genome.fa.s8495.2.7.7.80.10.50.1000.14.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  14  of  21  ( 2505 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)
3177848--3177890	3	13.7	3	90	9	68	67	0	0	32	0.91
3178794--3178823	14	2.1	14	100	0	60	20	13	6	60	1.55
3179098--3179164	23	2.9	23	90	0	98	14	10	14	59	1.60
3181210--3181270	15	4.1	14	74	17	61	67	3	0	29	1.07
3181210--3181270	21	2.7	23	75	12	72	67	3	0	29	1.07
3183759--3183809	21	2.4	22	78	15	63	27	9	7	54	1.60
3184721--3184768	19	2.5	19	87	12	71	37	12	6	43	1.68
3185168--3185218	26	2.0	26	81	14	61	41	23	7	27	1.82
3186021--3186168	73	2.0	73	100	0	296	34	14	26	24	1.94
3187980--3188030	21	2.4	22	78	15	63	27	9	7	54	1.60
3188953--3188995	20	2.2	20	95	4	79	37	11	4	46	1.61
3192491--3192544	11	4.8	11	77	4	63	81	0	3	14	0.82
3192719--3192783	28	2.3	28	94	0	112	43	6	4	46	1.49
3194421--3194499	29	2.5	31	78	12	90	56	3	12	26	1.53
3194674--3194717	3	14.7	3	100	0	88	68	31	0	0	0.90
3195777--3195815	12	3.0	13	88	7	53	79	0	2	17	0.84
3195696--3196005	119	2.6	120	90	2	498	41	15	19	22	1.89
3197935--3198613	220	3.1	220	85	2	936	25	16	25	32	1.96
3198529--3199232	139	5.1	139	81	5	744	23	16	29	30	1.96
3198529--3199232	277	2.5	277	84	3	878	23	16	29	30	1.96
3199549--3199764	66	3.2	65	80	10	193	39	14	18	28	1.89
3201068--3201117	21	2.4	21	90	3	75	84	10	2	4	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3201068--3201117	10	4.8	10	82	7	64	84	10	2	4	0.84
3218352--3218429	30	2.6	29	76	12	77	57	5	11	25	1.54
3218382--3218440	30	2.0	28	83	6	73	59	5	10	25	1.50
3219089--3219122	14	2.4	14	90	9	52	79	0	0	20	0.73
3219007--3219308	117	2.6	115	91	3	473	41	16	20	22	1.90
3219009--3219308	115	2.6	116	90	3	471	41	16	20	22	1.90
3219353--3219421	29	2.5	28	80	4	68	55	5	14	24	1.61
3220492--3221128	216	2.9	218	84	3	818	26	16	23	33	1.95
3221060--3221625	139	4.1	139	80	5	569	23	16	27	31	1.96
3221060--3221624	278	2.0	277	81	6	660	23	16	27	31	1.96
3221826--3222018	103	1.9	101	84	4	262	37	11	16	34	1.86
3221943--3222086	66	2.2	66	84	3	182	37	11	20	30	1.88
3232326--3232377	26	2.0	26	92	7	88	48	11	7	32	1.68
3233710--3234112	205	2.0	203	97	2	756	33	14	19	32	1.92
3246996--3247030	17	1.9	19	88	11	56	31	8	34	25	1.86
3252838--3252898	30	2.0	30	96	0	113	19	6	34	39	1.78
3261883--3261934	3	17.7	3	77	18	56	32	0	0	67	0.91
3261882--3261934	8	7.1	8	77	18	53	33	0	0	66	0.92
3261882--3261933	14	3.5	15	80	19	65	32	0	0	67	0.91
3261883--3261934	17	3.3	16	84	15	65	32	0	0	67	0.91
3263410--3263531	29	4.1	30	79	4	131	19	14	9	56	1.65
3263417--3263538	59	2.1	59	84	3	156	18	15	9	56	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3268813--3268919	38	2.9	37	84	6	137	35	19	11	33	1.87
3269008--3269057	25	2.0	26	84	11	68	36	12	8	44	1.71
3270317--3270491	92	1.9	92	85	4	244	32	20	22	25	1.97
3270425--3270597	53	3.3	53	97	0	319	30	19	26	23	1.98
3270586--3270627	22	1.9	22	85	0	57	30	11	28	28	1.92
3270960--3271244	54	5.3	55	84	2	337	29	17	20	32	1.95
3277722--3277879	65	2.4	65	86	3	201	32	18	22	27	1.97
3279773--3279845	34	2.1	34	90	5	112	50	12	9	27	1.71
3279786--3279858	34	2.1	34	87	5	103	46	15	10	27	1.79
3279836--3279915	23	3.4	23	72	3	61	45	16	12	26	1.83
3279834--3279903	23	3.0	23	75	4	68	45	18	10	25	1.80
3283085--3283123	19	2.1	19	100	0	78	20	10	15	53	1.70
3283352--3283397	24	1.9	24	86	8	67	30	10	28	30	1.91
3284060--3284121	28	2.2	28	100	0	124	27	14	32	25	1.95
3285769--3285808	12	3.2	12	82	6	53	2	27	0	70	1.01
3287383--3287444	31	2.0	31	87	0	88	38	12	3	45	1.59
3288000--3288040	21	2.0	21	90	9	66	53	4	14	26	1.61
3289231--3289267	6	6.2	6	93	0	65	32	48	18	0	1.49
3292853--3292930	40	2.0	40	100	0	156	15	21	12	50	1.77
3293732--3293902	85	2.0	85	96	2	317	26	22	15	35	1.94
3295310--3295340	6	5.2	6	100	0	62	35	48	16	0	1.46
3310260--3310302	13	3.3	13	80	0	59	16	20	20	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3310629--3310668	2	20.0	2	100	0	80	50	0	0	50	1.00
3314033--3314084	26	2.0	26	92	0	86	30	5	9	53	1.57
3314093--3314141	13	3.5	15	75	13	59	46	0	0	53	1.00
3314085--3314144	27	2.2	28	79	11	70	50	0	1	48	1.11
3314094--3314155	27	2.3	26	82	17	81	45	0	1	53	1.10
3316731--3316783	14	3.4	17	77	15	51	37	5	0	56	1.23
3322087--3322194	56	1.9	56	100	0	216	20	7	30	41	1.79
3326259--3326283	13	1.9	13	100	0	50	56	8	24	12	1.62
3337533--3337564	14	2.4	13	94	5	55	65	6	28	0	1.16
3339135--3339247	20	5.7	20	83	4	129	28	24	20	26	1.99
3339135--3339247	40	2.9	38	85	5	145	28	24	20	26	1.99
3339841--3339884	19	2.3	19	88	7	63	11	20	25	43	1.85
3339852--3339944	20	4.7	20	81	1	80	16	19	21	43	1.88
3339918--3339955	20	1.9	20	88	0	58	18	13	15	52	1.74
3341813--3341878	20	3.3	20	91	0	105	37	25	19	16	1.93
3341923--3341996	20	3.7	20	90	0	112	18	16	25	39	1.91
3341923--3342007	20	4.4	19	86	5	100	17	16	27	38	1.91
3343985--3344050	30	2.2	30	100	0	132	28	3	13	54	1.54
3344146--3344443	20	15.9	20	74	12	213	22	19	21	36	1.95
3344112--3344435	34	8.9	34	73	16	168	21	19	21	37	1.95
3344618--3344652	18	1.9	18	94	0	61	17	2	25	54	1.57
3346687--3346723	14	2.6	14	91	4	56	5	21	21	51	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3346913--3346966	24	2.2	24	90	0	81	42	18	18	20	1.89
3347786--3347919	20	6.7	20	79	6	137	25	20	21	32	1.97
3347781--3347919	40	3.5	40	85	3	172	25	20	20	33	1.97
3348511--3348564	26	2.1	26	85	0	72	29	12	12	44	1.80
3360050--3360134	29	2.8	31	79	10	88	48	5	15	30	1.68
3360072--3360138	31	2.2	32	84	7	86	47	4	16	31	1.66
3366012--3366057	22	2.1	22	95	0	83	39	0	21	39	1.54
3369176--3369204	14	2.1	14	100	0	58	20	17	6	55	1.65
3375345--3375377	12	2.8	12	100	0	66	36	27	30	6	1.81
3386595--3386629	9	4.0	9	92	7	63	11	11	0	77	1.00
3386595--3386629	8	4.1	8	96	3	52	11	11	0	77	1.00
3386595--3386629	17	2.0	18	94	5	63	11	11	0	77	1.00
3391687--3391729	20	2.2	20	86	0	59	32	20	13	32	1.92
3392147--3392196	18	2.7	18	87	9	66	32	22	4	42	1.72
3396618--3396676	31	1.9	31	83	13	77	5	13	10	71	1.29
3404857--3405109	100	2.5	103	80	9	293	39	11	14	35	1.81
3405497--3405539	16	2.7	16	96	0	77	41	23	16	18	1.89
3413744--3413816	33	2.2	33	81	15	89	6	15	4	73	1.19
3413761--3413825	33	2.0	33	82	11	80	7	15	7	69	1.35
3416191--3416404	54	4.0	54	78	7	224	34	16	16	31	1.92
3416474--3416811	167	2.0	172	97	2	641	31	22	11	33	1.90
3422430--3422587	54	2.9	56	84	9	195	33	14	17	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3426982--3427057	5	14.8	5	78	13	75	6	22	51	19	1.70
3426975--3427057	22	3.7	22	80	13	98	8	22	49	19	1.75
3426982--3427059	27	2.8	27	94	5	129	8	21	50	19	1.75
3426975--3427057	17	4.9	17	80	12	75	8	22	49	19	1.75
3434234--3434290	5	10.6	5	75	14	51	7	21	52	19	1.69
3434230--3434290	22	2.8	22	94	0	104	9	22	49	18	1.77
3434303--3434360	19	3.1	19	87	0	89	27	31	24	17	1.97
3436469--3436707	130	1.8	129	82	5	302	40	16	10	32	1.83
3441062--3441418	131	2.7	130	83	4	432	40	16	9	33	1.81
3443635--3443672	17	2.2	17	86	9	51	78	0	5	15	0.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21