genome.fa.s9462.2.7.7.80.10.50.1000.31.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  31  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)
6555831--6556130	140	2.1	143	79	4	313	35	25	20	19	1.95
6556357--6556383	3	9.0	3	100	0	54	33	0	0	66	0.92
6564545--6564607	23	2.7	23	87	0	90	15	25	26	31	1.96
6569365--6569410	15	3.0	16	90	6	69	45	0	0	54	0.99
6574897--6574934	20	1.9	20	94	0	67	36	13	18	31	1.89
6580889--6580966	15	5.4	15	65	20	58	46	0	3	50	1.20
6580948--6581006	22	2.9	21	76	11	61	47	0	0	52	1.00
6580970--6581014	21	2.1	22	88	12	67	55	0	0	44	0.99
6583158--6583274	60	2.0	60	84	0	153	35	9	11	43	1.74
6584023--6584225	100	2.0	100	100	0	406	28	14	27	30	1.95
6587540--6587726	94	2.0	93	96	1	347	43	17	16	21	1.87
6589426--6589468	20	2.3	19	84	11	61	25	30	6	37	1.82
6593697--6593835	73	1.9	73	89	5	219	32	14	12	40	1.84
6597293--6597355	22	2.9	21	75	13	56	44	19	14	22	1.86
6597682--6597722	21	2.0	21	85	9	57	31	21	12	34	1.91
6602255--6602307	22	2.5	21	76	11	56	47	7	3	41	1.50
6607765--6607869	37	3.0	35	86	12	153	41	37	8	12	1.73
6607858--6607968	31	3.4	30	75	16	105	36	36	14	12	1.84
6607858--6607997	67	2.1	67	93	0	235	37	33	15	14	1.87
6622496--6622528	2	16.0	2	93	6	57	48	0	3	48	1.17
6622585--6622823	35	6.7	36	72	19	137	45	5	5	43	1.51
6622589--6622823	33	6.5	36	76	17	179	44	5	5	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6622590--6622823	106	2.2	105	80	14	246	44	5	5	44	1.52
6622632--6622852	70	3.2	67	77	14	218	45	3	6	44	1.46
6622734--6622866	30	4.1	31	67	17	83	45	3	4	47	1.38
6622890--6622941	3	17.3	3	84	7	70	34	0	1	63	1.06
6624112--6624153	12	3.0	15	76	20	54	23	0	2	73	0.94
6624184--6624222	17	2.3	17	86	0	51	5	2	7	84	0.84
6624195--6624223	9	3.3	9	95	4	51	0	0	10	89	0.48
6624239--6624272	18	1.9	17	88	5	50	14	2	2	79	0.97
6624322--6624349	2	14.0	2	100	0	56	50	0	0	50	1.00
6630068--6630204	71	1.9	71	95	0	247	35	11	11	41	1.78
6630520--6630550	9	3.6	9	95	4	55	58	0	0	41	0.98
6630679--6630716	18	2.1	19	90	5	60	44	0	0	55	0.99
6630886--6630932	23	2.0	24	83	4	60	48	23	2	25	1.62
6635552--6635623	29	2.5	28	80	8	81	30	8	5	55	1.52
6635611--6635873	112	2.4	107	89	5	388	27	7	9	55	1.59
6636254--6636297	2	22.0	2	100	0	88	50	0	0	50	1.00
6645146--6645367	57	4.0	57	71	12	172	30	11	17	40	1.85
6645846--6646020	39	4.5	39	86	2	226	29	14	17	37	1.90
6645846--6646021	79	2.3	77	88	2	262	29	14	17	38	1.90
6647483--6647526	22	2.0	22	86	4	63	27	13	6	52	1.66
6647649--6647693	23	2.0	22	91	4	72	22	2	4	71	1.15
6651407--6651805	59	6.8	59	92	0	629	35	20	12	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6652139--6652188	22	2.4	21	86	6	66	30	24	14	32	1.94
6652142--6652358	95	2.3	95	86	3	285	28	22	16	33	1.95
6658559--6658640	23	3.7	23	83	4	89	23	30	24	21	1.99
6664380--6664518	74	1.9	74	83	7	183	32	17	20	28	1.96
6664505--6664559	22	2.6	21	83	8	76	25	14	32	27	1.95
6664934--6665373	79	5.6	79	89	2	656	34	11	23	29	1.91
6665306--6665425	34	3.6	34	71	10	113	32	14	24	29	1.94
6664934--6665597	223	2.9	223	88	3	979	34	12	23	29	1.91
6665372--6665708	79	4.3	79	88	0	478	34	12	23	29	1.91
6665074--6665672	302	2.0	299	93	1	1020	33	12	23	29	1.92
6669803--6670205	59	6.8	59	90	1	603	35	21	11	31	1.89
6670630--6670684	22	2.6	21	81	13	69	27	21	16	34	1.95
6670597--6670740	76	1.9	76	89	0	225	30	19	16	33	1.94
6673485--6674159	335	2.0	335	96	0	1251	34	16	19	29	1.93
6677329--6677394	23	2.9	23	84	4	80	48	18	22	10	1.78
6684068--6684121	28	1.9	28	92	0	90	40	35	1	22	1.65
6684069--6684131	28	2.2	28	85	0	81	39	34	4	20	1.74
6684788--6684821	17	2.0	17	100	0	68	29	17	35	17	1.93
6685976--6686079	41	2.5	41	76	7	113	25	24	21	28	1.99
6685662--6686488	272	3.0	275	87	3	1182	30	16	19	34	1.94
6687118--6687564	91	4.9	90	88	4	623	37	15	22	24	1.93
6687482--6687831	138	2.6	137	85	6	457	37	14	22	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6689487--6689539	7	7.6	7	77	8	54	11	1	5	81	0.94
6689472--6689541	22	3.1	23	71	17	58	15	1	5	77	1.03
6689487--6689540	28	2.0	27	85	3	72	11	1	5	81	0.93
6691722--6691928	70	2.9	70	82	1	252	39	10	17	32	1.84
6691722--6691932	34	5.9	35	73	7	149	39	9	17	32	1.83
6694879--6694913	18	2.1	18	89	10	56	77	5	5	11	1.12
6701148--6701173	12	2.2	12	100	0	52	23	7	23	46	1.78
6716629--6716699	31	2.3	31	90	0	106	35	15	11	38	1.83
6717261--6717291	16	1.9	16	93	0	53	58	0	0	41	0.98
6727008--6727057	26	1.9	26	83	0	64	48	10	0	42	1.37
6727114--6727254	53	2.7	52	94	3	239	42	11	4	41	1.60
6727172--6727257	26	3.3	26	64	23	72	45	12	3	38	1.60
6727780--6727870	24	3.8	24	94	1	148	47	7	19	25	1.76
6729149--6729196	23	2.0	24	84	11	64	35	0	2	62	1.07
6732327--6732399	36	2.0	37	84	7	96	35	28	20	15	1.93
6736332--6736441	3	36.0	3	87	7	123	37	0	0	62	0.95
6737594--6737635	14	2.9	14	83	16	50	30	4	4	59	1.39
6738094--6738146	27	2.0	27	88	7	81	58	1	0	39	1.09
6742037--6742068	15	2.1	15	94	0	55	25	18	9	46	1.79
6745807--6745867	23	2.6	22	80	10	68	24	16	0	59	1.37
6749756--6749793	18	2.1	18	100	0	76	31	10	5	52	1.58
6749878--6749966	3	30.0	3	84	10	112	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6749876--6749962	16	5.1	16	77	14	77	34	0	0	65	0.93
6751190--6751254	3	22.7	3	74	14	57	30	3	0	66	1.07
6751500--6751528	2	14.5	2	100	0	58	48	0	0	51	1.00
6752952--6753097	63	2.3	63	89	4	240	39	15	15	30	1.87
6753353--6753403	24	2.1	24	88	0	75	45	7	27	19	1.78
6755480--6755516	18	1.9	18	89	10	56	67	2	0	29	1.04
6755542--6755609	24	2.8	24	97	0	127	44	8	29	17	1.79
6766870--6766894	7	3.6	7	100	0	50	16	32	12	40	1.84
6767800--6767861	2	31.5	2	78	12	58	54	1	1	41	1.19
6767893--6767943	24	2.1	24	96	0	93	45	7	31	15	1.75
6774077--6774138	20	3.0	20	85	7	70	77	4	12	4	1.09
6775478--6775526	21	2.3	21	100	0	98	40	16	20	22	1.91
6775973--6776011	16	2.5	15	84	12	51	15	12	28	43	1.83
6780370--6780412	2	22.0	2	95	4	79	51	0	0	48	1.00
6783786--6783883	47	2.1	48	80	5	110	34	10	17	37	1.83
6788224--6788275	13	4.0	13	82	0	68	26	19	19	34	1.95
6788365--6788390	2	13.0	2	100	0	52	50	0	0	50	1.00
6788444--6788505	2	31.5	2	96	3	117	50	0	0	50	1.00
6794725--6794783	13	4.5	13	82	0	64	30	20	15	33	1.93
6794934--6794964	2	15.5	2	100	0	62	48	0	0	51	1.00
6798928--6798999	30	2.4	30	90	0	108	38	4	36	20	1.72
6799950--6799995	8	5.8	8	89	0	65	2	32	0	65	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6805270--6805337	13	5.2	13	90	0	100	35	16	20	27	1.94
6807826--6807918	30	3.1	29	85	10	125	75	0	16	8	1.04
6807814--6807912	53	1.9	52	83	8	130	74	1	17	7	1.09
6809243--6809840	82	7.3	82	83	1	714	32	20	20	26	1.97
6809243--6809840	165	3.6	163	87	2	775	32	20	20	26	1.97
6809243--6809846	247	2.4	246	84	3	750	32	20	20	26	1.97
6810250--6810277	2	14.0	2	100	0	56	50	0	0	50	1.00
6824760--6824847	37	2.4	36	83	9	106	32	15	11	39	1.84
6824782--6824844	20	3.3	20	64	20	53	31	15	9	42	1.79
6824896--6825050	66	2.4	65	81	11	183	24	21	12	40	1.89

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