genome.fa.s8090.2.7.7.80.10.50.1000.2.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: VEPZ01008090.1 Hibiscus syriacus cultivar Beakdansim tig00110600_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  750292

Tables:   1   2   3   

This is table  2  of  3  ( 319 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)
273974--274181	105	2.0	103	94	3	364	32	16	20	29	1.95
275438--275641	105	1.9	105	87	3	295	37	13	27	20	1.91
275543--276218	189	3.6	188	82	4	829	41	11	26	20	1.86
279497--279801	84	3.6	82	69	8	213	44	12	23	18	1.84
280252--280280	14	2.0	15	93	6	51	55	0	0	44	0.99
281622--281651	14	2.1	14	93	0	51	30	20	13	36	1.90
283948--284110	81	2.0	81	80	4	186	37	15	31	14	1.89
290260--290284	13	1.9	13	100	0	50	80	0	4	16	0.87
292411--292886	51	8.9	55	83	7	456	23	24	17	33	1.96
292896--293052	53	2.9	53	89	5	235	28	27	14	29	1.95
294047--294092	16	2.8	17	83	6	58	10	10	0	78	0.97
294063--294092	8	3.6	8	95	4	51	13	3	0	83	0.77
304065--304102	16	2.3	16	95	4	67	36	28	7	26	1.84
305768--305792	13	1.9	13	100	0	50	80	0	4	16	0.87
307951--308049	21	4.8	21	68	9	69	26	18	21	34	1.96
308012--308065	20	2.6	21	91	2	83	22	14	31	31	1.94
310180--310308	60	2.2	60	78	2	134	33	17	17	31	1.93
324640--324698	25	2.4	25	94	0	109	52	6	0	40	1.28
326435--326587	60	2.5	60	80	4	166	35	22	4	37	1.75
343373--343439	28	2.4	28	85	5	82	29	8	8	52	1.63
343401--343627	117	2.0	116	83	8	293	29	11	4	53	1.58
345108--345220	35	3.2	34	88	5	163	41	23	1	33	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
346511--346582	30	2.4	30	92	0	117	30	25	20	23	1.99
346570--346697	31	4.1	32	79	7	138	29	20	17	32	1.96
347851--348071	64	3.5	64	83	6	243	27	19	19	33	1.96
349380--349491	35	3.2	34	89	2	161	34	0	22	41	1.60
356040--356079	18	2.2	18	95	0	71	52	0	15	32	1.43
360001--360092	31	3.0	31	86	0	121	50	7	14	28	1.70
363956--364011	25	2.3	24	76	11	60	55	1	0	42	1.10
365369--365399	12	2.6	12	94	0	53	25	0	22	51	1.48
372381--372415	19	1.9	19	88	11	56	48	2	0	48	1.16
374014--374047	17	2.1	16	88	5	50	14	0	2	82	0.79
375361--375404	2	22.0	2	100	0	88	50	0	0	50	1.00
375932--375994	3	21.0	3	93	0	108	33	3	0	63	1.10
376415--376469	19	2.8	19	83	2	65	60	3	1	34	1.25
378986--379064	38	2.1	37	95	2	140	34	17	25	22	1.96
390713--390741	2	14.5	2	100	0	58	48	0	0	51	1.00
391087--391152	31	2.1	31	91	0	105	43	4	9	42	1.56
394962--394988	10	2.7	10	100	0	54	18	11	11	59	1.60
405903--405956	29	2.0	26	89	10	81	48	0	0	51	1.00
407208--407273	28	2.4	28	100	0	132	31	24	22	21	1.98
407631--407738	52	2.1	52	100	0	216	25	11	35	28	1.90
410072--410684	143	4.2	143	89	6	911	22	14	17	45	1.85
410072--410684	290	2.1	284	89	7	925	22	14	17	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415821--415862	21	2.0	21	90	0	66	38	14	11	35	1.83
417098--417131	3	11.3	3	100	0	68	67	0	0	32	0.91
422957--423093	60	2.3	60	82	7	154	37	12	14	35	1.84
423410--423512	50	2.1	49	81	5	118	43	11	7	36	1.70
434054--434087	16	2.1	16	89	10	52	82	0	5	11	0.83
434072--434111	21	1.9	21	85	10	55	70	0	12	17	1.18
434929--434978	21	2.4	21	89	0	82	26	14	28	32	1.94
435033--435061	6	5.0	6	91	8	51	17	65	17	0	1.27
435665--435842	41	4.3	41	84	4	232	38	23	16	20	1.93
435691--435842	22	7.2	22	76	9	147	38	24	17	19	1.93
440147--440181	3	11.7	3	100	0	70	68	0	31	0	0.90
440862--440911	4	12.0	4	79	8	55	48	22	2	28	1.62
441617--441677	30	2.0	31	96	3	115	44	6	19	29	1.76
462405--462461	30	1.9	30	92	0	96	61	0	17	21	1.35
462457--462485	2	14.5	2	100	0	58	51	0	0	48	1.00
463452--463477	3	8.7	3	100	0	52	65	0	0	34	0.93
466136--466168	14	2.4	14	94	0	57	21	3	6	69	1.24
466307--466358	24	2.2	24	82	0	59	17	9	11	61	1.55
469081--469449	20	18.5	20	84	4	449	34	26	18	20	1.95
470132--470178	24	2.0	24	87	8	69	25	14	21	38	1.92
470352--470376	12	2.1	12	100	0	50	72	0	28	0	0.86
472651--472943	19	16.4	19	83	14	401	47	17	21	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472651--472910	71	3.6	71	92	5	404	46	17	21	14	1.83
472903--472957	14	3.6	14	76	21	56	47	20	21	10	1.80
472651--472965	52	5.9	55	84	13	389	46	17	21	13	1.83
472972--473068	20	5.4	19	83	14	134	14	23	17	44	1.86
473178--473214	14	2.6	14	91	0	65	45	21	0	32	1.52
475132--475260	19	7.3	19	75	17	125	45	28	17	8	1.77
475168--475260	33	2.8	32	91	4	150	46	27	18	7	1.76
475132--475260	52	2.5	52	74	14	140	45	28	17	8	1.77
475256--475374	19	6.8	19	76	18	105	10	20	21	47	1.81
475278--475334	14	3.7	14	77	20	60	10	21	22	45	1.82
475261--475353	33	2.8	33	93	0	159	11	20	20	47	1.81
475325--475390	19	3.4	19	87	6	89	10	16	27	45	1.80
475434--476087	92	7.1	93	98	1	1248	45	19	12	22	1.83
477792--477881	14	5.7	14	72	23	72	41	23	25	10	1.85
477784--477898	33	3.5	33	92	0	203	44	20	24	10	1.83
477791--477903	19	6.8	18	70	23	79	42	22	24	10	1.85
477915--477969	14	3.6	14	73	21	56	9	25	23	41	1.83
477899--477969	33	2.2	33	94	0	124	8	22	25	43	1.81
477910--477991	33	2.5	33	89	2	119	9	25	21	42	1.84
477922--478010	20	4.8	20	72	19	75	12	24	19	43	1.85
478090--478160	33	2.2	33	92	0	115	47	18	22	11	1.80
478542--478734	20	9.6	20	82	5	219	19	19	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478542--478734	60	3.2	60	83	0	251	19	19	25	35	1.95
478790--478841	20	2.6	20	96	0	95	21	13	26	38	1.90
480633--480825	93	2.1	93	98	0	368	40	18	12	27	1.87
486811--487154	5	68.8	5	99	0	634	58	20	1	19	1.48
502457--502538	20	3.9	21	76	13	80	24	34	25	15	1.95
508359--508410	17	3.2	17	75	10	54	50	13	3	32	1.60
514303--514449	78	1.9	80	87	7	219	31	21	14	32	1.94
516043--516068	7	3.7	7	100	0	52	11	0	0	88	0.52
516625--516687	13	4.6	13	75	16	56	63	4	1	30	1.24
516696--516735	21	1.9	21	94	0	71	42	25	2	30	1.68
517171--517209	2	19.5	2	100	0	78	51	0	0	48	1.00
517295--517319	2	12.5	2	100	0	50	52	0	0	48	1.00
518340--518383	16	2.8	16	92	0	79	56	0	9	34	1.31
523197--523357	60	2.7	60	81	3	173	40	5	25	28	1.78
525333--525360	2	14.0	2	100	0	56	50	0	0	50	1.00
526654--526729	36	2.1	36	97	0	143	40	19	0	39	1.52
531540--531605	12	5.5	12	88	0	105	24	24	27	24	2.00
531538--531605	24	2.8	24	95	0	127	23	23	29	23	1.99
532650--532770	42	3.1	42	80	18	140	42	0	0	57	0.98
532642--532751	2	61.5	2	71	21	66	43	0	0	56	0.99
533142--533191	25	2.0	25	88	0	73	8	20	48	24	1.76
536933--536976	19	2.3	19	100	0	88	18	4	45	31	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538080--538135	21	2.7	20	81	10	67	17	44	25	12	1.84
540139--540172	15	2.4	15	90	9	54	17	8	29	44	1.79
542773--542838	15	4.1	16	79	11	73	19	25	31	22	1.98
542773--542838	32	2.1	32	94	0	114	19	25	31	22	1.98
544212--544316	31	3.6	29	86	6	140	38	13	11	37	1.81
548819--548870	22	2.3	22	90	6	77	51	5	5	36	1.50
550182--550238	24	2.3	24	79	8	71	71	5	5	17	1.23
550456--550531	26	2.9	26	92	2	116	26	21	21	31	1.98
557305--557335	16	1.9	16	93	0	53	74	0	0	25	0.82
557481--557586	46	2.3	46	93	1	176	42	10	35	11	1.75

Tables:   1   2   3