genome.fa.s74.2.7.7.80.10.50.1000.2.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: VEPZ01000074.1 Hibiscus syriacus cultivar Beakdansim tig00000136_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1055225

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 495 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)
273432--273529	38	2.7	38	86	12	134	73	7	16	3	1.18
273460--273550	26	3.5	26	79	5	87	71	8	16	3	1.25
273462--273531	14	5.3	14	72	16	51	74	7	15	2	1.16
273443--273565	52	2.5	48	75	16	119	71	8	16	3	1.24
273436--273551	12	9.3	12	73	16	78	72	8	15	3	1.23
274743--274902	66	2.6	60	77	16	157	28	13	15	42	1.85
274925--274991	32	2.1	32	83	2	82	37	17	8	35	1.82
275099--275483	133	2.9	131	73	8	328	25	31	16	26	1.96
275696--275725	3	10.3	3	92	7	53	33	0	0	66	0.92
283334--283373	20	2.0	21	90	5	64	50	10	12	27	1.72
287000--287099	43	2.3	43	83	11	125	27	23	22	28	1.99
287374--287404	15	2.1	15	100	0	62	38	12	25	22	1.90
289763--289914	65	2.4	64	87	3	207	28	20	19	30	1.97
291075--291172	41	2.4	41	82	1	126	36	23	17	22	1.94
291445--291503	29	2.0	29	100	0	118	49	13	13	23	1.78
301410--301656	29	8.5	28	69	18	112	34	5	6	53	1.52
301409--301575	61	2.8	59	76	9	162	34	4	7	53	1.49
304752--304799	24	2.0	24	84	8	62	33	6	12	47	1.66
307394--307651	127	2.0	128	97	0	491	38	22	8	30	1.84
309318--309381	29	2.2	29	97	0	119	31	21	10	35	1.88
314011--314057	25	1.9	25	91	4	78	10	4	0	85	0.74
314011--314059	11	4.3	11	78	17	55	10	4	0	85	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
314018--314065	19	2.5	19	89	0	69	10	4	0	85	0.73
315864--315890	4	6.8	4	100	0	54	22	0	0	77	0.76
322008--322052	24	1.9	23	86	4	63	71	0	6	22	1.09
322919--322984	23	2.9	23	76	0	69	63	9	1	25	1.33
325182--325242	31	2.0	31	87	6	88	32	21	9	36	1.86
329851--329900	2	25.0	2	100	0	100	50	0	0	50	1.00
342731--342819	2	44.5	2	100	0	178	50	0	0	49	1.00
345810--346081	43	6.3	42	75	9	185	31	18	18	32	1.95
345829--346038	86	2.4	85	79	7	212	30	17	19	33	1.95
345894--346081	86	2.2	86	82	7	213	31	19	18	31	1.95
345927--346113	43	4.4	42	76	11	130	28	20	16	33	1.95
346463--346512	21	2.4	22	80	12	61	6	26	22	46	1.74
354248--354274	14	1.9	14	100	0	54	44	7	7	40	1.60
355490--355538	23	2.1	23	92	0	80	46	18	2	32	1.60
357578--357608	16	1.9	16	93	0	53	67	9	0	22	1.19
366325--366373	23	2.1	23	85	7	64	69	0	10	20	1.17
366345--366463	63	1.9	63	87	3	177	64	0	6	27	1.24
367070--367126	21	2.7	21	71	10	53	64	7	12	15	1.47
367271--367313	23	1.9	23	85	4	61	58	4	2	34	1.32
373102--373157	24	2.3	24	81	0	67	23	12	16	48	1.80
377528--377688	3	52.3	3	67	20	75	32	4	3	59	1.35
377515--377603	16	5.6	17	76	20	63	35	3	4	56	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377591--377673	17	4.8	18	74	20	70	31	7	0	61	1.23
377633--377724	9	9.8	9	67	16	53	33	4	2	59	1.29
377515--377688	20	8.8	20	70	17	73	33	5	2	58	1.35
377737--377790	12	4.8	12	71	13	51	38	5	0	55	1.23
377737--377792	23	2.5	21	85	8	67	39	5	0	55	1.23
378210--378249	18	2.2	18	86	8	55	25	5	5	65	1.34
378329--378372	21	2.2	19	88	8	61	52	0	4	43	1.22
380025--380058	15	2.4	14	90	9	52	17	5	0	76	0.98
380348--380380	13	2.6	13	90	4	50	42	9	6	42	1.61
380762--380798	19	1.9	19	94	0	65	32	29	16	21	1.95
380905--380954	20	2.5	20	93	0	82	26	30	22	22	1.99
381761--381807	24	2.0	24	91	0	76	25	21	19	34	1.96
381766--381819	24	2.2	24	93	0	90	20	18	20	40	1.91
382019--382045	14	1.9	14	100	0	54	44	29	18	7	1.77
386952--387014	20	2.9	21	79	9	65	15	25	34	23	1.95
390822--390861	21	1.9	21	85	10	55	35	10	2	52	1.48
393649--393683	18	1.9	18	94	0	61	54	25	2	17	1.57
393741--394023	140	2.0	140	95	0	512	28	12	14	44	1.81
393994--394145	20	8.2	20	69	16	112	35	20	18	25	1.95
393994--394145	74	2.1	74	86	2	207	35	20	18	25	1.95
394155--394220	20	3.3	20	91	0	96	13	16	25	43	1.85
394138--394221	40	2.1	39	80	6	98	15	16	25	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394324--394433	27	3.7	27	71	19	94	52	16	1	29	1.54
394272--394505	63	3.5	64	87	8	267	50	16	3	29	1.61
394295--394406	36	3.4	36	70	21	116	54	15	3	26	1.57
395832--395930	21	4.7	21	73	3	83	24	18	34	23	1.96
395812--395930	42	2.8	42	84	2	159	24	16	35	23	1.95
396437--396503	20	3.3	20	93	0	107	37	23	19	19	1.94
396553--396628	33	2.3	34	88	2	109	14	21	18	46	1.84
396620--396708	20	4.4	20	91	5	135	16	21	25	35	1.94
396620--396708	40	2.2	40	93	0	151	16	21	25	35	1.94
397150--397174	10	2.5	10	100	0	50	40	0	28	32	1.57
398548--398588	20	2.0	20	100	0	82	56	19	14	9	1.66
398548--398603	20	2.8	20	88	0	67	51	23	14	10	1.73
398982--399023	22	2.0	21	86	9	59	21	9	40	28	1.84
398989--399039	22	2.3	22	93	0	84	23	9	41	25	1.85
399173--399329	21	7.6	21	68	19	107	22	15	25	35	1.94
399155--399348	41	4.7	41	94	0	343	23	17	26	32	1.96
399496--399534	18	2.2	18	90	0	60	48	0	5	46	1.24
400590--400627	19	2.0	19	89	0	58	57	2	7	31	1.41
403647--403709	26	2.4	26	94	0	108	49	12	25	12	1.76
404275--404314	21	1.9	21	90	10	64	47	5	27	20	1.70
409422--409576	60	2.6	59	81	8	161	39	6	21	32	1.79
416977--417030	14	3.8	14	82	4	63	24	14	9	51	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422559--423014	115	4.0	115	95	0	781	33	15	20	31	1.93
422559--423014	229	2.0	229	93	0	779	33	15	20	31	1.93
425134--425334	54	3.8	52	83	7	239	37	15	21	24	1.93
425706--425760	22	2.5	22	90	0	92	34	12	14	38	1.84
426160--427172	113	9.0	113	90	2	1366	37	15	17	29	1.91
427100--427155	17	3.2	17	69	18	51	50	8	23	17	1.74
427397--427482	3	28.0	3	83	4	64	45	0	0	54	0.99
432451--432481	16	1.9	16	93	0	53	41	22	6	29	1.78
435953--436021	31	2.3	31	85	7	88	39	23	2	34	1.70
437092--437181	29	3.0	29	75	12	92	32	14	6	46	1.70
439625--439689	34	1.9	34	84	6	87	40	6	7	46	1.58
440012--440051	5	8.4	5	84	15	50	20	2	0	77	0.88
440536--440600	27	2.4	27	97	0	121	26	12	27	33	1.92
445396--445458	3	21.0	3	100	0	126	66	0	0	33	0.92
445510--445588	12	6.5	12	74	10	63	69	3	5	21	1.24
447415--447685	134	2.1	130	80	9	300	29	15	20	34	1.94
457533--457641	54	2.0	54	94	3	193	36	12	30	20	1.90
461115--461171	20	2.7	21	75	8	53	24	19	17	38	1.93
461239--461306	23	3.0	23	76	8	75	20	26	19	33	1.96
462698--462750	3	17.7	3	84	0	70	41	0	24	33	1.55
466272--466307	18	2.1	18	89	5	56	55	0	0	44	0.99
467058--467100	2	21.5	2	100	0	86	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467366--467390	6	4.2	6	100	0	50	36	48	16	0	1.46
471593--471769	90	2.0	89	93	1	300	38	9	6	45	1.64
475430--475465	18	2.0	18	94	0	63	55	0	13	30	1.39
480928--480956	2	14.5	2	100	0	58	0	0	48	51	1.00
480867--481029	87	1.9	87	88	0	245	17	3	26	52	1.62
481195--481326	46	2.9	46	80	6	142	31	14	18	36	1.90
484337--484362	11	2.4	11	100	0	52	30	19	0	50	1.48
486787--486825	20	2.0	21	85	10	55	66	0	15	17	1.25
497582--497805	36	6.3	36	86	5	294	32	21	26	19	1.97
497582--497805	106	2.1	108	86	5	312	32	21	26	19	1.97

Tables:   1   2   3   4   5