genome.fa.s190.2.7.7.80.10.50.1000.28.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  28  of  62  ( 7381 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)
6586680--6586754	3	25.7	3	91	5	127	65	0	1	33	1.01
6587071--6587584	113	4.5	113	92	1	814	29	19	12	38	1.88
6588334--6589305	83	11.7	83	97	0	1833	37	23	12	25	1.91
6590060--6590104	18	2.6	18	89	6	67	53	8	6	31	1.58
6590431--6590515	9	9.3	9	78	14	86	0	15	0	84	0.62
6590437--6590522	11	8.0	11	82	10	97	0	16	0	83	0.64
6590431--6590522	20	4.4	20	81	10	112	0	16	0	83	0.64
6590431--6590497	1	67.0	1	72	0	53	0	13	0	86	0.57
6597694--6597727	16	2.1	16	94	0	59	44	5	20	29	1.75
6601032--6601076	17	2.7	17	82	3	56	62	0	6	31	1.21
6603108--6603215	3	36.7	3	94	3	193	65	0	0	33	0.99
6603692--6603751	20	2.9	22	80	12	72	30	21	23	25	1.99
6604357--6604460	42	2.5	42	95	0	181	27	17	20	34	1.95
6604114--6604684	303	1.9	300	82	3	707	33	13	17	35	1.89
6606153--6606232	42	1.9	42	87	5	117	25	15	22	37	1.93
6604843--6606868	774	2.6	763	84	5	2468	33	14	17	34	1.90
6604830--6606867	261	7.9	260	80	5	2032	33	14	17	34	1.90
6608903--6608959	30	2.0	28	86	6	78	17	17	0	64	1.29
6609677--6609726	18	2.7	18	81	3	55	26	4	16	54	1.59
6610807--6610862	20	2.8	19	81	7	67	30	17	30	21	1.96
6611360--6611478	46	2.6	46	91	0	193	44	11	23	20	1.84
6611393--6611536	26	6.0	26	72	18	132	43	10	24	21	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6611393--6611536	72	2.0	72	91	0	234	43	10	24	21	1.83
6611703--6611825	56	2.2	55	84	4	158	42	9	14	33	1.79
6612010--6612140	68	1.9	68	79	3	147	29	12	25	32	1.93
6616699--6616784	2	43.0	2	100	0	172	50	0	0	50	1.00
6617477--6617517	20	2.0	20	90	0	64	65	4	7	21	1.37
6617556--6617580	5	5.0	5	100	0	50	80	0	0	20	0.72
6619029--6620296	241	5.3	241	87	2	1665	36	16	16	31	1.91
6620201--6620301	42	2.4	41	75	8	105	35	22	17	23	1.95
6620296--6620454	58	2.7	59	83	5	200	39	18	8	33	1.81
6620464--6620791	55	6.0	55	87	0	440	41	15	9	33	1.79
6620464--6620791	110	3.0	110	90	0	494	41	15	9	33	1.79
6620465--6620791	165	2.0	165	89	0	501	41	15	9	33	1.79
6622606--6622676	8	8.5	8	71	13	54	5	15	1	77	1.02
6622609--6622657	18	2.8	18	81	12	66	4	18	2	75	1.06
6625583--6625616	12	2.9	11	87	12	50	41	26	0	32	1.56
6625591--6625619	12	2.4	12	100	0	58	44	20	0	34	1.52
6628437--6628474	2	19.0	2	100	0	76	50	0	0	50	1.00
6629158--6629201	20	2.2	20	91	0	70	65	4	6	22	1.35
6633022--6633404	54	7.1	53	88	3	541	38	15	13	32	1.86
6635152--6635994	365	2.3	363	82	2	983	32	19	12	34	1.89
6636558--6636596	21	1.9	20	84	5	51	35	0	2	61	1.10
6641374--6641459	26	3.3	26	87	7	122	38	27	10	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6641663--6641706	22	2.0	23	86	4	63	43	13	4	38	1.65
6644844--6644896	23	2.4	22	84	9	72	75	5	11	7	1.18
6648610--6648664	22	2.7	20	85	5	65	38	12	16	32	1.86
6649064--6649292	44	5.2	44	85	3	316	43	12	21	22	1.86
6649064--6649292	89	2.6	89	88	2	345	43	12	21	22	1.86
6650126--6650152	8	3.4	8	100	0	54	51	0	11	37	1.37
6650442--6650629	54	3.5	54	92	1	306	37	17	12	32	1.87
6652385--6653229	364	2.3	365	83	2	1036	32	19	12	34	1.90
6654133--6654213	26	3.1	26	85	7	110	37	27	11	24	1.89
6654421--6654464	22	2.0	23	86	4	63	43	13	4	38	1.65
6657440--6657489	26	1.9	26	91	0	82	36	26	16	22	1.94
6661174--6661229	12	4.7	12	74	14	53	41	19	10	28	1.85
6661111--6661229	24	5.0	24	83	4	132	40	18	13	27	1.88
6661193--6661244	24	2.2	24	82	0	59	50	17	5	26	1.69
6662977--6663025	21	2.3	21	86	6	64	46	18	16	18	1.84
6662987--6663028	21	2.0	21	95	0	75	47	16	14	21	1.82
6668761--6668796	12	2.8	13	83	8	56	25	8	0	66	1.19
6668761--6668817	25	2.2	25	81	9	62	26	8	1	63	1.34
6669809--6669888	34	2.4	34	82	0	97	42	13	16	27	1.86
6669808--6669897	34	2.6	34	77	3	92	45	12	16	25	1.82
6671794--6671820	13	2.1	13	100	0	54	37	7	7	48	1.59
6677074--6677128	20	2.8	20	97	0	101	21	23	23	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6677443--6678204	261	2.9	258	86	3	1010	33	16	17	32	1.92
6678230--6678287	22	2.5	23	86	13	75	79	0	18	1	0.82
6678232--6678291	23	2.7	22	80	14	70	80	0	16	3	0.85
6678800--6678826	13	2.1	13	100	0	54	48	22	0	29	1.51
6680452--6680506	28	1.9	28	88	3	83	16	18	3	61	1.48
6685312--6685513	104	1.9	104	83	0	260	27	20	18	33	1.96
6686763--6686870	41	2.6	40	77	18	105	25	21	19	33	1.97
6690001--6690049	20	2.5	20	100	0	98	30	36	8	24	1.85
6693401--6693436	18	2.0	18	88	0	54	25	0	16	58	1.38
6696050--6696108	16	3.8	16	90	2	93	25	5	30	38	1.77
6697378--6697471	18	6.3	13	79	18	55	13	41	25	19	1.88
6697391--6697440	18	2.8	18	96	0	91	12	44	28	16	1.83
6697391--6697450	18	3.3	18	92	0	84	13	45	26	15	1.83
6697431--6697475	15	3.1	15	87	6	67	13	37	26	22	1.91
6697445--6697491	10	5.5	8	82	14	51	14	34	25	25	1.94
6707213--6707284	34	2.2	32	85	11	94	5	16	4	73	1.18
6707545--6707584	19	2.0	20	90	4	64	65	0	15	20	1.28
6709536--6709570	11	3.2	11	100	0	70	60	8	11	20	1.57
6710602--6710660	29	2.0	29	100	0	118	23	13	13	49	1.78
6715204--6715260	28	2.1	28	96	3	107	24	14	14	47	1.80
6717264--6717438	60	2.9	59	81	6	167	33	20	6	38	1.79
6720962--6721005	20	2.2	20	83	4	52	70	2	6	20	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6721046--6721070	5	5.0	5	100	0	50	80	0	0	20	0.72
6722545--6723573	240	4.3	241	85	2	1345	35	16	17	30	1.91
6723207--6723330	43	3.0	41	78	7	126	29	17	24	28	1.97
6723207--6723310	41	2.5	41	82	6	120	31	18	23	26	1.97
6723590--6723734	57	2.5	57	81	8	161	39	18	8	33	1.82
6723741--6724069	55	6.0	55	83	0	379	42	14	8	34	1.76
6723741--6724067	110	3.0	111	88	1	469	42	14	8	34	1.77
6725893--6725952	8	7.2	8	75	14	59	5	13	0	81	0.84
6725898--6725952	27	2.1	25	87	12	76	5	12	0	81	0.84
6725900--6725952	14	3.8	13	80	9	61	5	13	0	81	0.86
6727434--6727480	21	2.2	21	92	0	76	10	25	46	17	1.79
6727445--6727495	22	2.4	21	83	3	66	15	31	31	21	1.95
6732779--6732805	4	6.8	4	100	0	54	77	0	0	22	0.76
6733162--6733205	20	2.2	20	91	0	70	65	4	6	22	1.35
6734373--6734412	14	2.6	16	84	15	57	27	2	0	70	1.01
6734382--6734416	14	2.5	14	82	17	54	28	0	0	71	0.86
6736327--6736382	21	2.7	21	91	0	85	26	33	10	28	1.90
6744353--6744408	22	2.7	20	79	15	60	28	32	10	28	1.90
6755214--6755463	125	2.0	125	96	0	464	33	13	22	30	1.93
6760717--6760747	6	5.2	6	92	0	53	0	12	48	38	1.42
6772173--6772311	60	2.3	60	81	7	165	34	25	6	33	1.82
6775159--6775194	18	2.0	18	88	0	54	25	0	16	58	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6782313--6782780	54	8.8	54	81	6	293	23	24	18	33	1.97
6782364--6782836	54	8.9	55	78	8	285	24	24	18	32	1.97
6782364--6782779	51	7.9	53	80	9	404	24	24	18	32	1.97
6782364--6782783	103	4.0	103	83	7	456	24	24	18	32	1.97
6783772--6783823	8	6.5	8	91	6	70	11	7	0	80	0.89
6799221--6799246	7	3.7	7	100	0	52	26	15	0	57	1.38
6801330--6801379	23	2.2	23	85	0	64	42	8	10	40	1.68
6810259--6810462	104	2.0	104	87	0	291	25	21	19	33	1.97
6810808--6810862	21	2.6	21	94	0	92	7	30	40	21	1.81
6812867--6812892	4	6.5	4	100	0	52	26	0	0	73	0.84

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