genome.fa.s7880.2.7.7.80.10.50.1000.2.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: VEPZ01007880.1 Hibiscus syriacus cultivar Beakdansim tig00110258_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1382630

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 593 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)
308831--308857	2	13.5	2	100	0	54	48	0	0	51	1.00
313084--313115	2	16.0	2	100	0	64	50	0	0	50	1.00
314066--314117	16	3.2	16	75	0	59	17	23	17	42	1.89
316382--316426	16	2.8	16	93	0	72	15	26	20	37	1.92
317862--317930	10	7.1	10	73	12	63	18	21	30	28	1.97
317862--317932	19	3.7	19	84	5	81	18	23	29	28	1.98
317927--317983	17	3.4	17	95	0	87	19	43	21	15	1.87
317973--318009	7	5.4	7	93	6	67	16	29	29	24	1.96
317973--318005	13	2.5	13	95	5	57	15	30	30	24	1.95
324480--324567	10	9.1	10	77	12	94	18	23	30	27	1.97
324480--324569	19	4.7	19	90	6	128	17	25	30	26	1.98
324564--324620	17	3.4	17	95	0	87	19	43	21	15	1.87
324610--324653	7	6.4	7	89	5	72	18	29	27	25	1.98
324610--324653	20	2.1	21	91	4	72	18	29	27	25	1.98
326482--326551	2	35.0	2	97	0	131	51	48	0	0	1.00
326551--326578	2	14.0	2	100	0	56	50	0	0	50	1.00
332255--332320	23	2.9	23	88	0	96	22	25	25	25	2.00
338507--338551	17	2.6	17	100	0	90	33	6	20	40	1.78
342848--342877	2	15.0	2	100	0	60	50	0	0	50	1.00
342756--342978	123	1.8	122	89	2	349	28	17	4	49	1.66
346934--347740	404	2.0	400	95	0	1461	30	20	12	35	1.90
350723--350752	2	15.0	2	92	0	51	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355029--355066	19	2.0	19	89	0	58	26	42	10	21	1.85
367892--367933	18	2.4	18	84	7	61	78	0	19	2	0.86
367890--367932	7	5.6	7	84	13	50	79	0	18	2	0.85
368687--369563	105	8.3	105	95	0	1466	32	24	18	23	1.97
370096--370126	2	16.0	2	93	6	55	48	0	0	51	1.00
371248--371288	2	20.5	2	100	0	82	48	0	0	51	1.00
373211--373278	23	3.0	23	86	0	100	16	19	8	55	1.66
373211--373302	46	2.0	46	80	4	105	18	19	9	52	1.73
387471--387517	2	23.5	2	100	0	94	48	0	0	51	1.00
390229--390286	16	3.6	16	83	0	80	15	25	20	37	1.92
391304--391331	2	14.0	2	100	0	56	50	0	0	50	1.00
392232--392313	35	2.3	35	89	2	128	26	15	17	40	1.89
392330--392395	16	4.1	16	77	14	73	18	18	21	42	1.89
394418--394494	31	2.5	31	82	2	100	28	31	25	14	1.95
394371--394494	63	2.0	63	82	6	153	26	29	27	16	1.97
395377--395419	22	2.0	22	95	0	77	11	23	46	18	1.82
395418--395534	19	6.1	19	81	10	121	29	29	25	16	1.97
395429--395533	29	3.6	28	84	6	120	30	28	25	15	1.96
395416--395533	9	12.3	9	78	10	101	28	28	27	15	1.96
401648--401835	102	1.8	102	88	2	288	29	17	4	48	1.67
412493--412530	19	2.0	19	89	0	58	26	42	10	21	1.85
414400--414442	2	21.5	2	100	0	86	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425344--425384	16	2.5	17	88	4	66	78	0	19	2	0.87
426124--426986	105	8.3	105	91	4	1331	32	24	18	23	1.97
426124--426986	307	2.8	312	91	2	1339	32	24	18	23	1.97
428642--428678	2	18.5	2	100	0	74	48	0	0	51	1.00
428836--428870	18	1.9	18	88	0	52	40	2	2	54	1.30
430261--430323	23	2.7	23	87	0	99	17	19	9	53	1.70
434078--434212	69	2.0	69	90	0	216	33	14	20	32	1.92
443270--443330	6	10.2	6	96	0	95	29	49	16	4	1.66
443328--443376	5	9.8	5	93	0	62	16	36	40	6	1.73
448442--448522	6	13.5	6	100	0	162	33	50	16	0	1.45
448521--448570	5	10.0	5	93	0	55	14	38	40	8	1.75
448521--448570	15	3.3	15	82	0	64	14	38	40	8	1.75
450862--450913	16	3.2	16	75	0	59	17	23	17	42	1.89
452216--452260	2	22.5	2	100	0	90	48	0	0	51	1.00
453198--453242	16	2.8	16	93	0	72	15	26	20	37	1.92
453341--453367	13	2.1	13	100	0	54	62	0	0	37	0.95
454246--454279	2	17.0	2	93	0	59	52	47	0	0	1.00
454279--454328	2	25.0	2	100	0	100	50	0	0	50	1.00
460010--460073	23	2.8	23	87	0	92	21	25	26	26	2.00
466281--466324	17	2.6	17	100	0	88	34	6	18	40	1.77
470525--470738	113	1.9	113	87	3	315	27	18	4	50	1.66
476448--476486	3	13.0	3	94	0	60	33	0	5	61	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486229--486285	29	1.9	29	82	3	69	36	12	7	43	1.69
488090--488136	21	2.2	21	96	0	85	42	8	27	21	1.81
489058--489184	45	2.8	45	90	0	182	30	6	29	33	1.82
489152--489244	29	3.1	29	66	11	71	40	4	19	35	1.71
495702--495752	27	2.0	25	88	7	75	39	13	19	27	1.90
497486--497518	15	2.1	16	94	5	59	51	12	24	12	1.73
500498--500549	25	2.1	25	100	0	104	26	26	15	30	1.96
500791--500879	37	2.5	37	85	3	110	33	8	14	42	1.77
514873--514899	14	1.9	14	100	0	54	44	18	22	14	1.86
515076--515108	13	2.3	15	90	10	52	54	3	3	39	1.31
519097--519158	24	2.5	24	76	10	63	64	8	3	24	1.36
519172--519258	23	3.8	23	75	6	86	22	39	14	22	1.91
530615--530664	2	25.0	2	100	0	100	50	0	0	50	1.00
532657--532718	31	2.0	31	90	6	99	29	27	9	33	1.88
544643--545739	298	3.7	294	83	9	1300	30	12	18	39	1.87
544950--545706	296	2.6	277	82	9	653	31	12	16	39	1.85
549694--549728	2	17.5	2	100	0	70	51	0	0	48	1.00
553310--553369	29	2.2	28	88	11	97	43	18	25	13	1.86
558755--558792	20	1.9	20	94	0	67	18	28	26	26	1.98
559559--559696	60	2.3	60	88	0	195	21	18	23	35	1.96
561726--561776	21	2.5	20	81	15	61	72	0	7	19	1.08
563192--563513	5	62.4	5	73	20	197	56	2	1	39	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563197--563532	2	181.0	2	68	22	191	55	2	1	39	1.22
563197--563531	11	30.5	11	74	17	238	56	2	1	39	1.22
563191--563529	43	7.4	45	76	14	247	56	2	1	39	1.22
564383--564414	16	2.0	16	93	0	55	78	0	9	12	0.97
564421--564510	27	3.3	27	67	17	69	65	0	11	23	1.24
564448--564481	15	2.3	15	100	0	68	82	0	5	11	0.83
564389--564571	57	3.2	54	79	12	167	68	1	10	19	1.24
564417--564546	55	2.4	52	81	12	154	70	0	10	18	1.21
569351--569473	47	2.6	47	90	1	194	31	15	21	31	1.94
573874--574113	125	1.9	125	79	5	270	32	18	28	21	1.97
575300--575421	36	3.4	36	72	3	111	36	21	17	25	1.95
575792--576483	54	12.9	54	87	3	918	33	19	25	21	1.97
576434--576705	55	4.9	55	85	7	320	31	14	25	27	1.95
580007--580067	3	20.3	3	100	0	122	34	0	0	65	0.93
585322--585377	21	2.7	21	97	0	103	48	19	23	8	1.77
587124--587173	18	2.8	18	93	0	91	32	22	24	22	1.98
588169--588208	17	2.3	18	91	4	64	57	0	2	40	1.12
590799--590832	2	17.0	2	93	0	59	50	2	0	47	1.16
602183--602256	24	3.1	24	88	0	103	25	13	17	43	1.86
606885--607036	75	2.0	75	100	0	304	29	21	21	27	1.98
611961--612150	36	5.3	36	84	0	220	34	22	23	19	1.96
614957--614981	13	1.9	13	100	0	50	44	0	8	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
614983--615019	19	2.1	18	90	10	58	37	10	5	45	1.62
620895--620934	17	2.3	18	87	12	57	55	0	5	40	1.22
626231--626266	17	2.1	17	94	0	63	63	0	0	36	0.94
628734--628766	2	16.5	2	100	0	66	48	0	0	51	1.00
628904--628999	39	2.4	41	77	3	106	45	28	7	18	1.76
629301--629438	37	3.7	37	81	6	136	42	2	6	48	1.44
629280--629448	38	4.5	38	80	2	164	42	2	7	47	1.46
630059--630464	95	4.3	95	88	0	569	26	18	22	32	1.97
630928--631157	75	3.1	75	86	0	334	40	10	18	31	1.84
631694--631810	57	2.1	56	79	12	123	22	8	10	58	1.57

Tables:   1   2   3   4   5