genome.fa.s5344.2.7.7.80.10.50.1000.2.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: VEPZ01005344.1 Hibiscus syriacus cultivar Beakdansim tig00012104_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  640787

Tables:   1   2   3   

This is table  2  of  3  ( 321 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)
306260--306342	32	2.5	32	92	3	130	54	0	44	1	1.08
306260--306340	22	3.7	21	72	18	58	53	0	45	1	1.08
306484--306508	11	2.3	11	100	0	50	84	0	0	16	0.63
306532--306561	15	2.0	15	100	0	60	66	0	0	33	0.92
308136--308191	2	28.0	2	100	0	112	50	0	0	50	1.00
308448--308581	60	2.2	60	94	0	250	24	21	7	46	1.77
309413--309460	25	2.0	24	83	4	60	37	2	4	56	1.30
310941--311027	31	2.7	33	83	5	106	54	8	20	17	1.68
320000--320130	60	2.2	59	83	5	165	35	4	22	37	1.75
323807--323856	22	2.3	21	76	10	55	60	2	0	38	1.09
323812--323854	22	1.9	22	85	4	59	58	2	0	39	1.11
324330--324384	24	2.3	24	100	0	110	41	7	3	47	1.49
324994--325029	18	2.0	18	88	0	54	11	19	11	58	1.62
326852--326917	19	3.3	19	66	22	53	25	6	18	50	1.70
326821--326952	42	3.1	42	96	1	237	24	6	19	49	1.72
326829--326940	23	5.2	23	63	23	73	22	8	19	50	1.74
327044--327105	31	2.0	31	96	0	115	43	12	11	32	1.79
328511--328553	17	2.7	16	80	20	54	39	4	0	55	1.20
329021--329046	11	2.4	11	100	0	52	53	0	0	46	1.00
330528--330622	49	1.9	49	86	0	136	18	37	29	13	1.90
338037--338130	29	3.2	29	70	8	82	35	2	24	38	1.68
337999--338127	58	2.2	58	83	8	163	35	3	21	38	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
345688--345756	23	3.2	23	63	23	58	21	13	18	46	1.83
345677--345782	42	2.5	42	93	0	185	21	8	21	48	1.77
345701--345770	23	3.2	23	63	29	62	20	11	20	48	1.79
345869--345930	31	2.0	31	96	0	115	43	12	11	32	1.79
346905--346940	2	18.0	2	94	0	63	47	0	2	50	1.15
349673--349834	42	3.8	42	90	3	198	23	6	22	47	1.74
349753--349822	23	3.2	23	66	22	69	21	10	20	48	1.78
351449--351473	2	12.5	2	100	0	50	52	0	0	48	1.00
354285--354360	35	2.2	35	90	0	116	19	19	17	43	1.88
357375--357444	2	35.0	2	100	0	140	50	0	0	50	1.00
358050--358211	42	3.8	42	90	3	207	23	6	22	47	1.75
358130--358199	23	3.2	23	66	22	69	21	10	20	48	1.78
358298--358359	31	2.0	31	93	0	106	45	12	11	30	1.78
363177--363210	2	16.0	2	88	11	50	47	0	5	47	1.26
363429--363460	6	5.3	6	96	0	55	62	15	18	3	1.45
364607--364644	17	2.5	15	80	19	51	31	5	2	60	1.33
364611--364642	17	1.9	16	93	6	55	31	3	3	62	1.26
366445--366522	31	2.4	33	82	6	97	55	8	19	16	1.67
372175--372207	15	2.1	16	88	5	50	9	24	15	51	1.72
372953--372987	16	2.1	17	94	5	63	34	25	8	31	1.86
376210--376288	2	39.5	2	100	0	158	50	0	0	49	1.00
376391--376556	60	2.7	59	81	9	183	32	17	5	44	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376408--376563	60	2.6	59	82	9	190	34	16	4	44	1.68
376682--376869	60	3.2	59	83	4	209	36	6	23	34	1.80
380369--380418	22	2.3	21	76	10	55	60	2	0	38	1.09
380374--380416	22	1.9	22	85	4	59	58	2	0	39	1.11
383217--383286	23	3.2	23	66	22	69	21	10	20	48	1.78
383193--383298	42	2.5	42	98	0	203	23	8	18	49	1.75
384515--384555	19	2.2	19	95	4	75	26	21	19	31	1.97
386767--386809	17	2.7	16	80	20	54	39	2	0	58	1.11
386767--386808	16	2.7	15	76	23	50	40	2	0	57	1.12
386983--387038	3	18.7	3	96	0	103	33	1	0	64	1.04
388489--388535	14	3.5	13	80	13	51	40	2	2	55	1.24
389167--389210	17	2.6	17	85	3	54	31	6	0	61	1.22
399846--399893	8	6.1	8	90	9	57	89	0	10	0	0.48
399858--399893	1	36.0	1	88	0	54	94	0	5	0	0.31
399858--399893	10	3.7	10	96	3	65	94	0	5	0	0.31
399849--399893	20	2.2	20	92	8	72	91	0	8	0	0.43
399849--399892	18	2.4	18	92	0	70	90	0	9	0	0.44
401032--401860	83	10.0	83	98	0	1570	27	14	22	34	1.93
402647--403217	228	2.6	223	88	6	811	37	14	19	29	1.91
402654--403216	113	5.0	113	86	6	756	37	13	19	29	1.91
403149--403281	65	2.0	65	95	0	239	37	11	18	32	1.87
403214--403479	114	2.3	113	89	5	396	39	10	19	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403731--403777	3	15.7	3	95	0	85	34	2	0	63	1.06
406143--406168	11	2.4	11	100	0	52	53	0	0	46	1.00
407560--407596	2	18.5	2	100	0	74	48	0	0	51	1.00
409256--409282	9	3.0	9	100	0	54	33	0	0	66	0.92
410693--410781	31	2.8	31	80	11	101	55	11	17	15	1.69
411804--411896	4	23.0	4	73	18	52	74	2	3	20	1.07
411866--411934	19	3.6	19	74	14	54	68	0	5	26	1.12
411977--412027	17	2.9	18	82	11	61	58	7	1	31	1.37
412013--412057	18	2.5	18	81	0	54	64	2	4	28	1.25
413129--413167	16	2.6	14	88	8	51	43	2	2	51	1.29
413629--414296	105	6.4	105	96	0	1129	22	19	25	32	1.97
415126--415177	1	52.0	1	76	0	50	0	0	11	88	0.52
415126--415176	9	5.6	9	86	13	77	0	0	11	88	0.52
415126--415177	19	2.8	19	88	11	81	0	0	11	88	0.52
415132--415177	20	2.4	19	88	3	74	0	0	10	89	0.50
424595--424628	10	3.4	10	87	0	50	73	0	5	20	1.04
425574--425599	5	5.2	5	100	0	52	80	0	0	19	0.71
425706--425756	17	2.9	18	82	11	61	58	7	1	31	1.37
425742--425786	18	2.5	18	81	0	54	64	2	4	28	1.25
426854--426892	16	2.6	14	88	8	51	43	2	2	51	1.29
431113--431262	60	2.5	60	80	5	151	31	18	6	44	1.74
431388--431575	60	3.2	58	82	7	211	38	3	25	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431475--431568	31	3.1	30	70	11	93	37	4	22	36	1.74
436066--436135	36	1.9	36	88	5	106	24	4	20	51	1.65
445306--445344	18	2.3	18	91	8	64	25	2	2	69	1.14
447025--447109	32	2.7	32	83	5	109	56	7	17	18	1.63
447025--447116	31	2.9	32	85	3	114	56	7	17	18	1.64
452060--452117	25	2.3	25	96	0	107	13	34	31	20	1.92
453587--453625	2	19.5	2	100	0	78	51	0	0	48	1.00
454017--454204	60	3.2	58	82	7	200	35	6	22	35	1.80
457514--457557	17	2.7	16	76	16	54	38	4	0	56	1.20
458228--458268	18	2.2	19	91	4	66	14	0	0	85	0.60
460619--460661	2	21.5	2	100	0	86	51	0	0	48	1.00
460780--460928	60	2.5	60	80	7	149	32	18	4	44	1.70
461055--461242	60	3.2	58	82	7	200	35	6	22	35	1.80
465291--465330	18	2.2	18	91	8	64	15	0	0	85	0.61
467691--467735	2	22.5	2	100	0	90	51	0	0	48	1.00
467855--468003	60	2.5	60	80	7	149	32	18	4	44	1.70
468128--468315	60	3.2	58	82	7	200	35	6	22	35	1.80
472358--472400	23	1.9	23	90	4	70	18	2	0	79	0.85
472970--472994	13	1.9	13	100	0	50	24	0	0	76	0.80
475676--475745	23	3.2	22	66	22	58	22	10	18	48	1.78
475652--475757	42	2.5	42	95	0	194	23	6	20	49	1.73
475844--475905	31	2.0	31	96	0	115	43	12	11	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478377--478419	17	2.7	16	80	20	54	39	4	0	55	1.20
478674--478707	12	2.8	12	100	0	68	35	0	47	17	1.48
483802--483835	12	2.8	12	100	0	68	35	0	47	17	1.48
484462--484487	11	2.4	11	100	0	52	53	0	0	46	1.00
484986--485024	20	2.0	20	85	10	53	46	5	2	46	1.38
486413--486446	2	16.0	2	88	11	50	47	0	5	47	1.26
486903--487019	60	2.0	60	82	3	146	33	20	4	41	1.72
487605--487636	10	3.2	10	95	0	55	31	0	0	68	0.90
488538--488579	20	2.1	20	100	0	84	38	28	0	33	1.58
489069--489157	31	2.8	31	80	11	101	55	11	17	15	1.69

Tables:   1   2   3