genome.fa.s9065.2.7.7.80.10.50.1000.4.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: VEPZ01009065.1 Hibiscus syriacus cultivar Beakdansim tig00112488_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1198333

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 710 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)
517873--517969	19	5.4	19	84	13	134	14	22	17	45	1.85
517854--517969	52	2.2	52	96	3	216	13	24	18	43	1.86
518027--518193	19	9.6	19	75	20	168	44	17	23	14	1.86
518027--518193	51	3.2	52	95	2	300	44	17	23	14	1.86
518200--518299	19	5.5	19	84	12	147	15	23	17	45	1.85
518183--518299	53	2.2	53	95	1	209	14	24	17	43	1.86
518359--518464	19	6.1	19	69	23	90	46	17	20	15	1.84
518080--518633	280	2.0	272	95	3	993	31	20	16	30	1.95
518359--518473	51	2.2	52	90	3	178	45	18	20	15	1.86
518480--518577	18	5.5	19	77	17	120	15	22	17	44	1.86
518466--518577	52	2.2	51	88	6	172	15	24	16	43	1.86
517821--518473	332	2.0	330	95	2	1170	33	20	18	27	1.96
518678--518715	14	2.7	15	88	12	62	47	18	0	34	1.49
520666--520722	14	3.7	14	77	20	60	45	22	21	10	1.82
520647--520739	33	2.8	33	95	0	168	47	21	20	10	1.80
520610--520744	19	7.6	19	76	16	128	45	23	19	11	1.82
520740--520868	19	7.3	19	75	17	125	8	17	28	45	1.77
520740--520831	33	2.8	33	93	3	150	7	18	28	45	1.76
520911--521375	90	5.1	92	96	2	843	45	19	12	22	1.84
523069--523158	14	5.7	14	74	23	81	42	23	25	8	1.83
523061--523175	33	3.5	33	95	0	212	45	20	24	9	1.81
523068--523180	19	6.8	18	72	23	88	43	22	24	9	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523192--523246	14	3.7	14	81	13	74	9	25	23	41	1.83
523188--523252	31	2.1	32	97	2	123	9	24	21	44	1.81
523230--523307	41	1.9	41	97	0	147	12	25	16	44	1.83
523231--523306	21	3.7	21	83	3	109	11	25	17	46	1.82
523386--523456	33	2.2	33	89	0	106	47	16	23	11	1.79
523637--523691	22	2.5	22	81	0	74	20	16	40	23	1.91
523836--524029	60	3.2	60	85	0	262	19	19	25	36	1.95
523836--524029	20	9.6	20	82	5	221	19	19	25	36	1.95
524016--524098	21	4.0	21	71	6	69	25	16	22	34	1.95
524637--524678	22	1.9	22	90	0	66	11	9	28	50	1.70
526517--526597	18	4.8	18	71	18	57	43	12	20	23	1.86
526535--526598	32	2.0	32	82	11	78	46	12	17	23	1.81
540041--540081	21	2.0	20	86	9	57	24	19	24	31	1.98
544339--544386	21	2.3	20	89	7	69	31	27	20	20	1.98
544351--544391	21	2.0	21	95	0	73	36	24	17	21	1.94
559042--559107	2	33.0	2	100	0	132	50	0	0	50	1.00
561903--561969	22	3.0	22	87	8	100	26	26	19	26	1.99
562731--562787	24	2.4	24	90	0	96	28	29	15	26	1.96
597215--597289	38	2.0	39	81	5	91	28	16	8	48	1.74
616633--616658	2	13.0	2	100	0	52	50	0	0	50	1.00
623545--623652	5	22.0	5	96	3	202	39	0	0	60	0.97
624087--624154	3	22.7	3	100	0	136	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
625591--625619	12	2.3	13	94	5	51	31	0	0	68	0.89
626297--626346	25	2.0	25	100	0	100	32	16	12	40	1.84
626891--626925	5	7.0	5	100	0	70	40	0	0	60	0.97
627444--627479	14	2.6	14	86	0	54	22	30	19	27	1.98
628888--628917	13	2.3	13	94	0	51	30	0	0	70	0.88
629827--629911	26	3.3	26	67	20	61	15	15	1	68	1.28
631670--631712	21	2.0	21	86	0	59	30	27	25	16	1.97
631692--631840	66	2.3	67	86	2	203	26	27	26	19	1.99
632143--632214	29	2.5	29	88	4	101	38	9	15	36	1.80
632229--632288	30	2.0	31	90	3	95	38	6	21	33	1.80
632508--632574	22	3.0	22	100	0	134	19	26	26	26	1.99
638608--638650	21	2.0	21	86	0	59	30	27	25	16	1.97
638608--638781	67	2.6	67	84	5	199	27	26	27	18	1.98
639084--639155	29	2.5	29	88	4	101	38	9	15	36	1.80
639170--639229	30	2.0	31	90	3	95	38	6	21	33	1.80
639449--639515	22	3.0	22	100	0	134	19	26	26	26	1.99
645665--645825	64	2.5	63	83	7	182	34	18	20	27	1.95
646405--646442	17	2.1	19	90	9	62	47	5	10	36	1.61
646574--646681	31	3.5	31	79	3	103	24	18	22	35	1.96
646596--646702	31	3.5	30	79	6	90	24	18	24	32	1.97
649871--650031	64	2.5	65	86	7	204	33	18	21	26	1.96
650782--650873	31	3.0	32	79	6	100	27	18	20	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
650780--650887	31	3.5	31	79	8	96	24	18	21	36	1.95
650833--650908	30	2.5	30	82	6	91	19	19	25	35	1.95
652195--652504	123	2.5	123	77	4	333	34	24	13	27	1.93
653372--653435	33	2.0	32	90	9	103	25	12	3	59	1.48
653376--653446	33	2.2	33	82	5	81	30	16	2	49	1.61
661441--661566	56	2.2	56	90	0	189	41	12	15	30	1.84
661689--661739	23	2.2	23	85	0	66	33	11	13	41	1.81
661699--661744	23	2.0	23	95	0	83	30	10	15	43	1.81
668852--668883	12	2.6	13	90	9	50	15	34	0	50	1.45
670486--670536	20	2.5	20	93	0	84	31	17	25	25	1.97
674124--674171	21	2.3	21	96	0	87	37	14	16	31	1.89
684963--685022	28	2.0	29	90	9	95	33	20	16	30	1.94
695572--695654	41	2.0	41	95	0	148	19	8	20	51	1.72
695572--695631	21	3.0	20	65	29	54	20	8	20	51	1.72
703578--703617	21	1.9	21	94	0	71	30	15	7	47	1.72
703612--703710	33	3.0	33	94	1	164	32	7	15	45	1.73
703696--703750	13	4.2	13	75	13	58	34	3	12	49	1.59
704147--704202	15	3.6	15	74	9	58	32	10	12	44	1.77
717489--717520	2	17.0	2	87	12	50	53	0	0	46	1.00
719183--719207	5	5.0	5	100	0	50	20	0	80	0	0.72
723012--723056	20	2.2	21	84	11	58	33	13	11	42	1.79
723044--723111	29	2.3	29	74	2	73	29	16	2	51	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
731556--731648	20	5.0	20	73	15	92	44	17	4	34	1.68
731549--731664	53	2.2	53	93	3	209	49	16	5	29	1.67
733309--733352	14	3.0	14	87	12	70	15	20	13	50	1.78
733309--733350	16	2.8	16	92	7	70	14	19	14	52	1.75
735989--736089	51	2.0	51	94	0	175	36	12	19	30	1.90
739013--739057	14	3.1	14	84	12	63	17	22	13	46	1.83
739024--739056	16	2.1	16	100	0	66	21	24	12	42	1.86
739668--739714	17	2.7	17	83	12	60	42	6	10	40	1.65
739676--739714	16	2.4	17	91	4	62	48	5	10	35	1.59
741775--741843	27	2.6	27	93	4	115	43	15	10	30	1.80
745418--745449	14	2.3	14	100	0	64	43	12	12	31	1.80
746177--746216	20	2.0	20	95	0	71	40	17	5	37	1.72
746173--746285	53	2.1	53	91	1	181	50	13	5	30	1.63
749693--749742	19	2.6	19	87	0	73	30	18	14	38	1.89
750057--750135	38	2.1	38	100	0	158	37	15	17	29	1.90
751383--751483	3	33.0	3	86	4	139	37	0	0	61	1.03
752934--752975	22	1.9	23	85	9	61	47	0	0	52	1.00
757396--757446	12	4.2	12	78	9	50	78	0	0	21	0.75
760632--761055	83	5.1	83	95	0	681	28	14	20	37	1.91
762076--762253	74	2.4	75	84	4	234	33	16	20	29	1.94
762741--762783	1	43.0	1	100	0	86	100	0	0	0	0.00
764193--764631	76	5.8	76	96	1	803	22	20	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
764193--765098	150	6.2	151	73	18	812	22	20	20	36	1.95
764193--765098	226	4.1	226	79	13	861	22	20	20	36	1.95
764593--764662	31	2.3	31	95	5	124	24	17	20	38	1.93
764517--765058	107	5.1	107	96	2	1015	23	19	20	37	1.95
764700--764769	31	2.3	31	95	5	124	24	17	20	38	1.93
764807--764868	31	2.0	31	96	3	117	24	19	19	37	1.94
764908--764977	31	2.3	31	97	0	131	22	17	21	38	1.93
764517--765066	208	2.6	211	96	2	1011	22	19	20	36	1.95
764939--765098	76	2.1	76	98	0	311	20	19	22	37	1.94
765229--765305	3	26.3	3	77	15	81	40	0	0	59	0.97

Tables:   1   2   3   4   5   6