genome.fa.s8436.2.7.7.80.10.50.1000.2.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: VEPZ01008436.1 Hibiscus syriacus cultivar Beakdansim tig00111234_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1066897

Tables:   1   2   3   4   

This is table  2  of  4  ( 431 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)
294485--294607	33	3.5	33	90	8	165	46	18	24	10	1.81
294624--294680	14	3.7	14	72	20	51	10	24	21	43	1.83
294608--294687	33	2.4	33	93	0	133	10	21	21	47	1.79
294668--294741	21	3.5	21	78	7	87	16	20	16	47	1.83
294821--294890	32	2.2	33	89	2	106	48	17	22	11	1.79
295269--295442	20	8.6	20	87	5	244	18	18	28	33	1.95
295410--295461	20	2.6	20	90	0	77	11	17	26	44	1.83
295455--295504	21	2.4	20	80	9	55	26	18	20	36	1.95
295429--295527	42	2.4	42	77	11	98	21	18	22	38	1.93
296906--296990	29	2.9	29	87	3	118	12	32	29	24	1.93
297002--297065	23	2.8	23	92	0	110	9	40	28	21	1.84
297029--297105	33	2.3	33	90	0	127	10	36	31	22	1.88
298025--298083	29	2.0	30	83	3	75	22	13	13	50	1.76
304324--304567	123	2.0	120	89	4	373	22	23	18	35	1.95
307433--307475	8	5.2	8	97	2	77	88	0	0	11	0.52
311283--311380	35	2.8	35	83	7	126	21	24	18	35	1.95
317856--317953	38	2.5	39	86	1	135	26	17	23	32	1.96
318676--318714	19	2.1	19	85	9	53	38	0	2	58	1.12
318675--318730	30	2.0	29	82	10	71	37	0	1	60	1.07
326777--326816	2	20.0	2	100	0	80	50	0	0	50	1.00
331790--331842	10	5.7	10	78	13	60	56	0	1	41	1.10
337006--337058	27	1.9	28	88	3	81	30	5	22	41	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
349070--349116	18	2.6	18	82	3	58	17	19	48	14	1.81
349920--349953	3	11.7	3	87	6	52	70	0	0	29	0.87
355080--355130	2	25.5	2	100	0	102	50	0	0	49	1.00
360863--360912	23	2.0	24	81	11	57	32	6	0	62	1.20
364145--364255	59	1.9	58	86	1	159	26	17	10	45	1.80
368737--368787	26	1.9	27	84	4	68	62	13	0	23	1.31
381745--381769	13	1.9	13	100	0	50	32	20	16	32	1.94
385285--385318	6	5.7	6	100	0	68	64	0	0	35	0.94
385474--385651	89	2.0	89	100	0	356	28	30	13	28	1.94
391826--391865	19	2.1	19	85	0	53	30	0	2	67	1.04
397483--397540	29	2.0	29	82	0	71	15	34	25	24	1.95
397580--397643	24	2.7	24	85	2	76	25	35	28	10	1.89
397688--397715	14	2.0	14	100	0	56	21	42	28	7	1.79
397702--397745	20	2.2	20	100	0	88	25	36	29	9	1.86
397682--397804	10	11.3	10	71	16	75	23	30	35	9	1.87
397730--397816	33	2.6	33	89	3	122	26	26	37	9	1.86
397820--397875	29	1.9	29	88	0	85	25	28	33	12	1.92
397944--397976	17	1.9	17	100	0	66	18	24	36	21	1.95
402246--402282	2	18.5	2	100	0	74	51	0	0	48	1.00
410816--410923	34	2.9	38	82	10	152	36	20	21	22	1.96
410812--410928	38	3.2	37	81	9	159	35	21	21	22	1.96
411070--411177	42	2.6	42	79	1	119	24	20	23	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
410918--411356	215	2.1	213	91	1	700	32	15	19	31	1.94
411300--411582	80	3.5	80	92	0	458	30	18	21	28	1.97
412017--412141	53	2.4	53	84	0	169	28	20	27	24	1.99
413902--413949	2	24.0	2	100	0	96	50	0	0	50	1.00
420688--420717	2	15.5	2	93	6	53	0	50	0	50	1.00
428608--428741	72	1.9	72	88	3	207	41	3	5	48	1.45
428826--428855	2	15.0	2	100	0	60	50	0	0	50	1.00
429608--429647	12	3.4	12	96	3	73	57	0	10	32	1.32
430502--430531	11	2.6	11	94	5	51	26	0	3	70	1.03
432871--432945	31	2.4	33	77	11	84	60	1	0	38	1.06
432868--432947	34	2.5	31	83	8	97	61	1	0	37	1.04
434451--434529	41	1.9	41	97	0	149	32	15	7	44	1.74
437041--437067	13	2.1	13	100	0	54	37	7	25	29	1.83
443862--443939	2	39.0	2	100	0	156	50	0	50	0	1.00
450015--450320	153	2.0	153	88	1	452	31	13	23	32	1.93
462943--462985	16	2.6	17	77	3	52	58	0	0	41	0.98
464173--464213	21	2.0	21	90	0	64	39	2	2	56	1.26
464277--464333	28	2.0	28	86	0	78	43	3	3	49	1.36
466109--466133	6	4.2	6	100	0	50	0	84	0	16	0.63
466087--466307	105	2.1	102	89	7	334	17	57	4	20	1.55
480248--480376	60	2.2	60	84	2	161	31	12	4	51	1.60
480606--480693	19	4.5	19	67	20	65	52	3	7	36	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480782--480916	27	5.0	27	99	0	261	40	14	7	37	1.73
481062--481104	2	21.5	2	90	0	50	48	6	0	44	1.29
483692--483776	31	2.7	31	76	8	91	42	18	5	32	1.75
497533--497566	12	2.8	12	90	0	50	20	23	0	55	1.43
498834--498879	2	23.0	2	100	0	92	50	0	0	50	1.00
518999--519185	98	1.9	98	93	2	322	28	16	17	37	1.91
521912--522001	45	2.0	45	97	0	171	21	20	8	50	1.75
522470--522667	102	1.9	102	95	0	360	27	19	12	40	1.88
525957--525996	17	2.4	17	95	0	71	45	5	2	47	1.38
529936--529971	10	3.9	10	89	10	51	41	0	0	58	0.98
535544--535580	15	2.4	15	90	4	56	64	2	5	27	1.28
535544--535581	16	2.4	16	90	0	58	65	2	5	26	1.27
536074--536115	21	2.0	21	95	0	75	50	9	11	28	1.70
537100--537162	3	21.0	3	100	0	126	33	0	0	66	0.92
537279--537312	2	17.0	2	88	11	52	47	0	2	50	1.16
544297--544325	2	14.5	2	100	0	58	48	0	0	51	1.00
576547--576598	26	2.0	27	84	3	70	21	15	13	50	1.78
587152--587214	23	2.7	23	92	0	99	38	20	4	36	1.74
587572--587644	23	3.2	23	92	0	119	38	21	5	34	1.77
587406--588481	491	2.2	489	97	0	2037	40	12	7	39	1.71
588063--588135	23	3.2	23	94	0	119	39	21	4	34	1.73
591502--591563	23	2.7	23	90	2	90	38	20	4	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591921--591954	16	2.1	16	94	0	59	26	20	5	47	1.73
593148--593227	3	26.7	3	71	0	61	22	31	7	38	1.82
593149--593227	12	6.3	12	80	8	86	21	31	7	39	1.81
593149--593227	18	4.2	18	75	9	68	21	31	7	39	1.81
594710--595463	199	3.8	199	95	0	1312	29	17	15	38	1.90
595582--595630	19	2.6	19	93	0	80	57	10	2	30	1.43
597419--597482	33	1.9	33	90	0	101	23	46	0	29	1.52
597516--597559	21	2.1	21	91	0	70	15	31	11	40	1.83
599767--599809	20	2.3	18	85	14	61	20	16	11	51	1.75
599772--599819	20	2.3	20	82	3	69	18	16	10	54	1.70
599739--600213	182	2.6	182	89	2	697	26	17	13	42	1.86
603847--603891	23	1.9	23	82	13	56	15	26	6	51	1.68
603831--605021	448	2.7	440	86	5	1490	28	18	14	38	1.90
604632--604680	16	2.9	17	74	17	57	22	18	10	48	1.77
603831--605058	113	11.0	113	90	4	1459	28	17	14	38	1.90
605460--605514	22	2.5	22	90	0	92	38	14	12	34	1.84
605905--605980	40	1.9	40	91	0	125	30	23	14	31	1.94
608039--608262	114	2.0	113	92	0	376	31	20	14	33	1.93
610450--610497	6	7.5	6	80	13	51	0	20	0	79	0.74
610453--610495	21	2.0	21	91	8	70	0	23	0	76	0.78
610461--610493	14	2.3	15	89	5	50	0	21	0	78	0.75
613748--613801	14	3.8	14	85	2	63	51	9	14	24	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615385--615453	19	3.5	19	73	15	52	68	1	2	27	1.13
620295--620319	2	12.5	2	100	0	50	48	0	52	0	1.00
623540--623617	37	2.2	37	81	9	90	65	1	8	24	1.29
623574--623611	20	1.9	20	88	0	58	63	2	7	26	1.35
623674--623772	34	3.0	33	79	7	94	61	6	4	28	1.38
624103--624195	37	2.5	37	83	0	105	32	12	12	41	1.81
624923--625973	106	10.0	106	91	2	1636	23	18	25	33	1.97
624923--625973	423	2.5	422	92	2	1706	23	18	25	33	1.97
627375--627427	28	1.9	28	88	3	81	3	11	7	77	1.10
628576--628614	8	5.0	8	84	6	53	58	12	17	10	1.61

Tables:   1   2   3   4