genome.fa.s6423.2.7.7.80.10.50.1000.4.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: VEPZ01006423.1 Hibiscus syriacus cultivar Beakdansim tig00015498_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  772901

Tables:   1   2   3   4   

This is table  4  of  4  ( 463 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)
493768--493806	11	3.8	11	80	19	57	35	0	0	64	0.94
493760--493806	14	3.4	14	94	5	78	38	0	0	61	0.96
493769--493816	19	2.5	19	86	6	62	33	2	2	62	1.18
495653--495699	22	2.3	19	89	10	67	23	12	0	63	1.28
496613--496655	22	2.0	22	90	0	68	41	2	9	46	1.48
496677--496711	18	1.9	18	88	0	52	62	2	2	31	1.24
496913--497037	47	2.7	47	98	0	241	33	21	13	31	1.92
499890--500084	57	3.2	61	92	6	335	39	3	10	47	1.53
500158--500190	16	2.1	16	94	0	57	45	9	0	45	1.35
513540--513582	18	2.4	18	100	0	86	37	4	30	27	1.77
514755--514790	2	18.0	2	100	0	72	50	0	0	50	1.00
514877--514949	31	2.4	30	75	6	76	43	5	1	49	1.34
516481--516507	13	2.1	13	100	0	54	37	14	7	40	1.74
519370--519438	35	2.0	35	97	0	129	13	34	2	49	1.56
522349--522416	35	1.9	36	93	3	120	32	38	2	26	1.71
522351--522416	11	5.7	11	75	21	64	33	37	3	25	1.72
522370--522416	24	2.0	24	84	15	64	36	36	2	25	1.68
523043--523077	16	2.1	18	89	10	56	17	17	0	65	1.27
529656--529708	26	2.0	26	100	0	106	33	11	18	35	1.87
543076--543474	38	11.3	35	76	14	297	44	1	7	46	1.41
543172--543236	28	2.5	24	77	17	76	44	1	7	46	1.41
543066--543474	34	11.6	33	74	19	223	44	1	7	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543483--543522	18	2.2	18	86	0	53	20	0	2	77	0.88
544900--544937	14	2.7	14	80	11	51	21	0	0	78	0.74
545105--545137	13	2.4	14	90	5	50	21	0	0	78	0.75
546137--546177	2	20.5	2	100	0	82	51	0	0	48	1.00
547212--547384	47	3.8	47	90	3	257	32	22	7	36	1.82
547489--547570	40	2.0	40	95	0	146	32	24	17	25	1.96
551119--551215	18	5.1	18	72	17	72	4	18	2	75	1.06
551114--551215	37	2.7	35	74	22	91	4	17	1	75	1.07
551127--551180	22	2.4	23	81	12	67	5	16	1	75	1.07
554024--554196	47	3.8	47	89	3	248	32	21	7	37	1.82
554301--554382	40	2.0	40	100	0	164	32	26	17	23	1.96
557611--557669	20	2.8	20	79	5	64	66	5	10	18	1.40
559043--559155	35	3.2	34	87	5	154	42	22	0	34	1.60
560205--560316	35	3.2	34	91	2	170	36	0	20	41	1.59
572378--572443	21	3.5	21	65	26	56	30	4	18	46	1.68
572371--572489	35	3.3	35	85	9	159	32	3	19	44	1.67
574556--574603	20	2.4	20	96	0	87	41	8	35	14	1.76
576963--577081	35	3.3	36	84	5	152	31	6	18	42	1.76
581223--581252	14	2.1	14	100	0	60	50	20	16	13	1.78
598694--598746	19	2.7	19	88	2	79	20	13	20	45	1.84
599613--599966	41	8.6	41	77	7	272	28	19	17	34	1.95
599568--599968	162	2.5	165	83	5	487	29	19	17	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599679--599936	121	2.1	121	81	7	281	28	19	15	36	1.93
603780--604207	42	10.1	41	83	8	488	24	21	20	33	1.97
603780--604207	127	3.4	126	84	6	535	24	21	20	33	1.97
603780--604207	85	5.1	84	85	5	503	24	21	20	33	1.97
610268--610396	30	4.3	30	100	0	258	66	6	13	12	1.43
613067--613268	32	6.3	32	93	0	305	33	13	23	29	1.93
625252--625297	20	2.3	21	78	17	53	54	2	2	41	1.25
625274--625378	25	4.1	26	77	14	92	52	0	4	41	1.29
625291--625350	25	2.4	25	89	8	95	53	1	3	41	1.27
625964--625991	14	2.0	14	100	0	56	64	0	7	28	1.20
626137--626163	14	1.9	14	100	0	54	33	0	0	66	0.92
627283--627340	31	1.9	31	86	6	84	41	24	8	25	1.83
627556--627589	14	2.4	14	90	5	50	76	0	0	23	0.79
627565--627589	7	3.6	7	100	0	50	76	0	0	24	0.80
628053--628107	14	3.8	14	79	13	58	32	0	1	65	1.03
628038--628090	14	3.9	14	78	19	58	32	0	0	67	0.91
629900--629959	27	2.4	24	76	13	59	36	6	3	53	1.44
633792--634494	317	2.2	314	90	3	1074	45	5	18	30	1.72
633837--634495	158	4.2	158	90	3	1024	46	5	18	29	1.72
639875--639917	21	2.0	21	86	0	59	27	11	25	34	1.91
641463--641528	23	2.8	23	72	4	60	57	1	3	37	1.23
648796--648834	20	2.0	20	84	0	51	33	23	10	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659799--659876	41	2.0	39	87	7	113	38	11	11	38	1.78
659838--659960	24	4.9	26	82	10	141	31	14	17	36	1.90
659838--659966	50	2.6	49	90	6	190	34	13	16	34	1.88
660614--660690	37	2.1	36	83	9	93	46	1	3	48	1.28
660831--660873	20	2.3	18	80	11	50	20	25	9	44	1.81
664376--664702	159	2.1	159	98	0	636	22	36	7	34	1.81
687405--687449	22	2.1	21	84	12	56	66	8	4	20	1.36
688279--688343	15	4.5	14	81	12	78	4	12	1	81	0.91
688275--688343	13	4.8	15	81	10	65	5	13	1	79	0.97
693186--693229	20	2.2	19	84	15	54	63	6	4	25	1.38
694071--694377	43	7.2	43	83	2	343	30	18	24	26	1.98
694071--694361	85	3.4	85	84	2	372	30	18	24	26	1.98
694071--694377	128	2.4	126	83	3	348	30	18	24	26	1.98
695346--695557	104	2.0	104	97	0	397	43	15	14	26	1.85
698329--698653	82	4.0	81	78	6	341	28	18	19	33	1.95
698329--698653	83	4.0	82	80	4	377	28	18	19	33	1.95
701158--701190	13	2.6	13	85	4	50	54	0	0	45	0.99
701171--701220	21	2.4	21	81	18	61	48	2	0	50	1.12
701410--701442	2	16.5	2	100	0	66	48	0	0	51	1.00
708618--708658	21	2.0	21	90	9	66	68	9	9	12	1.40
709243--709286	2	22.0	2	95	0	79	47	0	2	50	1.13
713872--713907	14	2.6	14	95	0	63	16	11	11	61	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
716619--716764	73	2.0	73	100	0	292	31	24	19	24	1.98
722781--722813	6	5.5	6	96	0	57	12	18	36	33	1.88
729659--729718	20	3.1	19	80	4	66	55	1	0	43	1.10
729673--730035	184	2.0	185	95	1	649	43	3	9	44	1.52
733571--733686	24	4.8	24	85	6	146	41	18	14	25	1.89
736120--736158	18	2.2	18	100	0	78	10	20	51	17	1.74
739220--739284	2	32.5	2	100	0	130	49	0	0	50	1.00
741664--741729	28	2.4	28	92	5	107	43	21	0	34	1.53
748221--748284	31	2.1	31	91	2	103	37	12	25	25	1.91
750196--750225	15	1.9	16	93	6	53	53	20	6	20	1.67
751634--751697	31	2.1	31	96	0	119	35	15	25	23	1.94
756404--756521	36	3.3	36	93	0	200	31	22	28	16	1.96
756417--756533	36	3.3	36	92	1	191	29	23	26	20	1.99
764554--764598	23	2.0	23	86	8	65	15	31	4	48	1.65
768505--768572	35	1.9	35	100	0	136	33	17	25	23	1.96

Tables:   1   2   3   4

The End!