genome.fa.s7780.2.7.7.80.10.50.1000.3.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: VEPZ01007780.1 Hibiscus syriacus cultivar Beakdansim tig00110063_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  764298

Tables:   1   2   3   4   

This is table  3  of  4  ( 374 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)
550184--550217	3	11.3	3	93	0	59	35	0	0	64	0.94
550329--550397	29	2.5	28	85	4	86	42	2	10	44	1.53
550304--550438	68	1.9	71	86	7	197	43	3	8	43	1.53
550372--550462	44	2.1	43	87	2	128	43	3	6	46	1.46
550791--550829	15	2.8	14	81	11	53	15	2	0	82	0.79
551613--551647	16	2.2	16	89	0	52	51	0	2	45	1.16
554475--554516	18	2.3	18	84	8	50	69	9	4	16	1.33
555929--555973	2	22.5	2	100	0	90	48	0	0	51	1.00
556492--556544	22	2.4	21	81	6	52	35	0	26	37	1.57
556684--556714	2	15.5	2	100	0	62	48	0	0	51	1.00
558651--558694	21	2.1	21	83	8	54	52	2	2	43	1.26
571280--571317	14	2.6	15	83	4	51	21	21	31	26	1.98
575814--575903	34	2.5	36	92	5	148	45	14	11	28	1.79
576303--576345	18	2.5	17	85	7	61	25	4	2	67	1.22
576827--576893	2	33.5	2	96	0	125	47	0	0	52	1.00
578072--578109	5	7.6	5	100	0	76	18	0	0	81	0.69
580582--580684	17	6.4	16	71	13	77	78	5	14	0	0.98
580605--580695	46	2.0	47	84	6	123	76	7	14	1	1.05
581317--581371	22	2.5	22	100	0	110	36	27	12	23	1.91
581786--581821	18	2.0	18	88	0	54	19	8	30	41	1.81
582258--582581	72	4.6	73	77	10	248	26	19	15	38	1.91
582300--582581	36	8.0	36	80	8	321	25	19	14	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582356--582544	102	1.9	102	89	2	299	26	18	13	40	1.88
582320--582644	138	2.4	137	85	2	454	27	20	12	39	1.88
582539--582694	66	2.4	66	83	5	190	32	21	8	37	1.83
582530--582694	65	2.5	64	82	4	186	30	21	8	39	1.83
583315--584080	105	7.3	105	89	2	1094	33	26	17	22	1.96
584628--584729	34	2.9	36	88	5	163	43	13	14	28	1.84
585121--585158	17	2.2	17	86	9	51	26	5	2	65	1.27
592917--592989	23	3.3	23	81	9	98	35	27	19	17	1.94
592909--592989	21	3.7	23	79	11	89	35	27	19	17	1.94
593164--593588	139	3.1	139	83	0	519	32	29	15	23	1.95
594523--594672	40	3.8	40	91	0	237	36	30	13	20	1.91
595564--595594	15	2.1	15	93	0	53	41	3	0	54	1.16
596023--596121	14	7.5	13	68	25	57	62	3	3	31	1.25
596079--596121	21	2.0	21	82	8	52	67	4	0	27	1.10
597416--597474	3	18.7	3	89	6	66	72	0	0	27	0.84
597839--598165	123	2.7	122	89	2	523	25	20	14	39	1.90
598552--598614	22	2.9	22	90	0	90	34	14	12	38	1.84
599283--599320	18	2.1	18	95	0	67	55	5	7	31	1.51
606785--606816	15	2.1	15	100	0	64	50	6	18	25	1.70
610537--610581	2	24.0	2	78	13	51	46	2	0	51	1.13
610537--610575	15	2.5	16	87	8	62	46	2	0	51	1.14
610536--610585	23	2.1	23	88	7	73	48	2	0	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610988--611108	50	2.5	51	81	8	135	64	2	2	30	1.20
612326--612373	3	15.7	3	95	4	87	68	0	0	31	0.90
613586--613658	30	2.4	29	82	6	92	34	17	6	41	1.76
613605--613670	30	2.2	30	86	2	87	30	15	10	43	1.80
615228--615324	9	11.1	9	78	10	78	1	22	0	76	0.85
615247--615330	3	29.0	3	76	11	77	2	23	0	73	0.94
615228--615331	11	9.7	11	75	21	80	1	22	0	75	0.89
615232--615319	6	14.8	6	77	13	67	1	22	0	76	0.86
618201--618249	24	2.0	24	100	0	98	42	12	12	32	1.79
620534--620594	21	2.9	21	85	0	86	31	27	19	21	1.97
621504--621663	65	2.5	65	85	5	200	28	19	21	30	1.98
621504--621713	65	3.2	64	80	11	189	27	19	22	30	1.98
623927--624005	12	6.4	13	70	16	51	72	0	10	17	1.12
624260--624297	19	2.0	19	85	10	51	65	0	2	31	1.06
624230--624297	21	3.2	22	76	17	72	63	0	4	32	1.14
624829--624925	37	2.6	37	88	0	149	29	13	16	40	1.87
625649--626704	106	10.0	106	90	1	1608	23	18	24	33	1.96
627430--627470	12	3.2	13	76	16	50	41	2	14	41	1.59
627430--627476	24	2.0	24	87	8	69	38	2	14	44	1.58
627670--627746	22	3.5	22	94	0	136	20	14	27	37	1.91
628351--628437	20	4.6	19	79	16	76	2	12	5	79	1.00
628350--628441	26	3.4	25	78	13	76	2	13	5	79	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
628357--628422	22	3.0	22	73	20	59	1	10	6	81	0.92
628377--628423	17	2.8	16	79	20	60	0	10	6	82	0.82
632853--632927	12	6.2	12	81	9	80	76	0	5	18	0.98
632893--632934	4	10.2	4	94	5	75	73	0	2	23	0.94
632939--632964	2	13.0	2	100	0	52	50	0	0	50	1.00
632979--633032	21	2.8	18	81	15	56	62	3	3	29	1.29
632983--633033	18	2.6	19	79	11	59	62	3	3	29	1.31
633173--633222	2	25.5	2	95	4	93	50	0	0	50	1.00
633206--633278	38	1.9	38	86	5	103	56	0	4	39	1.19
633797--633901	37	2.8	37	80	0	129	30	15	13	40	1.85
634277--634319	2	21.5	2	100	0	86	51	0	0	48	1.00
634726--634820	23	4.4	21	75	13	79	28	20	23	28	1.98
640601--640760	65	2.5	65	85	7	202	26	20	23	30	1.98
641654--641709	22	2.7	22	81	8	64	25	35	16	23	1.94
647850--647889	11	3.9	10	84	15	55	80	7	0	12	0.91
648911--648945	15	2.3	15	95	0	61	80	0	20	0	0.72
650420--650470	19	2.7	19	96	0	93	29	25	21	23	1.99
650552--650740	42	4.5	42	96	0	342	20	17	25	36	1.94
651516--651572	6	9.5	6	96	0	87	0	15	56	28	1.40
651662--652337	42	16.4	40	77	11	457	36	23	18	21	1.95
651662--652337	61	10.9	59	86	7	472	36	23	18	21	1.95
651715--651954	103	2.3	103	93	0	417	35	23	19	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651715--652188	103	4.6	101	86	6	387	36	23	18	21	1.95
651665--652399	166	4.4	164	90	2	1062	35	24	18	21	1.95
663803--663834	2	16.0	2	100	0	64	50	0	0	50	1.00
664340--664378	2	19.5	2	100	0	78	51	0	0	48	1.00
664746--664775	2	15.0	2	100	0	60	50	0	0	50	1.00
667033--667114	23	3.6	23	91	0	128	23	19	25	31	1.98
668869--668905	18	2.1	18	100	0	74	37	18	21	21	1.94
671162--671323	44	3.6	44	89	2	243	30	21	8	39	1.82
671437--671553	61	1.9	61	87	3	173	30	28	17	23	1.97
678017--678227	46	4.7	45	92	1	318	31	20	7	40	1.81
678336--678457	61	2.0	61	85	0	163	27	27	18	26	1.98
680194--680266	30	2.4	30	90	0	119	28	17	13	39	1.88
681907--681949	18	2.4	18	100	0	86	46	0	20	32	1.51
686990--687052	20	3.1	21	84	8	69	33	12	23	30	1.92
687003--687052	21	2.5	20	87	9	66	30	12	24	34	1.91
692771--692822	20	2.6	20	78	6	61	32	13	26	26	1.94
693628--693714	23	3.8	23	87	0	129	24	21	26	27	1.99
699452--699556	23	4.7	23	85	4	135	23	20	25	30	1.98
710248--710480	124	1.9	124	86	1	333	34	15	17	33	1.91
711477--711521	20	2.2	20	100	0	90	31	20	17	31	1.96
715862--715905	18	2.4	18	81	7	54	52	0	2	45	1.13
715871--715908	20	2.0	18	90	10	58	47	0	5	47	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
731164--731196	15	2.2	15	100	0	66	24	18	12	45	1.83
732068--732105	2	19.0	2	100	0	76	50	0	0	50	1.00
732194--732228	18	1.9	18	88	0	52	28	5	17	48	1.69
732577--732610	16	2.1	17	88	5	52	61	8	0	29	1.26
736831--736911	29	2.8	29	96	3	146	44	16	22	17	1.86
737293--737348	22	2.5	22	91	0	94	35	10	8	44	1.71
745064--745100	20	1.9	19	89	10	58	45	5	24	24	1.74
745240--745316	37	2.1	38	85	4	104	45	2	2	49	1.29
745877--745910	2	17.0	2	100	0	68	50	0	0	50	1.00
747111--747145	12	2.8	13	87	12	56	57	0	0	42	0.99

Tables:   1   2   3   4