genome.fa.s7804.2.7.7.80.10.50.1000.4.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: VEPZ01007804.1 Hibiscus syriacus cultivar Beakdansim tig00110122_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1697051

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1034 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)
598743--598856	19	6.1	19	72	15	94	45	17	24	12	1.83
598743--598851	33	2.9	40	84	10	124	46	17	23	11	1.81
598852--598960	19	5.8	19	75	16	84	11	20	20	47	1.81
598898--598971	21	3.5	21	80	7	96	13	21	17	47	1.82
599066--599114	17	3.2	17	70	27	54	44	20	24	10	1.82
599053--599114	29	2.1	30	90	6	99	45	20	24	9	1.81
599492--599684	20	9.6	20	84	5	237	19	19	26	34	1.95
599652--599750	42	2.4	43	76	8	98	22	19	22	36	1.95
611208--611234	12	2.2	12	100	0	54	22	7	33	37	1.82
615702--615743	15	2.7	15	80	16	50	69	4	4	21	1.26
621271--621324	24	2.3	24	78	15	67	46	1	0	51	1.11
621271--621444	47	3.6	46	69	17	115	47	1	0	50	1.12
621295--621390	45	2.1	48	84	7	128	47	1	0	51	1.07
621376--621444	23	3.0	23	75	10	68	46	0	1	52	1.09
621419--621456	16	2.4	16	82	4	51	55	0	2	42	1.14
621411--621467	26	2.3	26	81	6	73	49	0	1	49	1.11
621416--621473	21	2.5	22	73	23	57	51	0	1	46	1.11
629137--629304	84	2.0	84	95	0	300	32	8	24	33	1.86
629752--629783	9	3.6	9	95	0	55	56	0	25	18	1.42
632365--632410	4	11.5	4	80	0	56	26	2	4	67	1.21
632554--632651	21	4.7	21	76	7	101	23	33	20	22	1.97
632554--632651	41	2.4	42	77	8	110	23	33	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632554--632612	20	2.9	19	75	12	55	25	32	18	23	1.97
634089--634128	20	2.0	20	95	0	71	15	17	25	42	1.88
634414--634449	18	2.0	18	94	0	63	16	2	25	55	1.55
636514--636548	12	2.9	12	100	0	70	5	17	0	77	0.96
636736--636782	24	2.0	24	82	0	58	34	14	19	31	1.92
636903--636936	12	2.8	12	90	0	50	14	0	29	55	1.40
637437--637463	2	13.5	2	100	0	54	0	48	0	51	1.00
637463--637491	2	14.5	2	100	0	58	48	0	0	51	1.00
638941--638965	2	12.5	2	100	0	50	48	0	0	52	1.00
638873--639011	69	2.0	69	97	0	260	56	0	6	36	1.31
639544--639605	22	2.8	22	78	11	63	17	35	17	29	1.93
640234--640297	29	2.2	29	91	0	101	32	9	12	45	1.74
640233--640541	132	2.3	130	80	7	329	34	10	12	42	1.78
640556--640683	68	1.9	68	91	0	211	37	15	7	39	1.77
641636--641692	29	2.0	29	96	0	105	40	3	7	49	1.47
642084--642136	27	2.0	27	100	0	106	52	1	15	30	1.53
642095--642154	31	1.9	31	89	0	93	60	3	10	26	1.45
643482--643669	42	4.5	42	77	12	113	26	17	5	50	1.68
643428--643584	83	1.9	84	81	6	194	26	11	5	56	1.57
643513--643906	44	8.9	43	74	15	270	23	21	7	46	1.77
643513--643908	86	4.5	85	76	12	386	23	21	7	46	1.77
643896--643930	18	1.9	18	88	0	52	28	20	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
643943--643981	19	2.1	19	100	0	78	38	5	5	51	1.46
646176--646236	29	2.1	29	93	0	104	42	4	6	45	1.51
646659--646717	23	2.6	23	100	0	118	55	3	10	30	1.49
646646--646721	23	3.0	26	84	15	113	53	2	13	30	1.53
647416--647530	43	2.7	42	76	11	110	27	11	7	53	1.64
647641--648006	44	8.5	44	81	5	367	25	21	7	45	1.79
647649--648006	130	2.8	130	81	4	388	25	20	8	44	1.79
647641--648006	86	4.3	86	77	5	375	25	21	7	45	1.79
649160--649200	2	20.5	2	100	0	82	51	0	0	48	1.00
649764--649790	3	9.0	3	100	0	54	0	33	0	66	0.92
650408--650535	20	6.3	20	79	5	132	39	20	16	23	1.91
650425--650535	41	2.8	40	83	4	134	41	20	15	22	1.90
650529--650574	20	2.3	20	96	0	83	43	26	13	17	1.85
651113--651159	20	2.3	20	92	0	76	51	23	14	10	1.74
652596--652692	42	2.3	42	85	0	131	29	36	17	16	1.92
652809--652858	21	2.4	21	82	0	64	18	14	36	32	1.90
652875--652924	21	2.4	21	80	6	57	20	8	38	34	1.82
653266--653384	42	2.8	42	84	0	121	23	35	17	23	1.95
653262--653360	21	4.7	21	81	5	110	22	37	17	23	1.94
653270--653384	21	5.5	21	80	0	86	23	35	18	22	1.95
657757--657790	12	2.8	12	90	0	50	14	0	29	55	1.40
658383--658421	15	2.5	15	83	4	51	66	0	5	28	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
658578--658642	20	3.2	20	71	16	53	33	7	21	36	1.82
658579--658667	40	2.2	40	79	0	97	34	8	21	34	1.85
658740--658829	20	4.5	20	85	0	117	22	15	17	44	1.86
660489--660667	41	4.4	40	78	10	175	31	18	14	35	1.91
660496--660649	82	1.9	81	85	6	213	27	19	14	38	1.91
660654--660763	42	2.7	41	76	18	120	26	16	19	38	1.92
662139--662389	81	3.1	80	73	6	218	30	19	18	31	1.96
663776--663826	22	2.3	22	100	0	102	23	13	27	35	1.93
675275--675655	191	2.0	191	97	0	726	33	18	7	40	1.78
681084--681154	35	2.1	34	89	2	106	26	14	29	29	1.95
681119--681179	22	2.8	22	79	0	77	24	19	26	29	1.99
684383--684422	21	1.9	22	90	10	66	15	10	35	40	1.80
685038--685141	35	3.0	35	71	2	102	35	23	17	24	1.95
686265--686315	26	2.0	26	92	3	86	29	11	13	45	1.79
686888--686939	22	2.4	22	90	6	79	32	23	26	17	1.96
686910--686975	19	3.3	19	74	21	55	30	15	30	24	1.95
688866--688987	35	3.5	35	73	6	95	36	16	17	29	1.91
688866--689005	71	2.0	71	81	2	165	36	17	17	29	1.92
690637--690677	20	2.0	20	95	0	73	29	24	21	24	1.99
690740--690783	22	2.0	23	86	4	63	36	20	22	20	1.95
690769--690810	19	2.2	20	82	4	50	28	16	33	21	1.95
691593--691635	20	2.2	20	86	0	59	44	13	4	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
703866--704027	76	2.1	76	86	3	220	29	13	13	43	1.82
704030--704225	39	5.0	39	80	3	209	30	16	16	36	1.92
704041--704225	78	2.4	78	83	3	230	29	17	16	36	1.92
704198--704255	30	1.9	31	86	10	84	27	22	15	34	1.94
704403--704567	36	4.6	36	86	5	183	26	22	13	36	1.92
704448--704541	21	5.1	20	67	28	73	23	21	14	40	1.90
704494--704555	20	3.2	20	65	17	51	22	16	17	43	1.87
704902--705973	263	4.1	264	88	2	1451	29	19	20	29	1.97
704907--705899	44	22.6	44	67	9	324	30	19	20	29	1.97
708427--708470	12	3.5	12	78	9	52	47	11	2	38	1.52
708695--708751	29	2.0	29	96	0	105	45	19	3	31	1.67
708703--708752	15	3.4	15	71	15	50	48	20	2	30	1.61
708980--709152	83	2.1	83	98	0	337	36	16	8	38	1.79
711379--711459	28	3.0	26	89	7	117	46	8	4	39	1.56
711377--711460	41	2.0	41	86	0	114	47	8	4	39	1.55
711496--712065	2	285.0	2	67	16	227	46	4	4	44	1.43
711514--711911	13	27.4	15	68	21	85	46	5	5	43	1.48
711429--711603	95	1.9	89	87	6	251	45	4	6	44	1.49
711741--711827	45	1.9	45	90	6	140	45	4	3	45	1.40
711993--712173	54	3.5	53	83	5	173	48	4	3	43	1.41
712288--712326	20	2.0	20	90	5	62	53	5	5	35	1.45
712303--712394	13	6.8	13	70	19	55	46	7	5	40	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
712415--712462	21	2.3	21	85	7	62	43	4	6	45	1.48
712502--712593	36	2.6	36	85	0	130	42	4	8	44	1.55
712502--712609	36	3.0	35	83	5	101	41	4	8	45	1.55
712574--712656	22	3.6	22	76	20	80	42	4	7	45	1.53
712734--712867	6	22.2	6	73	16	75	47	1	1	50	1.19
712726--712772	24	1.9	25	86	4	69	38	0	4	57	1.18
712714--712866	29	5.2	30	77	10	149	46	1	1	50	1.21
723510--723597	6	14.7	6	79	4	79	42	45	9	3	1.52
723510--723597	18	4.9	18	80	5	97	42	45	9	3	1.52
723511--723597	24	3.6	24	82	4	104	41	45	9	3	1.53

Tables:   1   2   3   4   5   6   7   8   9