genome.fa.s9175.2.7.7.80.10.50.1000.48.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  48  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)
9980085--9980357	134	2.0	134	80	4	300	44	13	18	23	1.86
9984271--9984312	15	2.8	15	85	0	57	30	30	11	26	1.92
9984337--9984376	20	2.0	20	90	4	64	30	17	25	27	1.97
9984341--9984386	20	2.3	20	84	0	56	26	21	26	26	2.00
9994134--9994184	23	2.3	22	86	6	75	23	33	19	23	1.97
9994146--9994206	21	2.8	22	85	9	72	22	29	24	22	1.99
10000231--10000285	20	2.8	20	91	0	92	29	12	20	38	1.89
10000330--10000374	20	2.2	20	100	0	90	37	15	15	31	1.89
10001400--10001494	32	3.0	32	87	9	140	33	16	22	27	1.95
10002962--10002994	2	17.0	2	93	6	59	51	0	0	48	1.00
10007870--10007955	3	28.7	3	82	13	106	38	0	0	61	0.96
10010087--10010142	16	3.4	16	83	13	62	26	1	0	71	0.96
10010085--10010141	23	2.5	24	77	11	66	28	1	0	70	0.98
10014749--10014792	1	44.0	1	86	0	61	93	6	0	0	0.36
10017006--10017223	112	2.0	110	89	5	332	33	16	19	30	1.94
10019641--10019719	22	3.6	22	92	0	122	32	15	13	37	1.87
10020156--10020927	215	3.6	223	82	12	999	37	13	19	29	1.90
10020798--10020857	18	3.2	18	66	25	52	53	6	23	16	1.66
10020836--10020998	73	2.3	68	81	9	193	34	14	18	32	1.91
10020983--10021069	17	5.1	16	68	26	63	48	9	19	22	1.77
10020977--10021068	34	2.6	35	88	8	143	50	8	20	20	1.75
10020156--10021175	424	2.4	424	79	13	1089	37	13	18	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10020910--10021226	142	2.2	145	91	3	511	39	14	18	28	1.89
10021121--10021199	36	2.2	36	100	0	158	46	11	21	20	1.81
10021157--10021424	119	2.3	115	81	10	317	41	16	17	23	1.89
10021563--10021631	3	22.7	3	80	14	79	37	0	1	60	1.06
10021563--10021621	20	3.1	18	86	11	75	35	0	1	62	1.05
10021563--10021621	17	3.5	17	90	9	86	35	0	1	62	1.05
10021558--10021631	17	4.8	16	75	20	77	39	0	1	59	1.06
10023050--10023095	16	2.9	16	84	15	60	26	2	0	71	0.97
10027220--10027253	14	2.5	14	90	4	52	29	8	0	61	1.26
10027811--10028497	373	1.8	373	98	0	1338	21	18	29	30	1.97
10047740--10047912	86	2.0	86	89	0	265	31	17	23	26	1.97
10048140--10048212	30	2.4	30	90	0	110	32	9	28	28	1.89
10050010--10050048	20	2.0	20	90	10	62	12	30	33	23	1.92
10064762--10064808	13	3.5	13	91	2	67	8	21	53	17	1.70
10065619--10065748	56	2.3	57	84	6	156	40	6	9	43	1.63
10066121--10066175	25	2.1	27	86	6	78	41	0	1	56	1.10
10066127--10066181	23	2.5	21	80	11	58	43	0	1	54	1.10
10068461--10068810	183	1.9	183	95	0	628	27	21	20	30	1.98
10069877--10069996	36	3.3	36	71	13	120	25	18	13	42	1.87
10069893--10070032	72	1.9	75	89	5	223	27	20	11	40	1.87
10070112--10070266	65	2.4	65	81	4	179	27	20	11	40	1.87
10070064--10070379	167	1.9	167	92	0	533	28	19	12	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10070328--10070408	36	2.2	36	86	0	108	23	22	14	39	1.91
10070161--10070445	102	2.8	101	80	3	322	28	19	13	39	1.89
10070506--10070567	21	3.2	21	63	25	55	20	17	16	45	1.86
10070468--10070577	36	3.1	36	80	5	134	24	20	15	40	1.91
10070595--10070679	36	2.5	35	90	5	129	40	17	9	32	1.82
10070687--10070844	84	1.9	85	82	1	201	30	23	19	26	1.98
10074997--10075042	15	3.0	15	76	23	51	28	4	2	65	1.23
10079197--10079227	12	2.6	12	94	0	53	51	25	9	12	1.70
10079255--10079294	21	1.9	21	100	0	80	25	27	22	25	2.00
10079843--10080022	31	5.8	31	90	2	256	40	22	17	19	1.91
10080421--10080445	12	2.1	12	100	0	50	40	24	0	36	1.55
10080494--10080541	19	2.5	19	89	0	78	35	33	0	31	1.58
10089651--10089732	22	3.8	22	82	7	96	23	29	26	20	1.99
10089651--10089720	22	3.2	22	88	7	99	24	27	30	18	1.98
10091167--10091205	18	2.2	18	85	0	51	35	30	25	7	1.84
10100209--10100689	202	2.4	203	92	2	781	33	11	22	31	1.90
10104387--10104424	17	2.2	17	95	0	67	21	36	10	31	1.87
10104996--10105196	94	2.1	94	83	7	248	29	17	26	25	1.98
10105536--10106035	54	9.3	54	89	1	716	29	19	19	32	1.96
10120662--10120700	21	1.9	20	84	5	51	28	15	20	35	1.93
10123012--10123062	20	2.5	20	96	0	93	27	17	29	25	1.98
10123478--10123762	54	5.3	54	88	3	396	28	18	21	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10125478--10125515	17	2.2	17	90	0	58	34	10	2	52	1.50
10126648--10126679	17	1.9	17	93	6	57	21	3	6	68	1.26
10131145--10131183	20	1.9	21	84	5	53	7	28	0	64	1.21
10132249--10132307	3	19.7	3	100	0	118	67	0	0	32	0.91
10132480--10133058	134	4.3	134	80	6	534	30	15	21	32	1.94
10132433--10133005	271	2.1	266	83	4	704	31	15	21	31	1.94
10133075--10133155	40	2.0	40	95	0	144	45	12	9	32	1.75
10133366--10133420	22	2.5	22	96	0	101	32	9	10	47	1.70
10133455--10133564	42	2.6	42	81	4	125	27	20	23	28	1.99
10133494--10134138	192	3.4	193	86	3	872	33	16	17	32	1.92
10137153--10137301	77	1.9	79	81	8	180	40	9	5	44	1.59
10142789--10142851	20	3.0	21	72	9	58	28	12	12	46	1.79
10143384--10143441	24	2.4	23	78	16	64	37	3	8	50	1.50
10143389--10143440	23	2.3	23	81	15	63	38	3	9	48	1.54
10143500--10143552	18	2.9	18	80	0	61	37	1	3	56	1.28
10154400--10154442	12	3.7	12	79	14	54	74	0	2	23	0.93
10154430--10154516	30	2.7	31	73	19	81	65	1	9	24	1.29
10155789--10155844	3	20.0	3	82	14	66	66	1	0	32	1.03
10155789--10155845	19	3.0	20	87	5	73	66	1	0	31	1.02
10155789--10155848	22	2.8	22	82	2	77	66	1	0	31	1.01
10155790--10155855	22	3.1	21	74	12	64	68	1	1	28	1.08
10156105--10156405	124	2.5	123	83	5	360	25	19	15	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10156318--10157622	113	11.7	110	80	11	1419	30	18	13	36	1.90
10156318--10157622	225	5.8	226	93	2	2151	30	18	13	36	1.90
10156318--10157622	451	2.9	450	93	2	2172	30	18	13	36	1.90
10158055--10158107	22	2.4	22	83	0	70	39	13	13	33	1.83
10163013--10163073	7	8.7	7	90	0	86	1	19	0	78	0.83
10166352--10166432	26	2.9	28	78	10	85	55	11	13	19	1.68
10167955--10167995	20	2.0	21	85	4	57	65	0	9	24	1.22
10168769--10168820	9	5.1	10	76	19	54	67	1	3	26	1.18
10170181--10170236	3	20.0	3	82	14	66	66	1	0	32	1.03
10170181--10170237	19	3.0	20	87	5	73	66	1	0	31	1.02
10170181--10170246	22	3.0	22	86	2	78	68	3	0	28	1.05
10175976--10176145	78	2.1	80	89	3	254	30	21	10	37	1.88
10176551--10176748	95	2.1	95	83	8	242	23	24	13	37	1.91
10182761--10183114	81	4.4	81	89	0	521	30	20	12	36	1.89
10182982--10183229	134	1.9	134	92	0	415	30	20	13	35	1.91
10200904--10201016	45	2.5	45	88	1	172	30	17	9	42	1.82
10201042--10201651	81	7.6	81	87	2	847	30	22	11	35	1.89
10205517--10205552	18	2.1	17	94	5	63	69	5	5	19	1.29
10206803--10206884	3	25.7	3	75	11	65	57	0	2	40	1.12
10206806--10206883	7	12.0	7	76	13	69	56	0	2	41	1.13
10206803--10206889	10	8.3	10	77	9	68	56	0	2	41	1.12
10207101--10211057	113	35.0	113	88	6	5091	27	18	15	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10209082--10209378	161	1.9	152	89	10	461	27	20	13	39	1.90
10209185--10209280	49	1.9	50	97	2	185	19	22	16	40	1.91
10209744--10209806	20	3.2	19	69	22	58	17	19	7	55	1.66
10209249--10211057	332	5.5	337	93	5	2972	27	17	15	39	1.90
10210516--10210569	19	2.8	19	68	29	51	18	22	7	51	1.70
10211453--10211507	22	2.5	22	87	0	83	38	16	12	32	1.86
10214065--10214329	83	3.2	83	95	1	460	36	21	13	27	1.92
10219812--10219865	14	3.8	14	82	9	56	50	9	14	25	1.73
10222104--10222136	14	2.4	14	90	5	50	57	3	0	39	1.14
10222233--10222268	18	2.1	17	94	5	63	69	5	5	19	1.29

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