genome.fa.s7731.2.7.7.80.10.50.1000.3.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: VEPZ01007731.1 Hibiscus syriacus cultivar Beakdansim tig00109983_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  835416

Tables:   1   2   3   4   

This is table  3  of  4  ( 449 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)
438871--438984	19	6.5	19	64	20	59	15	21	17	44	1.86
438937--439030	20	4.7	20	72	13	68	21	20	23	35	1.96
441292--441316	12	2.1	12	100	0	50	0	28	0	72	0.86
441491--441544	24	2.2	24	90	0	81	40	20	16	22	1.91
442289--442437	60	2.5	60	82	3	174	26	19	26	28	1.99
442284--442437	20	7.7	20	86	4	157	25	19	25	29	1.99
442264--442459	40	4.8	41	77	3	128	25	19	23	31	1.98
442427--442478	20	2.5	21	87	3	70	21	23	17	38	1.93
442468--442520	21	2.5	22	81	6	74	33	18	26	20	1.96
446670--446768	52	1.9	52	93	0	171	30	12	19	38	1.88
447325--447387	27	2.3	27	81	5	65	20	9	20	49	1.77
453813--453875	20	3.1	21	77	8	60	38	11	22	28	1.88
454710--454782	23	3.3	22	85	12	80	24	17	27	30	1.97
455727--455771	21	2.2	20	84	4	54	64	11	4	20	1.42
458155--458205	24	2.1	24	92	0	84	17	27	7	47	1.75
461817--461863	3	15.7	3	90	0	58	34	57	0	8	1.29
461817--461863	15	3.1	15	87	0	67	34	57	0	8	1.29
461817--461861	18	2.5	18	100	0	90	33	57	0	8	1.30
465251--465275	2	12.5	2	100	0	50	48	0	0	52	1.00
468504--468540	5	7.4	5	100	0	74	62	0	0	37	0.96
470683--470765	23	3.6	22	90	3	112	50	1	27	20	1.56
471631--471674	23	2.0	23	86	13	65	59	0	38	2	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474985--475047	24	2.7	23	83	9	83	47	1	26	23	1.61
475862--475901	20	2.0	20	85	4	55	60	0	40	0	0.97
475849--475906	25	2.2	26	79	14	66	58	0	41	0	0.98
484759--484794	16	2.2	16	90	0	54	36	0	22	41	1.54
485158--485213	20	2.8	20	94	0	94	25	17	32	25	1.97
486269--486334	2	33.0	2	100	0	132	50	0	0	50	1.00
486688--486755	23	3.0	23	86	0	100	17	26	26	29	1.98
488753--488791	20	2.0	20	84	0	51	61	0	23	15	1.33
491166--491227	2	31.0	2	100	0	124	50	0	0	50	1.00
492897--493015	42	2.8	42	85	2	141	28	16	21	33	1.95
492652--493265	299	2.1	299	89	2	921	31	16	18	33	1.93
492950--493459	257	2.0	258	89	1	774	32	16	17	33	1.92
493759--493846	45	1.9	46	90	2	142	27	23	19	29	1.98
501324--501367	21	2.1	21	82	0	52	9	43	15	31	1.79
502422--502460	20	2.0	20	84	0	51	30	30	15	23	1.95
502480--502570	45	2.0	46	84	2	121	28	23	18	29	1.98
503503--503543	19	2.2	19	100	0	82	63	4	21	9	1.44
506966--506996	9	3.4	9	95	0	53	54	3	0	41	1.16
508837--508901	27	2.3	29	77	15	73	21	3	24	50	1.63
508858--508921	29	2.2	30	81	13	71	20	4	20	54	1.62
510323--510387	2	33.5	2	90	6	107	47	1	0	50	1.10
511537--511605	3	23.0	3	82	5	59	39	1	1	57	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512531--512595	30	2.2	30	91	0	103	21	10	12	55	1.67
512830--512870	21	1.9	21	90	5	64	31	0	2	65	1.05
513084--513159	2	38.0	2	97	0	143	48	0	1	50	1.09
519747--519787	19	2.2	19	100	0	82	29	19	17	34	1.94
520659--520707	19	2.6	19	96	0	89	18	14	34	32	1.91
523259--523310	20	2.6	20	96	0	95	38	26	13	21	1.90
523300--523398	21	4.8	20	72	6	72	36	23	19	21	1.95
523365--523558	20	9.6	20	81	5	221	35	25	19	19	1.95
523365--523558	60	3.2	60	83	0	253	35	25	19	19	1.95
523939--524009	33	2.2	33	94	0	124	11	23	16	47	1.79
524129--524183	14	3.6	14	73	21	56	40	23	27	9	1.85
524129--524199	33	2.2	33	92	0	115	42	25	23	8	1.82
524195--524292	19	5.7	19	70	22	81	10	24	22	42	1.84
524217--524306	14	5.7	14	74	23	81	8	25	23	42	1.83
524200--524314	33	3.5	33	95	0	212	9	24	20	45	1.81
526010--526389	185	2.0	186	99	0	753	22	12	18	46	1.83
526010--526389	93	4.1	93	99	0	753	22	12	18	46	1.83
526448--526540	33	2.8	32	91	4	150	46	27	18	7	1.76
526431--526540	19	6.3	19	71	20	87	45	28	17	9	1.78
526536--526670	19	7.6	19	75	16	128	11	19	23	45	1.82
526558--526614	14	3.7	14	77	20	60	10	21	22	45	1.82
526541--526633	33	2.8	33	95	0	168	10	20	21	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528488--528560	38	1.9	38	97	0	137	28	1	16	53	1.51
528483--528547	19	3.4	19	64	8	51	24	1	15	58	1.46
528542--528577	14	2.6	14	95	0	63	33	0	22	44	1.53
528684--528785	19	5.6	19	84	13	151	44	17	23	14	1.86
528814--529120	19	17.4	19	78	16	349	14	19	18	47	1.82
528814--529053	71	3.4	71	82	11	346	15	19	17	47	1.82
528782--529120	142	2.4	136	89	6	495	14	19	18	47	1.83
528814--529092	52	5.2	52	89	6	345	14	20	17	47	1.82
531426--531450	12	2.1	12	100	0	50	0	28	0	72	0.86
531625--531671	24	2.0	24	87	8	69	38	21	14	25	1.92
532345--532713	20	18.5	20	86	4	458	20	18	26	34	1.96
542230--542294	29	2.2	29	83	5	78	36	9	9	44	1.68
546583--546622	2	20.5	2	94	5	73	50	0	0	50	1.00
546620--546645	4	6.5	4	100	0	52	26	0	0	73	0.84
548698--549463	37	20.2	37	73	9	531	24	17	22	34	1.96
548736--549503	153	5.0	152	92	1	1191	24	18	22	34	1.96
549505--550110	234	2.6	235	90	2	934	33	15	16	34	1.91
549914--550014	42	2.4	41	77	3	112	30	19	24	24	1.98
555549--555573	13	1.9	13	100	0	50	56	8	0	36	1.29
556005--556086	23	3.6	22	75	8	76	25	24	24	25	2.00
556005--556067	21	2.9	22	80	4	74	22	25	25	26	2.00
562993--563027	17	2.0	18	88	5	54	54	8	11	25	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566284--566309	4	6.5	4	100	0	52	76	0	0	23	0.78
568832--568887	2	28.5	2	96	3	105	50	0	0	50	1.00
576301--576345	21	2.1	21	87	0	63	31	28	24	15	1.96
576979--577025	23	2.0	24	91	4	78	44	0	21	34	1.52
577241--577383	31	4.6	31	92	0	241	19	20	22	37	1.95
580527--580571	21	2.1	21	87	0	63	31	28	24	15	1.96
581205--581251	23	2.0	24	91	4	78	44	0	21	34	1.52
581467--581622	31	5.0	31	91	1	242	20	20	22	36	1.95
589558--589604	18	2.8	17	84	9	53	55	0	0	44	0.99
602156--602811	325	2.0	325	93	2	1120	25	16	21	36	1.94
609825--610480	325	2.0	325	92	2	1102	25	16	21	36	1.94
617422--617491	36	1.9	36	91	0	113	34	12	34	18	1.89
617588--617644	2	29.5	2	75	7	55	50	0	0	49	1.00
617557--617644	40	2.2	40	84	11	112	51	0	0	48	1.00
617557--617644	46	1.9	46	92	0	149	51	0	0	48	1.00
618632--618731	42	2.4	42	84	0	146	31	22	12	35	1.90
627584--627873	49	5.9	49	74	4	235	40	10	14	34	1.81
630902--630979	33	2.4	33	100	0	156	25	10	11	52	1.69
631212--631262	5	10.0	5	77	10	50	17	3	5	72	1.20
631217--631279	14	4.5	13	77	15	63	17	3	4	74	1.12
635713--635832	34	3.4	34	77	11	118	77	2	13	6	1.07
635713--635785	27	2.7	27	87	6	96	80	0	15	4	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635713--635791	8	9.4	8	78	13	79	81	0	15	3	0.84
635737--635815	41	2.0	39	82	9	97	78	2	15	3	1.00
637488--637657	83	2.0	83	94	0	295	44	11	12	31	1.78
637771--637892	59	2.1	59	82	3	147	31	9	18	40	1.81
637936--638028	41	2.3	41	79	7	109	24	22	20	32	1.98
638903--639166	91	2.9	89	88	5	368	38	14	22	23	1.92
639080--639428	115	3.0	114	87	5	497	36	15	22	25	1.93
640581--640710	51	2.6	50	79	10	133	24	12	4	58	1.53
641091--641124	15	2.3	15	89	0	50	26	8	17	47	1.77
642904--642960	2	28.5	2	100	0	114	49	0	0	50	1.00

Tables:   1   2   3   4