genome.fa.s6400.2.7.7.80.10.50.1000.3.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: VEPZ01006400.1 Hibiscus syriacus cultivar Beakdansim tig00015426_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1412076

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 869 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)
374714--374798	22	4.2	21	68	24	58	50	12	21	15	1.77
374663--374800	39	3.7	39	85	8	189	47	13	21	18	1.81
374938--374983	3	16.7	3	80	17	55	39	0	0	60	0.97
374938--374983	8	5.6	8	78	21	51	39	0	0	60	0.97
374936--374981	11	4.3	11	91	2	76	39	0	0	60	0.97
378096--378170	40	1.9	38	83	5	96	44	13	12	30	1.80
379530--379738	109	1.9	109	90	0	328	39	7	9	43	1.66
381230--381417	35	5.4	35	80	10	199	44	4	8	42	1.54
381340--381401	25	2.5	25	76	2	72	43	4	8	43	1.55
381256--381424	69	2.4	70	86	9	224	43	4	8	43	1.55
381509--381544	15	2.4	15	90	0	54	19	8	0	72	1.10
381507--381557	26	1.9	26	84	11	68	17	7	1	72	1.18
381507--381563	26	2.2	26	81	9	62	17	7	1	73	1.14
388371--388601	35	6.2	36	78	13	220	46	3	8	41	1.51
388362--388532	36	4.8	36	84	5	197	46	3	8	41	1.52
390868--390902	3	12.0	3	87	6	54	31	2	0	65	1.07
391528--391556	2	14.5	2	100	0	58	51	0	0	48	1.00
395014--395054	20	2.0	20	90	0	64	34	17	12	36	1.87
395390--395414	5	5.0	5	100	0	50	80	0	20	0	0.72
395471--395498	2	14.0	2	100	0	56	50	0	0	50	1.00
396960--397023	32	2.0	32	81	6	76	43	1	4	50	1.32
397355--397397	22	2.0	22	86	4	61	51	0	2	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397355--397417	21	3.0	22	82	13	62	52	0	3	44	1.17
401326--401350	2	12.5	2	100	0	50	52	0	0	48	1.00
401792--401855	19	3.3	19	86	2	83	31	25	34	9	1.87
409632--409766	42	3.1	43	69	8	114	27	16	4	51	1.63
410774--410805	17	1.9	17	93	6	57	46	18	6	28	1.73
410982--411033	26	2.0	26	88	0	77	32	19	17	30	1.95
414916--414945	3	10.0	3	100	0	60	66	0	0	33	0.92
415196--415691	138	3.6	138	83	3	550	24	16	28	30	1.96
416637--416738	7	14.3	7	79	11	66	9	8	0	81	0.88
416641--416682	8	5.1	8	97	2	75	11	0	0	88	0.53
416678--416717	9	4.3	9	84	6	53	5	15	0	80	0.88
416645--416717	16	4.2	19	79	11	61	8	8	0	83	0.81
418841--418871	7	4.4	7	95	0	53	51	0	16	32	1.44
427726--427761	16	2.2	16	100	0	72	11	27	22	38	1.88
429588--429612	12	2.1	12	100	0	50	40	16	8	36	1.77
431285--431342	3	19.3	3	100	0	116	67	0	0	32	0.91
431580--431604	2	12.5	2	100	0	50	52	0	0	48	1.00
439322--439365	21	2.1	21	95	0	79	22	25	25	27	2.00
441438--441474	13	2.8	13	95	0	65	72	0	27	0	0.84
442143--442304	88	1.8	88	100	0	324	25	12	14	46	1.80
446544--446593	23	2.3	21	74	12	55	34	24	18	24	1.96
457512--457550	19	2.1	19	95	4	71	64	0	20	15	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463273--463297	3	8.3	3	100	0	50	36	0	64	0	0.94
465762--465790	8	3.6	8	100	0	58	51	0	0	48	1.00
475241--475636	36	11.4	36	78	11	360	38	13	20	27	1.90
475241--476406	137	8.7	137	77	13	716	38	13	20	27	1.90
475413--475600	101	1.9	101	85	2	261	37	13	20	28	1.90
475616--475657	21	2.0	21	100	0	84	42	9	19	28	1.82
475569--475754	57	3.1	57	83	7	203	40	12	19	27	1.88
475443--475794	194	1.8	194	90	1	571	39	12	20	27	1.89
475709--476276	36	16.4	36	73	14	419	38	13	20	27	1.90
475626--475901	101	2.6	105	87	4	382	39	12	20	27	1.89
475809--475862	21	2.6	21	100	0	108	35	9	25	29	1.87
475853--476038	101	1.8	101	95	0	336	39	14	19	26	1.90
475988--476277	101	2.9	101	93	0	481	38	14	21	26	1.91
476108--476172	21	3.4	21	64	24	61	38	12	24	24	1.90
476025--476147	65	1.9	65	89	3	194	36	15	21	26	1.93
476254--476298	21	2.1	21	88	8	65	42	15	15	26	1.87
476144--476398	122	2.1	122	93	0	438	38	14	20	26	1.91
476052--476490	223	2.0	224	92	0	727	38	14	19	28	1.91
476312--476485	36	5.0	36	73	15	150	37	13	20	27	1.91
476430--476563	37	3.6	36	74	14	121	36	10	18	34	1.85
476421--476563	36	3.9	35	72	16	105	37	10	18	32	1.85
476925--477013	38	2.3	38	82	3	108	34	15	13	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478278--478334	6	10.2	6	78	17	61	0	14	1	84	0.71
478278--478342	11	6.0	11	81	13	73	0	15	1	83	0.73
478293--478342	16	3.2	15	83	8	64	0	16	0	84	0.63
478293--478326	5	6.8	5	87	12	52	0	14	0	85	0.60
478280--478361	35	2.3	37	80	6	96	1	14	4	79	0.96
479664--479783	35	3.3	36	89	6	181	30	5	20	44	1.72
480183--480217	16	2.1	17	89	5	54	34	0	22	42	1.54
482185--482235	19	2.7	19	100	0	102	25	25	27	21	1.99
482205--482364	64	2.5	63	84	6	198	35	19	20	25	1.96
482853--482888	17	2.0	19	89	10	58	44	5	11	38	1.63
483023--483115	30	3.1	30	79	11	100	26	18	21	33	1.96
483044--483149	30	3.5	30	79	3	88	24	17	24	33	1.97
483894--484013	35	3.3	36	89	6	181	30	5	20	44	1.72
487086--487115	15	2.0	15	93	0	51	26	16	13	43	1.85
493822--493925	43	2.4	42	78	10	113	36	16	20	26	1.93
493910--494021	43	2.6	43	86	0	170	26	14	25	33	1.94
494036--494227	44	4.4	44	85	0	242	33	15	21	29	1.94
494340--494384	22	2.0	22	86	0	63	33	20	6	40	1.78
494821--495135	83	3.8	81	78	8	314	30	22	15	31	1.95
494821--495141	41	7.8	40	69	14	165	30	22	15	31	1.95
494814--495124	163	1.9	165	82	4	387	30	22	15	31	1.95
494987--495147	42	3.9	41	74	11	141	31	22	16	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495610--495764	42	3.8	41	73	12	147	30	22	16	30	1.96
494886--496132	623	2.0	623	99	0	2485	32	23	15	27	1.95
498054--498150	35	3.0	32	74	15	108	58	8	5	27	1.48
498238--498278	21	1.9	21	85	5	55	51	0	2	46	1.14
498477--498525	6	8.7	6	84	13	68	69	0	12	18	1.19
498481--498524	21	2.1	21	100	0	88	68	0	13	18	1.22
498488--498518	15	2.1	15	100	0	62	67	0	12	19	1.22
498560--498585	13	2.0	13	100	0	52	23	23	15	38	1.92
500679--500792	60	1.9	60	82	10	144	35	15	4	44	1.67
502201--502231	15	2.1	15	100	0	62	25	32	6	35	1.82
509007--509630	249	2.5	250	89	3	959	32	18	17	32	1.94
509007--509630	126	5.0	125	88	3	932	32	18	17	32	1.94
512734--512769	18	2.0	18	100	0	72	27	11	55	5	1.57
517979--518038	29	2.1	29	90	0	93	35	26	20	18	1.95
519537--519591	23	2.4	23	93	0	92	30	27	25	16	1.96
531648--531694	21	2.1	21	84	11	58	31	19	19	29	1.96
535429--535458	15	2.0	15	100	0	60	40	13	20	26	1.89
535847--535889	21	2.1	21	91	4	70	39	4	0	55	1.20
537247--537290	20	2.2	20	92	4	72	36	11	22	29	1.89
537317--537351	17	2.1	17	94	5	63	34	11	5	48	1.63
539906--539945	2	20.0	2	94	0	71	47	2	0	50	1.14
541230--541362	60	2.2	59	87	1	185	33	24	4	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542308--542460	71	2.2	71	91	0	243	31	39	10	18	1.84
542865--542912	25	2.0	25	87	4	71	33	12	2	52	1.51
544622--544693	20	3.6	20	84	0	90	44	20	20	13	1.86
544682--544735	21	2.6	21	93	0	90	29	25	16	27	1.97
547611--547664	25	2.1	25	86	6	72	31	1	33	33	1.69
547693--547865	81	2.2	80	91	3	285	35	18	9	36	1.84
550800--550855	24	2.4	23	79	8	60	33	3	1	60	1.24
558408--558443	2	18.0	2	100	0	72	50	0	0	50	1.00
568491--568564	21	3.5	22	69	14	66	45	2	0	51	1.15
568838--568877	2	20.0	2	100	0	80	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8