genome.fa.s1547.2.7.7.80.10.50.1000.33.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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  33  of  51  ( 6083 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)
6497319--6497358	20	2.0	20	100	0	80	45	20	0	35	1.51
6501009--6501068	23	2.6	22	86	7	75	31	1	0	66	1.01
6501009--6501075	24	2.8	24	82	11	75	32	1	0	65	1.02
6501698--6501736	20	2.0	20	85	10	53	30	7	2	58	1.39
6501772--6501807	2	18.0	2	100	0	72	50	0	0	50	1.00
6503766--6503800	16	2.1	17	89	5	54	42	2	0	54	1.15
6505016--6505045	14	2.1	14	100	0	60	56	13	6	23	1.60
6505294--6505343	21	2.5	20	87	6	66	42	14	20	24	1.88
6506136--6506181	23	2.0	23	91	0	74	30	26	26	17	1.97
6506409--6506441	16	2.0	17	88	5	50	36	24	6	33	1.80
6521135--6521166	6	5.3	6	100	0	64	0	65	0	34	0.93
6522210--6522236	5	5.4	5	100	0	54	18	0	0	81	0.69
6522283--6522550	38	7.2	37	85	6	328	45	3	5	45	1.44
6522495--6522612	30	4.0	30	89	8	163	43	0	4	52	1.20
6522575--6522652	41	1.9	41	92	5	131	44	0	2	52	1.14
6522676--6522726	5	9.6	5	78	18	50	21	1	0	76	0.88
6522682--6522737	27	2.1	26	87	9	78	17	5	0	76	0.96
6522676--6522727	11	4.8	11	75	13	54	21	1	0	76	0.87
6523449--6523486	20	1.9	20	88	0	58	21	26	10	42	1.85
6524389--6524417	10	2.9	10	100	0	58	20	17	10	51	1.74
6525433--6525472	17	2.4	17	91	0	62	35	12	22	30	1.91
6530748--6530778	9	3.4	9	100	0	62	32	25	22	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6530748--6530789	18	2.3	18	84	8	50	30	28	19	21	1.97
6531211--6531322	35	3.2	35	85	0	143	41	20	0	37	1.59
6534254--6534336	36	2.3	34	75	15	78	37	1	1	60	1.12
6534541--6534599	31	1.9	31	89	0	91	38	8	8	44	1.65
6536887--6536944	20	3.0	18	76	14	53	67	12	5	15	1.39
6537351--6537420	30	2.3	30	95	0	122	22	15	45	15	1.84
6542773--6542814	3	14.0	3	85	9	59	35	0	0	64	0.94
6544197--6544226	14	2.1	15	93	6	53	20	0	16	63	1.31
6546554--6546739	89	2.1	91	84	2	241	29	23	24	23	1.99
6553883--6553959	36	2.1	36	90	2	118	48	1	2	48	1.23
6561030--6561116	35	2.5	34	77	18	90	54	9	8	28	1.61
6562036--6562104	30	2.2	30	85	15	95	34	5	17	42	1.73
6562045--6562104	30	2.0	31	93	6	106	33	6	16	43	1.74
6562184--6562282	21	4.8	20	77	13	101	21	34	20	24	1.97
6565811--6565846	2	18.0	2	100	0	72	50	0	0	50	1.00
6566917--6566960	2	22.5	2	86	4	63	50	2	2	45	1.27
6569442--6569748	150	2.1	149	98	0	596	33	20	14	30	1.93
6572766--6572803	2	19.0	2	100	0	76	50	0	0	50	1.00
6573333--6573734	36	11.1	37	75	13	243	47	3	6	42	1.47
6573753--6573805	3	19.3	3	74	18	53	26	1	0	71	0.96
6573753--6573805	5	9.8	5	87	4	52	26	1	0	71	0.96
6573779--6573805	5	5.4	5	100	0	54	18	0	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6574354--6574389	19	2.0	18	89	10	56	72	25	2	0	0.98
6574876--6574922	24	2.0	24	83	8	60	19	6	2	72	1.17
6574928--6574976	2	26.0	2	84	12	68	44	0	0	55	0.99
6574925--6574991	27	2.4	27	92	5	107	41	1	0	56	1.08
6575017--6575089	16	4.6	16	68	17	53	23	1	2	72	1.05
6575086--6575152	35	1.9	34	82	8	82	14	11	5	67	1.40
6579002--6579257	96	2.7	95	81	7	301	33	17	17	31	1.94
6580380--6581191	84	9.7	84	84	1	955	33	25	17	23	1.97
6581800--6582146	38	9.6	34	74	16	138	45	3	6	45	1.44
6581800--6582086	38	7.7	37	78	12	200	45	3	6	43	1.47
6581909--6582072	38	4.3	38	83	11	201	50	3	3	43	1.35
6582148--6582189	3	14.3	3	95	5	77	30	0	0	69	0.89
6582735--6582775	20	2.1	19	90	4	64	80	19	0	0	0.71
6583366--6583420	26	2.1	26	82	0	65	34	3	3	58	1.33
6584129--6584298	81	2.1	81	92	1	277	34	23	8	33	1.86
6588966--6588996	16	1.9	16	93	0	53	45	6	0	48	1.28
6594920--6595265	170	2.0	170	98	0	674	39	16	13	30	1.86
6596045--6596088	14	3.0	14	87	12	70	15	22	13	47	1.81
6596045--6596088	16	2.9	16	93	6	74	15	22	13	47	1.81
6597727--6597827	51	2.0	51	98	0	193	30	21	12	34	1.91
6604212--6604288	37	2.1	37	85	4	102	48	1	3	46	1.28
6604428--6604464	20	1.9	19	89	10	58	18	18	10	51	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6605472--6605510	20	2.1	18	85	9	51	48	5	0	46	1.24
6606915--6606960	22	2.1	22	100	0	92	41	0	13	45	1.43
6607058--6607211	77	2.0	76	91	1	245	35	11	14	38	1.82
6608810--6608850	18	2.3	18	91	4	66	29	4	2	63	1.28
6613141--6613186	19	2.4	19	85	10	58	54	8	0	36	1.32
6615155--6615842	225	3.1	225	89	2	1006	39	12	14	33	1.83
6615639--6615683	23	2.0	23	86	0	63	37	8	15	37	1.79
6616018--6616049	15	2.1	15	100	0	64	37	6	15	40	1.73
6616956--6617049	21	4.5	21	91	1	136	38	17	21	23	1.93
6617039--6617111	20	3.7	20	81	7	94	31	27	15	26	1.95
6617299--6617342	22	2.0	22	95	0	79	20	40	15	22	1.90
6617604--6617662	20	3.0	20	87	0	73	15	18	22	44	1.87
6617796--6617850	25	2.2	24	78	15	58	20	9	18	52	1.71
6619237--6619278	20	2.1	20	86	0	57	35	26	21	16	1.94
6619313--6619371	14	3.9	14	74	20	55	10	16	22	50	1.75
6619308--6619387	33	2.4	33	95	0	142	11	18	21	48	1.79
6619371--6619446	20	3.8	20	91	1	118	15	25	23	35	1.94
6619362--6619446	40	2.2	40	86	2	118	15	23	23	37	1.93
6619373--6619472	20	5.1	19	83	6	65	22	20	23	35	1.96
6619381--6619457	40	1.9	40	86	2	100	18	22	24	35	1.96
6619991--6620294	152	2.0	151	99	0	599	26	21	25	27	1.99
6621647--6621763	20	5.8	20	94	0	180	29	20	26	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6621797--6621845	20	2.4	20	86	3	62	22	22	16	38	1.92
6621733--6621826	41	2.3	43	78	10	106	22	20	21	36	1.95
6622042--6622075	12	2.9	12	86	4	52	17	41	5	35	1.74
6622629--6622682	24	2.2	24	93	0	90	24	11	20	44	1.83
6622857--6622881	12	2.1	12	100	0	50	72	0	28	0	0.86
6625207--6625337	19	7.7	18	67	25	88	45	19	22	12	1.83
6625207--6625333	33	3.8	33	94	0	218	45	18	22	12	1.83
6625333--6625378	19	2.4	19	92	0	74	15	15	23	45	1.84
6625348--6625474	33	3.8	33	86	2	166	14	18	20	47	1.83
6625419--6625474	19	3.2	19	71	23	68	16	21	17	44	1.86
6625581--6625617	14	2.6	15	87	12	60	48	21	0	29	1.50
6626970--6627036	21	3.2	21	68	4	55	19	20	35	23	1.95
6627329--6627481	78	1.9	79	90	5	245	43	18	13	24	1.85
6629162--6629311	19	8.6	19	66	24	89	44	20	23	12	1.85
6629190--6629306	33	3.5	33	91	2	182	41	22	24	11	1.87
6629211--6629298	14	5.6	14	70	24	61	40	23	23	11	1.87
6629162--6629311	33	4.4	33	86	7	176	44	20	23	12	1.85
6629316--6629387	33	2.2	33	87	0	99	11	20	23	44	1.84
6629327--6629408	33	2.5	33	86	6	103	12	21	21	43	1.85
6629928--6630001	20	3.7	20	87	7	105	20	20	18	40	1.92
6629910--6630007	20	4.8	20	76	9	92	22	18	20	38	1.93
6629930--6630139	41	5.1	41	71	10	151	28	19	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6629991--6630063	21	3.5	21	75	3	67	38	17	20	23	1.93
6630073--6630124	20	2.5	21	81	3	61	23	23	15	38	1.92
6630114--6630166	21	2.5	22	81	6	74	33	18	26	20	1.96
6629907--6630186	123	2.3	122	81	7	334	30	18	20	30	1.97
6641205--6641240	17	2.1	17	90	10	56	77	8	0	13	0.98
6641182--6641240	12	5.3	11	78	12	50	76	6	1	15	1.07
6645008--6645170	65	2.5	65	86	3	231	26	15	26	30	1.96
6645010--6645219	65	3.2	64	83	8	223	26	17	26	30	1.97
6645387--6645426	20	2.0	21	85	14	57	45	7	5	42	1.54
6651600--6651639	21	1.9	21	85	10	55	35	10	2	52	1.48

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