genome.fa.s7418.2.7.7.80.10.50.1000.3.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: VEPZ01007418.1 Hibiscus syriacus cultivar Beakdansim tig00020063_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1198774

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 645 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)
453327--454494	265	4.4	264	87	3	1619	30	17	19	32	1.95
454884--454969	3	29.3	3	81	9	106	30	5	0	63	1.17
455318--455364	21	2.2	21	100	0	94	38	21	31	8	1.83
455329--455375	21	2.2	21	84	0	58	46	17	27	8	1.76
456952--456998	2	24.0	2	95	4	87	51	0	0	48	1.00
457071--457207	58	2.3	58	81	3	148	30	18	5	45	1.71
457890--457929	3	13.3	3	94	0	71	32	0	0	67	0.91
459341--459453	60	1.9	60	81	3	138	35	11	15	38	1.83
461929--462033	16	6.6	16	72	19	87	28	1	0	68	1.06
461928--462061	14	9.2	13	74	18	90	26	3	0	68	1.11
462227--462259	15	2.2	15	89	10	50	12	6	0	81	0.85
462332--462370	6	6.5	6	96	0	69	15	12	0	71	1.14
462320--462390	18	3.9	18	75	18	60	16	8	1	73	1.15
462322--462391	6	11.5	6	82	8	52	15	8	1	74	1.13
464728--464947	111	2.0	109	98	1	422	30	12	24	33	1.92
465029--465283	95	2.7	94	80	7	275	32	18	16	33	1.93
466796--466825	2	15.0	2	100	0	60	50	0	0	50	1.00
467138--467236	21	4.7	21	96	0	180	25	24	27	23	2.00
469222--469256	12	3.0	12	87	4	54	11	14	8	65	1.46
474767--474809	23	1.9	23	90	4	70	13	11	4	69	1.33
475866--476669	84	9.6	82	81	3	750	32	24	18	24	1.97
475900--476669	168	4.6	167	82	4	845	32	24	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475900--476669	252	3.1	252	84	2	931	32	24	18	24	1.97
478565--478625	32	1.9	32	83	6	79	26	9	0	63	1.25
478877--478937	6	10.5	6	81	12	56	14	6	1	77	1.05
486862--486898	12	3.1	12	92	7	58	0	56	0	43	0.99
486862--486893	14	2.3	14	100	0	64	0	56	0	43	0.99
489520--489588	22	3.1	22	95	0	120	36	27	15	20	1.93
493774--493853	39	2.1	39	97	0	151	35	7	28	28	1.84
496285--496518	121	1.9	122	90	2	373	31	23	16	28	1.96
497983--498092	24	4.6	24	84	4	141	41	20	14	23	1.89
500374--500416	17	2.5	17	88	0	59	30	27	25	16	1.97
505566--505598	3	11.0	3	93	0	57	33	3	0	63	1.10
508257--508407	29	5.2	29	93	1	223	41	24	5	29	1.77
514667--514699	15	2.2	15	89	10	50	48	12	18	21	1.80
515450--515626	29	6.1	29	88	5	243	40	23	6	30	1.79
515450--515626	86	2.0	87	88	5	261	40	23	6	30	1.79
515633--515685	17	3.1	17	91	5	88	13	24	45	16	1.83
523566--523648	21	3.9	21	78	10	69	26	32	24	16	1.96
523566--523625	23	2.8	21	87	5	75	26	33	23	16	1.96
534971--535018	13	3.5	13	75	10	51	52	4	8	35	1.51
542588--542629	19	2.3	18	80	15	50	52	9	7	30	1.61
543140--543173	15	2.2	16	89	5	52	26	2	32	38	1.71
545026--545390	131	2.8	131	89	0	541	40	15	10	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550940--550985	22	2.1	22	84	8	58	30	2	4	63	1.26
551096--551152	28	2.0	29	82	3	71	40	1	3	54	1.28
552355--552385	13	2.3	14	94	5	55	48	9	12	29	1.73
557241--557276	17	2.1	17	94	0	63	11	2	33	52	1.51
557248--557281	17	2.0	17	94	0	59	14	0	35	50	1.44
557545--557772	119	1.9	119	87	1	332	27	20	19	32	1.97
557646--558108	136	3.4	135	84	2	581	27	19	17	35	1.94
559041--559099	25	2.5	24	81	8	68	5	20	0	74	1.00
559041--559090	12	4.1	12	82	5	55	6	22	0	72	1.07
569598--569644	20	2.3	22	75	20	57	72	6	0	21	1.07
572295--572347	3	17.7	3	100	0	106	33	0	0	66	0.92
573056--573099	20	2.2	21	88	8	65	34	2	2	61	1.21
573711--573768	2	29.0	2	100	0	116	50	0	0	50	1.00
574715--574833	24	5.0	24	87	4	159	40	19	14	26	1.89
574715--574851	72	1.9	72	82	5	170	41	18	13	26	1.88
579752--579792	13	3.3	12	87	12	57	75	0	7	17	1.02
579752--579812	13	5.3	11	76	9	52	73	0	8	18	1.07
579894--579959	34	1.9	35	84	9	91	72	6	0	21	1.05
579909--579958	22	2.2	23	82	3	57	74	8	0	18	1.06
581019--582246	106	11.6	106	91	1	1919	23	17	24	34	1.96
586934--586989	10	5.7	10	72	19	55	76	0	5	17	0.96
586934--586984	20	2.5	21	87	6	70	76	0	5	17	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587066--587130	33	1.9	34	84	9	89	72	6	0	21	1.06
587851--587951	37	2.7	37	85	0	130	29	13	14	41	1.85
588030--588148	24	5.0	24	86	4	159	38	21	13	26	1.90
593128--593195	21	3.2	21	65	19	50	63	14	10	11	1.53
594949--594992	3	14.0	3	86	9	61	36	0	0	63	0.95
595084--595129	23	2.0	23	91	8	76	41	47	8	2	1.46
597937--597966	12	2.5	12	94	0	51	20	0	0	80	0.72
601987--602066	41	1.9	42	84	2	108	27	16	21	35	1.94
601837--602792	255	3.7	257	83	3	1165	33	15	16	34	1.90
602922--602968	3	15.7	3	82	8	60	34	0	0	65	0.93
602922--602982	21	3.0	20	88	7	86	34	1	0	63	1.04
606024--606546	37	13.8	37	86	5	624	44	3	7	44	1.49
606024--606546	75	6.9	75	86	4	705	44	3	7	44	1.49
606597--606646	26	1.9	27	84	8	68	32	2	0	66	1.03
606625--606654	4	7.2	4	92	7	51	23	0	0	76	0.78
606625--606662	12	3.2	13	89	10	55	23	0	0	76	0.79
606594--606660	27	2.6	26	78	4	73	28	1	0	70	0.96
610554--610607	26	2.1	26	100	0	108	62	11	11	14	1.53
614749--614815	22	3.1	21	72	6	62	22	8	2	65	1.34
620053--620114	25	2.6	24	89	5	90	30	35	1	32	1.68
621928--622009	23	3.7	22	87	4	103	18	26	31	23	1.97
628667--629118	38	11.6	37	74	15	328	44	1	8	45	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
628848--628879	2	16.5	2	93	6	57	53	0	0	46	1.00
628809--628917	55	2.0	53	91	3	173	48	1	5	44	1.36
628773--628955	93	2.0	89	87	4	258	46	1	6	45	1.39
628864--629155	76	3.8	76	82	7	340	45	3	8	42	1.52
629165--629213	4	11.8	4	78	8	53	16	0	4	79	0.88
629152--629215	13	4.8	13	76	16	60	18	1	3	76	1.00
634370--634408	3	13.7	3	89	10	64	66	0	0	33	0.92
634589--637011	54	44.8	54	82	7	1671	23	24	19	32	1.97
634701--635340	55	11.8	55	77	12	467	29	22	16	31	1.96
634843--634931	44	2.0	44	86	0	124	28	23	13	34	1.93
634788--634986	99	2.0	99	89	0	299	28	24	14	32	1.95
635297--637000	162	10.5	162	86	3	2046	21	24	19	33	1.97
647066--647101	3	12.7	3	88	11	58	66	0	0	33	0.92
651839--651873	17	2.1	17	100	0	70	37	0	5	57	1.23
654887--654936	20	2.5	20	76	0	64	48	16	16	20	1.82
654764--655196	194	2.2	194	85	3	559	42	11	13	31	1.80
658850--658914	6	10.8	6	81	0	67	30	4	12	52	1.59
658850--658914	18	3.6	18	82	0	76	30	4	12	52	1.59
658816--658915	6	16.7	6	75	8	51	29	8	9	54	1.60
661409--661892	227	2.1	225	86	1	664	31	14	14	40	1.86
661742--662001	118	2.2	119	88	0	387	31	17	13	37	1.89
665751--665793	20	2.2	20	86	0	59	18	4	18	58	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
667359--667416	26	2.1	28	84	12	77	31	24	3	41	1.71
669320--669627	156	2.0	155	83	3	386	37	29	12	19	1.89
669671--669733	24	2.6	24	82	5	74	46	17	12	23	1.83
673811--673842	2	16.0	2	100	0	64	50	0	0	50	1.00
674271--674304	16	2.1	17	88	5	52	29	5	8	55	1.54
682308--682366	26	2.2	27	87	6	93	57	18	8	15	1.63
682428--682473	19	2.4	19	92	0	74	67	13	8	10	1.42
687778--688141	174	2.1	175	87	1	525	32	15	15	35	1.90
688475--688513	20	2.0	20	94	0	69	25	30	17	25	1.97
687950--688801	258	3.3	260	74	9	645	31	15	19	34	1.93

Tables:   1   2   3   4   5   6