genome.fa.s8094.2.7.7.80.10.50.1000.30.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  30  of  43  ( 5090 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)
6343478--6343556	23	3.5	23	79	11	101	77	5	5	12	1.10
6345343--6346707	84	16.4	84	81	4	1335	23	19	24	32	1.98
6345343--6346707	252	5.5	251	83	3	1483	23	19	24	32	1.98
6347847--6348110	95	2.7	95	86	4	343	31	17	17	34	1.93
6350736--6350818	11	8.2	10	78	18	84	77	2	2	18	0.99
6350702--6350826	47	2.7	46	79	10	112	74	3	4	18	1.11
6350736--6350818	5	16.4	5	80	18	84	77	2	2	18	0.99
6363784--6363831	23	2.1	23	92	0	78	43	0	10	45	1.38
6364547--6364584	17	2.2	18	85	4	51	55	7	0	36	1.29
6368743--6368808	25	2.8	25	86	6	93	25	12	15	46	1.80
6379105--6379158	20	2.7	20	94	0	99	35	29	18	16	1.93
6385021--6385101	24	3.6	22	73	17	69	20	23	23	32	1.98
6386652--6386695	21	2.1	21	82	0	52	9	43	15	31	1.79
6387762--6387799	20	1.9	20	94	0	67	31	34	15	18	1.92
6389600--6389700	6	17.2	6	75	10	57	79	0	15	3	0.94
6389626--6389656	16	1.9	16	93	0	53	77	3	16	3	1.03
6389610--6389700	22	4.2	22	74	20	75	80	1	14	4	0.93
6389600--6389700	17	6.1	16	74	16	73	79	0	15	3	0.94
6391956--6392005	25	2.0	25	92	0	82	26	12	12	50	1.74
6395280--6395308	4	7.2	4	100	0	58	75	0	0	24	0.80
6396125--6396173	25	2.0	25	83	0	62	53	6	2	38	1.38
6401557--6402571	140	7.2	140	85	1	1275	34	16	21	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6401557--6402571	279	3.6	280	87	2	1367	34	16	21	27	1.95
6402693--6402735	20	2.2	20	86	0	59	41	2	0	55	1.12
6402698--6402732	17	2.1	17	88	0	52	42	2	0	54	1.15
6402849--6402893	23	2.0	23	90	0	72	46	40	11	2	1.52
6405225--6405294	32	2.2	32	92	0	113	47	14	5	32	1.68
6405236--6405297	32	1.9	32	100	0	124	45	16	6	32	1.72
6406579--6406646	23	3.0	23	76	6	66	27	17	17	36	1.93
6408849--6408879	2	15.5	2	93	0	53	48	3	0	48	1.17
6409204--6409236	16	2.1	16	100	0	66	51	18	18	12	1.76
6417773--6417798	7	3.7	7	100	0	52	69	0	0	30	0.89
6418196--6418654	157	2.9	155	82	6	520	27	17	7	47	1.74
6418231--6418654	159	2.7	156	82	6	504	26	17	7	47	1.74
6421442--6421515	23	3.2	23	76	0	76	20	14	21	43	1.88
6428289--6428395	42	2.6	42	82	4	128	31	24	19	24	1.98
6428627--6429000	113	3.3	113	91	0	595	33	22	12	31	1.92
6439769--6439810	21	1.9	21	90	9	66	4	16	0	78	0.91
6439778--6439846	14	4.7	15	77	13	63	4	14	1	79	0.95
6439770--6439838	30	2.3	30	87	7	95	4	14	1	79	0.95
6440105--6440138	2	17.0	2	100	0	68	50	0	0	50	1.00
6441383--6441674	149	2.0	149	85	2	399	21	24	18	34	1.96
6443957--6444043	28	2.9	29	75	16	88	43	1	1	54	1.15
6444962--6445006	16	2.8	16	75	0	54	26	0	13	60	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6449552--6449597	24	1.9	24	86	8	67	65	2	10	21	1.35
6455743--6455906	64	2.5	66	84	7	199	26	20	23	29	1.99
6455743--6455906	69	2.5	65	85	6	197	26	20	23	29	1.99
6456446--6456478	13	2.5	13	100	0	66	51	15	0	33	1.43
6458108--6458150	18	2.5	18	88	7	63	23	0	4	72	1.04
6458523--6458625	23	4.6	22	80	3	118	29	23	22	25	1.99
6458573--6458644	21	3.5	20	76	12	65	23	20	26	29	1.99
6458527--6458644	23	5.4	21	78	7	78	27	21	23	27	1.99
6458554--6458644	42	2.1	44	86	8	125	26	20	25	27	1.99
6462454--6462493	21	1.9	21	85	10	55	35	10	2	52	1.48
6464364--6464520	65	2.4	65	83	6	192	24	18	24	31	1.97
6474585--6475117	159	3.4	156	81	5	592	28	17	7	46	1.76
6476015--6476068	20	2.7	20	88	0	81	37	11	22	29	1.89
6476055--6476119	20	3.2	20	88	0	94	26	24	23	26	2.00
6478794--6478910	42	2.8	41	76	6	101	23	16	38	21	1.93
6479396--6479442	20	2.5	18	89	6	67	34	27	19	19	1.96
6479487--6479552	20	3.3	20	86	0	96	21	19	22	36	1.95
6481422--6481528	20	5.4	20	79	3	83	47	22	14	15	1.81
6481901--6481949	22	2.3	21	83	10	64	26	14	36	22	1.92
6481907--6481964	22	2.6	22	83	0	71	22	18	37	20	1.94
6482129--6482250	20	6.1	20	82	3	129	27	22	22	28	1.99
6482238--6482305	21	3.2	21	91	2	100	38	20	23	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6483947--6484021	23	3.3	23	75	0	69	28	16	14	41	1.87
6485538--6485588	26	2.0	26	84	0	66	31	19	5	43	1.75
6491713--6491764	27	2.0	26	88	3	77	23	11	19	46	1.82
6492629--6492668	19	2.1	19	85	0	53	30	20	30	20	1.97
6496494--6496518	2	12.5	2	100	0	50	52	0	0	48	1.00
6501985--6502032	20	2.5	20	86	10	64	39	2	0	58	1.10
6511390--6511454	33	2.0	33	84	6	87	52	6	1	40	1.36
6511997--6512043	13	3.6	13	100	0	94	14	31	17	36	1.90
6511998--6512053	26	2.2	26	83	0	67	17	37	14	30	1.90
6512846--6512904	3	19.7	3	80	13	68	59	1	0	38	1.08
6512846--6512904	13	4.1	14	85	12	84	59	1	0	38	1.08
6512856--6512901	16	2.9	16	96	0	83	60	2	0	36	1.09
6513082--6513158	37	2.1	37	95	0	136	19	18	19	42	1.89
6513159--6513288	46	2.8	45	89	3	179	30	18	15	35	1.92
6518555--6518614	29	2.0	31	90	6	97	41	16	6	35	1.75
6520746--6520815	34	2.1	32	86	5	95	22	27	15	34	1.95
6521098--6521139	21	2.0	21	95	0	75	26	28	21	23	1.99
6521292--6521351	29	2.0	31	90	6	97	41	16	6	35	1.75
6523875--6523934	29	2.0	31	90	6	97	41	15	6	36	1.73
6529055--6529097	23	1.9	22	85	4	59	11	13	6	67	1.41
6531544--6531693	43	3.5	43	86	1	176	30	12	24	34	1.91
6531543--6531728	86	2.2	86	79	3	196	28	12	23	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6532167--6532238	21	3.5	20	78	3	63	2	31	18	47	1.63
6532220--6532289	21	3.3	21	81	0	86	2	32	21	42	1.67
6532207--6532289	33	2.6	31	75	17	82	2	32	20	44	1.64
6540472--6540553	42	2.0	42	85	4	112	40	20	15	23	1.91
6540618--6540696	41	1.9	41	82	5	97	34	18	20	26	1.96
6545663--6545692	10	3.0	10	100	0	60	20	20	50	10	1.76
6546333--6546377	3	15.0	3	82	17	58	62	0	0	37	0.96
6546332--6546374	20	2.1	21	95	4	79	60	0	0	39	0.97
6546333--6546384	17	2.9	19	86	13	67	59	1	0	38	1.08
6547530--6547565	18	1.9	19	94	5	65	25	22	22	30	1.99
6549099--6549135	17	2.2	17	95	0	65	29	5	13	51	1.63
6549674--6549719	24	1.9	24	81	0	56	34	17	10	36	1.85
6550402--6550438	17	2.2	17	95	0	65	29	5	13	51	1.63
6550977--6551022	24	1.9	24	81	0	56	34	17	10	36	1.85
6552652--6552983	110	3.0	110	82	0	387	27	19	13	40	1.88
6563459--6563535	24	3.2	24	89	5	113	68	3	19	7	1.30
6565503--6565603	23	4.4	23	75	16	68	42	0	1	54	1.18
6565727--6565774	22	2.2	22	85	10	64	50	0	2	47	1.12
6566359--6566385	2	13.5	2	100	0	54	48	0	0	51	1.00
6570882--6570957	39	1.9	39	100	0	152	30	30	7	31	1.86
6572944--6572988	19	2.4	19	88	7	65	37	2	0	60	1.09
6589726--6589779	24	2.2	24	93	0	90	40	20	18	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6589726--6589793	24	2.8	24	84	0	64	38	20	17	23	1.93
6589905--6589938	12	2.8	12	90	0	50	14	0	29	55	1.40
6590629--6590862	20	11.6	19	72	11	98	20	18	22	38	1.93
6590637--6590846	40	5.2	40	86	3	172	20	17	21	40	1.92
6590635--6590862	60	3.8	60	77	6	239	20	18	22	39	1.93
6590978--6591031	20	2.7	19	75	8	63	16	18	31	33	1.93
6599477--6599530	20	2.7	20	94	0	90	37	24	27	11	1.89
6600927--6600967	12	3.3	12	96	3	73	24	51	14	9	1.72
6608133--6608158	12	2.2	12	100	0	52	42	0	30	26	1.56
6627778--6627925	80	1.9	77	81	6	181	45	5	7	41	1.55

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