genome.fa.s9462.2.7.7.80.10.50.1000.2.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  2  of  91  ( 10815 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)
220152--220207	23	2.4	23	87	0	76	21	26	25	26	1.99
224146--224186	22	1.9	21	90	5	64	68	0	0	31	0.90
224835--224868	18	1.9	17	88	5	50	14	23	32	29	1.94
226279--226337	29	2.0	29	100	0	118	45	6	10	37	1.65
226457--226558	23	4.4	23	93	2	93	38	20	19	21	1.94
226461--226558	46	2.1	46	92	3	162	36	21	20	21	1.95
231296--231383	19	4.6	19	84	8	117	17	28	30	23	1.97
231287--231383	38	2.5	38	90	5	142	17	28	29	23	1.97
231288--231385	9	10.3	9	74	21	76	16	30	29	23	1.96
231382--231439	5	10.8	5	78	14	62	18	51	22	6	1.70
231382--231446	22	3.0	22	100	0	130	18	49	23	9	1.76
231436--231462	7	3.9	7	100	0	54	14	29	29	25	1.95
247184--247227	23	1.9	23	86	9	63	50	2	0	47	1.13
247412--247521	48	2.3	49	82	7	127	45	1	0	51	1.18
247442--247540	48	2.1	48	81	7	112	48	1	1	49	1.14
252290--252329	21	1.9	21	100	0	80	32	15	42	10	1.79
254924--254986	20	3.2	19	73	10	63	30	19	20	30	1.97
254916--254993	40	2.0	40	85	10	106	33	17	21	26	1.96
261515--262159	324	2.0	316	92	3	1069	37	11	18	32	1.86
270617--270676	19	3.1	19	80	4	57	30	20	20	30	1.97
276366--276406	21	2.0	21	85	9	57	43	4	4	46	1.46
279655--279695	17	2.7	16	82	17	52	60	4	26	7	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
284018--284071	20	2.7	20	94	0	99	16	18	24	40	1.90
284149--284258	42	2.6	43	88	5	152	34	24	19	21	1.96
286125--286386	42	6.2	43	80	7	250	34	22	19	24	1.96
286177--286335	85	1.9	87	87	2	241	30	22	20	26	1.98
290212--290763	41	13.5	41	73	7	291	34	16	19	29	1.94
290290--290751	82	5.6	82	80	4	457	34	17	18	29	1.94
290290--290794	164	3.1	162	79	7	527	34	17	18	29	1.94
292160--292193	17	2.1	16	88	5	50	38	29	20	11	1.88
292929--293002	30	2.5	30	77	2	78	36	18	4	40	1.70
294729--294808	29	2.7	29	75	11	74	43	3	17	35	1.67
296779--296844	15	4.3	15	73	7	53	36	10	21	31	1.87
296977--297037	23	2.7	23	97	0	113	18	29	21	31	1.96
296977--297086	23	4.8	23	83	6	98	17	22	24	35	1.95
303263--303312	18	2.8	18	79	11	66	36	20	0	44	1.52
303520--303589	21	3.2	22	79	6	79	37	30	18	14	1.90
303528--303618	46	2.0	46	89	4	141	34	25	24	16	1.95
303520--303618	23	4.4	23	78	3	78	34	26	23	16	1.95
305263--305321	15	3.9	15	79	16	68	44	3	20	32	1.68
305352--305435	23	3.7	22	73	12	80	20	19	22	38	1.94
305419--305472	24	2.3	24	83	3	65	20	27	22	29	1.98
307638--307712	21	3.6	21	79	12	75	22	21	25	30	1.99
307730--307785	20	2.8	20	86	0	67	26	14	23	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317305--317353	20	2.5	20	93	0	80	28	8	24	38	1.84
317381--317433	15	3.1	16	76	21	54	33	20	28	16	1.95
318109--318170	21	2.9	21	75	13	63	19	20	29	30	1.97
318154--318220	23	3.0	23	81	14	77	13	19	26	40	1.89
318173--318220	23	2.1	23	92	0	78	12	20	25	41	1.87
321824--321987	85	1.9	85	90	4	260	30	18	20	30	1.96
326037--326071	18	1.9	18	88	0	52	45	5	2	45	1.41
326602--326671	19	3.7	19	90	0	104	11	21	30	37	1.89
334915--335034	57	2.1	57	81	9	138	26	18	10	45	1.81
335875--335915	16	2.6	16	100	0	82	12	4	39	43	1.63
343462--343486	12	2.1	12	100	0	50	40	20	8	32	1.81
362236--362290	21	2.7	20	80	2	56	47	5	0	47	1.25
364522--364720	36	5.5	36	78	7	188	45	4	8	42	1.53
366058--366102	11	4.1	11	88	5	65	33	0	0	66	0.92
366057--366100	22	2.0	22	91	8	72	31	0	0	68	0.90
367237--367268	16	1.9	17	93	6	57	6	12	9	71	1.29
367888--367932	19	2.4	19	92	3	74	11	13	8	66	1.44
371256--371982	162	4.4	163	84	5	875	29	24	20	24	1.99
371264--371982	80	8.8	83	77	7	659	29	24	20	24	1.99
372582--372679	38	2.8	34	83	14	121	42	3	10	43	1.54
372582--372678	33	2.7	35	87	10	128	43	3	10	43	1.54
372653--372737	38	2.2	39	83	8	102	48	2	8	41	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372846--372889	3	15.3	3	83	9	56	31	0	4	63	1.14
373986--374029	20	2.2	20	95	0	79	29	2	0	68	1.02
373989--374130	20	6.5	22	69	18	77	26	2	2	69	1.14
373997--374117	4	31.2	4	73	21	50	27	1	2	68	1.11
373997--374119	9	11.4	11	72	23	68	27	1	2	68	1.12
374078--374108	3	10.7	3	93	6	55	32	0	0	67	0.91
377411--377677	22	12.1	22	71	20	143	44	7	2	44	1.48
377412--377602	43	4.2	45	79	11	160	43	7	2	46	1.43
377564--377634	20	3.7	18	73	15	61	47	7	2	42	1.45
380262--380309	3	15.7	3	83	12	62	37	0	0	62	0.95
380752--380786	17	2.1	17	88	0	52	77	8	14	0	0.99
381551--381606	28	2.1	26	86	6	76	41	0	5	53	1.24
381643--381687	20	2.2	20	84	7	56	24	0	2	73	0.95
381658--381756	16	6.1	16	67	24	55	32	2	1	64	1.11
381674--381738	28	2.4	28	82	10	73	35	1	1	61	1.15
381649--381706	19	2.8	20	74	12	55	29	0	1	68	0.99
392883--392917	8	4.4	8	89	10	54	88	0	11	0	0.51
392877--392914	9	4.2	9	83	10	51	84	2	13	0	0.73
392877--392917	17	2.4	18	80	12	50	85	2	12	0	0.70
394305--394528	114	2.0	114	88	1	333	35	15	19	29	1.93
395251--395899	110	5.8	111	87	5	804	36	15	18	29	1.92
395247--396022	223	3.4	223	83	7	853	37	15	18	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395818--396110	124	2.4	124	87	6	395	41	16	18	23	1.89
396252--396325	33	2.5	31	83	14	84	39	0	0	60	0.97
396246--396312	3	22.7	3	88	8	93	35	0	0	64	0.94
397546--397600	28	2.0	26	86	6	74	41	0	5	52	1.24
397653--397754	18	6.1	17	69	19	70	32	0	1	64	1.11
397657--397744	30	2.9	29	78	11	88	32	1	2	63	1.14
405025--405085	3	20.7	3	96	3	115	32	0	0	67	0.91
409838--409910	20	3.7	20	86	0	101	28	21	28	20	1.98
410088--410145	30	2.0	29	90	10	91	44	15	5	34	1.69
410088--410146	29	2.0	30	93	6	102	44	15	5	35	1.68
412316--412385	34	2.1	34	86	5	99	21	31	15	31	1.95
412752--412825	20	3.6	21	80	3	89	31	22	27	18	1.98
412743--412825	41	2.0	41	86	9	116	28	25	26	19	1.98
413000--413058	29	2.0	31	93	6	104	44	15	5	35	1.68
415242--415311	34	2.1	34	86	5	99	21	31	15	31	1.95
415526--415565	21	1.9	22	90	10	66	12	10	40	37	1.77
415684--415751	20	3.3	21	79	4	86	32	23	26	17	1.97
415773--415870	21	4.7	20	80	10	99	25	20	31	22	1.98
415772--415870	42	2.4	42	84	3	119	25	20	32	22	1.98
415950--416007	30	2.0	29	90	10	91	44	17	5	32	1.70
415950--416009	29	2.0	30	93	6	104	43	16	6	33	1.74
430653--430729	31	2.5	31	80	2	93	48	11	12	27	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432862--432968	20	5.3	20	75	15	62	46	5	2	44	1.41
436940--436971	15	2.1	15	94	0	55	0	40	31	28	1.57
442711--442793	25	3.1	25	71	15	76	38	1	3	56	1.24
443378--443479	50	2.0	51	90	5	163	19	17	21	41	1.91
443753--443795	14	3.1	14	76	3	52	51	0	4	44	1.22
445620--445658	16	2.4	16	100	0	78	0	15	25	58	1.37
450530--450674	64	2.2	65	86	6	197	26	18	24	30	1.98
451333--451361	14	2.0	15	93	6	51	62	27	3	6	1.37
453111--453190	22	3.6	22	79	5	99	23	25	26	25	2.00
453111--453190	21	3.7	21	81	5	97	23	25	26	25	2.00

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91