genome.fa.s8488.2.7.7.80.10.50.1000.24.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  24  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)
6025189--6025223	2	17.5	2	100	0	70	48	0	0	51	1.00
6030682--6030779	45	2.2	44	81	15	114	29	20	20	29	1.98
6046489--6046521	16	1.9	18	88	11	52	27	12	3	57	1.49
6046964--6047044	4	20.0	4	71	14	51	23	6	0	70	1.10
6046981--6047043	32	2.1	29	85	8	81	20	4	0	74	0.99
6046962--6047036	17	4.5	17	71	15	59	22	6	0	70	1.10
6046963--6047037	22	3.2	22	71	17	62	22	6	0	70	1.10
6049432--6049781	175	2.0	175	100	0	700	33	18	20	27	1.96
6058094--6058149	12	4.4	14	76	17	52	73	1	14	10	1.18
6058123--6058156	11	3.1	11	86	0	50	85	0	8	5	0.75
6058130--6058174	21	2.2	20	84	4	54	84	0	8	6	0.78
6058963--6059038	30	2.5	30	81	8	100	35	15	25	23	1.94
6068705--6068760	27	2.0	26	83	10	67	48	19	12	19	1.80
6068749--6068804	26	2.2	26	81	12	62	46	17	10	25	1.80
6073972--6074584	309	2.0	309	86	0	868	33	17	17	31	1.94
6078175--6078202	3	9.3	3	100	0	56	32	0	0	67	0.91
6079262--6079314	22	2.4	22	100	0	106	22	20	35	20	1.96
6079760--6079885	47	2.8	45	84	5	155	30	22	7	40	1.80
6083681--6083741	25	2.4	25	82	15	72	3	19	3	73	1.11
6083694--6083735	20	2.1	20	91	8	68	4	19	4	71	1.22
6083680--6083760	32	2.5	32	83	13	96	3	18	2	75	1.07
6083680--6083749	20	3.7	20	74	16	67	4	18	2	74	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6083686--6083766	12	6.6	12	74	18	51	3	17	3	75	1.10
6083745--6083812	18	3.8	18	92	0	109	1	14	4	79	0.96
6083712--6083808	36	2.7	36	83	9	119	3	15	4	77	1.05
6083714--6083808	12	7.9	13	72	23	50	3	15	4	76	1.06
6086625--6086750	47	2.8	45	85	5	164	29	23	7	39	1.81
6092250--6092602	183	1.9	183	94	0	616	27	20	21	30	1.98
6093868--6093944	39	2.0	39	94	0	136	31	19	12	36	1.90
6093868--6093978	39	2.9	39	80	11	131	27	20	13	38	1.90
6093925--6094682	92	8.0	92	89	6	1144	31	18	12	37	1.88
6094201--6094396	102	1.9	102	91	2	322	32	16	12	38	1.87
6094270--6094356	37	2.4	37	84	1	104	26	18	13	41	1.88
6093925--6094682	286	2.7	283	92	3	1246	31	18	12	37	1.88
6094551--6094652	37	2.8	37	83	5	118	30	19	11	38	1.88
6094487--6094717	103	2.2	102	91	1	363	30	19	12	37	1.89
6094593--6094803	66	3.2	66	91	1	352	31	21	12	34	1.90
6095485--6095746	106	2.5	106	87	1	355	35	25	17	22	1.95
6096234--6096293	26	2.2	28	80	11	72	33	8	1	56	1.39
6107785--6107839	13	4.2	13	92	0	92	25	21	18	34	1.96
6107811--6107977	84	2.0	85	81	8	198	30	20	18	29	1.97
6110670--6110706	17	2.2	17	95	0	65	43	0	21	35	1.53
6111653--6111689	18	2.0	19	94	5	67	75	0	24	0	0.80
6115932--6115972	20	2.0	20	95	0	73	14	7	21	56	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6118989--6119019	11	2.8	11	95	0	53	29	38	0	32	1.57
6122064--6122115	23	2.2	25	80	16	65	26	5	17	50	1.69
6122070--6122115	23	2.0	24	87	12	69	26	6	15	52	1.67
6122087--6122263	88	2.0	88	97	0	336	29	10	18	42	1.83
6122624--6122704	22	3.7	22	85	8	103	18	17	12	51	1.75
6136414--6136553	61	2.3	60	90	1	226	28	12	8	50	1.70
6137079--6137229	71	2.1	71	95	0	266	31	6	6	55	1.51
6137908--6138056	20	7.4	20	77	14	87	37	22	18	21	1.94
6137908--6138056	40	3.7	39	73	18	112	37	22	18	21	1.94
6137926--6138100	80	2.2	80	85	9	225	38	23	18	19	1.93
6138050--6138137	20	4.3	20	85	7	115	39	25	14	20	1.90
6137910--6138116	100	2.1	100	91	3	337	38	23	17	20	1.93
6137950--6138137	40	4.7	40	77	15	190	38	23	17	20	1.93
6137950--6138176	40	5.7	40	75	13	166	37	23	15	22	1.93
6137964--6138194	60	3.9	59	75	13	204	37	22	15	24	1.93
6138117--6138194	19	4.1	19	80	6	86	35	21	10	32	1.87
6139350--6139403	28	1.9	28	84	0	72	48	20	0	31	1.50
6139367--6139403	14	2.6	14	100	0	74	48	21	0	29	1.50
6139315--6139490	78	2.2	80	82	6	180	52	16	2	28	1.58
6140839--6140933	21	4.5	21	82	4	102	25	18	33	22	1.97
6140815--6140935	42	2.9	42	83	4	147	24	20	33	20	1.97
6141291--6141399	42	2.6	42	86	5	141	30	35	13	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6141376--6141416	21	2.0	21	90	0	64	36	31	14	17	1.90
6143159--6143212	20	2.7	19	80	8	63	14	16	20	48	1.81
6143544--6143591	22	2.2	22	92	0	78	20	14	43	20	1.87
6143749--6144013	20	13.3	20	78	9	224	20	15	22	41	1.89
6143749--6144002	40	6.4	40	78	10	288	20	15	22	42	1.89
6143749--6144013	60	4.4	59	75	10	252	20	15	22	41	1.89
6144007--6144053	20	2.3	20	77	0	58	27	12	23	36	1.91
6143907--6144058	60	2.5	60	82	8	159	22	13	23	40	1.89
6145111--6145207	16	6.8	15	77	21	84	35	0	64	0	0.93
6145118--6145207	6	16.2	6	76	15	95	34	0	65	0	0.93
6145711--6145798	3	29.7	3	97	2	169	67	0	32	0	0.91
6147653--6147699	24	2.0	24	95	0	85	36	23	19	21	1.95
6156474--6156510	19	1.9	19	100	0	74	21	21	29	27	1.99
6157308--6157367	29	2.1	29	90	0	93	16	30	36	16	1.91
6157417--6157442	13	2.0	13	100	0	52	30	23	38	7	1.83
6157448--6157531	29	2.9	28	81	10	98	25	28	29	16	1.97
6157832--6157869	9	4.2	9	83	10	51	31	0	2	65	1.06
6157951--6158015	27	2.4	28	86	2	87	38	1	15	44	1.56
6158040--6158110	38	2.0	37	84	15	96	40	0	9	49	1.36
6158130--6158184	18	3.4	18	65	31	52	38	0	9	52	1.33
6158212--6158251	21	1.9	21	100	0	80	27	0	15	57	1.38
6158469--6158549	22	3.3	22	70	23	63	44	1	11	43	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6158448--6158555	30	3.9	29	76	23	108	43	1	9	45	1.46
6158509--6158545	11	3.2	12	77	14	51	54	0	8	37	1.30
6160917--6160961	24	1.9	23	90	4	72	55	4	2	37	1.32
6161125--6161352	14	17.3	14	76	13	180	44	6	1	47	1.39
6161112--6161364	26	9.9	25	78	9	185	44	5	1	47	1.38
6161442--6161785	49	7.0	49	90	2	553	45	10	0	42	1.43
6165091--6165133	21	2.0	21	86	8	61	53	16	0	30	1.43
6165526--6165677	65	2.3	65	95	2	268	26	21	30	21	1.98
6170248--6170291	23	1.9	23	85	0	61	22	11	4	61	1.48
6172463--6172516	27	2.0	27	92	0	90	44	11	16	27	1.82
6182139--6182181	21	2.0	21	86	8	61	44	20	32	2	1.65
6185297--6186179	442	2.0	443	90	1	1376	40	10	17	31	1.83
6188399--6188424	12	2.2	12	100	0	52	23	0	0	76	0.78
6189200--6189321	43	2.8	43	84	0	136	32	31	15	20	1.94
6189461--6189704	124	2.0	124	84	1	319	33	25	17	23	1.96
6189750--6190080	36	9.2	36	76	14	299	28	18	12	40	1.87
6189933--6190053	42	3.0	42	87	8	164	23	18	13	44	1.85
6189750--6190239	215	2.3	210	89	5	759	27	18	13	40	1.88
6189975--6190311	173	1.9	176	90	5	542	26	19	12	40	1.88
6190095--6190253	37	4.4	36	86	3	212	25	20	13	40	1.89
6190095--6190253	73	2.2	73	87	1	221	25	20	13	40	1.89
6190202--6190355	67	2.2	70	84	7	190	32	19	11	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6191953--6192014	29	2.1	30	82	5	74	17	14	9	58	1.63
6192213--6192277	8	7.9	8	77	6	67	20	3	0	76	0.91
6192209--6192282	17	4.2	17	80	16	80	20	4	0	75	0.96
6192215--6192283	25	2.7	26	77	6	79	20	4	0	75	0.97
6192227--6192338	3	38.7	3	73	16	67	23	5	0	70	1.13
6195457--6195494	15	2.6	15	83	4	51	76	5	18	0	0.97
6195477--6195521	20	2.2	21	84	11	58	82	4	11	2	0.91
6195510--6195539	7	4.4	7	95	4	53	76	13	10	0	1.01
6195462--6195535	14	5.4	14	75	14	57	77	6	14	1	1.05
6195486--6195549	12	5.2	12	74	20	53	79	7	10	1	0.99

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