genome.fa.s8124.2.7.7.80.10.50.1000.3.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: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3296903

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  3  of  19  ( 2165 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)
410230--410410	60	3.0	60	79	5	197	30	20	7	40	1.81
410553--410689	61	2.3	61	78	8	145	40	3	22	33	1.72
410786--410854	30	2.3	30	82	7	79	36	5	10	47	1.61
414261--414327	26	2.6	26	95	0	116	28	22	26	22	1.99
415263--415466	75	2.7	75	83	3	241	21	25	30	23	1.99
416074--416116	17	2.5	17	84	0	59	60	23	0	16	1.35
416068--416118	9	6.2	8	78	17	52	60	23	0	15	1.35
423147--423352	75	2.7	76	87	3	274	20	23	32	23	1.98
423500--423667	84	2.0	83	93	3	284	44	11	6	38	1.66
424060--424094	15	2.3	15	85	0	52	54	25	0	20	1.45
426070--426166	44	2.2	44	83	7	117	26	18	27	26	1.98
432006--432059	20	2.8	19	85	2	72	25	18	25	29	1.98
431963--432124	84	1.9	83	82	9	204	30	16	24	29	1.96
432086--432124	20	2.0	20	89	0	60	20	15	33	30	1.94
433555--433634	30	2.7	31	74	12	80	30	1	10	58	1.38
436759--436797	18	2.1	18	85	4	51	46	25	10	17	1.80
443867--444029	81	2.0	81	95	0	290	25	26	23	23	2.00
450013--450038	3	8.7	3	100	0	52	69	30	0	0	0.89
454013--454042	14	2.1	14	93	0	51	23	0	0	76	0.78
454009--454049	13	3.2	13	80	12	50	26	0	0	73	0.84
454029--454089	13	4.5	14	76	15	58	37	0	0	62	0.96
457281--457317	19	1.9	19	88	0	56	40	8	16	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459834--459880	19	2.5	19	96	0	85	40	21	0	38	1.53
459843--459902	19	3.0	21	88	7	81	43	20	0	36	1.52
460752--460806	20	2.8	20	97	0	101	25	18	5	50	1.67
463957--464373	55	7.6	54	86	4	500	31	23	15	29	1.96
463957--464373	110	3.8	110	89	2	581	31	23	15	29	1.96
463961--464373	165	2.5	165	85	7	563	31	23	15	29	1.96
464390--464495	37	2.9	36	87	2	149	19	20	19	39	1.93
465780--465925	7	19.1	7	75	18	61	7	14	0	78	0.96
465784--465947	33	5.2	33	71	19	113	8	14	0	76	1.00
475576--475686	45	2.3	47	83	7	145	40	19	10	28	1.86
483025--483050	2	13.0	2	100	0	52	50	0	0	50	1.00
487886--487934	25	2.0	25	88	8	73	34	8	0	57	1.29
493040--493126	42	2.0	43	95	2	158	26	18	12	42	1.86
493270--493339	32	2.2	32	84	0	86	38	0	32	28	1.57
493864--493897	6	5.7	6	100	0	68	64	0	17	17	1.29
494081--494142	29	2.1	29	82	5	72	20	46	20	11	1.81
494300--494383	29	2.9	28	92	3	132	23	29	30	15	1.95
494803--494866	27	2.3	29	76	15	73	35	1	15	46	1.56
494891--494960	37	2.0	36	86	13	101	40	0	10	50	1.36
494971--495031	26	2.3	25	88	5	77	39	0	8	52	1.31
494972--495017	18	2.6	17	76	10	56	36	0	8	54	1.32
495266--495351	29	3.0	29	77	17	90	40	2	9	47	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496624--496669	23	2.0	24	82	4	58	39	2	4	54	1.32
497659--497706	14	3.6	14	81	16	66	47	16	0	35	1.47
497658--497706	25	2.0	25	95	0	89	46	16	0	36	1.47
497658--497716	25	2.6	22	86	10	75	49	13	0	37	1.43
497658--497727	21	3.1	22	80	12	63	50	11	0	38	1.39
497675--498432	60	13.4	54	84	12	705	46	12	0	41	1.43
497674--498436	120	6.6	120	88	9	1164	46	12	0	41	1.43
497859--498432	109	5.1	109	87	9	821	46	12	0	41	1.43
497912--498035	49	2.6	48	87	7	180	46	11	0	41	1.39
497674--498432	229	3.3	228	94	3	1314	46	12	0	41	1.43
498006--498054	24	2.0	24	84	7	64	44	14	0	40	1.45
498240--498323	11	7.6	11	70	18	50	44	15	0	40	1.47
502236--502320	29	2.9	29	80	0	98	16	23	36	23	1.94
502350--502374	12	2.1	12	100	0	50	16	44	16	24	1.86
503399--503461	2	31.5	2	93	6	110	49	0	1	49	1.10
507240--507280	21	2.0	21	100	0	82	34	14	7	43	1.73
507309--507384	23	3.3	23	94	0	134	34	18	11	35	1.87
507935--507975	20	2.1	19	90	4	64	26	17	4	51	1.65
511188--511248	30	2.0	30	90	0	95	52	1	3	42	1.27
512125--512226	34	2.8	37	86	10	149	43	12	13	30	1.82
512617--512659	18	2.5	17	85	7	61	25	4	2	67	1.22
512905--512937	2	16.5	2	100	0	66	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)
514293--514326	16	2.1	17	88	5	52	8	23	0	67	1.18
515705--515743	8	5.0	8	84	6	53	10	17	12	58	1.61
516840--516918	7	10.3	7	77	17	68	81	5	12	1	0.92
517568--517622	22	2.5	22	100	0	110	36	27	12	23	1.91
518035--518070	18	2.0	18	88	0	54	19	8	30	41	1.81
518499--518795	36	8.5	35	73	13	164	26	18	15	40	1.90
518555--518791	72	3.4	72	73	14	242	25	18	14	40	1.89
518673--518790	35	3.3	36	79	14	127	22	19	15	42	1.89
519466--520126	105	6.3	105	90	3	956	33	26	18	21	1.96
520674--520775	34	2.8	37	86	10	158	43	14	13	28	1.84
520674--520809	37	3.8	35	82	9	159	41	13	13	30	1.84
521460--521488	2	14.5	2	100	0	58	48	0	0	51	1.00
522703--522727	12	2.1	12	100	0	50	16	24	20	40	1.91
534402--534749	172	2.0	173	98	1	673	39	15	14	30	1.87
538474--538511	20	1.9	20	89	10	60	65	0	10	23	1.23
540792--541236	65	6.9	65	90	1	698	31	15	21	32	1.94
542079--542531	65	7.0	65	87	0	658	32	14	20	32	1.92
546407--546494	33	2.7	33	89	3	126	38	25	12	23	1.90
546433--546502	33	2.1	32	91	0	95	38	24	11	25	1.89
551065--551133	31	2.2	31	81	5	75	39	20	11	28	1.87
553512--553555	21	2.1	21	91	4	72	45	13	9	31	1.75
558582--558612	3	10.3	3	100	0	62	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565934--566060	34	3.6	36	83	11	156	31	18	11	38	1.86
566222--566344	36	3.4	37	82	4	153	25	23	15	35	1.94
567170--567221	23	2.3	23	100	0	104	25	36	19	19	1.95
567269--567309	17	2.4	17	91	0	64	24	34	24	17	1.96
575354--575380	2	13.5	2	100	0	54	51	0	0	48	1.00
580575--580617	16	2.9	15	80	19	54	2	18	0	79	0.85
583541--583604	30	2.2	28	83	10	76	15	21	12	50	1.77
586993--587026	18	1.9	17	88	5	50	29	29	23	17	1.97
588216--588360	71	2.0	74	94	4	260	30	5	19	44	1.73
588216--588360	36	4.0	36	95	3	256	30	5	19	44	1.73
592698--592771	37	2.0	38	92	5	125	29	5	20	44	1.73
599323--599459	42	3.3	42	79	4	118	35	18	20	25	1.96
599362--599459	42	2.3	42	85	0	124	35	20	18	25	1.95
602698--602723	12	2.2	12	100	0	52	38	7	15	38	1.76
603164--603210	18	2.5	19	76	20	53	61	2	0	36	1.08
609750--609852	43	2.4	43	84	7	122	32	19	16	32	1.94
609853--610014	43	3.8	43	89	0	207	33	24	14	26	1.94
609905--610084	43	4.2	43	82	6	147	36	23	15	24	1.94
609854--610063	86	2.4	85	78	6	210	33	24	16	25	1.95
611385--611467	43	1.9	43	87	4	123	26	26	14	32	1.95
616083--616124	20	2.0	21	90	4	68	33	7	21	38	1.81
627263--627329	35	1.9	35	87	6	100	26	4	7	61	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627370--627394	6	4.2	6	100	0	50	80	0	0	20	0.72
627699--627754	29	1.9	29	88	0	85	32	1	17	48	1.58
629835--629859	12	2.1	12	100	0	50	60	0	0	40	0.97
630035--630093	10	5.9	10	73	11	50	76	1	3	18	1.02
630116--630213	28	3.8	26	77	17	80	76	1	9	13	1.07
630142--630213	8	8.9	8	73	18	51	80	1	6	11	0.96
630146--630211	34	1.9	34	87	6	98	78	1	7	12	1.01
630152--630204	27	1.9	28	85	11	74	77	1	9	11	1.07
632139--632173	16	2.2	16	94	0	61	60	8	0	31	1.27
635295--635339	21	2.1	21	87	0	63	31	28	24	15	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19