genome.fa.s8094.2.7.7.80.10.50.1000.36.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  36  of  43  ( 5090 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)
7773021--7773061	20	2.0	20	86	9	57	43	0	4	51	1.23
7773219--7773294	27	2.8	27	70	9	73	55	0	3	40	1.18
7773326--7773368	2	21.5	2	100	0	86	51	0	0	48	1.00
7775578--7775618	20	2.0	20	86	9	57	43	0	4	51	1.23
7775770--7775852	27	3.0	27	72	11	71	54	0	4	40	1.22
7775875--7775917	2	21.5	2	100	0	86	51	0	0	48	1.00
7776486--7776515	15	2.0	15	93	0	51	76	3	0	20	0.92
7777853--7777900	7	6.7	7	84	13	53	72	4	0	22	1.01
7777853--7777900	11	4.5	11	80	12	55	72	4	0	22	1.01
7777949--7778297	37	9.3	37	79	10	343	46	5	3	44	1.43
7778114--7778148	17	2.0	17	88	5	52	51	0	0	48	1.00
7778025--7778284	116	2.3	115	82	10	329	47	4	3	44	1.39
7777954--7778302	191	1.8	191	87	4	492	47	5	3	44	1.42
7778321--7778361	2	21.0	2	95	5	75	48	0	0	51	1.00
7777954--7778356	191	2.1	192	81	8	475	47	5	2	43	1.43
7778892--7779448	84	6.6	84	84	2	688	22	20	27	30	1.98
7779446--7780044	124	4.8	124	89	1	914	26	17	23	31	1.97
7780164--7780263	43	2.3	43	85	0	137	23	14	31	32	1.93
7781484--7781665	95	1.9	95	90	0	292	28	17	19	34	1.95
7783608--7783706	7	14.0	7	69	14	53	75	2	8	14	1.11
7783654--7783705	24	2.1	24	85	7	68	80	0	9	9	0.90
7783645--7783706	24	2.4	25	78	15	63	79	1	8	11	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7785016--7785047	11	2.9	11	95	0	55	71	3	0	25	1.00
7785050--7785127	41	1.9	40	82	7	95	42	5	2	50	1.38
7785109--7785434	37	9.0	36	81	12	314	45	4	3	46	1.40
7785057--7785434	37	10.3	38	79	11	312	44	5	3	47	1.41
7790006--7790083	38	2.0	39	92	2	131	12	10	35	41	1.77
7790644--7790690	18	2.7	18	86	3	69	27	29	8	34	1.87
7790790--7790843	23	2.4	22	84	9	72	61	11	3	24	1.46
7793346--7793431	29	2.9	29	78	3	100	27	41	16	13	1.86
7793741--7793776	12	3.1	12	88	4	56	61	0	38	0	0.96
7793879--7793919	22	1.9	21	85	5	55	26	0	19	53	1.45
7796492--7796518	10	2.7	10	100	0	54	40	18	0	40	1.51
7796476--7796912	106	4.1	98	77	20	377	44	13	0	41	1.45
7796443--7796627	60	3.2	60	90	5	292	46	12	0	40	1.42
7796561--7796953	58	7.3	49	80	17	373	44	13	0	41	1.46
7796707--7796906	10	20.7	10	67	24	83	43	15	0	41	1.50
7796659--7797069	58	7.1	59	90	7	641	44	14	0	41	1.47
7796659--7797069	115	3.6	117	90	7	655	44	14	0	41	1.47
7800873--7800916	23	1.9	23	100	0	88	27	27	22	22	1.99
7800902--7800966	32	2.0	32	100	0	130	27	29	30	12	1.93
7801006--7801117	29	3.9	29	89	3	145	16	25	36	22	1.94
7802612--7802636	2	12.5	2	100	0	50	48	0	0	52	1.00
7803472--7803513	16	2.4	17	80	19	50	66	0	9	23	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7805474--7805581	38	2.8	38	88	1	162	23	19	27	29	1.98
7806616--7806664	20	2.5	20	90	6	73	36	18	30	14	1.90
7807083--7807297	55	3.9	55	84	3	299	34	19	20	26	1.96
7813823--7813874	20	2.6	20	96	0	95	38	13	25	23	1.91
7814552--7814653	38	2.7	38	89	3	143	23	15	29	31	1.95
7818715--7818769	24	2.2	24	84	9	67	23	10	34	30	1.89
7822446--7822487	21	2.0	22	85	4	59	47	0	9	42	1.36
7828418--7828483	28	2.3	29	84	7	91	18	12	45	24	1.83
7829609--7829662	23	2.4	22	81	12	65	46	3	1	48	1.30
7830806--7830832	2	13.5	2	100	0	54	48	0	0	51	1.00
7836577--7836617	18	2.3	18	82	0	55	26	12	21	39	1.89
7839688--7839769	22	3.7	23	79	9	82	24	23	29	23	1.99
7844294--7844342	25	2.0	25	92	8	82	14	18	36	30	1.90
7846362--7846848	197	2.5	197	85	4	662	46	10	5	37	1.61
7846710--7846838	33	4.0	33	73	3	100	49	10	5	34	1.59
7846920--7846965	17	2.7	18	90	6	69	19	15	13	52	1.75
7851025--7851078	22	2.5	22	87	3	83	18	27	33	20	1.96
7854016--7854050	18	1.9	18	100	0	70	11	20	40	28	1.87
7858828--7858856	8	3.6	8	100	0	58	62	0	0	37	0.96
7858794--7858854	26	2.3	26	80	5	70	68	0	3	27	1.05
7866259--7866323	17	3.8	17	95	0	121	40	6	12	41	1.67
7866388--7866429	17	2.5	17	80	11	50	47	11	9	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7868424--7868540	21	5.8	20	72	11	87	27	23	19	29	1.98
7871718--7871774	28	2.0	28	86	0	78	36	22	5	35	1.77
7871822--7871875	21	2.7	20	82	5	63	29	20	22	27	1.98
7873935--7873979	23	2.0	23	86	0	63	24	13	26	35	1.92
7877671--7877750	23	3.4	23	80	1	79	31	20	25	23	1.98
7877668--7877761	46	2.0	46	81	0	107	35	17	23	24	1.95
7881528--7881585	22	2.6	22	83	0	89	25	37	10	25	1.88
7885806--7885830	12	2.1	12	100	0	50	24	16	0	60	1.36
7903131--7903173	17	2.5	17	76	0	50	48	11	11	27	1.74
7903114--7903210	51	1.9	51	82	4	124	44	11	12	31	1.78
7903163--7903204	17	2.5	17	84	11	59	45	7	11	35	1.69
7903165--7903225	17	3.6	16	80	8	50	40	9	14	34	1.79
7916190--7916260	22	3.0	25	79	12	94	32	8	15	43	1.77
7916184--7916259	24	3.2	23	82	14	84	31	7	15	44	1.75
7916107--7916290	50	3.7	49	73	11	142	31	7	15	45	1.75
7916330--7916437	26	4.3	25	78	13	123	32	5	20	41	1.75
7918545--7918576	16	1.9	17	93	6	57	28	6	3	62	1.34
7922447--7922516	33	2.1	34	82	15	83	74	4	10	11	1.20
7922461--7922580	10	11.7	10	69	19	61	76	1	16	5	1.04
7922519--7922583	21	3.1	20	79	14	69	78	0	18	3	0.88
7924121--7924473	56	6.6	53	72	13	197	31	10	17	41	1.83
7924282--7924491	56	3.7	56	86	2	269	29	10	18	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7924284--7924491	113	1.8	113	87	2	310	29	10	18	41	1.84
7924544--7925120	242	2.4	242	83	3	678	30	15	17	36	1.91
7925526--7925560	18	1.9	18	94	0	61	45	40	5	8	1.58
7930309--7930366	27	2.1	27	80	0	62	36	1	13	48	1.53
7930935--7930982	24	2.0	24	91	0	78	43	31	6	18	1.75
7932090--7932140	15	3.0	18	66	16	54	35	9	13	41	1.78
7945242--7945288	22	2.1	22	92	0	76	23	51	17	8	1.72
7945227--7945281	27	2.2	24	87	9	74	25	52	16	5	1.65
7957586--7957615	14	2.1	14	100	0	60	30	26	6	36	1.82
7960135--7960184	16	3.2	15	78	10	55	74	2	8	16	1.15
7966313--7966349	17	2.2	17	95	0	65	54	18	13	13	1.71
7968590--7968621	2	16.0	2	100	0	64	50	0	0	50	1.00
7970667--7970703	2	18.5	2	100	0	74	51	0	0	48	1.00
7975617--7975731	48	2.4	48	86	0	149	34	22	18	24	1.96
7976306--7976340	18	2.0	18	94	5	63	80	0	5	14	0.89
7981291--7981328	15	2.5	15	84	12	51	81	2	13	2	0.90
7981297--7981375	11	6.8	11	76	15	70	79	3	12	3	1.00
7981291--7981374	37	2.3	37	81	6	100	79	3	13	3	0.99
7981294--7981364	31	2.4	27	86	13	97	78	2	14	4	1.01
7985221--7985303	40	2.1	40	97	0	157	22	14	27	34	1.93
7985406--7985577	46	3.8	46	86	2	215	38	6	22	31	1.81
7985406--7985571	92	1.8	91	85	3	237	39	7	21	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7994209--7994275	29	2.4	29	80	14	86	74	2	13	8	1.17
7994209--7994241	17	1.9	17	100	0	66	78	3	12	6	1.04
7998015--7998063	11	4.9	10	83	11	57	16	6	2	75	1.09
7998019--7998064	5	8.8	5	81	9	56	15	6	2	76	1.09
7998024--7998064	22	1.9	21	95	5	73	14	7	2	75	1.12
8000376--8000425	21	2.4	21	80	9	59	28	2	18	52	1.56
8000979--8001012	17	2.0	17	88	0	50	23	0	2	73	0.97
8001602--8001653	5	9.8	5	81	8	50	13	5	3	76	1.10
8001602--8001653	11	4.8	11	79	11	54	13	5	3	76	1.10
8001739--8001832	28	3.5	28	68	11	79	44	10	20	24	1.83

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