genome.fa.s7739.2.7.7.80.10.50.1000.3.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: VEPZ01007739.1 Hibiscus syriacus cultivar Beakdansim tig00109999_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  642700

Tables:   1   2   3   4   

This is table  3  of  4  ( 373 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)
347406--347461	17	3.4	17	82	7	80	62	0	0	37	0.95
347389--347461	8	9.0	8	78	15	55	64	0	0	35	0.94
347685--347789	40	2.6	41	82	7	117	22	17	24	35	1.95
347688--347789	41	2.5	41	81	9	120	22	17	24	35	1.95
348006--348107	40	2.5	41	80	4	100	22	21	23	32	1.98
348162--348267	40	2.6	41	83	4	117	25	18	20	34	1.96
347686--348699	319	3.2	318	87	2	1392	27	19	20	32	1.97
347686--348706	161	6.4	161	83	4	1237	27	19	20	32	1.97
348482--348583	40	2.5	41	82	4	109	24	22	22	30	1.99
347686--348706	158	6.4	159	81	7	1090	27	19	20	32	1.97
351816--352357	181	3.0	181	97	0	1021	28	21	15	34	1.94
358093--358124	16	2.0	16	93	0	55	6	28	6	59	1.46
365119--365164	21	2.2	21	84	0	56	8	28	36	26	1.86
365125--365185	21	2.8	22	85	5	70	14	24	36	24	1.93
365145--365207	20	2.9	21	79	9	65	15	25	34	23	1.95
369131--369156	7	3.7	7	100	0	52	38	15	0	46	1.46
373063--373096	3	11.0	3	93	6	59	67	0	0	32	0.91
377913--377962	22	2.3	22	89	0	73	46	20	24	10	1.81
378826--378881	29	1.9	29	89	7	87	46	7	0	46	1.30
382125--382164	20	2.0	20	85	0	53	37	22	20	20	1.94
383100--383161	25	2.5	25	76	5	63	46	16	11	25	1.80
384485--384535	22	2.3	22	93	0	84	33	29	25	11	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391378--391477	22	4.5	22	83	0	137	30	28	25	17	1.97
394090--394115	3	8.7	3	100	0	52	69	0	0	30	0.89
394331--394361	2	16.0	2	93	6	55	48	0	0	51	1.00
395823--395850	5	5.6	5	100	0	56	21	0	0	78	0.75
396518--396562	23	2.0	23	100	0	90	40	4	51	4	1.42
399301--399364	16	4.1	15	84	9	83	15	0	7	76	1.00
399301--399364	11	6.1	10	87	7	83	15	0	7	76	1.00
399301--399364	5	12.2	5	83	9	83	15	0	7	76	1.00
400735--400762	14	2.0	14	100	0	56	57	0	14	28	1.38
402704--402752	19	2.6	19	79	17	57	24	4	2	69	1.17
403804--403928	41	3.0	41	85	9	175	35	8	13	42	1.76
404564--404771	86	2.4	86	79	4	195	27	15	23	33	1.95
416792--416837	21	2.2	21	88	0	65	30	28	26	15	1.96
416864--416908	22	2.0	22	86	4	63	31	33	26	8	1.87
418211--418343	31	4.3	31	80	10	146	27	19	19	33	1.96
418297--418393	30	3.2	30	86	1	104	23	20	22	32	1.98
418325--418396	30	2.4	30	90	0	108	26	20	20	31	1.98
421814--421859	21	2.2	21	88	0	65	30	28	26	15	1.96
421886--421930	22	2.0	22	86	4	63	31	33	26	8	1.87
423233--423360	31	4.1	31	80	9	143	27	18	20	33	1.96
423346--423418	30	2.4	30	93	0	119	24	19	24	31	1.98
443102--443131	13	2.3	13	94	0	51	53	3	10	33	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454604--454645	14	2.9	14	85	7	57	14	30	0	54	1.40
456683--456711	6	5.0	6	95	4	51	68	0	13	17	1.20
457291--457333	20	2.2	20	91	0	68	32	13	20	32	1.92
458824--458865	18	2.3	18	84	8	50	28	33	7	30	1.84
461551--461598	19	2.5	20	86	3	62	31	14	2	52	1.54
464055--464143	20	4.6	20	71	14	62	38	0	2	59	1.10
464117--464175	23	2.5	23	91	8	93	32	0	1	66	1.02
464099--464174	14	6.2	13	67	28	51	35	0	1	63	1.03
464108--464175	23	2.9	22	87	10	91	33	0	1	64	1.02
466992--467025	3	11.7	3	93	6	61	70	0	0	29	0.87
473949--474007	31	1.9	31	96	0	109	28	8	20	42	1.81
475391--475435	21	2.1	21	95	0	81	37	0	0	62	0.96
475458--475551	21	4.5	21	95	0	161	61	4	11	22	1.47
478910--478949	13	2.9	13	85	10	53	30	25	22	22	1.99
487914--487970	28	2.1	27	80	9	62	49	1	1	47	1.22
492848--493002	45	3.5	45	74	8	181	20	20	18	40	1.91
492838--493013	45	3.9	46	72	9	139	20	20	18	40	1.91
492838--493008	89	1.9	89	96	0	315	21	20	18	40	1.92
493610--493664	22	2.5	22	84	3	74	41	16	10	30	1.83
499050--499080	16	1.9	16	93	0	53	41	6	12	38	1.69
501331--501392	24	2.6	24	84	0	70	24	8	17	50	1.73
501350--501439	24	3.8	24	84	0	117	23	6	16	53	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501457--501740	154	1.8	153	87	3	419	19	11	30	38	1.87
506916--506998	24	3.5	24	79	0	76	26	10	14	48	1.77
506940--507000	24	2.5	24	81	0	77	26	8	14	50	1.71
510129--510161	10	3.1	11	86	8	50	15	33	30	21	1.94
512649--512757	24	4.5	24	76	8	96	20	11	16	51	1.75
512781--513079	155	1.9	154	89	4	460	19	12	30	36	1.89
520754--520803	23	2.2	23	96	0	91	36	8	32	24	1.84
528587--528626	21	1.9	21	89	0	62	10	25	40	25	1.86
528997--529037	21	1.9	22	85	5	57	36	14	17	31	1.90
534493--534561	3	24.0	3	78	8	72	57	0	2	39	1.13
534500--534561	26	2.4	26	91	2	99	58	0	3	38	1.15
534502--534568	14	4.9	14	78	7	75	56	0	2	40	1.14
534738--535537	54	14.8	54	83	1	879	22	25	20	31	1.98
535538--535623	37	2.3	37	86	7	122	19	17	19	43	1.89
536663--536692	15	2.0	15	100	0	60	6	33	6	53	1.53
538001--538205	2	103.0	2	83	0	259	45	3	4	46	1.39
539882--539926	22	1.9	23	86	13	65	20	22	24	33	1.97
541370--542333	54	17.8	54	80	2	950	23	24	20	32	1.98
542332--542417	37	2.3	37	82	4	111	19	15	17	47	1.82
543653--543745	10	9.5	10	73	12	50	6	19	0	74	1.03
543653--543726	20	3.9	18	84	13	87	8	16	0	75	1.02
543664--543735	28	2.6	28	83	14	96	8	18	0	73	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543663--543725	18	3.3	18	87	12	83	9	15	0	74	1.06
543655--543754	38	2.7	36	76	14	96	6	21	0	73	1.05
552965--552998	18	1.9	17	88	5	50	35	5	14	44	1.70
555001--555064	31	2.1	31	87	0	92	26	6	9	57	1.54
560393--560592	5	40.8	5	72	23	71	82	0	16	1	0.75
560347--560586	7	33.6	7	82	12	278	81	0	15	2	0.81
560330--560597	40	6.6	40	76	17	204	80	0	16	3	0.84
560429--560586	1	158.0	1	71	0	109	85	0	14	0	0.60
561824--561908	37	2.3	36	87	4	116	47	18	14	20	1.83
561909--562388	54	8.9	54	88	1	696	31	22	25	21	1.98
561909--562388	107	4.5	108	89	1	696	31	22	25	21	1.98
561909--562388	161	3.0	161	89	2	723	31	22	25	21	1.98
562700--562763	27	2.4	27	87	7	94	46	0	0	53	1.00
568628--568659	15	2.1	15	94	0	55	25	18	9	46	1.79
575983--576051	4	18.5	4	77	16	60	84	0	15	0	0.63
575990--576059	1	70.0	1	73	0	50	85	0	14	0	0.59
575983--576053	8	9.0	8	75	18	69	84	0	15	0	0.62
575986--576061	20	3.8	20	81	11	84	82	0	17	0	0.66
575986--576057	37	1.9	37	86	5	101	84	0	15	0	0.62
576002--576059	24	2.6	22	75	21	59	86	0	13	0	0.58
577195--577671	83	5.6	83	87	5	697	26	12	22	38	1.89
577195--577723	166	3.1	174	89	5	833	28	12	21	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578163--578267	52	2.0	52	98	0	201	36	13	16	34	1.87
578565--579781	113	10.8	113	97	0	2302	37	16	19	26	1.92
579723--579836	40	3.0	40	91	7	191	48	10	22	18	1.79
580092--580164	3	24.0	3	83	2	74	43	0	0	56	0.99
580085--580152	24	2.8	24	100	0	136	45	0	0	54	0.99
592828--592866	14	2.5	16	88	12	55	69	0	12	17	1.19
594595--595031	106	4.1	106	90	0	640	21	17	24	36	1.95
595662--595746	37	2.3	37	81	4	91	42	15	17	24	1.88
601055--601087	13	2.7	13	86	13	52	81	0	0	18	0.68
603105--603455	106	3.3	105	79	5	393	32	18	25	23	1.97

Tables:   1   2   3   4