genome.fa.s9175.2.7.7.80.10.50.1000.13.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  13  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)
2538901--2539036	41	3.3	41	76	6	141	25	17	23	33	1.96
2539004--2539112	41	2.7	41	84	5	114	21	23	14	40	1.90
2539024--2539099	21	3.7	21	80	3	91	18	25	14	42	1.88
2539043--2539116	20	3.7	20	78	3	85	20	22	14	41	1.89
2539027--2539116	41	2.2	41	91	0	144	21	24	13	41	1.89
2539824--2540057	121	1.9	121	91	0	378	32	15	19	32	1.93
2542968--2543007	20	2.0	20	100	0	80	20	15	25	40	1.90
2546087--2546211	62	2.0	62	100	0	250	40	19	11	29	1.86
2548725--2548808	43	2.0	41	86	4	114	54	1	1	42	1.15
2555006--2555093	32	2.8	32	82	5	99	9	42	14	34	1.78
2555676--2555706	15	2.1	15	100	0	62	48	6	6	38	1.55
2556569--2556626	29	2.0	29	93	0	98	18	5	15	60	1.53
2563595--2563630	18	2.0	18	100	0	72	22	33	38	5	1.77
2567250--2567299	25	2.0	25	84	7	66	60	2	4	34	1.27
2568527--2568591	26	2.5	28	74	18	68	44	6	0	49	1.27
2569123--2569208	42	2.0	45	86	6	124	55	3	5	34	1.41
2572768--2572839	22	3.5	21	81	12	78	41	18	5	34	1.73
2572787--2572839	22	2.5	22	90	3	81	39	18	5	35	1.75
2573174--2573221	20	2.5	20	86	3	62	43	22	4	29	1.72
2573178--2573244	22	3.2	21	83	12	84	41	23	5	28	1.78
2572633--2574266	410	4.0	417	91	6	2540	40	12	8	39	1.73
2573587--2573647	21	2.9	21	75	22	65	39	19	6	34	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2573587--2573655	23	3.2	23	80	12	83	39	20	5	34	1.76
2573673--2573715	22	2.0	21	82	8	52	39	13	6	39	1.72
2574002--2574062	23	2.6	23	86	2	77	39	22	4	32	1.76
2574403--2574467	25	2.6	25	97	0	121	36	12	10	40	1.78
2576060--2576108	19	2.6	19	93	0	80	57	10	2	30	1.43
2577897--2577962	33	2.0	33	90	0	105	22	48	0	28	1.51
2577996--2578039	21	2.1	21	91	8	72	13	31	11	43	1.80
2580246--2580288	20	2.3	18	85	14	61	20	16	11	51	1.75
2580251--2580297	20	2.4	19	82	10	67	19	17	10	53	1.72
2580432--2580478	20	2.3	20	86	10	69	19	17	8	55	1.67
2580218--2580690	181	2.6	182	90	1	734	26	17	13	42	1.87
2580757--2581243	229	2.1	229	95	1	879	39	7	8	44	1.62
2584540--2584613	30	2.5	30	82	2	78	37	27	8	27	1.84
2585383--2585416	15	2.2	16	89	5	52	29	5	2	61	1.34
2585798--2585840	20	2.2	20	82	0	50	46	4	2	46	1.36
2590817--2590879	21	3.0	21	92	0	108	33	26	22	17	1.96
2594918--2594980	21	3.0	21	88	0	99	34	26	20	17	1.95
2595788--2595845	20	2.7	20	86	10	71	22	22	22	32	1.98
2599078--2599723	247	2.5	248	86	9	880	26	11	21	40	1.87
2599676--2599763	38	2.3	38	90	3	142	11	10	38	39	1.75
2600315--2600360	18	2.7	18	93	6	78	28	32	6	32	1.83
2601292--2601330	16	2.5	15	88	8	60	25	0	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2605482--2605522	8	5.2	8	82	5	57	34	0	29	36	1.58
2605593--2606221	128	4.9	128	95	0	1152	23	25	20	31	1.98
2606620--2606719	33	3.0	34	80	2	130	40	3	3	54	1.31
2606639--2606716	39	2.0	39	80	12	88	37	1	2	58	1.20
2607239--2607311	21	3.5	21	87	10	105	21	27	32	17	1.96
2607315--2607362	21	2.3	21	85	0	60	22	12	39	25	1.89
2609077--2609163	15	5.4	16	70	15	63	59	1	0	39	1.05
2609106--2609141	18	2.0	18	88	0	54	61	0	0	38	0.96
2609086--2609162	30	2.5	30	83	6	93	61	0	0	38	0.96
2609086--2609163	33	2.4	33	82	6	97	61	0	0	38	0.96
2609121--2609195	34	2.2	33	81	11	89	65	4	0	30	1.11
2609371--2609406	16	2.2	16	100	0	72	5	38	44	11	1.63
2618036--2618101	30	2.2	30	91	0	114	43	10	15	30	1.80
2623965--2624015	21	2.3	23	80	10	61	43	9	0	47	1.36
2627393--2627433	19	2.2	18	91	4	64	36	0	2	60	1.10
2628809--2628867	3	20.3	3	78	13	61	27	1	0	71	0.96
2628809--2628868	17	3.5	17	76	13	68	26	1	0	71	0.95
2628809--2628870	29	2.1	30	90	3	99	27	1	0	70	0.96
2628868--2628913	2	23.0	2	95	0	83	52	0	0	47	1.00
2631196--2631237	7	6.0	7	81	8	50	14	16	14	54	1.71
2631196--2631237	15	3.0	14	83	10	50	14	16	14	54	1.71
2637879--2637933	22	2.5	22	93	0	101	34	10	14	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2638483--2638854	187	2.0	184	95	1	663	31	14	14	38	1.87
2638909--2639787	113	7.6	115	79	11	707	39	14	19	26	1.90
2639124--2639313	100	1.9	103	90	3	305	38	12	22	25	1.90
2639234--2639807	242	2.4	242	95	1	1017	39	15	17	27	1.90
2639234--2639807	123	4.7	121	87	3	809	39	15	17	27	1.90
2640014--2640066	3	17.3	3	84	11	72	35	0	1	62	1.06
2641433--2641490	3	20.3	3	79	13	61	27	1	0	70	0.97
2641433--2641490	14	4.1	14	84	10	82	27	1	0	70	0.97
2641491--2641520	2	15.0	2	92	0	51	53	0	0	46	1.00
2646463--2646514	20	2.6	20	96	0	95	38	26	13	21	1.90
2646570--2646958	20	19.5	20	86	4	480	34	26	19	20	1.96
2647861--2647885	12	2.1	12	100	0	50	72	0	28	0	0.86
2650169--2650454	33	8.5	34	82	13	255	47	18	20	13	1.83
2650242--2650270	14	2.1	14	100	0	58	58	6	20	13	1.58
2650169--2650432	52	5.2	51	80	16	266	47	18	20	13	1.82
2650236--2650454	85	2.6	84	91	4	350	47	17	20	14	1.82
2650340--2650394	14	3.6	14	78	21	65	49	20	20	10	1.78
2650201--2650454	52	5.0	51	83	12	271	47	17	21	14	1.82
2650461--2650562	19	5.6	19	85	12	151	14	23	17	44	1.86
2650669--2650705	14	2.6	14	91	0	65	45	21	0	32	1.52
2652685--2652741	14	3.7	14	77	20	60	45	22	21	10	1.82
2652666--2652758	33	2.8	33	95	0	168	47	21	20	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2652629--2652763	19	7.6	19	76	16	128	45	23	19	11	1.82
2652759--2652887	19	7.3	19	75	17	125	8	17	28	45	1.77
2652759--2652850	33	2.8	33	93	3	150	7	18	28	45	1.76
2652919--2653385	93	5.0	93	98	0	909	46	19	12	22	1.83
2652919--2653385	185	2.5	186	98	0	909	46	19	12	22	1.83
2655089--2655179	14	5.7	14	72	25	74	41	21	26	9	1.84
2655137--2655201	19	3.7	19	74	19	77	44	21	23	10	1.83
2655081--2655196	33	3.5	33	89	2	187	44	19	25	10	1.82
2655213--2655267	14	3.6	14	73	21	56	9	25	23	41	1.83
2655197--2655267	33	2.2	33	94	0	124	8	22	25	43	1.81
2655208--2655289	33	2.5	33	89	2	119	9	25	21	42	1.84
2655220--2655308	20	4.8	20	72	19	75	12	24	19	43	1.85
2655388--2655458	33	2.2	33	92	0	115	47	18	22	11	1.80
2655640--2655694	22	2.5	22	81	0	74	20	16	40	23	1.91
2655840--2656032	20	9.6	20	82	5	210	19	19	25	35	1.95
2655842--2656013	60	2.8	60	83	0	236	19	18	26	35	1.95
2656088--2656139	20	2.6	20	96	0	95	21	13	26	38	1.90
2656676--2656738	17	3.9	17	70	19	62	25	20	11	42	1.85
2663469--2663496	13	2.2	13	100	0	56	25	32	14	28	1.94
2668786--2668865	21	3.8	21	80	11	83	25	25	21	28	1.99
2672314--2672361	21	2.3	21	89	3	71	52	0	4	43	1.20
2675014--2675043	15	2.0	15	100	0	60	33	6	6	53	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2679773--2679811	20	2.0	20	89	0	60	33	23	10	33	1.88
2686015--2686053	13	3.0	13	92	0	69	25	23	20	30	1.98
2686025--2686189	85	1.9	85	85	4	226	31	20	18	29	1.96
2686569--2686614	20	2.3	19	85	14	58	50	8	15	26	1.73
2693880--2693934	2	27.5	2	100	0	110	50	0	0	49	1.00
2694097--2694135	20	2.0	20	84	0	51	38	20	20	20	1.94
2694165--2694222	22	2.8	20	82	10	71	29	17	27	25	1.97
2694094--2694312	94	2.4	91	82	9	255	31	16	24	27	1.96
2694756--2694977	79	2.8	79	87	4	322	34	11	24	29	1.91
2695270--2695330	29	2.1	29	87	0	86	45	6	24	22	1.76

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