genome.fa.s1129.2.7.7.80.10.50.1000.32.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  32  of  89  ( 10573 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)
6858118--6858170	21	2.5	22	84	12	74	28	16	28	26	1.97
6859155--6859191	18	2.1	18	94	0	65	18	18	32	29	1.96
6859522--6859576	24	2.3	24	78	3	58	23	18	20	38	1.93
6859536--6859594	24	2.5	24	85	0	73	27	15	22	35	1.94
6870700--6870817	28	4.6	25	72	12	71	57	1	4	36	1.28
6870771--6870823	2	26.5	2	100	0	106	50	0	0	49	1.00
6875559--6875617	17	3.5	17	93	4	93	15	13	3	67	1.35
6875559--6875617	18	3.4	18	88	9	88	15	13	3	67	1.35
6875566--6875621	18	3.2	18	94	2	96	16	14	3	66	1.39
6876617--6876644	13	2.2	13	100	0	56	21	7	0	71	1.09
6879137--6879205	31	2.2	32	82	5	79	31	15	11	40	1.84
6879422--6879451	15	2.0	15	100	0	60	60	0	6	33	1.23
6881416--6881473	3	19.3	3	79	13	66	63	0	3	32	1.11
6881416--6881480	12	5.2	12	77	20	71	64	0	3	32	1.09
6884195--6884225	2	16.0	2	93	6	55	48	0	0	51	1.00
6891237--6891317	3	27.0	3	80	14	78	61	0	2	35	1.09
6896637--6896706	3	23.7	3	74	8	63	38	1	0	60	1.06
6896636--6896706	30	2.4	30	79	6	83	39	1	0	59	1.06
6898102--6898146	20	2.2	21	84	7	58	33	4	0	62	1.15
6898152--6898182	16	1.9	16	93	0	53	38	3	3	54	1.32
6898414--6898474	26	2.2	29	77	13	67	32	4	0	62	1.17
6898555--6898595	11	3.2	13	80	13	50	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6900753--6900781	13	2.3	13	94	5	51	24	13	6	55	1.63
6903565--6903619	19	2.8	20	91	8	96	78	0	16	5	0.93
6906918--6907086	74	2.3	75	83	3	198	29	15	24	30	1.96
6907965--6908059	50	1.9	50	88	0	145	36	12	24	26	1.91
6908430--6908552	22	5.6	22	92	0	192	34	13	13	39	1.84
6909223--6909404	76	2.4	76	93	1	303	24	20	21	32	1.97
6909414--6910094	124	5.8	113	85	6	683	38	13	19	28	1.90
6909414--6910091	248	2.9	232	82	9	795	38	13	19	27	1.90
6910428--6910507	3	26.7	3	74	5	72	40	1	1	57	1.15
6910434--6910505	9	7.9	9	81	7	83	41	1	1	55	1.17
6911947--6911992	20	2.3	21	81	11	60	32	8	0	58	1.28
6911997--6912027	16	1.9	16	93	0	53	38	3	3	54	1.32
6912403--6912442	11	3.3	13	80	13	50	50	2	0	47	1.14
6915892--6915950	28	2.1	27	84	3	73	13	33	18	33	1.90
6924664--6924768	5	21.2	5	73	17	78	75	1	3	19	1.05
6924664--6924768	50	2.1	50	84	5	133	75	1	3	19	1.05
6924712--6924783	19	3.7	19	87	8	101	75	2	2	19	1.06
6924796--6924852	30	1.9	30	85	7	80	66	1	7	24	1.26
6925861--6925922	31	2.0	30	84	9	81	54	0	11	33	1.36
6925998--6926059	29	2.2	29	83	11	85	51	3	3	41	1.34
6926544--6926641	36	2.8	35	80	6	108	43	24	1	30	1.61
6926925--6927204	148	1.9	148	93	0	479	48	10	5	35	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6928823--6928874	26	2.0	26	88	3	79	51	15	0	32	1.43
6933535--6933583	19	2.6	19	100	0	98	44	6	10	38	1.63
6933668--6933747	35	2.3	35	91	4	126	31	1	23	43	1.62
6934081--6934191	58	1.9	58	81	0	132	50	4	0	45	1.22
6934252--6934297	24	1.9	24	82	8	58	52	2	4	41	1.33
6934794--6934828	15	2.3	15	90	0	52	65	0	0	34	0.93
6936730--6936777	20	2.4	19	86	10	69	29	20	6	43	1.76
6936730--6936772	20	2.2	20	91	8	70	30	23	6	39	1.81
6936762--6936800	13	2.9	13	84	3	51	28	17	5	48	1.68
6937826--6937869	23	1.9	23	90	0	70	65	4	0	29	1.12
6939370--6939426	29	1.9	30	85	3	80	31	12	8	47	1.72
6943022--6943094	24	3.0	23	75	13	76	53	10	1	34	1.45
6946899--6946958	32	1.9	31	83	10	77	33	18	5	43	1.72
6947254--6947313	23	2.6	23	76	10	68	35	25	21	18	1.96
6950538--6951736	602	2.0	601	89	2	1829	33	19	8	38	1.82
6954253--6954301	20	2.5	20	86	0	71	34	18	4	42	1.69
6956861--6956933	29	2.5	30	81	2	85	32	15	6	45	1.72
6959241--6959280	21	1.9	21	94	0	71	37	0	5	57	1.21
6962558--6962607	24	2.1	24	88	7	75	44	2	0	54	1.11
6965666--6965880	109	2.0	108	95	0	385	29	21	15	33	1.95
6969501--6969702	105	1.9	103	83	5	255	30	23	13	32	1.93
6972047--6972079	3	10.7	3	93	6	57	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6972047--6972096	25	2.0	25	84	7	66	58	0	0	42	0.98
6972806--6972940	20	6.8	20	90	0	198	34	21	21	22	1.97
6973509--6973560	22	2.4	22	90	0	86	38	13	9	38	1.77
6988137--6988167	14	2.2	14	100	0	62	45	0	32	22	1.53
6990076--6990105	2	15.0	2	100	0	60	50	0	0	50	1.00
6991591--6991622	13	2.4	14	94	5	57	25	15	34	25	1.95
6996700--6996878	56	3.2	56	96	0	322	18	15	23	42	1.88
6996910--6996946	18	2.1	18	94	0	65	16	13	32	37	1.87
7002987--7003032	18	2.6	18	85	0	65	21	15	30	32	1.94
7008390--7008417	2	14.0	2	100	0	56	50	0	0	50	1.00
7008994--7009099	56	1.9	56	96	0	194	17	13	22	46	1.83
7009131--7009167	18	2.1	18	100	0	74	16	16	32	35	1.91
7014035--7014072	19	2.0	19	94	0	67	13	28	31	26	1.93
7015056--7015090	18	1.9	18	88	0	52	17	20	34	28	1.95
7017946--7017985	3	13.7	3	94	5	73	35	0	0	65	0.93
7022074--7022130	20	2.8	20	89	5	89	31	35	15	17	1.92
7022142--7022299	65	2.5	62	79	7	158	32	22	17	27	1.97
7025952--7026002	26	2.0	26	96	0	93	39	17	15	27	1.90
7027695--7027854	65	2.5	63	85	7	207	31	23	17	27	1.97
7027826--7027874	19	2.6	19	84	9	57	24	30	18	26	1.98
7029686--7029718	2	16.5	2	100	0	66	51	0	0	48	1.00
7029837--7029872	2	18.0	2	94	0	63	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7030364--7030514	61	2.5	59	82	9	171	34	21	5	39	1.76
7030741--7030778	19	2.0	19	90	10	60	47	0	15	36	1.46
7034772--7034805	13	2.5	13	95	4	59	38	14	26	20	1.91
7046202--7046362	64	2.5	63	82	7	164	35	17	19	27	1.94
7046954--7047016	23	2.7	23	87	4	92	20	26	26	25	1.99
7053050--7053185	61	2.2	62	84	6	170	35	18	19	26	1.95
7053789--7053834	23	2.0	23	91	0	74	21	32	23	21	1.98
7054905--7054995	34	2.7	34	91	0	146	25	29	15	29	1.96
7055343--7055446	20	5.1	20	87	5	120	13	25	36	24	1.92
7055343--7055446	41	2.5	42	80	7	124	13	25	36	24	1.92
7062260--7062336	23	3.4	23	84	8	88	22	33	22	22	1.97
7064499--7064548	20	2.6	19	93	3	82	16	40	22	22	1.91
7066369--7066472	34	3.1	34	86	2	122	23	27	15	33	1.95
7066820--7066881	21	3.0	21	83	4	83	12	25	43	17	1.85
7067845--7067871	2	13.5	2	100	0	54	48	0	0	51	1.00
7068673--7068729	21	2.8	21	82	10	66	49	1	5	43	1.35
7069026--7069098	30	2.6	28	72	8	67	32	1	15	50	1.52
7070106--7070228	37	3.3	36	82	2	102	43	4	5	46	1.46
7070159--7070257	37	2.7	37	87	1	128	44	3	2	50	1.28
7073336--7073392	22	2.7	21	84	10	73	24	33	21	21	1.97
7073412--7073504	20	4.7	20	87	0	132	20	26	22	30	1.98
7076856--7076952	21	4.6	21	76	12	83	22	36	19	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7076854--7076952	42	2.4	42	80	11	114	23	35	20	21	1.96
7076896--7076938	22	1.9	23	90	4	70	25	30	20	23	1.99
7076972--7077065	20	4.7	20	93	0	143	18	27	23	30	1.97
7077167--7077206	20	1.9	22	90	10	66	37	40	10	12	1.77
7077458--7077504	22	2.1	22	100	0	94	31	17	25	25	1.97
7082298--7082488	54	3.6	54	86	5	271	32	17	15	34	1.91
7083873--7084259	192	2.0	194	98	1	760	33	9	18	38	1.83
7086130--7086273	37	3.8	38	77	5	141	42	2	7	47	1.43
7090325--7090355	15	2.0	16	93	6	55	77	0	9	12	0.99
7092817--7092857	8	5.1	8	90	0	55	48	9	0	41	1.36

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   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89