genome.fa.s8003.2.7.7.80.10.50.1000.2.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: VEPZ01008003.1 Hibiscus syriacus cultivar Beakdansim tig00110462_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3297763

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

This is table  2  of  14  ( 1618 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)
210975--211016	20	2.0	21	90	4	68	42	7	9	40	1.65
216952--216989	20	1.9	20	88	0	58	13	31	31	23	1.93
217403--217475	22	3.2	21	67	14	56	41	6	17	34	1.76
217413--217487	23	3.3	22	67	22	64	40	8	18	33	1.80
217387--217499	46	2.5	46	90	4	178	42	6	17	33	1.74
217677--217741	17	3.6	17	72	22	60	20	24	30	24	1.98
217648--217743	38	2.5	38	91	0	156	26	23	27	22	2.00
217897--217938	20	2.0	21	90	4	68	42	7	9	40	1.65
219667--219768	51	2.0	51	96	0	186	30	4	26	38	1.77
220572--220623	15	3.2	17	72	22	58	38	19	0	42	1.51
221161--221215	3	18.7	3	96	3	103	34	0	0	65	0.93
224164--224220	20	2.8	20	74	10	62	43	12	7	36	1.69
233661--233686	2	13.0	2	100	0	52	50	0	0	50	1.00
234333--234426	29	3.2	29	84	6	100	39	5	1	54	1.30
234590--234650	29	2.1	30	87	3	88	63	3	3	29	1.26
239442--239475	16	2.1	16	88	0	50	50	0	2	47	1.16
239517--239550	16	2.0	18	88	11	54	26	2	5	64	1.30
240015--240262	130	1.9	130	93	0	424	35	12	15	36	1.86
240659--240734	35	2.2	35	90	0	116	36	1	22	39	1.63
242018--242042	2	12.5	2	100	0	50	48	0	0	52	1.00
242276--242327	6	8.7	6	95	0	95	48	1	32	17	1.58
252020--252060	22	1.9	22	85	5	57	51	0	12	36	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
255113--255143	10	3.2	10	95	4	55	9	0	6	83	0.79
256175--256208	10	3.4	10	87	0	50	20	5	0	73	1.04
266431--267341	105	8.7	105	97	0	1655	33	26	18	22	1.97
267769--267809	11	3.6	11	83	3	55	46	9	0	43	1.36
270503--270560	29	2.0	29	89	0	89	13	36	25	24	1.92
270600--270646	10	4.7	10	84	10	69	25	38	25	10	1.88
270599--270636	20	1.9	20	100	0	76	26	36	26	10	1.89
270597--270704	33	3.4	32	85	3	130	24	30	34	11	1.90
270631--270717	33	2.6	33	90	0	129	25	28	35	10	1.89
270764--270846	23	3.6	23	91	3	123	9	37	26	26	1.87
270829--270896	14	4.9	14	96	0	118	8	27	39	23	1.84
272721--272767	18	2.4	20	86	10	62	27	2	8	61	1.36
284208--284250	3	14.3	3	85	9	61	0	34	0	65	0.93
285677--285718	22	1.9	22	90	0	66	28	21	21	28	1.99
286250--286319	21	3.3	21	90	4	106	31	21	22	24	1.98
290767--292059	4	330.2	4	88	5	1761	25	50	19	4	1.67
292042--292149	35	3.1	36	87	5	157	31	32	17	18	1.94
292130--292286	8	19.6	8	89	0	233	31	24	18	25	1.98
292129--292286	16	9.9	16	97	0	298	31	24	18	25	1.97
298992--299032	15	2.6	16	84	7	57	51	4	0	43	1.23
314515--314593	24	3.3	24	96	0	131	17	27	22	31	1.97
321449--321478	15	1.9	15	93	6	51	6	30	20	43	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
327535--327566	2	16.0	2	93	0	55	46	0	3	50	1.17
329520--329544	6	4.2	6	100	0	50	48	0	52	0	1.00
331974--332034	16	3.6	16	91	8	86	40	11	24	22	1.87
351652--351697	19	2.3	19	88	11	65	34	2	4	58	1.30
360514--360599	29	3.0	29	92	0	136	38	17	5	38	1.74
372830--372915	35	2.5	35	84	0	100	40	20	1	37	1.61
372884--372926	21	2.0	21	100	0	86	46	13	0	39	1.44
373049--373082	16	2.0	18	88	11	54	26	2	5	64	1.30
373552--373800	131	1.9	130	92	0	417	36	13	14	35	1.85
385536--385587	23	2.2	24	74	16	56	21	13	17	48	1.81
391503--391549	20	2.3	20	92	0	76	46	23	10	19	1.80
391517--391588	19	3.6	19	78	14	74	40	20	12	26	1.88
391765--391802	16	2.5	15	84	12	51	31	2	0	65	1.06
394859--394887	6	4.8	6	100	0	58	65	17	0	17	1.27
395197--395235	14	2.9	14	82	17	55	41	30	20	7	1.80
395359--395494	37	3.5	37	69	13	112	51	16	1	30	1.53
395413--395446	14	2.4	14	90	0	59	47	17	0	35	1.48
395350--395503	79	2.0	78	93	1	263	50	16	1	31	1.54
396463--396504	2	21.5	2	95	4	77	50	0	0	50	1.00
396884--397002	21	5.7	21	78	6	107	24	21	32	21	1.98
396884--397002	42	2.8	42	76	9	118	24	21	32	21	1.98
399204--399243	20	2.0	20	85	0	53	15	12	22	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399571--399617	22	2.2	21	85	7	60	23	10	42	23	1.85
399582--399628	22	2.1	22	92	0	76	19	12	44	23	1.85
399743--399896	20	7.7	20	74	10	136	19	14	24	41	1.89
399744--399896	40	3.8	39	87	5	184	19	14	24	41	1.88
399762--399931	80	2.1	80	82	4	200	22	14	23	39	1.91
400189--400273	41	2.1	41	90	0	134	32	10	15	41	1.81
403168--403257	31	2.9	32	71	18	82	14	10	31	44	1.78
403466--403551	38	2.3	38	80	9	97	17	8	32	41	1.79
404538--404621	44	1.9	44	90	4	134	38	19	13	29	1.89
406011--406453	225	2.0	222	92	3	746	44	8	7	39	1.62
406519--406565	21	2.3	20	86	13	69	55	10	17	17	1.69
406686--406732	20	2.4	19	89	10	76	55	10	17	17	1.69
406690--406737	20	2.6	18	84	15	62	56	10	14	18	1.66
408957--409021	21	3.1	21	80	6	69	40	15	29	15	1.88
409052--409117	33	2.0	33	90	0	105	28	0	48	22	1.51
410895--410943	19	2.6	19	93	0	80	30	2	10	57	1.43
411062--412417	198	6.9	199	96	2	2548	36	16	16	30	1.91
413871--413942	3	24.0	3	78	0	72	34	5	34	25	1.79
413857--413941	27	3.0	28	82	8	100	35	7	35	22	1.81
415133--415825	181	3.8	183	95	1	1216	36	14	16	32	1.89
415133--415825	364	1.9	365	93	3	1216	36	14	16	32	1.89
415821--415862	22	1.9	22	85	9	59	30	11	11	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418685--418747	23	2.8	23	85	2	83	38	6	19	36	1.77
419022--419071	25	2.0	24	92	3	82	32	8	20	40	1.81
419319--419355	18	2.1	18	89	0	56	32	5	10	51	1.60
419311--419357	24	2.0	24	86	0	67	34	4	14	46	1.64
419613--419735	39	3.2	39	97	0	228	48	20	13	17	1.80
420134--420192	23	2.6	22	86	5	82	37	6	16	38	1.76
420134--420207	22	3.4	21	80	12	69	35	5	18	40	1.74
420584--420631	23	2.1	23	92	0	78	33	16	12	37	1.86
424154--424206	25	2.1	25	92	0	88	7	24	26	41	1.81
424196--424252	22	2.6	22	94	0	96	17	21	26	35	1.95
424351--424423	10	6.8	12	90	3	65	24	53	19	2	1.58
424378--424426	5	9.8	5	100	0	98	20	59	20	0	1.38
424988--425040	22	2.4	22	87	0	88	37	26	16	18	1.93
434831--434967	39	3.5	39	85	2	168	21	30	22	24	1.99
434857--434983	39	3.3	39	87	0	137	22	30	19	26	1.98
440820--440847	14	2.0	14	100	0	56	35	7	7	50	1.57
451204--451267	27	2.5	26	82	9	80	54	12	7	25	1.64
451216--451269	27	2.0	27	92	0	90	50	14	9	25	1.73
451531--451608	2	39.0	2	100	0	156	50	0	0	50	1.00
453957--454012	20	2.8	19	76	7	58	53	7	17	21	1.67
453754--454227	182	2.6	182	86	2	648	43	13	16	27	1.84
454148--454194	20	2.4	19	82	10	67	53	10	17	19	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454157--454199	20	2.3	19	88	11	63	51	11	16	20	1.75
455225--456278	180	5.9	180	92	4	1715	41	12	16	28	1.86
455225--456278	353	2.9	356	92	4	1771	41	12	16	28	1.86
455644--456278	182	3.5	181	93	1	1069	42	13	16	27	1.85
456414--456461	23	2.1	23	92	0	78	37	14	8	39	1.76
456414--456576	87	1.9	87	90	2	265	34	13	9	42	1.76
456488--456548	23	2.7	23	81	0	77	34	14	6	44	1.72
459731--459763	16	2.1	16	88	5	50	63	0	6	30	1.18
469236--469306	31	2.2	32	82	7	83	33	9	0	56	1.32
469588--469640	20	2.7	20	90	0	79	16	18	26	37	1.93

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