genome.fa.s8182.2.7.7.80.10.50.1000.3.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: VEPZ01008182.1 Hibiscus syriacus cultivar Beakdansim tig00110782_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1042344

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 690 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)
316383--316463	23	3.7	22	79	10	78	18	25	30	24	1.98
321197--321229	15	2.1	16	94	5	59	6	24	18	51	1.68
321979--322010	16	1.9	17	93	6	57	37	21	3	37	1.70
323453--323514	27	2.3	27	83	5	72	27	19	9	43	1.82
325220--325272	21	2.5	20	82	11	54	35	7	1	54	1.40
325220--325259	21	1.9	21	85	10	55	35	7	2	55	1.42
328185--328246	27	2.3	27	97	0	115	32	9	20	37	1.86
330789--330832	23	1.9	23	86	9	63	29	6	18	45	1.75
330640--330867	117	2.0	115	89	5	352	38	13	17	31	1.88
332650--332704	18	3.1	18	86	0	65	34	14	25	25	1.94
333211--333525	159	2.0	159	91	0	513	35	16	13	35	1.87
333212--333901	180	4.1	159	84	5	590	35	15	13	36	1.86
333370--334102	180	4.1	180	89	0	1110	34	14	13	36	1.86
333078--334080	339	2.9	336	84	7	1344	35	14	12	37	1.85
335926--336364	220	2.0	219	98	0	842	31	19	19	29	1.97
336726--336759	18	1.9	18	88	5	52	41	0	35	23	1.55
337586--337650	28	2.3	28	97	0	121	40	13	10	35	1.80
338950--339000	18	2.8	18	85	5	59	45	19	1	33	1.62
340354--340396	20	2.1	20	82	4	50	13	39	0	46	1.44
340608--340650	12	3.6	12	83	0	50	6	27	0	65	1.18
342817--343409	195	3.1	194	83	4	671	28	15	13	42	1.85
356004--356479	191	2.5	194	80	7	533	44	13	15	26	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356437--356478	19	2.2	19	91	0	66	50	9	14	26	1.73
359191--359268	41	1.9	41	100	0	156	37	2	17	42	1.64
359239--359331	45	2.1	45	95	0	168	40	3	21	34	1.69
359353--359470	60	2.0	61	93	1	202	44	18	4	32	1.69
359369--359470	31	3.4	31	64	20	79	46	20	2	30	1.66
360297--360347	23	2.2	23	79	6	59	33	9	25	31	1.88
360506--360553	20	2.4	20	78	0	60	39	20	8	31	1.82
365177--365233	30	1.9	30	85	3	80	42	21	10	26	1.85
365394--365529	59	2.3	60	82	11	156	33	16	16	33	1.92
366479--366508	16	1.9	15	93	6	51	40	20	20	20	1.92
368129--368153	5	5.0	5	100	0	50	0	40	40	20	1.52
368153--368190	6	6.3	6	93	0	58	0	21	47	31	1.51
372443--372485	21	2.0	21	86	0	59	16	25	27	30	1.97
374651--374708	22	2.6	22	77	0	62	34	6	18	39	1.78
379978--380052	25	3.0	24	82	7	80	72	0	9	18	1.11
380014--380061	13	3.7	13	78	18	55	72	0	8	18	1.08
379990--380055	24	2.7	24	84	15	82	72	0	9	18	1.10
380235--380274	3	13.3	3	89	0	62	62	0	5	32	1.17
380326--380368	18	2.4	18	81	14	61	76	2	0	20	0.89
381907--381995	36	2.5	36	85	3	110	41	13	21	23	1.88
381923--382081	86	1.8	86	90	0	255	39	12	21	26	1.89
382006--382371	36	10.5	36	72	14	216	39	11	20	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382000--382284	102	2.8	101	84	1	381	41	10	20	27	1.85
382224--382380	73	2.2	73	84	2	217	40	12	18	28	1.87
383438--383483	21	2.2	21	96	0	83	19	23	8	47	1.77
383704--383901	95	2.1	94	85	5	265	31	16	18	33	1.93
399586--399646	25	2.4	25	77	5	68	72	1	9	16	1.19
399586--399694	21	5.0	22	70	17	68	71	1	11	15	1.22
399903--399936	5	6.4	5	87	12	50	79	0	0	20	0.73
399904--399936	17	1.9	17	100	0	66	78	0	0	21	0.75
401582--401783	103	2.0	98	92	4	332	37	5	6	50	1.54
408761--408970	104	2.0	104	96	0	384	36	20	22	20	1.95
409075--409214	45	3.5	39	74	15	131	46	8	7	37	1.62
409075--409239	84	2.0	84	90	1	260	43	7	9	39	1.65
409574--409598	4	6.2	4	100	0	50	24	0	0	76	0.80
415952--416596	319	2.0	319	97	0	1227	27	16	25	30	1.96
421088--421154	31	2.2	31	89	2	100	20	29	16	32	1.95
424602--424687	29	3.0	29	72	6	93	52	9	5	32	1.57
424670--424728	20	3.1	19	70	18	50	59	5	3	32	1.36
424741--424803	32	2.0	32	90	6	101	57	11	6	25	1.57
424745--424819	32	2.3	32	84	4	89	54	12	6	26	1.61
425163--425211	20	2.4	21	86	6	82	30	24	10	34	1.89
438151--438199	25	2.0	25	87	0	71	22	2	22	53	1.57
438346--438394	17	2.8	18	84	9	66	32	2	2	63	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438373--438510	42	3.0	43	73	14	118	42	0	0	56	1.04
438419--438526	28	4.0	27	76	15	91	44	0	0	55	0.99
438351--438516	66	2.6	65	89	5	241	41	0	0	57	1.08
438448--438523	25	3.1	25	81	17	81	46	0	0	53	1.00
438418--438525	20	5.2	20	75	16	69	44	0	0	55	0.99
438448--438542	24	4.1	23	76	20	67	45	0	0	54	0.99
438490--438567	20	4.0	21	82	12	85	38	0	0	61	0.96
438381--438516	65	2.1	61	89	6	166	44	0	0	55	0.99
438728--438752	8	3.1	8	100	0	50	48	0	0	52	1.00
438890--438927	17	2.1	19	90	9	62	57	5	0	36	1.21
439009--439068	31	1.9	31	89	0	93	45	10	5	40	1.60
439479--439533	21	2.7	21	78	18	62	50	0	5	43	1.25
440571--440597	6	4.5	6	100	0	54	33	51	14	0	1.43
441091--441139	5	9.6	5	88	2	71	0	20	53	26	1.46
441699--441761	23	2.6	24	78	19	60	50	1	0	47	1.10
441733--441779	22	2.1	23	88	4	69	44	2	0	53	1.12
441727--441815	32	2.8	32	81	11	101	47	2	0	50	1.13
449192--449246	26	2.2	25	83	9	67	54	5	1	38	1.34
450836--450877	22	1.9	22	90	9	68	52	7	7	33	1.56
453986--454081	21	4.6	21	77	2	104	21	15	26	36	1.93
454008--454104	41	2.4	41	91	0	149	18	16	24	40	1.91
454223--454263	6	7.2	6	88	5	50	36	41	21	0	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454226--454272	22	2.1	22	100	0	94	36	36	27	0	1.57
454223--454276	28	2.0	26	89	7	81	35	37	27	0	1.57
454874--454945	22	3.4	21	71	11	67	37	25	19	18	1.94
454859--454945	41	2.1	41	93	0	147	39	22	18	19	1.93
454859--454924	19	3.3	19	70	12	60	40	19	18	21	1.91
454941--454988	20	2.4	20	96	0	87	45	22	22	8	1.79
463628--463674	22	2.2	22	92	3	78	4	23	8	63	1.40
463749--463786	18	2.1	18	85	9	51	5	2	34	57	1.35
463758--463791	18	1.9	17	88	5	50	2	2	32	61	1.26
471490--471545	23	2.5	22	79	5	67	53	0	1	44	1.11
471694--471736	19	2.3	19	100	0	86	20	39	9	30	1.84
476255--476314	20	3.0	20	77	0	66	30	23	21	25	1.99
481480--481558	29	2.7	29	80	13	81	25	11	1	62	1.37
493721--493800	22	3.9	21	75	6	56	26	30	21	22	1.99
501015--501039	13	1.9	13	100	0	50	80	8	12	0	0.92
506397--506776	192	2.0	196	84	4	511	31	26	16	26	1.96
508309--508360	25	2.0	25	89	10	79	25	11	3	59	1.49
514827--514851	12	2.1	12	100	0	50	32	8	36	24	1.84
516390--516597	89	2.4	87	88	3	310	38	14	20	25	1.91
519256--519306	18	2.8	18	80	11	59	68	5	0	25	1.12
520263--520360	21	4.8	20	75	10	81	37	21	18	22	1.94
520327--520556	20	11.5	20	81	5	232	36	24	18	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521238--521283	24	2.0	23	87	12	67	26	15	21	36	1.93
521458--521482	12	2.1	12	100	0	50	72	0	28	0	0.86
523755--523862	33	3.2	33	87	7	173	46	19	21	12	1.83
523769--523881	19	6.4	19	75	20	129	46	18	20	14	1.83
523797--523903	52	2.0	53	96	1	198	45	15	23	14	1.84
523910--524025	53	2.2	53	98	1	225	13	24	18	43	1.86
523928--524025	19	5.4	19	84	13	143	14	22	17	45	1.84
524132--524168	14	2.6	14	91	0	65	45	21	0	32	1.52
526085--526217	18	7.6	19	72	17	83	45	24	19	11	1.83
526140--526196	14	3.7	14	77	20	60	45	22	21	10	1.82

Tables:   1   2   3   4   5   6