genome.fa.s7716.2.7.7.80.10.50.1000.12.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: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4364108

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

This is table  12  of  17  ( 1966 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)
2990580--2990619	20	1.9	22	90	10	66	50	2	0	47	1.14
2990615--2990664	20	2.4	21	83	9	59	28	4	2	66	1.21
2995693--2995731	8	4.5	8	82	17	51	79	0	20	0	0.73
2995687--2995731	19	2.4	18	85	10	63	80	2	17	0	0.82
3000465--3000522	22	2.6	22	97	0	107	32	17	13	36	1.89
3001190--3001439	73	3.4	73	90	2	347	26	22	20	30	1.98
3001605--3001929	123	2.6	124	88	2	458	40	14	20	24	1.90
3001605--3001929	124	2.6	123	88	3	458	40	14	20	24	1.90
3001847--3002203	139	2.6	139	84	4	445	39	13	18	27	1.89
3002452--3002526	39	1.9	39	91	0	123	22	42	17	17	1.89
3003993--3004035	12	3.6	12	81	6	52	27	2	2	67	1.15
3004277--3004325	18	2.7	19	77	22	52	42	4	0	53	1.20
3007658--3007731	35	2.1	36	97	2	141	27	24	13	35	1.93
3012994--3013018	12	2.1	12	100	0	50	68	0	0	32	0.90
3013023--3013091	5	13.4	5	80	10	50	75	4	2	17	1.09
3013141--3013184	19	2.4	19	88	3	63	72	0	6	20	1.07
3014644--3014870	42	5.3	41	63	19	115	21	25	24	28	1.99
3014632--3015097	86	5.4	86	91	0	743	21	24	24	30	1.99
3030705--3030987	38	7.6	36	79	12	247	43	11	3	40	1.59
3030703--3030988	149	1.9	149	85	6	400	43	11	3	40	1.60
3030950--3031014	22	2.9	24	82	13	84	46	12	0	41	1.41
3030954--3031007	20	2.5	22	85	11	67	46	12	0	40	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3036305--3036361	21	2.6	22	84	13	66	70	0	14	15	1.18
3040744--3040803	14	4.6	13	76	14	52	56	0	3	40	1.16
3041013--3041094	42	2.0	42	85	0	110	36	19	20	23	1.95
3040966--3041418	249	1.8	249	86	0	665	35	17	16	29	1.92
3047394--3047418	11	2.3	11	100	0	50	68	16	0	16	1.22
3049369--3049407	3	12.3	3	84	10	51	61	0	2	35	1.10
3049916--3049980	24	2.7	24	78	0	67	18	15	27	38	1.91
3052679--3052720	6	6.8	6	79	15	50	78	2	0	19	0.86
3052679--3052719	16	2.6	16	84	3	57	80	2	0	17	0.82
3054787--3054837	23	2.2	23	93	6	86	17	27	25	29	1.98
3054787--3054845	23	2.6	23	89	5	75	18	25	23	32	1.97
3061218--3061284	23	2.9	23	86	0	89	22	25	23	28	1.99
3067277--3067334	20	2.6	22	81	10	66	34	20	20	24	1.97
3067936--3067994	23	2.6	23	88	0	82	18	22	27	32	1.97
3067936--3068002	23	2.9	23	86	0	71	19	20	25	34	1.96
3070472--3070685	36	5.7	35	72	14	108	43	13	3	39	1.60
3070502--3070649	81	1.9	80	80	8	176	45	12	3	38	1.59
3070452--3070684	38	6.0	38	70	16	124	43	12	3	39	1.61
3070648--3070689	22	1.9	22	90	0	66	42	14	2	40	1.58
3070695--3070730	2	18.0	2	100	0	72	50	0	0	50	1.00
3076784--3077092	54	5.7	54	87	1	413	29	13	20	36	1.91
3083575--3083841	54	4.9	54	81	1	320	30	14	17	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3083659--3083873	108	2.0	108	83	0	259	30	14	19	34	1.92
3083577--3083873	163	1.8	161	79	5	346	29	14	19	36	1.92
3088491--3088610	32	3.8	32	80	4	116	39	14	16	30	1.88
3105046--3105203	61	2.6	61	86	0	226	27	27	18	25	1.98
3106707--3106769	30	2.1	30	82	2	74	34	22	6	36	1.80
3112425--3112979	56	10.0	56	88	0	749	35	10	18	35	1.86
3112423--3113051	112	5.7	110	84	3	737	34	11	18	35	1.87
3113271--3113358	46	1.9	46	90	0	140	47	12	18	21	1.81
3117465--3117504	21	1.9	21	84	0	53	52	10	7	30	1.62
3121829--3121867	13	2.9	13	92	3	60	35	12	7	43	1.72
3131695--3131751	22	2.6	22	88	0	87	42	15	17	24	1.88
3132086--3132406	54	5.9	54	91	0	509	36	19	18	25	1.95
3139258--3139288	13	2.4	13	94	0	53	16	29	12	41	1.85
3139429--3139461	5	6.8	5	86	6	50	3	18	0	78	0.87
3140151--3140246	6	16.0	6	77	15	65	6	13	0	80	0.90
3140162--3140236	11	6.6	11	74	9	62	5	12	0	82	0.82
3140157--3140237	18	4.6	17	79	13	76	4	12	0	82	0.81
3140185--3140244	24	2.5	24	89	8	86	8	8	0	83	0.82
3142222--3142283	30	2.1	30	84	6	81	45	16	1	37	1.57
3154124--3154369	123	2.0	123	100	0	492	24	22	19	33	1.97
3171378--3171414	3	12.7	3	88	5	58	35	0	0	64	0.94
3172008--3172053	14	3.0	16	70	23	53	71	2	26	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3172921--3173129	30	7.0	29	83	4	229	16	8	10	64	1.48
3172925--3173192	60	4.5	59	81	5	252	17	9	10	63	1.52
3172921--3173108	89	2.1	90	89	3	281	17	8	10	63	1.49
3177871--3177935	32	2.0	33	90	3	105	26	15	29	29	1.96
3178010--3178052	22	2.0	22	85	0	59	27	16	18	37	1.92
3178142--3178322	63	2.8	64	77	9	181	24	19	16	39	1.91
3178743--3178779	3	12.7	3	88	5	58	35	0	0	64	0.94
3180366--3180547	30	6.0	30	86	1	240	16	11	10	60	1.57
3180366--3180547	60	3.0	60	87	2	267	16	11	10	60	1.57
3180384--3180585	90	2.3	89	86	4	273	17	12	10	59	1.61
3189430--3189760	178	1.9	178	83	5	436	40	7	11	40	1.68
3198727--3198776	18	2.9	17	77	16	57	12	0	24	64	1.27
3199385--3199590	64	3.2	64	81	7	213	30	24	16	29	1.96
3200740--3200787	22	2.2	23	88	7	73	70	6	0	22	1.09
3206255--3206584	73	4.5	73	88	4	479	40	10	15	33	1.82
3206255--3206577	36	8.9	35	68	12	188	41	10	15	32	1.81
3206255--3206587	145	2.3	144	89	4	497	40	10	15	33	1.81
3207293--3207344	22	2.4	22	100	0	104	36	15	11	36	1.84
3208708--3208847	75	1.9	75	83	5	185	31	20	16	32	1.94
3211289--3211351	32	2.0	32	90	0	99	20	15	17	46	1.85
3214595--3214695	14	7.4	14	66	18	52	60	4	12	21	1.51
3214603--3214672	12	5.3	13	74	12	54	61	7	11	20	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3214583--3214665	20	4.0	20	72	17	62	60	8	13	18	1.57
3218208--3218253	23	2.0	23	91	0	74	26	13	47	13	1.78
3218730--3218758	15	1.9	15	100	0	58	24	20	20	34	1.97
3218944--3218979	12	3.0	12	95	0	63	5	16	33	44	1.71
3220207--3220245	17	2.3	18	91	8	64	64	5	5	25	1.35
3221015--3221093	29	2.7	30	77	15	74	51	8	16	22	1.72
3226362--3226413	19	2.7	18	91	8	77	15	9	9	65	1.47
3226369--3226409	18	2.2	19	86	4	57	17	9	9	63	1.51
3234476--3234534	20	2.9	20	75	10	57	23	37	22	16	1.94
3244174--3244251	37	2.1	37	97	0	147	24	5	25	44	1.74
3244188--3244249	20	3.2	20	61	21	51	25	4	27	41	1.75
3251091--3251120	3	10.0	3	100	0	60	33	0	0	66	0.92
3254051--3254286	45	5.2	45	89	0	346	45	10	22	21	1.82
3260377--3260450	21	3.5	21	90	0	112	32	14	18	33	1.92
3261021--3261297	45	6.2	45	87	0	383	44	12	20	22	1.85
3261720--3261997	139	2.0	139	100	0	556	43	5	20	31	1.73
3263070--3263207	45	3.3	45	67	24	138	33	10	23	32	1.89
3263115--3263242	34	3.4	34	68	20	103	35	10	22	31	1.89
3263055--3263321	79	3.4	79	94	0	444	35	11	21	31	1.89
3263333--3263447	60	1.9	59	96	1	212	37	10	20	31	1.87
3265883--3265917	2	17.5	2	100	0	70	51	0	0	48	1.00
3268451--3268734	79	3.6	79	89	2	430	36	10	22	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3268451--3268774	79	4.1	79	86	4	415	37	10	22	29	1.87
3269176--3269324	81	1.8	81	80	0	181	39	9	22	28	1.85
3271320--3271377	27	2.1	27	80	0	62	32	13	41	12	1.82
3281194--3281246	21	2.5	21	93	6	90	18	11	22	47	1.81
3281936--3282373	54	8.1	54	80	2	401	27	17	19	34	1.95
3281936--3282312	165	2.3	165	83	2	456	28	16	20	34	1.95
3281940--3282366	219	1.9	219	83	0	550	27	17	20	34	1.95
3282810--3282865	21	2.7	21	97	0	103	39	17	8	33	1.81
3287340--3287392	21	2.6	21	90	3	90	43	28	15	13	1.84
3288546--3288593	17	2.9	16	78	6	51	35	4	0	60	1.16

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