genome.fa.s8206.2.7.7.80.10.50.1000.4.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: VEPZ01008206.1 Hibiscus syriacus cultivar Beakdansim tig00110828_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1504526

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1041 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)
511819--511948	60	2.2	60	81	0	161	34	16	14	34	1.89
514261--514355	35	2.7	35	93	0	163	30	28	30	10	1.90
514432--514482	24	2.1	24	81	0	57	39	21	15	23	1.92
522743--522816	37	2.0	37	100	0	148	43	13	18	24	1.86
531342--531550	48	4.4	48	86	0	238	18	22	30	28	1.97
531342--531599	48	5.4	48	83	0	219	18	21	30	28	1.97
531346--531606	144	1.8	144	80	3	319	18	21	31	28	1.97
531346--531637	144	2.0	144	78	3	302	18	21	31	29	1.97
532427--532507	35	2.3	36	78	2	101	19	20	34	24	1.96
532608--532650	19	2.3	19	100	0	86	13	9	41	34	1.77
535390--535427	19	2.0	19	100	0	76	31	15	26	26	1.96
539572--539631	30	2.0	29	87	3	84	31	25	18	25	1.97
543571--543806	121	2.0	122	84	6	320	30	17	5	46	1.72
544148--544237	31	2.9	32	79	11	89	46	6	4	42	1.50
546839--546885	18	2.6	18	82	0	58	57	4	10	27	1.51
548109--548218	29	3.7	29	72	15	91	38	3	23	34	1.73
548114--548232	60	2.0	60	88	0	175	37	3	24	34	1.72
551842--551889	22	2.2	21	88	3	69	14	2	6	77	1.06
551831--551891	17	3.7	16	80	2	68	14	1	4	78	0.99
554252--554468	108	2.0	108	100	0	434	28	15	21	34	1.94
555432--555457	9	2.9	9	100	0	52	46	0	7	46	1.31
555876--556107	30	6.7	35	76	16	177	46	3	5	44	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555876--556000	39	3.4	37	85	13	170	48	3	4	43	1.40
555812--556056	110	2.2	110	81	13	281	46	4	6	42	1.47
556453--556708	127	2.0	126	94	5	455	52	26	11	9	1.68
556687--556751	32	2.1	31	82	8	78	58	29	7	4	1.46
562506--563267	84	9.2	83	82	5	932	29	25	21	23	1.99
562506--563275	165	4.6	165	91	1	1157	29	25	21	23	1.99
564011--564246	39	6.7	37	79	14	227	46	3	5	44	1.43
564011--564246	77	3.3	72	76	19	223	46	3	5	44	1.43
564122--564211	33	2.8	31	78	14	85	41	5	5	47	1.50
566436--566499	29	2.2	29	97	0	119	46	3	4	45	1.39
568843--568884	21	2.1	21	86	8	61	40	0	4	54	1.21
570467--570519	28	1.9	28	84	3	72	37	1	3	56	1.28
570814--570859	17	2.7	17	96	0	83	30	0	0	69	0.89
576583--576651	10	6.5	10	75	18	50	33	10	53	2	1.49
576569--576672	24	4.3	24	92	0	154	35	7	52	3	1.48
576582--576672	14	7.2	13	70	16	59	35	7	53	3	1.46
578393--578474	29	2.8	29	92	1	128	32	14	10	41	1.81
580633--580800	60	2.8	58	75	12	162	39	5	22	32	1.78
584217--584361	59	2.5	59	78	10	145	33	20	6	40	1.77
584881--584922	20	2.0	21	90	4	68	50	4	38	7	1.51
593355--593450	48	2.0	48	100	0	192	37	20	12	29	1.90
599864--599939	22	3.5	22	94	3	129	28	25	25	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599974--600018	22	2.0	22	86	4	63	28	31	26	13	1.94
601293--601505	103	2.1	103	95	0	381	26	13	23	36	1.92
601522--601589	23	3.0	23	86	4	93	22	23	26	27	1.99
603227--603289	30	2.1	29	88	5	90	63	4	1	30	1.24
607102--607127	12	2.2	12	100	0	52	76	0	0	23	0.78
607172--607525	38	9.5	37	71	17	153	43	7	5	44	1.54
607307--607331	11	2.3	11	100	0	50	44	8	8	40	1.63
607317--607374	28	2.1	28	96	0	107	48	5	3	43	1.42
607318--607384	28	2.5	27	88	7	84	47	5	4	41	1.48
607345--607526	39	4.8	37	78	10	163	42	7	6	43	1.56
608100--608873	84	9.4	82	82	5	762	23	21	25	29	1.99
608258--608873	245	2.5	245	87	2	883	23	21	26	28	1.99
608175--608873	165	4.2	164	84	5	775	23	21	25	28	1.99
612187--612232	19	2.4	19	96	0	83	65	10	13	10	1.48
614950--614980	12	2.6	12	100	0	62	22	38	12	25	1.90
615270--615294	11	2.3	11	100	0	50	44	8	8	40	1.63
615248--615323	38	2.0	39	86	2	109	46	9	3	40	1.54
615280--615337	28	2.1	28	96	0	107	48	5	3	43	1.42
615281--615347	28	2.5	27	88	7	84	47	5	4	41	1.48
615308--615450	38	3.8	37	77	12	155	44	5	4	45	1.48
615308--615489	39	4.8	37	78	10	163	42	7	6	43	1.56
616243--616267	12	2.1	12	100	0	50	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616383--616408	12	2.2	12	100	0	52	65	0	26	7	1.20
616395--616433	19	2.0	19	85	5	51	66	0	17	15	1.25
617244--617278	14	2.6	14	90	4	54	5	0	40	54	1.24
617728--617779	5	10.4	5	80	12	54	75	1	0	23	0.91
617731--617782	15	3.4	15	82	10	61	75	1	0	23	0.91
618665--619617	84	11.4	83	80	3	959	24	21	23	30	1.99
618590--619617	168	6.2	164	84	3	1243	24	21	23	30	1.99
618590--619617	333	3.1	332	90	2	1494	24	21	23	30	1.99
622968--623013	19	2.4	19	92	0	74	65	8	13	13	1.48
624630--624654	12	2.1	12	100	0	50	60	0	0	40	0.97
624770--624795	12	2.2	12	100	0	52	65	0	26	7	1.20
624925--624996	27	2.6	28	69	20	69	58	5	9	26	1.52
626022--626073	5	10.4	5	80	12	54	75	1	0	23	0.91
626025--626076	15	3.4	15	82	10	61	75	1	0	23	0.91
626069--626237	37	4.3	38	76	11	128	47	4	2	45	1.36
626077--626290	75	2.8	73	78	11	173	46	5	2	45	1.40
629429--629458	6	5.0	6	100	0	60	0	16	50	33	1.46
629662--629732	2	37.5	2	80	16	62	46	0	4	49	1.21
632876--633162	68	4.2	68	94	0	493	28	13	25	32	1.93
634545--634595	20	2.5	20	83	0	57	39	7	15	37	1.77
637233--637296	33	1.9	33	100	0	128	46	12	9	31	1.73
640334--640458	60	2.1	60	81	3	144	36	13	16	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
643875--643989	51	2.3	51	81	3	133	50	4	6	39	1.47
644533--644577	18	2.5	19	82	13	51	33	0	0	66	0.92
646690--646737	18	2.7	18	74	3	53	58	0	2	39	1.10
648401--648428	2	14.0	2	100	0	56	50	0	0	50	1.00
649068--649131	3	21.3	3	100	0	128	34	0	0	65	0.93
653431--653534	46	2.3	46	80	6	115	36	17	18	27	1.93
653561--653598	20	1.9	20	94	0	67	34	21	21	23	1.97
654371--654422	18	2.9	18	83	11	70	19	15	32	32	1.93
657404--657545	65	2.2	63	84	8	180	33	16	23	26	1.96
657533--657589	20	2.7	20	86	10	69	31	21	24	22	1.98
657553--657590	20	1.9	20	100	0	76	31	21	23	23	1.98
658236--658287	18	2.9	18	83	11	70	21	17	32	28	1.96
662154--662192	20	1.9	21	89	5	62	46	0	5	48	1.24
662415--662528	35	3.3	35	86	0	147	42	21	0	36	1.53
663620--663731	35	3.2	35	88	0	152	37	0	21	41	1.53
667900--668004	38	2.7	39	81	11	135	42	7	11	38	1.69
670108--670175	20	3.5	20	76	13	70	45	11	11	30	1.77
670715--670761	19	2.4	20	82	3	60	14	12	23	48	1.78
672462--672502	21	2.0	21	90	0	64	19	17	29	34	1.94
672936--673011	21	3.6	21	80	0	98	23	32	21	22	1.98
672938--673031	42	2.2	42	88	0	134	21	35	22	21	1.96
674448--674481	14	2.4	14	90	0	50	38	0	14	47	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
674627--674676	20	2.5	21	83	9	68	38	22	14	26	1.91
674672--674756	40	2.1	40	82	8	102	15	15	21	48	1.81
674698--674756	20	3.0	20	82	0	73	18	16	18	45	1.85
677274--677327	24	2.2	24	93	0	90	40	20	18	20	1.91
677274--677341	24	2.8	24	84	0	64	38	20	17	23	1.93
678261--678452	20	9.6	20	79	9	137	26	11	21	40	1.88
678262--678373	39	2.8	41	81	11	142	28	11	23	36	1.90
679802--679870	35	2.0	34	83	8	86	39	4	5	50	1.46
682726--682770	23	2.0	23	100	0	90	22	13	31	33	1.92
684739--684864	57	2.2	57	84	8	166	26	21	8	43	1.81

Tables:   1   2   3   4   5   6   7   8   9