genome.fa.s8527.2.7.7.80.10.50.1000.22.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   30   31   32   
          33   34   35   36   37   

This is table  22  of  37  ( 4336 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)
5222567--5222623	14	3.7	14	75	20	60	8	24	22	43	1.81
5222551--5222631	33	2.5	33	95	0	144	8	22	22	46	1.78
5222608--5222683	21	3.7	21	83	3	109	11	25	17	46	1.82
5222607--5222684	41	1.9	41	97	0	147	12	25	16	44	1.83
5222763--5222833	33	2.2	33	89	0	106	49	18	21	11	1.78
5223014--5223068	22	2.5	22	81	0	74	20	16	40	23	1.91
5223215--5223368	20	7.7	20	81	7	168	18	18	26	37	1.93
5223214--5223368	40	3.8	40	82	4	186	18	18	26	37	1.93
5223335--5223432	21	4.7	21	75	6	74	22	18	21	37	1.94
5223335--5223433	42	2.4	43	77	11	100	22	18	22	37	1.94
5225643--5225711	24	2.8	24	82	4	84	13	4	21	60	1.49
5225708--5225802	23	4.1	23	83	2	91	23	13	20	43	1.87
5225762--5225811	23	2.2	23	88	0	73	20	18	24	38	1.93
5230683--5230750	24	2.8	24	71	10	66	23	11	14	50	1.76
5238241--5238305	19	3.4	19	78	0	85	41	26	12	20	1.87
5238259--5238347	19	4.7	19	80	0	106	38	22	11	28	1.88
5238241--5238327	38	2.3	38	91	0	147	41	24	11	22	1.87
5238504--5238542	16	2.5	15	84	8	51	28	5	0	66	1.12
5239249--5239304	24	2.3	24	81	0	67	23	16	21	39	1.92
5241409--5241442	17	2.0	17	88	11	52	55	23	2	17	1.55
5241890--5241943	28	1.9	28	84	0	72	48	20	0	31	1.50
5241907--5241943	14	2.6	14	100	0	74	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5242814--5243001	20	9.5	19	69	19	91	22	14	23	39	1.91
5242805--5242990	59	3.1	59	87	5	216	22	15	22	40	1.91
5242852--5243001	59	2.5	60	92	4	250	22	16	23	38	1.92
5242811--5243022	40	5.3	41	77	12	167	23	15	22	39	1.92
5246077--5246134	27	2.1	29	83	6	75	51	0	1	46	1.11
5247998--5248027	15	2.0	15	93	0	51	56	30	0	13	1.37
5251398--5251479	29	2.8	29	92	1	128	32	14	10	41	1.81
5258306--5258368	24	2.6	24	76	0	63	25	15	12	46	1.82
5275150--5275397	136	1.9	130	86	6	354	34	19	18	27	1.95
5277357--5277408	24	2.2	24	85	0	68	46	21	9	23	1.80
5282860--5282940	35	2.3	35	97	0	153	20	24	11	43	1.85
5284271--5284329	20	2.8	21	84	7	84	32	22	27	18	1.97
5285694--5285906	103	2.1	103	97	0	399	25	14	23	36	1.93
5285931--5285985	23	2.4	23	81	0	65	21	23	25	29	1.99
5288729--5288771	17	2.6	16	78	7	50	34	0	25	39	1.56
5289660--5289715	20	2.7	21	91	5	87	30	25	25	19	1.98
5289749--5289793	22	2.0	22	86	4	63	28	31	26	13	1.94
5290913--5290965	24	2.2	24	83	9	65	30	3	24	41	1.72
5291083--5291295	103	2.1	103	96	0	390	25	14	23	35	1.93
5291312--5291379	23	3.0	23	84	0	82	22	25	26	26	2.00
5294915--5294973	20	2.8	21	89	7	93	30	23	27	18	1.98
5295007--5295051	22	2.0	22	86	4	63	28	31	26	13	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5296347--5296559	103	2.1	103	94	0	381	25	13	23	37	1.92
5296576--5296643	23	3.0	23	84	0	82	23	26	25	25	2.00
5299328--5299356	15	2.0	15	93	6	51	34	0	24	41	1.55
5299828--5299899	29	2.4	29	81	2	81	19	19	27	33	1.96
5304837--5304891	28	2.0	28	85	0	74	36	20	16	27	1.93
5307099--5307152	19	2.8	20	84	15	71	3	24	9	62	1.41
5307333--5307369	16	2.4	16	95	4	67	16	18	56	8	1.64
5307489--5307575	3	29.0	3	85	0	120	59	0	0	40	0.97
5307488--5307586	18	5.3	18	75	13	78	59	0	0	40	0.97
5307847--5307995	80	1.9	77	83	4	190	25	18	16	40	1.90
5307925--5308525	113	5.3	114	91	3	912	28	20	14	37	1.91
5307925--5308560	339	1.9	340	89	2	1008	28	19	14	36	1.91
5309352--5309705	83	4.3	83	97	0	672	37	22	12	27	1.91
5317948--5317979	15	2.1	15	94	0	55	46	9	18	25	1.79
5321275--5321332	24	2.7	22	77	20	61	62	1	1	34	1.16
5322973--5323007	17	1.9	19	88	11	56	5	20	11	62	1.48
5322973--5323011	19	2.1	19	85	9	53	5	20	10	64	1.44
5323207--5323243	16	2.4	16	95	4	67	16	18	56	8	1.64
5323325--5323451	18	6.8	19	76	18	101	55	0	0	44	0.99
5323352--5323451	3	33.0	3	87	2	128	60	0	0	40	0.97
5324286--5324312	2	13.5	2	100	0	54	48	0	0	51	1.00
5324876--5324932	2	29.0	2	96	3	107	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5326434--5326532	49	2.0	49	96	0	180	30	6	14	49	1.67
5326434--5326510	26	3.1	25	64	17	61	29	6	15	48	1.70
5327276--5327335	17	3.4	17	76	19	52	8	18	8	65	1.45
5330182--5330221	2	20.5	2	94	5	73	50	0	0	50	1.00
5332405--5332457	21	2.5	21	78	6	63	20	24	18	35	1.95
5343495--5343549	28	2.0	28	92	0	92	32	21	16	29	1.95
5345505--5345552	25	1.9	25	82	0	60	47	2	2	47	1.25
5345907--5345943	16	2.3	16	90	0	56	29	18	5	45	1.72
5345985--5346083	49	2.0	49	88	0	144	29	7	13	50	1.67
5349193--5349361	74	2.3	74	97	0	320	34	2	22	39	1.69
5351627--5351679	21	2.5	21	78	6	63	20	24	18	35	1.95
5362662--5362716	28	2.0	28	92	0	92	32	21	16	29	1.95
5364663--5364710	25	1.9	25	82	0	60	47	2	2	47	1.25
5365053--5365089	16	2.3	16	90	0	56	29	18	5	45	1.72
5365131--5365229	49	2.0	49	88	0	144	29	7	13	50	1.67
5368491--5368520	2	15.5	2	93	6	53	50	0	0	50	1.00
5373824--5373861	15	2.7	14	84	11	51	57	0	0	42	0.98
5385889--5385926	20	1.9	20	84	10	51	36	0	10	52	1.36
5386200--5386275	33	2.4	32	78	8	93	43	6	13	36	1.70
5396695--5396745	22	2.3	22	93	0	84	31	25	25	17	1.97
5396703--5396747	22	2.0	22	100	0	90	26	26	26	20	1.99
5397039--5397110	29	2.5	29	90	0	108	38	12	11	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5397414--5397565	68	2.3	67	87	3	207	18	28	26	26	1.98
5397545--5397587	21	2.0	21	86	0	59	16	25	27	30	1.97
5403605--5403655	22	2.3	22	89	0	75	33	25	23	17	1.96
5403615--5403657	22	2.0	22	100	0	86	30	27	23	18	1.98
5403949--5404020	29	2.5	29	90	0	108	38	12	11	37	1.79
5404325--5404474	67	2.3	66	88	3	212	18	27	27	26	1.98
5407480--5407514	16	2.1	17	89	5	54	57	0	0	42	0.99
5409516--5409768	127	2.0	127	100	0	506	39	20	14	25	1.91
5414422--5414465	21	2.0	22	83	12	56	56	0	0	43	0.99
5422667--5422737	35	2.1	35	97	2	135	50	12	5	30	1.63
5423930--5423964	3	11.7	3	93	0	61	31	37	0	31	1.58
5431774--5431816	12	3.7	12	84	9	54	58	0	0	41	0.98
5432028--5432069	20	2.1	20	95	0	75	35	16	21	26	1.94
5432127--5432970	105	8.0	105	96	0	1535	22	17	25	34	1.96
5433762--5433811	23	2.2	23	92	0	82	2	10	0	88	0.61
5433762--5433812	11	5.0	10	85	9	68	1	11	0	86	0.66
5446101--5446143	12	3.7	12	84	9	54	58	0	0	41	0.98
5448576--5448600	12	2.1	12	100	0	50	40	16	8	36	1.77
5448843--5448873	15	2.0	16	93	6	55	54	6	0	38	1.26
5449409--5449447	20	1.9	20	89	5	60	51	0	0	48	1.00
5449409--5449454	24	2.0	21	84	12	56	50	0	0	50	1.00
5458895--5458952	29	2.0	29	90	3	91	24	29	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5459207--5459305	31	3.3	31	71	16	109	54	10	11	24	1.66
5460127--5460156	15	2.0	15	100	0	60	26	0	13	60	1.34
5462099--5462143	18	2.5	17	86	10	63	60	2	4	33	1.29
5462188--5462216	10	2.9	10	100	0	58	48	0	31	20	1.50
5463684--5463715	6	5.3	6	100	0	64	34	18	31	15	1.93
5467667--5467700	15	2.2	16	89	5	52	76	5	0	17	0.98
5469291--5469439	25	6.0	25	97	0	264	31	14	20	33	1.93
5469569--5469632	3	22.0	3	84	12	89	67	0	1	31	1.00
5469834--5470126	87	3.3	87	87	4	370	24	19	28	27	1.98
5469894--5470031	41	3.2	41	73	13	143	25	18	29	26	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   25   26   27   28   29   30   31   32   
          33   34   35   36   37