40	83	2	100	47	10	5	36	1.61
4737799--4738053	97	2.6	98	79	4	293	45	12	7	35	1.69
4738131--4738290	39	3.8	40	73	17	128	42	12	5	40	1.64
4738145--4738242	49	2.0	50	83	2	126	40	13	6	39	1.69
4738317--4738434	39	3.0	39	85	2	148	46	12	6	33	1.68
4738194--4738485	136	2.2	136	83	3	347	43	11	6	38	1.68
4738425--4738668	58	4.2	57	79	5	231	39	10	10	40	1.73
4738468--4738678	116	1.8	116	81	6	266	35	11	10	41	1.77
4738818--4739068	45	5.6	45	72	10	176	40	13	9	36	1.77
4739238--4739284	23	2.0	23	91	0	76	51	8	2	38	1.45
4740777--4740890	35	3.1	34	70	15	111	39	9	8	42	1.69
4740737--4740864	40	3.3	40	71	14	142	39	9	10	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4740732--4740890	75	2.1	75	97	2	304	37	9	10	42	1.71
4741008--4741094	41	2.1	41	100	0	174	37	6	13	41	1.72
4741505--4741532	14	2.0	14	100	0	56	71	0	0	28	0.86
4743770--4743796	10	2.7	10	100	0	54	0	7	0	92	0.38
4746099--4746423	161	2.0	163	98	1	636	29	15	20	34	1.93
4750707--4750797	45	2.0	45	97	0	173	32	9	10	46	1.72
4751945--4751984	20	2.0	20	85	0	53	45	15	7	32	1.74
4752056--4752149	39	2.4	39	87	3	127	40	17	4	38	1.69
4752074--4752332	96	2.7	97	84	4	310	44	12	5	37	1.66
4751967--4752246	135	2.1	134	85	5	368	42	14	6	36	1.71
4752270--4752428	39	3.8	39	73	20	108	42	11	5	40	1.62
4752285--4752380	49	2.0	49	89	0	147	40	11	6	41	1.66
4752333--4752428	39	2.5	39	84	6	131	38	12	6	42	1.68
4752476--4752548	34	2.1	35	87	2	103	42	12	8	36	1.72
4752334--4752599	133	2.0	137	82	5	326	43	10	6	39	1.65
4752792--4752942	45	3.4	44	80	4	167	38	14	10	36	1.81
4759710--4759771	31	2.0	31	100	0	124	29	6	6	58	1.48
4759974--4760017	21	2.1	21	83	8	54	27	13	20	38	1.90
4760568--4760658	45	2.0	45	97	0	173	31	9	10	47	1.72
4761011--4761064	2	28.0	2	92	7	94	50	0	0	50	1.00
4769066--4769099	9	3.7	9	88	7	50	29	0	14	55	1.40
4769264--4769367	2	52.0	2	100	0	208	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)
4770404--4770460	23	2.5	23	82	0	69	19	26	24	29	1.98
4770498--4770531	17	2.1	17	88	5	52	32	23	5	38	1.79
4771606--4771668	26	2.4	26	100	0	126	14	44	9	31	1.77
4772256--4772311	21	2.7	21	83	5	69	21	21	17	39	1.93
4778625--4778662	19	2.1	18	85	14	51	10	23	0	65	1.23
4779324--4779378	20	2.7	19	83	8	65	34	18	20	27	1.95
4794123--4794153	14	2.2	14	100	0	62	51	0	6	41	1.27
4796028--4796078	19	2.7	19	96	0	93	29	27	21	21	1.99
4796126--4796425	20	14.7	21	81	5	89	24	22	17	36	1.94
4796186--4796436	20	12.4	20	85	11	298	25	21	16	36	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29