genome.fa.s7748.2.7.7.80.10.50.1000.20.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: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4568288

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   

This is table  20  of  24  ( 2778 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)
3840928--3841004	37	2.1	37	83	9	95	46	1	3	48	1.28
3850464--3850538	10	7.7	10	68	21	52	12	12	18	57	1.65
3850470--3850542	16	4.7	16	88	3	105	12	10	17	58	1.61
3850470--3850534	32	2.0	32	96	0	121	10	12	20	56	1.65
3850601--3850641	16	2.6	16	100	0	82	7	12	24	56	1.61
3855757--3855814	20	2.9	20	92	0	89	43	27	10	18	1.83
3858909--3858975	2	33.5	2	100	0	134	49	0	0	50	1.00
3863681--3863731	19	2.6	20	90	3	77	43	23	17	15	1.88
3863681--3863874	20	9.4	20	68	13	79	40	19	21	19	1.91
3863939--3863972	12	3.1	11	91	8	52	29	52	17	0	1.45
3864649--3864692	6	7.7	6	97	2	74	0	18	52	29	1.46
3864769--3864812	20	2.2	20	91	0	70	11	18	15	54	1.70
3864801--3865116	20	15.5	20	79	7	197	19	22	18	39	1.92
3864801--3864991	40	4.7	40	88	3	265	20	24	17	37	1.94
3864832--3865012	83	2.2	83	92	0	299	20	25	17	36	1.94
3865068--3865116	19	2.5	20	90	3	73	16	16	22	44	1.86
3870296--3870339	19	2.4	18	78	10	54	59	0	0	40	0.98
3870302--3870342	19	2.1	19	86	13	57	56	0	0	43	0.99
3870543--3870591	23	2.2	22	82	10	55	53	4	2	40	1.32
3870669--3870721	11	4.4	12	79	11	56	49	1	0	49	1.12
3870685--3870739	23	2.4	22	84	9	65	47	0	1	50	1.11
3873604--3873988	158	2.5	151	84	9	469	17	28	13	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3874791--3874844	2	27.0	2	100	0	108	50	0	0	50	1.00
3875293--3875371	31	2.4	35	79	16	96	44	0	2	53	1.14
3876447--3877379	6	158.7	6	95	4	1717	66	17	0	16	1.26
3879104--3879140	19	1.9	19	94	0	65	35	32	13	18	1.90
3879187--3879234	20	2.4	20	89	0	69	27	25	16	31	1.97
3880056--3880109	24	2.2	24	90	0	81	18	18	22	40	1.91
3880299--3880335	14	2.6	14	91	4	56	51	21	21	5	1.68
3882567--3882663	20	4.8	20	87	0	131	31	17	19	30	1.95
3882702--3882779	20	3.9	20	86	0	102	12	17	24	44	1.84
3882898--3882934	14	2.6	14	100	0	74	48	21	0	29	1.50
3884333--3884372	21	1.9	21	94	0	71	27	27	25	20	1.99
3884848--3884891	20	2.2	20	95	0	79	52	20	11	15	1.74
3884970--3885007	20	1.9	20	88	0	58	15	15	15	52	1.75
3884975--3885050	34	2.2	34	83	4	91	15	18	18	47	1.83
3885058--3885130	20	3.7	20	88	0	92	15	19	24	41	1.89
3885042--3885118	40	1.9	40	83	0	100	18	18	24	38	1.92
3887046--3887132	20	4.4	20	83	1	86	43	24	16	16	1.87
3887522--3887579	22	2.6	22	94	0	98	17	17	44	20	1.86
3887715--3887851	20	6.8	20	69	12	55	28	18	21	32	1.96
3889277--3889316	15	2.6	16	88	4	55	27	5	2	65	1.27
3889278--3889316	16	2.5	15	87	4	51	28	5	2	64	1.28
3891180--3891256	34	2.2	35	80	11	88	62	15	1	20	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3893525--3893575	16	3.2	16	83	5	59	66	1	0	31	1.03
3893539--3893577	17	2.4	16	86	4	51	66	2	0	30	1.05
3895027--3895407	108	3.4	107	68	11	264	38	14	14	32	1.87
3894935--3895482	226	2.4	226	90	1	823	39	14	14	31	1.87
3901780--3901815	2	18.0	2	100	0	72	50	0	0	50	1.00
3902298--3902715	205	2.0	208	94	2	736	31	14	20	32	1.93
3904335--3904385	21	2.4	21	80	0	57	27	5	5	60	1.43
3905013--3905082	34	2.1	32	86	5	95	22	30	15	31	1.95
3905433--3905529	20	4.8	20	87	5	126	32	23	26	16	1.96
3905564--3905607	22	2.0	23	86	4	63	22	22	29	25	1.99
3906976--3907152	87	2.0	89	93	2	304	28	10	7	52	1.64
3907051--3907111	19	3.2	19	75	9	61	29	13	4	52	1.61
3908253--3908292	21	1.9	21	85	10	55	12	10	37	40	1.77
3908405--3908477	20	3.7	20	88	3	103	31	19	27	21	1.97
3908499--3908568	13	5.2	13	72	16	54	22	21	31	24	1.98
3908498--3908565	20	3.2	20	76	17	75	23	20	32	23	1.98
3908512--3908554	22	1.9	23	85	4	61	23	20	30	25	1.99
3909461--3909555	2	47.5	2	97	0	181	49	0	1	49	1.07
3911310--3911334	2	12.5	2	100	0	50	52	0	0	48	1.00
3911382--3911580	56	3.6	56	88	0	292	38	16	18	26	1.92
3924824--3924868	19	2.4	19	85	7	56	31	28	26	13	1.94
3925109--3925168	12	5.2	12	80	6	61	38	5	0	56	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3925110--3925168	23	2.5	24	78	8	59	38	5	0	55	1.22
3926318--3926373	24	2.2	24	81	12	69	53	3	1	41	1.29
3926330--3926380	24	2.2	23	82	10	59	56	5	0	37	1.23
3930520--3930607	3	28.7	3	80	4	86	56	0	1	42	1.06
3930756--3931396	113	5.7	112	83	5	665	29	18	14	38	1.90
3930756--3931360	225	2.7	225	86	5	837	29	18	13	38	1.89
3930756--3931398	226	2.8	223	85	6	816	29	18	14	38	1.90
3932209--3932859	83	7.8	83	93	1	1077	36	21	13	28	1.91
3933996--3934061	10	7.0	10	80	16	79	1	15	0	83	0.72
3933996--3934057	19	3.2	19	90	2	97	1	12	0	85	0.67
3944675--3944712	20	1.9	20	88	0	58	60	0	5	34	1.19
3946757--3946850	3	30.7	3	81	4	107	58	0	1	40	1.05
3948159--3948338	64	2.9	63	86	8	183	56	1	0	41	1.09
3948171--3948253	24	3.2	25	78	14	89	55	1	0	43	1.07
3948184--3948338	64	2.5	64	90	6	239	56	1	0	41	1.10
3948203--3948287	40	2.2	37	85	12	109	55	1	0	43	1.07
3956237--3956351	56	2.1	56	90	3	178	37	14	20	27	1.92
3957105--3957140	2	18.0	2	100	0	72	0	50	0	50	1.00
3958165--3958223	29	2.0	29	83	6	75	22	22	16	38	1.93
3959123--3959164	19	2.2	19	95	0	75	30	14	16	38	1.89
3961435--3961520	19	4.5	19	100	0	172	44	4	26	24	1.73
3961894--3961940	19	2.4	20	82	7	69	31	12	17	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3961953--3962095	40	3.6	40	73	11	121	36	12	23	27	1.91
3964937--3965092	29	5.4	29	88	0	195	19	21	17	41	1.91
3966035--3966063	3	9.7	3	100	0	58	65	0	0	34	0.93
3972451--3972489	19	2.0	21	90	10	64	28	5	0	66	1.12
3972446--3972489	22	2.0	21	86	4	61	29	6	0	63	1.20
3984062--3984733	105	6.4	105	92	0	1094	33	25	17	23	1.96
3987468--3987496	15	1.9	15	100	0	58	48	27	6	17	1.72
3987712--3987997	95	3.1	95	61	18	238	38	4	11	46	1.59
3987614--3988181	183	3.1	183	94	1	973	41	3	8	46	1.51
3988494--3988554	16	3.7	16	69	6	50	52	1	0	45	1.10
3988869--3988964	32	3.1	32	82	7	108	48	3	7	40	1.46
3991472--3991503	6	5.3	6	100	0	64	34	15	50	0	1.45
3993776--3993812	2	19.0	2	94	5	67	48	0	0	51	1.00
3995795--3995840	24	2.0	23	82	4	56	50	15	6	28	1.69
4001353--4001421	27	2.6	27	93	4	115	43	15	10	30	1.80
4009933--4009977	2	22.5	2	100	0	90	51	0	0	48	1.00
4012451--4012573	31	4.0	31	77	11	119	29	19	21	30	1.97
4012570--4012631	30	2.1	30	100	0	124	24	19	24	32	1.98
4017161--4017285	31	4.0	31	79	9	137	29	19	20	30	1.97
4017282--4017343	30	2.1	30	100	0	124	24	19	24	32	1.98
4020858--4020921	20	3.3	18	74	23	58	56	1	0	42	1.09
4021176--4021875	52	13.6	52	91	2	1139	29	25	16	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4021137--4021875	307	2.4	310	91	3	1190	29	25	16	28	1.97
4021871--4022097	55	4.1	55	94	0	400	28	27	15	28	1.96
4023373--4023423	20	2.5	20	87	6	77	3	1	1	92	0.51
4023373--4023423	1	51.0	1	84	0	66	3	1	1	92	0.51
4023410--4023478	8	8.8	8	77	17	65	11	11	0	76	1.01
4023400--4023479	9	8.8	9	71	22	60	10	11	0	78	0.96
4029854--4029887	17	2.0	17	94	0	59	50	17	11	20	1.77
4032252--4032299	3	16.3	3	81	12	55	60	2	0	37	1.09
4032252--4032315	21	3.1	21	77	11	69	56	1	0	42	1.09
4032477--4032679	76	2.7	76	85	5	268	19	23	32	24	1.98

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