genome.fa.s8290.2.7.7.80.10.50.1000.3.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: VEPZ01008290.1 Hibiscus syriacus cultivar Beakdansim tig00110954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1890093

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 972 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)
609361--609504	16	8.9	16	79	6	146	29	7	6	55	1.54
609344--609417	34	2.2	34	92	0	121	31	8	6	54	1.56
609361--609502	8	17.5	8	68	5	61	30	7	7	55	1.53
609533--609574	13	3.2	13	80	12	50	28	9	4	57	1.51
609716--609794	40	2.0	40	94	0	140	44	24	7	24	1.79
610321--610362	19	2.2	19	86	0	57	40	23	7	28	1.81
611181--611235	21	2.5	22	79	5	58	40	3	3	52	1.36
611876--611916	3	13.7	3	100	0	82	65	0	0	34	0.93
612133--612176	17	2.6	17	80	16	56	36	0	0	63	0.95
617390--617441	2	26.0	2	100	0	104	50	0	0	50	1.00
621616--621647	2	16.0	2	100	0	64	50	0	0	50	1.00
622134--622172	18	2.2	18	85	0	51	7	25	30	35	1.84
623749--623830	23	3.7	22	80	7	87	20	23	30	25	1.99
630561--630652	45	2.0	45	97	0	175	31	13	4	51	1.60
631420--631450	2	15.5	2	100	0	62	51	0	0	48	1.00
632795--632829	18	1.9	18	88	0	52	25	40	14	20	1.90
632940--633085	16	8.8	16	73	11	114	30	5	8	55	1.52
632922--632984	22	3.1	21	76	15	71	31	3	9	55	1.48
632940--633085	8	18.5	8	66	5	73	30	5	8	55	1.52
632925--633003	38	2.1	39	90	2	124	30	5	8	55	1.52
632972--633093	48	2.5	48	78	5	129	30	6	6	56	1.50
633424--633536	57	2.0	57	85	0	154	41	16	4	37	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634007--634043	19	1.9	19	88	0	56	35	24	10	29	1.89
635721--635779	5	12.2	5	92	7	104	40	0	0	59	0.97
636800--638025	346	3.5	348	88	5	1694	28	14	8	48	1.72
638652--638717	23	2.8	23	72	4	60	21	7	7	63	1.45
638026--639166	350	3.3	350	84	8	1460	30	14	9	44	1.78
645146--645211	31	2.1	31	83	5	80	28	12	4	54	1.57
653499--654004	252	2.0	253	95	0	906	21	24	20	33	1.97
658481--658536	28	2.0	28	96	0	103	41	3	7	48	1.48
659650--659692	21	2.0	21	100	0	86	32	16	9	41	1.80
659946--660191	40	6.4	37	82	11	257	43	4	5	45	1.47
660218--660301	44	1.9	43	85	9	116	48	2	4	44	1.36
660218--660327	42	2.6	44	79	14	119	48	2	4	44	1.37
660332--660385	3	16.7	3	81	11	54	25	1	1	70	1.07
660335--660386	10	5.2	10	84	6	70	25	1	1	71	1.07
660325--660382	7	8.7	7	83	11	61	24	1	3	70	1.12
660322--660405	36	2.3	37	88	9	129	19	2	4	73	1.12
660324--660389	21	3.5	21	71	23	65	22	3	3	71	1.14
660550--660579	16	1.9	15	93	6	51	20	36	26	16	1.93
661471--661568	3	32.7	3	78	8	69	23	7	0	69	1.13
661457--661571	6	17.7	6	72	16	52	21	6	0	71	1.09
661809--661839	7	4.4	7	91	0	53	29	0	0	70	0.87
668477--668614	64	2.2	63	79	7	145	35	17	21	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669483--669533	2	25.5	2	100	0	102	49	0	0	50	1.00
669691--669721	2	15.5	2	100	0	62	0	0	48	51	1.00
670530--670555	2	13.0	2	100	0	52	50	0	0	50	1.00
670544--670729	95	1.9	96	89	1	284	34	16	17	31	1.92
671937--672692	84	9.1	83	77	5	602	31	23	18	25	1.98
671955--672692	165	4.5	163	77	5	633	32	23	18	25	1.97
671991--672691	249	2.8	248	83	4	817	32	23	18	26	1.97
679111--679146	18	2.0	18	94	0	63	27	33	19	19	1.96
679131--679200	22	3.2	22	87	0	104	30	32	20	17	1.95
679113--679200	44	2.1	40	87	8	122	29	32	19	18	1.95
679131--679209	22	3.6	22	85	0	86	34	30	18	16	1.94
679622--679942	160	2.0	160	99	0	633	31	23	15	29	1.95
681456--681822	37	10.0	37	73	17	252	43	4	7	44	1.51
681484--681725	110	2.2	111	85	8	323	43	4	7	44	1.53
681858--681891	17	2.0	17	94	0	59	26	0	2	70	1.01
681866--681920	13	3.9	14	76	11	58	25	3	0	70	1.03
683002--683097	36	2.6	35	76	14	97	21	4	3	70	1.18
687859--687920	13	5.0	13	73	9	58	25	3	1	69	1.13
687859--687920	24	2.5	25	84	7	83	25	3	1	69	1.13
688374--688466	30	3.1	30	81	9	93	58	0	4	37	1.18
688442--688552	58	1.9	57	85	7	152	42	12	6	38	1.68
689039--689148	37	3.0	37	90	0	175	40	11	15	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
689701--689730	2	15.0	2	100	0	60	50	0	0	50	1.00
689787--689813	2	13.5	2	100	0	54	48	0	0	51	1.00
689811--689854	9	5.3	9	81	15	51	20	2	0	77	0.88
689826--689988	17	10.5	15	67	17	75	19	7	0	72	1.12
689854--689896	16	2.8	15	85	3	59	16	6	0	76	0.99
689783--689894	46	2.4	45	81	10	120	25	3	0	71	1.02
689926--689998	26	2.8	26	77	10	76	19	10	0	69	1.17
692804--692837	9	3.7	9	92	4	50	76	0	23	0	0.79
692816--692897	23	3.4	23	74	15	67	76	2	15	4	1.06
694612--694900	36	8.1	36	79	10	303	26	19	13	40	1.89
694742--694900	37	4.4	36	82	3	203	23	20	14	40	1.90
694816--694881	21	3.4	21	70	25	72	25	21	12	40	1.88
694742--694900	73	2.2	73	88	1	230	23	20	14	40	1.90
694958--695072	35	3.3	35	91	2	185	41	18	9	30	1.82
696263--696371	36	3.0	35	83	12	107	28	1	1	67	1.11
696291--696519	4	56.8	4	68	22	65	23	4	0	71	1.08
696291--696344	18	3.1	18	81	2	74	31	0	0	68	0.90
696299--696437	9	14.9	9	69	23	58	24	2	0	72	1.00
696258--696427	83	2.1	82	82	8	204	26	2	1	69	1.10
696310--696437	57	2.3	55	83	11	163	23	2	0	73	1.00
696273--696434	28	5.8	28	72	17	115	24	2	1	72	1.04
696276--696518	84	2.9	80	79	11	206	22	4	0	71	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
696290--696487	92	2.2	91	76	15	196	23	4	0	71	1.08
696273--696519	15	16.4	15	65	21	83	22	4	0	71	1.10
696473--696529	26	2.1	27	87	9	82	21	7	0	71	1.08
697285--697372	43	2.0	43	88	0	131	43	18	13	25	1.86
705479--705549	24	3.0	24	85	2	99	29	25	25	19	1.99
711686--711756	24	3.0	24	83	2	90	30	23	25	19	1.98
712125--712162	2	19.0	2	94	0	67	52	0	0	47	1.00
715155--715187	2	17.0	2	93	6	59	51	0	0	48	1.00
717580--717617	19	2.0	20	84	5	51	55	7	0	36	1.29
718702--718784	41	2.0	41	84	9	107	50	1	9	38	1.43
722672--722712	14	2.9	15	82	10	50	48	12	0	39	1.41
724593--724905	152	2.1	152	96	0	574	23	16	19	40	1.91
724995--725035	3	13.7	3	89	0	64	39	0	0	60	0.96
728307--728378	36	2.0	36	86	0	99	40	19	9	30	1.84
728986--729023	15	2.6	15	91	4	60	13	13	7	65	1.46
731508--731544	8	4.6	8	89	0	56	72	0	27	0	0.84
735402--735626	54	4.1	54	85	5	303	36	15	20	28	1.93
735988--736085	22	4.5	22	93	2	171	32	15	13	38	1.86
735988--736085	43	2.2	44	94	1	171	32	15	13	38	1.86
736767--736962	76	2.6	76	94	0	329	25	19	21	33	1.97
736857--737136	118	2.4	118	90	0	443	27	20	22	29	1.98
737380--737412	3	11.3	3	93	6	59	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
739148--739181	2	17.0	2	93	0	59	52	0	0	47	1.00
743928--744006	23	3.4	23	82	0	104	18	24	25	31	1.98
743920--744019	46	2.1	47	85	5	132	20	25	22	33	1.97
745629--745677	23	2.1	23	88	0	71	57	12	14	16	1.66
751945--752927	491	2.0	491	99	0	1941	25	19	19	35	1.95
755428--755467	12	3.6	12	80	12	50	45	2	0	52	1.14
755454--755975	22	23.7	22	87	1	760	40	0	11	47	1.42
755995--756053	31	1.9	31	85	0	82	47	6	1	44	1.39
762021--762057	19	1.9	19	88	0	56	35	29	13	21	1.92
762233--762300	19	3.5	19	71	15	66	17	16	25	41	1.89

Tables:   1   2   3   4   5   6   7   8   9