genome.fa.s8627.2.7.7.80.10.50.1000.3.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: VEPZ01008627.1 Hibiscus syriacus cultivar Beakdansim tig00111594_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1073793

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 615 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)
438736--438784	24	2.0	24	84	0	62	10	16	26	46	1.78
438746--438784	14	3.1	14	72	27	50	7	15	25	51	1.70
438746--438807	24	2.6	24	89	0	88	11	12	22	53	1.71
440370--440410	16	2.6	16	88	0	55	9	7	19	63	1.48
443638--443662	8	3.1	8	100	0	50	24	0	24	52	1.48
447006--447039	15	2.3	15	100	0	68	35	20	20	23	1.96
449292--449371	25	3.2	25	87	0	115	25	17	26	31	1.97
453036--453091	12	4.7	12	70	16	53	55	1	1	41	1.21
453556--453585	15	2.0	15	93	0	51	56	0	0	43	0.99
456696--456827	47	2.9	45	82	7	142	40	7	20	31	1.80
459345--459424	17	4.8	16	77	17	83	76	3	17	2	1.05
459346--459388	14	2.9	15	93	6	79	76	4	18	0	0.95
459363--459460	34	2.9	34	81	15	114	75	4	16	4	1.11
459392--459442	21	2.5	22	84	12	72	72	3	19	3	1.16
459354--459458	17	6.4	16	70	18	56	76	4	16	2	1.08
462444--462679	126	1.9	126	99	0	463	33	5	21	40	1.76
463575--463700	47	2.8	45	79	5	137	39	7	23	30	1.81
464407--464463	19	3.0	20	78	12	66	14	26	40	19	1.89
464411--464472	20	3.2	19	82	11	72	14	30	35	19	1.92
464408--464472	19	3.4	18	74	17	60	15	29	35	20	1.93
465963--466022	18	3.2	17	72	23	50	53	0	0	46	1.00
466348--466407	30	2.0	30	100	0	120	23	16	16	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467434--467528	39	2.5	39	84	5	122	49	2	15	32	1.57
468383--468440	29	2.0	29	96	0	107	32	6	17	43	1.75
469569--469622	24	2.2	25	90	3	83	29	5	3	61	1.36
469655--469721	19	3.5	18	80	11	71	52	7	4	35	1.50
472157--472304	82	1.9	81	84	8	205	43	2	4	50	1.35
476042--476129	29	3.0	29	94	0	149	26	22	9	42	1.83
476103--476423	81	4.0	80	87	4	434	29	22	12	36	1.91
476735--476773	19	2.1	19	90	0	60	23	38	12	25	1.90
476721--476878	65	2.5	65	84	4	187	31	25	15	27	1.96
478199--478412	117	1.8	118	81	7	265	50	7	16	25	1.72
483358--483437	31	2.6	31	91	0	124	31	2	35	31	1.71
483829--483867	19	2.1	19	95	0	69	20	38	15	25	1.92
483766--483973	65	3.2	64	81	8	183	29	24	17	28	1.97
483815--483973	65	2.5	65	83	3	187	30	24	16	28	1.96
484679--484991	81	3.9	81	89	0	473	29	23	11	35	1.90
484949--485338	68	5.8	68	88	3	536	31	23	14	30	1.94
484949--485338	135	2.9	136	88	3	556	31	23	14	30	1.94
485549--485695	55	2.7	55	85	7	192	35	19	11	34	1.88
485535--485708	54	3.1	55	85	5	210	34	18	10	36	1.85
489561--489621	29	2.1	29	90	0	95	27	22	6	42	1.78
489480--489702	110	2.0	110	83	3	279	29	22	8	39	1.84
489590--489978	81	4.8	81	86	1	521	31	22	10	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489590--489978	162	2.4	161	89	1	582	31	22	10	35	1.88
489938--490260	68	4.8	68	91	0	513	30	24	14	30	1.95
489938--490260	135	2.4	136	92	0	531	30	24	14	30	1.95
490476--490626	55	2.7	55	87	7	200	35	19	13	32	1.90
492833--492890	21	2.8	21	78	0	71	8	27	39	24	1.84
494724--494766	14	3.0	14	83	13	52	79	4	9	6	1.06
497100--497181	23	3.7	23	88	8	116	30	8	17	43	1.78
497118--497183	20	3.2	20	93	6	105	33	6	19	40	1.76
498173--498222	17	2.9	17	87	0	73	38	14	6	42	1.70
499652--499690	13	3.0	13	88	0	60	82	5	0	12	0.83
499652--499690	14	3.0	14	89	10	57	82	5	0	12	0.83
526609--526664	21	2.7	21	80	5	60	30	16	1	51	1.54
526626--526669	21	2.1	21	83	8	54	34	18	0	47	1.49
526881--527334	149	3.0	148	92	2	730	36	21	14	27	1.93
528682--528842	64	2.5	62	83	8	180	26	21	18	34	1.95
532238--532279	17	2.4	18	80	15	52	40	0	0	59	0.97
532259--532331	29	2.5	30	82	4	78	42	0	1	56	1.08
533095--533137	20	2.2	20	83	8	52	30	6	6	55	1.53
533960--534026	17	3.8	17	79	12	64	34	0	5	59	1.22
533984--534024	20	2.0	20	90	0	64	36	0	7	56	1.27
543181--543207	14	1.9	14	100	0	54	55	7	22	14	1.64
543456--543494	20	2.0	20	89	0	60	35	15	12	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547823--547864	21	1.9	23	85	9	61	28	11	14	45	1.80
550822--550918	37	2.6	37	82	6	108	46	15	15	22	1.83
550868--550938	36	2.0	36	91	5	117	45	18	16	19	1.86
550975--551416	55	8.0	55	80	7	457	29	19	22	29	1.98
550978--551407	220	1.9	222	82	7	536	30	18	21	29	1.97
550975--551416	111	4.0	108	80	7	453	29	19	22	29	1.98
551414--551713	81	3.7	81	83	2	352	36	21	17	24	1.94
556761--556793	3	11.3	3	93	6	59	66	0	0	33	0.92
556949--557044	39	2.5	39	89	0	138	44	10	7	37	1.66
557599--557634	2	18.0	2	94	0	63	47	0	2	50	1.15
558926--559002	3	25.0	3	74	17	61	37	1	0	61	1.05
558926--559005	18	4.2	19	79	14	85	37	1	0	61	1.04
558935--559001	16	4.3	16	80	19	72	40	1	0	58	1.07
558935--559005	36	1.9	38	86	11	103	39	1	0	59	1.06
559759--559825	22	3.1	22	82	4	82	25	23	32	17	1.97
560340--560390	26	1.9	27	84	4	68	29	1	3	64	1.22
567143--567605	249	1.9	249	89	0	730	30	17	17	33	1.93
568477--568538	22	2.8	22	87	0	88	25	17	37	19	1.94
568592--568657	30	2.2	30	94	0	114	27	13	33	25	1.94
569158--569205	13	3.5	13	75	10	51	22	4	2	70	1.15
569143--569219	28	2.8	28	94	2	129	24	2	2	70	1.13
571707--571779	29	2.5	30	75	16	82	67	2	0	30	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574538--574791	44	5.8	44	91	0	400	26	20	11	40	1.87
575325--575384	18	3.6	18	76	21	76	35	28	13	23	1.92
575342--575369	13	2.2	13	100	0	56	32	32	14	21	1.93
575325--575384	31	1.9	31	96	0	111	35	28	13	23	1.92
580210--580250	14	2.9	14	88	3	55	75	0	0	24	0.80
580472--580516	20	2.2	20	96	0	81	22	15	13	48	1.79
580492--581111	244	2.5	244	85	1	832	33	14	15	35	1.89
588836--589088	127	2.0	130	90	3	406	39	16	10	33	1.83
596947--597452	81	6.2	81	88	1	728	27	21	13	36	1.92
599479--599621	77	1.9	77	81	8	175	40	8	5	45	1.58
608155--608183	15	1.9	15	100	0	58	55	3	0	41	1.17
612106--612180	6	12.5	6	97	0	123	32	4	17	46	1.66
612518--612626	52	2.1	53	98	1	211	22	11	19	47	1.80
612966--613030	30	2.2	30	83	8	80	40	26	7	26	1.83
613643--613733	13	7.6	13	66	26	58	29	2	18	49	1.60
613643--613743	35	2.9	35	98	0	193	26	3	19	49	1.66
614010--614043	15	2.3	15	89	0	50	14	5	20	58	1.57
614036--614115	34	2.4	34	70	15	78	33	2	13	50	1.56
614050--614143	19	5.4	19	75	21	73	35	1	13	50	1.49
614094--614149	17	3.3	17	85	9	87	33	3	17	44	1.66
614239--614279	15	2.5	17	76	15	50	36	9	14	39	1.79
614950--615060	30	3.7	30	73	8	100	45	16	18	19	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617130--617304	9	19.2	9	71	13	83	72	1	8	18	1.16
617131--617259	4	30.8	4	71	20	70	72	0	6	20	1.13
617129--617258	37	3.6	37	81	12	146	72	0	6	20	1.12
617249--617286	14	2.8	13	78	21	51	78	2	13	5	1.02
617346--617371	10	2.6	10	100	0	52	73	7	0	19	1.07
617322--617374	22	2.4	21	81	9	52	73	7	1	16	1.15
617583--617615	11	2.9	11	95	4	57	81	0	3	15	0.80
618001--618030	15	1.9	16	93	6	53	13	13	6	66	1.43
618840--620049	84	14.4	84	84	2	1228	24	18	23	32	1.97
618898--620049	506	2.3	503	83	3	1440	24	18	24	32	1.97

Tables:   1   2   3   4   5   6