genome.fa.s8245.2.7.7.80.10.50.1000.2.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   

This is table  2  of  33  ( 3922 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)
246748--246808	30	2.1	29	90	3	95	32	22	3	40	1.70
249074--249132	19	2.8	20	82	10	66	20	25	32	22	1.98
264492--264552	31	2.0	31	90	0	95	24	11	9	54	1.66
268711--268747	20	1.9	19	89	10	58	45	5	24	24	1.74
269482--269526	2	22.5	2	100	0	90	48	0	0	51	1.00
271513--271554	14	3.0	14	92	0	66	14	14	14	57	1.66
271810--271849	14	2.9	14	85	3	55	2	12	27	57	1.48
276615--276654	21	1.9	21	84	0	53	37	5	17	40	1.72
277286--277316	3	10.3	3	100	0	62	67	0	32	0	0.91
288405--288456	25	2.2	24	86	13	72	48	0	1	50	1.12
288630--288681	25	2.2	24	86	13	72	48	0	1	50	1.12
288311--288759	225	2.0	226	97	1	848	34	8	8	47	1.65
316336--316474	15	9.2	15	66	21	58	33	10	17	38	1.84
316335--316455	45	2.7	45	90	0	179	33	9	19	37	1.85
316351--316495	15	9.5	17	67	19	70	34	8	18	37	1.82
316589--316648	23	2.6	23	81	0	75	23	15	23	38	1.92
318278--318306	13	2.1	14	93	6	51	13	17	0	68	1.20
319245--319311	28	2.4	28	97	0	125	46	17	0	35	1.49
323975--324049	34	2.3	35	77	11	86	29	0	10	60	1.31
324048--324078	16	1.9	16	93	0	53	74	0	0	25	0.82
326881--326920	2	20.0	2	100	0	80	50	0	0	50	1.00
326929--326962	17	2.0	17	88	11	52	64	0	5	29	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
326959--327007	16	3.1	15	80	19	55	61	4	2	32	1.26
326966--327031	16	4.2	15	75	14	53	60	4	3	31	1.32
328360--328444	3	29.0	3	78	4	84	67	0	1	31	0.99
328379--328444	15	4.4	15	88	0	96	69	0	1	28	0.97
328598--328777	79	2.3	79	84	9	233	29	17	14	38	1.90
328797--328962	73	2.3	73	90	0	251	31	19	17	30	1.95
328870--329597	113	6.5	113	94	3	1287	28	20	15	35	1.94
329310--329597	103	2.7	105	93	5	472	28	20	17	34	1.94
329995--330049	22	2.5	22	87	0	83	36	14	14	34	1.87
330416--330527	54	2.1	54	94	0	197	22	24	16	37	1.93
331594--331618	12	2.1	12	100	0	50	16	8	24	52	1.70
334822--334893	8	8.8	8	83	11	67	1	12	2	83	0.82
340527--340554	2	14.0	2	100	0	56	50	0	0	50	1.00
340564--340597	17	2.0	17	88	11	52	64	0	5	29	1.17
340600--340635	16	2.2	16	90	9	56	63	0	0	36	0.94
341866--341960	3	32.0	3	81	6	113	69	0	1	29	0.95
342562--342609	21	2.3	21	92	0	78	43	12	16	27	1.84
347205--347246	21	2.0	21	95	0	75	42	11	19	26	1.85
359095--359122	14	2.0	14	100	0	56	35	0	28	35	1.58
359842--359908	21	3.2	21	66	6	55	23	35	20	19	1.95
359815--359908	42	2.2	42	81	7	102	22	35	21	21	1.96
361256--361291	14	2.6	14	95	0	63	30	0	25	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361473--361665	33	5.9	32	86	9	273	14	23	20	41	1.89
361467--361664	66	3.0	66	97	0	369	15	23	20	41	1.89
363957--363981	12	2.1	12	100	0	50	0	28	0	72	0.86
364156--364209	24	2.2	24	90	0	81	38	20	16	24	1.92
365312--365359	19	2.5	19	100	0	96	14	20	16	47	1.82
367378--367444	19	3.5	19	83	4	89	37	23	23	14	1.93
367433--367490	14	3.9	14	75	16	62	48	24	17	10	1.78
367417--367495	32	2.4	33	93	2	133	46	22	18	11	1.81
367502--367597	19	5.7	16	71	22	65	11	18	22	46	1.81
367524--367581	14	3.9	14	79	16	71	8	17	25	48	1.75
367507--367597	32	2.8	33	93	3	157	10	17	23	48	1.79
367583--367625	20	2.2	20	87	4	61	18	23	20	37	1.94
367591--367636	20	2.3	20	88	0	65	15	21	26	36	1.93
368109--368153	18	2.5	18	85	0	63	15	15	42	26	1.87
369473--369510	20	1.9	20	88	0	58	50	21	15	13	1.78
369774--369817	22	2.0	22	90	0	70	20	15	43	20	1.88
370005--370098	20	4.7	20	80	2	89	23	18	24	34	1.96
370025--370102	41	1.9	41	86	0	111	21	16	21	39	1.92
369985--370099	20	5.7	20	78	5	88	23	17	23	35	1.95
370088--370183	41	2.3	41	98	0	147	20	23	15	39	1.91
370093--370163	21	3.4	21	74	3	81	19	23	15	40	1.90
370114--370180	20	3.3	20	75	4	80	20	22	16	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370253--370321	28	2.5	28	97	0	129	26	14	31	27	1.95
370645--370739	19	4.7	20	77	12	79	22	18	23	35	1.96
370677--370766	42	2.1	42	95	0	162	22	18	23	35	1.96
370664--370747	19	4.2	19	78	11	96	20	19	26	34	1.96
370855--370879	6	4.2	6	100	0	50	36	48	16	0	1.46
373016--373062	20	2.3	20	85	3	58	44	0	2	53	1.12
373032--373072	21	2.0	21	90	4	66	43	0	4	51	1.23
374056--374109	14	3.8	14	82	7	56	33	3	0	62	1.12
374074--374120	18	2.6	18	86	6	60	27	6	0	65	1.16
375521--375569	20	2.5	20	83	6	64	57	4	6	32	1.42
377495--377553	20	3.0	19	82	7	66	1	33	1	62	1.15
377499--377575	20	4.0	18	79	11	64	2	33	1	62	1.17
377991--378030	20	1.9	20	85	10	53	50	2	2	45	1.28
378890--379001	60	1.9	59	81	5	136	42	9	8	39	1.67
380048--380097	14	3.9	14	72	20	54	56	20	10	14	1.66
380047--380097	24	2.1	24	92	0	84	56	19	9	13	1.65
380067--380104	14	2.7	14	91	0	67	55	18	13	13	1.69
380979--381052	24	3.1	24	94	0	130	41	12	13	32	1.81
388056--388263	75	2.8	76	87	3	296	20	24	32	23	1.98
388852--388895	17	2.6	17	85	7	63	56	29	0	13	1.38
388847--388897	9	6.2	8	78	17	52	58	27	0	13	1.36
390816--390901	21	4.0	21	77	11	68	13	26	37	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396668--396873	75	2.7	76	87	3	292	20	24	32	22	1.98
403748--403796	19	2.6	19	80	0	53	40	0	0	59	0.98
403767--403804	5	7.6	5	82	11	51	34	0	0	65	0.93
403769--403811	11	4.1	11	85	8	63	34	0	0	65	0.93
403919--403956	18	2.2	18	90	4	60	28	0	10	60	1.30
405992--406027	7	5.1	7	86	0	54	44	2	25	27	1.68
406517--406562	24	2.0	23	82	4	56	45	17	4	32	1.68
419447--419488	22	1.9	22	90	9	68	14	11	4	69	1.34
419817--419862	9	4.8	9	80	15	56	80	10	8	0	0.91
419817--419855	10	3.8	11	87	12	57	79	10	10	0	0.94
424166--424207	22	1.9	22	85	9	59	16	9	4	69	1.33
425015--425085	35	2.1	34	83	2	88	39	15	12	32	1.85
427831--427863	17	2.0	17	88	5	50	39	18	9	33	1.82
429950--429997	19	2.5	19	89	0	69	31	16	29	22	1.96
430638--430698	18	3.4	18	81	4	70	22	19	29	27	1.98
430669--430708	18	2.2	18	86	0	53	22	20	32	25	1.98
436253--436339	42	2.1	42	85	8	115	47	19	17	16	1.83
436257--436340	21	4.1	20	76	11	80	48	19	15	16	1.81
436290--436353	21	3.0	21	84	6	76	48	21	12	17	1.80
441709--441982	125	2.2	125	89	0	422	32	16	27	23	1.96
441711--442013	125	2.4	124	85	4	419	33	16	27	22	1.95
442727--442792	34	1.9	34	87	0	96	36	24	16	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442796--443453	214	3.1	214	89	2	946	31	16	20	31	1.95
443440--443511	36	2.0	36	94	0	126	37	26	18	18	1.93
448614--448682	19	3.6	19	94	0	120	30	17	30	21	1.96
452540--452581	18	2.3	18	100	0	84	33	16	11	38	1.86
452695--452755	31	2.0	31	93	0	104	24	8	11	55	1.62
453104--453136	15	2.2	15	100	0	66	48	6	18	27	1.71
453930--453980	23	2.2	23	86	6	68	45	7	1	45	1.44
454464--454498	2	18.0	2	94	5	63	48	0	0	51	1.00
454485--454635	36	4.4	32	75	14	115	43	1	7	46	1.44
454554--454894	39	9.2	38	76	12	271	44	2	7	46	1.44

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33