genome.fa.s7833.2.7.7.80.10.50.1000.3.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: VEPZ01007833.1 Hibiscus syriacus cultivar Beakdansim tig00110177_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  816380

Tables:   1   2   3   4   

This is table  3  of  4  ( 409 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)
451405--451444	21	1.9	21	89	0	62	17	22	17	42	1.89
451442--451488	20	2.3	20	92	0	76	40	23	17	19	1.91
451442--451504	20	3.2	20	86	4	65	39	22	15	22	1.92
452505--452540	14	2.5	14	90	4	54	58	22	13	5	1.56
454575--454663	20	4.4	20	81	2	108	38	24	19	17	1.93
454575--454663	40	2.2	40	88	4	135	38	24	19	17	1.93
454719--454803	33	2.5	33	92	1	134	14	23	18	43	1.87
454916--454952	14	2.6	14	86	0	56	48	21	0	29	1.50
456307--456418	42	2.7	42	76	8	104	22	17	37	22	1.94
456898--456966	20	3.5	20	89	0	93	36	21	20	21	1.95
456999--457150	19	8.2	19	80	9	138	11	19	23	46	1.82
457198--457576	94	4.0	93	96	1	659	47	18	12	21	1.82
459265--459320	20	2.8	20	81	10	78	41	21	23	14	1.89
459256--459344	40	2.5	33	80	12	97	44	20	22	12	1.84
459376--459466	20	4.6	20	82	9	114	12	17	19	50	1.77
460003--460214	20	10.5	20	72	12	166	20	17	24	37	1.94
460004--460214	40	5.2	41	88	1	302	20	18	23	37	1.94
460223--460275	20	2.7	20	90	0	79	13	15	24	47	1.81
460263--460378	21	5.6	21	71	10	78	21	19	25	33	1.97
460825--460872	23	2.1	23	84	0	60	37	6	18	37	1.76
461483--461530	20	2.4	20	75	6	53	14	18	14	52	1.75
461309--461754	182	2.5	182	89	1	664	27	14	13	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461631--462202	112	5.1	112	91	0	898	25	13	14	46	1.81
462770--462854	31	2.7	31	87	0	116	30	15	9	44	1.78
463457--463516	31	2.0	31	86	3	86	31	23	20	25	1.98
468882--469470	55	10.7	55	86	2	749	31	24	16	27	1.97
468882--469477	219	2.7	220	84	4	812	31	23	16	27	1.97
468876--469475	274	2.2	274	88	3	870	31	23	17	27	1.97
470848--470988	7	19.7	7	75	13	110	10	14	0	75	1.05
470842--470994	45	3.3	46	83	9	172	11	13	0	75	1.04
470842--471000	61	2.6	62	78	17	172	10	13	0	75	1.05
480642--480729	45	1.9	46	86	4	124	32	21	14	30	1.94
481660--481741	41	2.0	41	97	0	155	25	14	35	24	1.94
485359--485457	50	2.0	50	85	0	135	17	32	27	23	1.96
488614--488700	35	2.5	36	82	15	103	55	9	8	27	1.60
488908--488957	21	2.4	21	89	0	73	14	34	18	34	1.90
488921--488960	21	1.9	21	100	0	80	12	37	20	30	1.89
489293--489350	18	3.2	18	85	0	80	24	18	27	29	1.98
490844--491065	111	2.0	111	92	0	372	45	10	8	36	1.68
491189--491229	10	4.1	10	84	12	57	39	0	29	31	1.57
491351--491448	50	2.0	50	85	4	135	25	30	29	14	1.95
492898--493434	243	2.2	244	88	0	779	34	12	16	36	1.87
497559--497600	19	2.2	19	100	0	84	35	14	0	50	1.43
497919--497954	16	2.3	15	90	4	54	41	0	5	52	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504109--504138	2	15.0	2	100	0	60	50	0	0	50	1.00
508406--508453	24	2.0	24	95	0	87	14	41	8	35	1.76
514802--514903	32	3.3	31	84	10	136	33	16	17	32	1.93
519014--519117	31	3.3	31	86	5	140	38	16	15	29	1.89
520017--520054	20	1.9	20	88	0	58	26	18	18	36	1.94
526315--526531	113	1.9	112	93	0	371	24	12	14	48	1.78
526431--526742	111	3.0	101	84	8	378	26	12	12	48	1.76
526851--527102	75	3.4	74	80	6	276	33	13	11	42	1.79
528105--528146	21	2.0	20	86	4	57	38	14	7	40	1.73
532452--532493	21	2.0	20	86	4	57	38	14	7	40	1.73
534882--534923	21	2.0	20	86	4	57	38	14	7	40	1.73
544861--544894	14	2.3	15	85	10	52	70	0	0	29	0.87
555917--555967	20	2.6	20	90	3	77	25	17	33	23	1.96
556034--556087	19	2.7	21	88	5	85	24	18	37	20	1.94
559472--559590	21	5.7	20	84	10	141	24	18	33	23	1.97
559514--559580	13	5.9	13	67	31	55	25	19	35	19	1.95
560168--560230	30	2.1	29	85	11	83	49	12	6	31	1.66
560179--560237	30	2.0	29	93	3	100	44	13	6	35	1.71
560901--560968	3	23.0	3	78	14	70	35	1	0	63	1.04
560901--560968	21	3.3	20	85	6	82	35	1	0	63	1.04
566498--566529	15	2.1	15	94	0	55	25	15	6	53	1.65
579376--579442	21	3.1	21	73	23	75	28	19	22	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579337--579442	44	2.4	44	90	3	160	27	20	21	30	1.98
579364--579434	23	3.2	22	74	22	76	25	22	22	29	1.99
581341--581394	26	2.1	26	82	6	65	20	0	27	51	1.47
583401--583461	6	10.8	6	80	16	69	80	0	18	1	0.80
583387--583460	22	3.4	20	85	14	94	79	0	17	2	0.84
583401--583461	28	2.2	28	91	5	97	80	0	18	1	0.80
584127--584160	17	1.9	17	88	5	50	50	14	14	20	1.78
584331--585041	123	5.7	123	80	9	676	39	15	18	25	1.90
585176--585216	14	2.9	14	85	7	57	31	0	2	65	1.05
585178--585216	20	2.0	20	94	0	69	33	0	2	64	1.08
585181--585213	17	1.9	17	93	0	57	33	0	3	63	1.10
585177--585216	3	14.0	3	84	10	57	32	0	2	65	1.06
586791--587001	105	2.0	105	100	0	422	44	5	2	46	1.41
587390--587430	2	20.5	2	94	0	73	48	2	0	48	1.14
591278--591304	14	1.9	14	100	0	54	40	0	0	59	0.98
591646--591687	18	2.3	19	87	4	59	42	2	4	50	1.36
595746--595787	22	1.9	22	90	0	66	45	2	0	52	1.13
595866--595911	18	2.5	19	75	10	51	45	2	0	52	1.13
595995--596166	91	1.9	89	79	9	190	50	4	0	45	1.20
596144--596203	22	2.7	22	78	2	57	51	0	3	45	1.17
596473--596517	18	2.5	18	88	0	72	33	11	28	26	1.91
601362--601449	46	1.9	46	92	0	149	35	7	31	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601505--601999	4	122.2	4	68	19	120	34	0	63	2	1.09
601504--601999	28	17.4	28	71	16	200	34	0	63	2	1.09
601505--601999	32	15.2	32	70	15	196	34	0	63	2	1.09
604117--604272	29	5.6	29	83	12	209	19	26	37	17	1.93
604758--604801	21	2.1	21	91	0	70	29	0	15	54	1.42
605201--605227	14	1.9	14	100	0	54	7	3	14	74	1.18
605198--605230	17	1.9	17	88	11	50	9	3	15	72	1.21
608508--609245	60	12.7	60	83	8	947	41	0	13	45	1.44
608683--608965	35	9.2	34	60	27	107	40	0	13	45	1.43
608512--609215	229	3.1	229	92	2	1089	41	0	13	45	1.44
608972--609134	35	5.2	34	61	27	92	41	0	12	45	1.42
609187--609234	14	3.6	14	83	16	75	35	0	18	45	1.50
609187--609235	25	2.0	25	100	0	98	36	0	18	44	1.50
609940--610042	35	3.2	35	66	25	109	41	0	13	44	1.44
609930--610127	60	3.3	60	96	0	351	40	0	13	45	1.44
610046--610143	11	9.2	11	70	29	52	38	0	14	46	1.44
610095--610142	14	3.6	14	83	16	75	35	0	18	45	1.50
610095--610143	25	2.0	25	100	0	98	36	0	18	44	1.50
609022--610818	908	2.0	908	98	0	3495	31	15	19	34	1.93
612281--612325	16	2.9	16	90	9	67	55	6	2	35	1.38
612367--612472	30	3.5	30	87	5	142	47	14	0	38	1.44
612371--612425	15	3.6	16	70	20	55	43	14	0	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612601--612636	17	2.1	17	100	0	72	41	41	0	16	1.48
613000--613111	29	3.9	29	87	0	161	16	23	42	16	1.88
613000--613111	58	1.9	58	94	3	199	16	23	42	16	1.88
617798--617824	14	1.9	14	100	0	54	40	0	0	59	0.98
618205--618269	29	2.2	29	83	0	85	27	15	9	47	1.76
619820--619911	46	2.0	46	100	0	184	26	8	23	41	1.83
621188--621236	5	9.8	5	82	8	55	77	2	4	16	1.01
623525--623568	3	14.3	3	80	4	52	43	0	0	56	0.99
623517--623559	19	2.1	19	87	12	59	48	0	0	51	1.00
623517--623562	22	2.1	22	88	8	67	47	0	0	52	1.00

Tables:   1   2   3   4