genome.fa.s8488.2.7.7.80.10.50.1000.32.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  32  of  54  ( 6450 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)
7710180--7710293	59	1.9	60	84	8	153	25	35	23	15	1.95
7710183--7710308	59	2.1	60	81	7	141	26	34	23	15	1.95
7710799--7710855	12	4.7	12	76	16	55	35	3	1	59	1.25
7710781--7710855	41	1.9	39	84	10	100	36	4	2	57	1.32
7710931--7710967	9	4.0	9	89	3	56	37	0	0	62	0.96
7715205--7715263	26	2.2	26	78	3	64	44	0	1	54	1.10
7715925--7715986	33	1.9	32	90	6	99	54	1	8	35	1.39
7717367--7717406	18	2.2	18	95	0	71	15	15	35	35	1.88
7728970--7729253	54	5.3	54	86	5	369	27	16	20	35	1.94
7728970--7729253	107	2.6	108	83	4	378	27	16	20	35	1.94
7735700--7736087	54	7.2	54	85	1	447	28	17	17	36	1.93
7737414--7737442	13	2.1	14	93	6	51	27	34	6	31	1.83
7740031--7740096	33	2.0	33	96	0	123	42	15	28	13	1.85
7740213--7740282	3	22.7	3	80	11	79	61	0	1	37	1.05
7740281--7740315	3	11.7	3	100	0	70	34	0	0	65	0.93
7740950--7741136	41	4.6	41	85	0	203	35	14	20	29	1.92
7741143--7741236	40	2.3	40	85	3	118	34	14	18	32	1.91
7744304--7744343	18	2.2	18	86	0	53	42	12	12	32	1.80
7745972--7746024	20	2.6	20	82	8	63	28	9	24	37	1.86
7747789--7747845	28	2.0	28	100	0	114	38	28	3	29	1.73
7757679--7757743	22	3.0	22	97	0	121	20	13	20	46	1.84
7757799--7757864	2	33.0	2	87	0	78	50	9	0	40	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7757787--7757839	18	3.1	18	83	5	74	50	18	0	30	1.47
7759233--7759335	35	2.9	35	91	2	154	45	9	10	33	1.72
7759233--7759336	18	5.9	18	77	4	104	45	9	10	34	1.72
7760995--7761080	31	2.9	30	73	14	79	32	15	4	47	1.65
7760999--7761080	29	2.8	29	78	9	85	31	14	4	48	1.65
7773596--7773621	9	2.9	9	100	0	52	7	0	0	92	0.39
7773596--7773625	10	3.1	10	95	4	53	10	0	0	90	0.47
7777070--7777101	12	2.5	13	95	5	57	46	9	18	25	1.79
7781706--7781744	6	6.5	6	93	0	69	0	53	0	46	1.00
7784322--7784378	25	2.2	25	87	6	87	59	0	0	40	0.97
7784327--7784374	9	5.4	9	78	12	55	60	0	0	39	0.97
7784321--7784378	20	2.9	21	78	17	70	58	0	0	41	0.98
7784334--7784392	17	3.5	17	78	17	61	52	0	0	47	1.00
7785490--7785542	21	2.5	21	84	0	70	20	26	18	33	1.96
7786117--7786188	33	2.2	33	89	0	108	44	23	20	11	1.84
7786184--7786261	19	4.1	19	88	1	111	11	23	20	44	1.84
7787924--7788204	94	3.1	93	90	4	419	22	12	17	47	1.81
7788293--7788350	20	3.0	19	85	5	80	51	18	20	8	1.72
7788844--7788929	42	2.1	41	81	14	99	24	33	20	20	1.97
7790112--7790147	14	2.6	14	95	0	63	33	0	22	44	1.53
7790254--7790324	19	3.7	19	90	3	108	47	21	19	11	1.80
7790254--7790334	19	4.3	19	90	3	103	45	22	18	13	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7790330--7790447	19	6.7	19	66	19	76	12	24	19	43	1.86
7790334--7790427	33	2.8	33	96	0	170	11	24	19	44	1.84
7790400--7790454	19	2.8	21	78	13	62	20	21	20	38	1.94
7790421--7790493	20	3.6	20	68	17	60	24	19	23	32	1.97
7792947--7793022	23	3.3	23	96	1	134	39	21	18	21	1.93
7793865--7794222	20	17.3	21	76	9	238	32	18	20	28	1.96
7793896--7793966	21	3.4	21	75	14	69	43	14	21	21	1.87
7793876--7794062	41	4.6	41	84	7	265	39	16	21	22	1.92
7793876--7794062	81	2.3	81	89	6	281	39	16	21	22	1.92
7794062--7794179	41	3.0	40	90	3	184	23	22	17	36	1.95
7794067--7794194	61	2.1	60	82	4	159	26	21	17	35	1.95
7794176--7794221	21	2.2	21	84	7	58	36	17	26	19	1.94
7796081--7796240	29	5.7	29	73	12	120	48	13	2	36	1.56
7796101--7796176	26	2.9	26	76	18	77	50	6	3	39	1.47
7804740--7804788	24	2.0	24	84	7	64	30	10	4	55	1.52
7809637--7809684	25	1.9	25	95	0	87	29	4	0	66	1.10
7809826--7809940	58	2.0	58	88	5	171	40	9	3	46	1.53
7814634--7814661	13	2.2	13	100	0	56	14	57	14	14	1.66
7817923--7817954	15	2.1	16	94	5	57	6	25	18	50	1.70
7818705--7818738	16	2.1	16	94	0	59	32	26	8	32	1.87
7819357--7819800	54	8.2	54	86	0	591	33	20	17	27	1.96
7826899--7826947	3	15.7	3	79	8	53	24	0	4	71	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7826898--7826952	9	6.3	9	83	6	69	21	0	3	74	0.97
7826898--7826952	17	3.2	18	82	5	69	21	0	3	74	0.97
7828456--7828488	16	2.1	16	100	0	66	27	12	36	24	1.91
7828597--7828677	36	2.2	35	83	12	101	20	3	7	67	1.31
7828596--7828690	37	2.5	37	81	13	106	22	4	6	67	1.31
7833885--7833986	25	4.2	25	79	14	79	38	16	0	44	1.55
7833897--7833986	25	3.7	24	79	18	105	37	17	1	43	1.57
7834749--7835158	175	2.3	175	85	0	532	32	22	17	27	1.96
7835557--7835589	16	2.0	17	88	5	50	33	12	3	51	1.54
7835816--7835841	7	3.7	7	100	0	52	53	0	0	46	1.00
7835841--7835899	3	19.7	3	73	13	50	27	0	5	67	1.11
7837657--7837690	16	2.1	17	89	10	54	29	0	5	64	1.17
7841315--7841354	22	1.9	20	85	10	53	37	2	7	52	1.43
7846474--7846519	20	2.3	19	85	14	58	50	8	13	28	1.70
7856647--7856688	21	2.0	20	86	13	59	50	9	16	23	1.75
7867341--7867394	23	2.3	23	90	0	90	37	7	11	44	1.68
7869654--7869680	12	2.2	12	100	0	54	85	0	14	0	0.61
7869779--7869834	18	3.2	17	76	18	62	25	0	3	71	1.02
7870800--7870854	24	2.3	24	81	9	60	18	5	3	72	1.18
7874210--7874424	106	2.0	106	100	0	430	36	22	25	16	1.94
7874653--7875724	106	10.2	106	90	2	1597	33	25	18	22	1.97
7878387--7878520	44	3.0	45	70	7	128	31	23	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7878323--7878520	89	2.2	89	88	3	283	29	22	18	29	1.97
7878328--7878487	44	3.6	44	71	8	144	30	20	20	28	1.97
7878585--7878704	44	2.7	43	74	6	109	29	15	22	32	1.95
7879814--7879938	46	2.8	45	90	3	189	29	24	8	38	1.84
7880043--7880166	40	3.0	40	84	6	169	35	24	14	25	1.93
7882618--7882673	21	2.6	23	75	16	57	46	17	3	32	1.66
7884534--7884573	11	3.6	12	80	12	50	40	5	5	50	1.46
7885521--7885800	141	2.0	139	98	1	542	27	11	30	30	1.91
7887151--7887225	23	3.2	23	82	1	96	52	16	21	10	1.73
7892958--7893302	172	2.0	172	100	0	690	32	19	13	35	1.90
7895500--7895889	80	4.8	80	88	1	557	31	25	21	22	1.98
7897521--7897554	18	1.9	18	88	5	52	29	20	0	50	1.49
7900646--7900690	23	2.0	23	90	0	72	24	26	26	22	2.00
7900658--7900972	149	2.1	149	96	1	578	34	21	18	26	1.96
7905523--7905573	22	2.4	21	83	3	66	29	21	23	25	1.99
7905545--7905827	139	2.0	142	86	9	400	34	21	16	27	1.95
7907449--7907493	21	2.1	21	87	0	63	15	24	28	31	1.96
7910577--7910686	54	2.0	55	98	1	213	30	12	21	35	1.91
7913811--7913969	54	2.9	54	87	0	210	37	18	15	28	1.92
7920719--7920878	54	2.9	54	84	0	194	35	16	16	31	1.92
7922257--7922304	3	16.0	3	91	8	80	64	0	33	2	1.05
7924372--7924480	55	2.0	55	98	0	209	50	19	12	17	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7928145--7928208	17	3.5	19	72	10	62	53	29	12	4	1.59
7928653--7928701	18	2.7	18	81	12	55	14	18	14	53	1.74
7928670--7928702	9	3.8	9	96	4	59	12	18	12	57	1.64
7931408--7931470	24	2.7	24	82	2	74	33	1	4	60	1.27
7938819--7938867	19	2.5	20	90	3	73	51	4	16	28	1.63
7942801--7942835	18	1.9	18	88	0	52	14	22	25	37	1.92
7943709--7943751	18	2.4	18	100	0	86	39	6	20	32	1.80
7945886--7945922	19	1.9	19	88	0	56	18	24	35	21	1.96
7949816--7949858	20	2.2	20	86	0	59	32	13	18	34	1.90
7951328--7951369	20	2.0	20	86	9	57	26	30	2	40	1.69

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