genome.fa.s9175.2.7.7.80.10.50.1000.41.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  41  of  51  ( 6037 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)
8447578--8447632	22	2.5	22	84	0	74	30	7	21	40	1.81
8453966--8454048	22	3.8	22	73	12	89	32	21	21	24	1.98
8455100--8455181	40	2.0	40	80	0	92	26	25	21	25	2.00
8455586--8455635	23	2.2	23	100	0	100	16	36	4	44	1.66
8463930--8463956	14	1.9	14	100	0	54	37	0	40	22	1.54
8464294--8464336	19	2.2	20	87	4	61	48	6	9	34	1.62
8466981--8467038	25	2.3	26	77	14	68	65	0	1	32	1.03
8468246--8468274	2	14.5	2	100	0	58	48	0	0	51	1.00
8472898--8472959	32	1.9	32	83	0	79	40	19	14	25	1.90
8472914--8473024	32	3.5	31	82	3	132	36	18	16	27	1.92
8473036--8473104	35	2.0	35	85	5	95	39	15	11	33	1.84
8474637--8474768	18	6.9	18	80	10	147	27	29	21	21	1.99
8474636--8474768	38	3.5	38	86	6	180	27	29	21	21	1.99
8474966--8475023	24	2.5	21	75	25	55	32	22	5	39	1.76
8480735--8480777	21	2.0	21	95	0	77	41	20	9	27	1.83
8481684--8481776	18	4.8	19	75	15	66	30	27	19	22	1.98
8482513--8482563	19	2.7	19	96	0	93	21	35	19	23	1.96
8483349--8483496	31	4.8	31	82	3	131	35	12	17	34	1.88
8483348--8483496	62	2.4	62	83	4	167	34	12	18	34	1.88
8483386--8483516	62	2.1	62	79	0	145	32	14	18	35	1.91
8488137--8488184	3	17.0	3	85	8	57	64	2	2	31	1.16
8488433--8488776	137	2.5	139	87	4	491	25	15	31	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8488781--8489183	69	5.9	68	80	3	459	40	12	17	29	1.86
8488786--8489185	137	2.9	137	86	1	534	40	12	17	29	1.86
8489134--8489368	101	2.3	101	78	12	225	36	14	16	33	1.89
8491950--8492064	44	2.5	47	81	8	137	31	20	7	40	1.81
8497302--8497330	6	4.8	6	100	0	58	17	34	31	17	1.93
8499044--8499173	46	2.8	48	80	9	142	30	21	6	41	1.79
8506153--8506216	3	22.0	3	81	12	80	62	1	1	34	1.14
8510747--8510901	77	2.0	79	84	5	208	39	10	5	44	1.63
8524705--8524767	32	2.0	32	87	0	90	22	20	15	41	1.90
8529419--8529459	19	2.1	19	86	9	55	17	19	0	63	1.31
8535137--8535288	82	1.9	78	80	10	173	42	7	4	45	1.54
8544006--8544060	20	2.8	19	81	8	65	61	1	5	30	1.29
8551312--8551339	14	2.0	14	100	0	56	57	7	28	7	1.52
8551377--8551434	27	2.1	28	90	3	91	25	10	6	56	1.57
8567410--8568638	617	2.0	611	96	2	2288	27	13	17	42	1.86
8574903--8574955	21	2.5	21	84	0	70	20	26	18	33	1.96
8574903--8575356	41	11.1	41	87	4	481	26	20	18	33	1.96
8574945--8575357	62	6.8	60	86	4	280	27	20	18	33	1.96
8574903--8575356	20	22.2	21	86	4	475	26	20	18	33	1.96
8576099--8576130	13	2.5	13	94	0	55	40	40	0	18	1.51
8576225--8576278	24	2.2	24	86	0	72	24	18	16	40	1.90
8578823--8578924	14	6.6	14	70	20	69	44	17	25	12	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8578837--8578945	33	3.3	33	93	0	182	44	17	24	12	1.84
8578851--8578949	19	5.7	19	64	22	65	45	18	24	12	1.83
8578945--8579021	19	4.3	19	79	18	85	11	15	25	46	1.80
8578960--8579053	33	2.8	33	88	3	136	10	19	23	46	1.80
8578955--8579053	19	5.7	19	71	22	76	10	19	23	47	1.79
8579160--8579196	14	2.6	14	86	0	56	43	21	2	32	1.67
8581067--8581160	19	4.8	19	84	5	116	46	21	21	10	1.81
8581067--8581157	39	2.3	40	88	1	130	47	20	20	10	1.80
8581166--8581301	20	7.3	19	77	10	102	9	17	21	51	1.73
8581392--8581672	94	3.1	93	92	4	446	46	18	12	22	1.82
8583403--8583483	33	2.5	33	91	0	126	9	19	22	48	1.78
8583488--8583535	20	2.4	20	100	0	96	14	14	27	43	1.84
8584100--8584189	20	4.4	20	85	2	135	20	21	21	37	1.94
8584075--8584189	41	2.8	41	86	1	151	22	19	18	40	1.92
8584074--8584210	41	3.3	41	80	4	125	26	18	18	36	1.94
8584179--8584231	21	2.5	21	90	0	79	33	16	26	22	1.96
8585017--8585089	16	4.4	16	70	17	51	75	1	1	21	0.96
8585048--8585087	4	10.0	4	86	8	55	72	2	2	22	1.09
8585110--8585156	24	1.9	25	82	4	60	68	2	10	19	1.30
8586227--8586265	18	2.2	18	90	0	60	79	0	2	17	0.84
8586466--8586688	41	5.4	41	82	5	279	26	18	17	37	1.93
8586466--8586684	83	2.7	81	82	9	289	26	18	17	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8586446--8586708	124	2.1	125	87	0	375	28	18	18	35	1.94
8589623--8589678	20	2.8	20	83	2	78	33	8	5	51	1.56
8590192--8590541	43	8.2	42	77	8	298	24	20	20	34	1.96
8590187--8590541	85	4.2	84	77	8	324	24	20	20	34	1.96
8590192--8590541	127	2.7	127	82	5	411	24	20	20	34	1.96
8590706--8591111	38	10.8	36	79	13	301	45	8	2	42	1.50
8590724--8590819	43	2.2	43	87	9	140	43	6	3	46	1.44
8590769--8591111	35	9.4	35	82	11	338	45	8	2	43	1.49
8590768--8591111	73	4.7	73	81	10	384	45	8	2	43	1.49
8599031--8599082	25	2.1	25	92	0	86	34	1	38	25	1.67
8600605--8600637	16	2.1	16	100	0	66	12	24	6	57	1.57
8603621--8603653	16	2.1	16	94	0	57	60	24	9	6	1.49
8603720--8603774	16	3.4	16	94	0	101	56	21	12	9	1.64
8604851--8604905	14	3.9	14	79	9	58	54	20	14	10	1.69
8607087--8607125	21	1.9	19	90	10	60	58	0	0	41	0.98
8607404--8607442	6	6.8	6	88	11	64	35	15	17	30	1.91
8607409--8607440	16	2.0	16	100	0	64	37	18	18	25	1.94
8607871--8607934	29	2.3	28	86	5	85	42	6	1	50	1.37
8608788--8608950	81	2.0	81	98	0	317	24	20	9	45	1.81
8619776--8619864	20	4.7	20	71	19	75	64	0	0	35	0.94
8619775--8619864	13	7.2	13	75	16	75	63	0	0	36	0.95
8619771--8619866	16	5.6	16	75	20	79	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8619775--8619873	30	3.5	30	76	19	99	63	0	0	36	0.95
8619789--8619898	29	3.9	28	75	15	84	61	0	0	36	1.08
8622246--8622368	64	1.9	64	80	6	142	30	9	11	48	1.71
8626621--8626678	27	2.1	27	100	0	116	34	24	24	17	1.96
8632047--8632099	16	3.3	16	74	7	54	69	1	0	28	0.99
8632166--8632250	34	2.5	33	75	9	84	58	4	1	35	1.26
8634971--8635715	372	2.0	373	95	2	1356	32	7	10	49	1.66
8635809--8635847	17	2.2	17	86	4	51	79	2	17	0	0.84
8637506--8637571	31	2.1	31	81	15	75	34	10	24	30	1.89
8640555--8640594	8	5.0	8	84	9	55	75	0	22	2	0.93
8640557--8640587	15	2.1	15	93	0	53	74	0	22	3	0.96
8642145--8642532	191	2.0	192	98	0	760	40	11	13	35	1.80
8642605--8642661	22	2.7	21	81	7	71	24	33	12	29	1.92
8642608--8642679	21	3.5	21	75	9	58	26	34	9	29	1.88
8644557--8644599	20	2.2	20	91	0	68	60	4	9	25	1.47
8645695--8645755	21	2.9	20	76	11	68	21	31	14	32	1.93
8647010--8647082	34	2.1	34	92	0	119	38	8	10	42	1.70
8650549--8650690	55	2.6	56	83	5	157	34	13	17	34	1.89
8650893--8651671	67	11.8	67	85	4	1010	31	15	24	29	1.95
8651075--8651671	133	4.5	134	86	6	818	30	16	24	28	1.96
8655785--8656488	354	2.0	347	96	3	1304	27	15	23	33	1.95
8664268--8664352	30	2.9	30	70	8	75	41	5	16	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8680332--8680387	27	2.1	27	93	0	94	37	14	3	44	1.62
8680371--8680425	25	2.3	24	79	14	60	40	1	3	54	1.28
8681926--8681967	2	21.0	2	100	0	84	50	0	0	50	1.00
8686101--8686293	54	3.6	54	81	4	221	31	16	19	33	1.93
8686352--8688146	81	22.2	81	86	0	2426	38	12	21	27	1.90
8691660--8691700	20	2.0	20	86	9	57	26	17	12	43	1.84
8695307--8695369	32	2.0	32	87	0	90	33	11	30	25	1.90
8700850--8702473	453	3.6	453	95	0	2883	34	21	19	23	1.96
8700850--8702473	75	21.5	76	94	1	2721	34	21	19	23	1.96
8705604--8705823	114	1.9	114	91	1	361	30	21	14	33	1.93

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