genome.fa.s9067.2.7.7.80.10.50.1000.2.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: VEPZ01009067.1 Hibiscus syriacus cultivar Beakdansim tig00112491_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2329927

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  2  of  10  ( 1150 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)
294758--294790	16	2.0	17	94	5	59	42	21	0	36	1.53
295041--295065	12	2.1	12	100	0	50	32	0	28	40	1.57
295872--295949	39	2.0	39	100	0	156	41	20	17	20	1.91
298946--299172	99	2.3	99	89	2	348	32	23	13	29	1.93
302431--302460	7	4.4	7	95	4	53	90	0	10	0	0.47
306402--306448	13	3.6	13	82	0	58	70	10	2	17	1.26
307490--307542	19	2.7	19	80	13	54	49	7	0	43	1.31
308643--308676	9	3.9	9	84	7	52	61	2	0	35	1.11
308639--308677	17	2.4	17	95	4	71	61	5	0	33	1.18
312736--312817	29	2.8	29	92	1	128	32	14	10	41	1.81
317500--317581	29	2.8	29	92	1	128	32	14	10	41	1.81
322127--322202	38	2.0	37	82	2	89	48	3	2	44	1.35
324591--324682	31	3.0	31	87	4	123	39	6	13	41	1.70
324835--324864	2	15.0	2	100	0	60	50	0	0	50	1.00
346546--346586	11	3.6	11	87	6	55	24	4	4	65	1.32
346798--346828	2	15.5	2	100	0	62	48	0	0	51	1.00
346984--347020	2	18.5	2	100	0	74	48	0	0	51	1.00
347156--347180	13	1.9	13	100	0	50	16	0	4	80	0.87
352411--352571	64	2.5	64	81	12	188	34	18	20	27	1.95
352447--352571	64	1.9	65	88	6	191	36	16	20	27	1.94
353059--353093	18	1.9	18	88	11	54	54	5	17	22	1.64
354421--354465	23	2.0	23	90	0	72	22	26	26	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
353990--354453	149	3.1	149	96	1	833	26	17	21	34	1.95
357593--357753	64	2.5	64	82	12	197	33	18	21	27	1.96
357629--357753	64	1.9	65	90	6	200	35	16	20	27	1.94
358245--358279	18	1.9	18	88	11	54	54	5	17	22	1.64
359165--359623	149	3.1	149	94	3	788	27	17	21	33	1.96
359591--359635	23	2.0	23	90	0	72	22	26	26	24	2.00
366920--368312	106	13.2	106	90	1	2093	33	24	17	23	1.96
369062--369158	37	2.6	37	81	0	122	40	15	11	32	1.83
369716--369783	23	2.8	23	86	10	84	25	7	0	67	1.16
369829--369864	11	3.2	11	92	4	54	19	8	5	66	1.38
370392--370462	13	5.9	12	74	12	65	16	2	2	77	1.01
370385--370462	22	3.6	21	77	14	63	16	2	3	76	1.04
371749--371846	28	3.2	33	78	14	100	18	8	29	43	1.79
371762--371850	28	2.9	32	80	14	123	19	6	26	47	1.74
372673--372741	34	2.0	34	82	0	84	49	2	4	43	1.37
374271--374295	11	2.3	11	100	0	50	44	0	0	56	0.99
376016--376187	42	4.1	42	80	12	194	19	19	25	36	1.95
376016--376187	61	2.8	64	88	7	255	19	19	25	36	1.95
376024--376200	21	8.5	21	78	11	127	20	20	24	33	1.97
380969--381035	30	2.2	31	84	7	93	17	26	19	35	1.94
385189--385214	9	2.9	9	100	0	52	65	0	34	0	0.93
387390--387502	54	2.1	54	88	3	165	27	15	25	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390344--390389	21	2.2	21	88	3	67	52	15	17	15	1.76
392935--392960	11	2.4	11	100	0	52	65	0	0	34	0.93
397811--397873	27	2.3	27	89	5	92	30	33	17	19	1.95
399212--399253	21	2.0	22	85	4	59	33	0	2	64	1.07
399238--399262	13	1.9	13	100	0	50	28	0	0	72	0.86
399241--399809	43	13.3	42	70	12	266	24	17	6	51	1.69
399244--399809	86	6.6	86	73	11	342	24	17	6	51	1.69
399282--399804	85	6.1	86	74	11	387	24	17	6	51	1.70
401817--401962	60	2.4	60	76	6	152	43	6	18	32	1.75
403904--403991	23	3.8	23	80	14	108	18	26	26	29	1.98
440172--440232	32	1.9	32	86	6	88	21	6	36	36	1.79
450759--450840	32	2.6	32	98	0	155	32	6	14	46	1.69
452208--452447	119	2.0	118	95	0	435	38	14	14	32	1.87
462775--462814	18	2.2	18	100	0	80	45	5	0	50	1.23
462775--462858	31	2.7	30	78	12	89	41	2	2	53	1.27
462787--462884	18	5.4	17	75	13	72	41	1	3	54	1.23
462806--462889	19	4.6	18	73	19	68	39	0	3	57	1.16
462839--462889	24	2.1	24	82	7	59	35	0	3	60	1.15
468803--469857	106	10.0	106	95	0	1776	33	24	18	23	1.97
470048--470217	83	2.0	84	84	3	218	30	25	19	24	1.98
477788--478112	78	4.1	78	86	6	451	49	14	25	11	1.76
477788--478112	158	2.1	156	92	1	533	49	14	25	11	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486537--486597	17	3.4	17	68	24	52	29	19	11	39	1.87
486535--486613	38	2.1	39	97	2	151	31	15	12	40	1.84
490471--491039	106	5.4	106	94	0	949	33	24	18	23	1.97
491238--491541	85	3.6	85	87	1	405	28	23	19	27	1.98
492143--492193	17	3.2	16	78	15	61	47	0	1	50	1.12
492150--492190	11	3.9	11	78	9	50	43	0	0	56	0.99
493822--493882	17	3.4	17	68	24	52	29	19	11	39	1.87
493820--493898	38	2.1	39	97	2	151	31	15	12	40	1.84
494639--494763	63	2.0	63	91	0	205	51	3	12	32	1.56
502443--502584	32	4.4	32	68	13	83	14	9	33	42	1.78
503090--503136	18	2.7	18	90	3	69	31	12	6	48	1.66
503985--504024	21	2.0	20	85	5	53	47	0	7	45	1.31
504414--504468	23	2.4	24	87	6	78	40	0	5	54	1.23
505075--505136	29	2.1	29	82	5	72	38	6	1	53	1.37
505070--505119	22	2.3	23	80	16	61	40	6	2	52	1.38
506041--506075	2	17.5	2	100	0	70	51	0	48	0	1.00
516712--516769	3	20.0	3	79	13	50	65	1	5	27	1.23
516714--516772	29	2.0	29	87	6	84	64	3	6	25	1.34
516963--517252	46	6.7	45	74	13	211	23	19	32	24	1.98
516964--517130	82	2.0	84	85	7	230	24	20	31	23	1.98
516925--517258	128	2.6	128	91	2	519	24	20	31	23	1.98
517376--517450	36	2.1	36	82	9	91	45	12	17	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517340--517457	63	1.9	62	86	8	168	43	11	16	27	1.84
517445--517524	36	2.3	35	82	10	92	38	15	16	30	1.89
517781--517998	121	1.8	120	84	4	296	40	13	14	31	1.84
517974--518063	27	3.3	27	87	0	135	45	15	11	27	1.80
518410--518546	36	3.8	36	79	5	152	36	12	18	32	1.89
518902--518939	4	10.0	4	88	11	62	23	0	26	50	1.50
518903--518947	12	3.5	13	82	11	58	20	0	28	51	1.48
526050--526109	11	5.3	11	77	13	59	65	1	5	28	1.23
526058--526112	28	2.0	28	88	0	83	63	3	7	25	1.37
526350--526447	23	4.2	23	81	11	119	29	24	28	17	1.97
526386--526455	23	3.0	23	85	4	97	28	22	30	18	1.98
526835--526946	2	56.0	2	100	0	224	50	50	0	0	1.00
526946--526981	2	18.0	2	100	0	72	50	0	0	50	1.00
529543--529588	18	2.6	18	96	0	83	43	13	23	19	1.86
533143--533687	279	2.0	277	94	1	957	37	17	13	31	1.89
538668--538714	22	2.1	23	88	4	69	23	12	25	38	1.90
544910--544941	15	2.2	15	94	5	57	34	6	3	56	1.40
545018--545151	20	6.4	21	69	14	73	51	1	1	45	1.19
545014--545066	22	2.4	21	84	6	70	52	0	1	45	1.11
545018--545064	21	2.2	22	88	7	71	53	0	2	44	1.12
545112--545141	15	2.0	15	93	0	51	50	0	0	50	1.00
545159--545224	11	5.8	12	72	13	59	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545189--545235	15	3.1	15	79	14	60	48	0	0	51	1.00
545189--545236	22	2.2	22	85	7	62	47	0	0	52	1.00
549131--549169	2	19.5	2	94	0	69	48	2	0	48	1.15
550323--550369	13	3.2	15	82	14	62	19	12	17	51	1.77
550558--550582	10	2.5	10	100	0	50	0	16	20	64	1.30
550648--550713	28	2.4	28	94	0	114	33	25	21	19	1.97
559725--559768	21	2.1	21	86	0	61	38	15	36	9	1.80
566880--566988	57	1.9	57	88	1	166	27	16	24	31	1.96
566935--567072	65	2.1	65	80	7	165	28	16	23	31	1.96
566974--567020	19	2.5	19	83	10	62	25	17	31	25	1.97

Tables:   1   2   3   4   5   6   7   8   9   10