genome.fa.s7926.2.7.7.80.10.50.1000.40.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  40  of  42  ( 5024 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)
9196649--9196701	20	2.7	20	93	0	88	24	28	20	26	1.99
9197213--9197260	19	2.5	19	77	12	53	45	27	16	10	1.80
9197256--9197440	19	10.1	19	76	14	165	12	22	21	43	1.86
9197256--9197440	33	5.1	38	78	12	165	12	22	21	43	1.86
9197383--9197440	20	2.9	20	77	10	55	15	24	17	43	1.87
9199442--9199564	42	2.9	42	80	2	122	22	36	17	22	1.95
9199498--9199564	21	3.2	21	66	6	55	23	35	20	19	1.95
9200922--9200957	14	2.6	14	95	0	63	30	0	25	44	1.54
9201113--9201219	39	2.9	37	87	8	150	17	20	20	41	1.91
9204824--9204881	20	2.9	20	94	0	98	37	22	22	17	1.93
9204900--9204967	19	3.8	19	83	12	83	14	22	14	48	1.80
9205084--9205120	14	2.6	14	86	0	56	48	21	0	29	1.50
9207025--9207082	14	3.9	14	79	16	71	48	25	17	8	1.75
9207009--9207087	32	2.4	33	95	2	142	46	24	18	10	1.80
9207116--9207205	14	5.9	14	76	19	90	11	17	23	47	1.79
9207099--9207219	32	3.7	33	96	2	219	11	19	22	47	1.81
9207205--9207259	20	2.8	19	78	8	56	10	23	25	40	1.87
9207742--9207786	18	2.5	18	88	0	72	13	15	44	26	1.83
9209400--9209448	22	2.3	21	83	10	64	24	12	40	22	1.88
9209407--9209450	22	2.0	22	95	0	79	20	13	43	22	1.87
9209638--9209731	20	4.7	20	80	7	91	23	18	25	32	1.97
9209658--9209735	41	1.9	41	86	0	111	21	16	23	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9209618--9209732	20	5.7	19	78	9	86	23	17	24	34	1.96
9209721--9209813	41	2.3	41	98	0	141	17	23	18	40	1.90
9209721--9209796	21	3.7	21	76	3	91	15	23	18	42	1.89
9209747--9209813	20	3.3	20	79	4	89	17	22	17	41	1.90
9209844--9209884	21	2.0	21	85	0	55	34	31	17	17	1.93
9216809--9217079	91	3.0	90	94	1	463	37	8	24	29	1.84
9218882--9218906	2	12.5	2	100	0	50	52	0	0	48	1.00
9228334--9228367	2	17.0	2	100	0	68	50	0	0	50	1.00
9233270--9233314	21	2.2	21	84	11	58	55	0	2	42	1.12
9233374--9233442	32	2.2	32	82	7	79	53	7	2	36	1.44
9240998--9241049	21	2.4	21	76	20	54	61	5	1	30	1.30
9241467--9241521	23	2.4	22	76	8	56	38	0	0	61	0.96
9242209--9242309	29	3.5	28	81	9	96	40	15	24	18	1.90
9252616--9252656	17	2.3	18	83	8	57	39	0	0	60	0.96
9264573--9264665	21	4.6	20	78	4	96	38	18	24	18	1.92
9264570--9264665	41	2.3	41	98	0	183	39	17	23	18	1.92
9264573--9264665	20	4.6	20	78	4	96	38	18	24	18	1.92
9264654--9264747	20	4.7	20	77	2	80	35	24	17	23	1.95
9264651--9264728	41	1.9	41	83	0	102	41	21	15	21	1.90
9265302--9265346	19	2.4	19	92	0	72	48	26	15	8	1.74
9265342--9265531	19	10.1	19	83	8	219	12	21	22	44	1.85
9267531--9267653	42	2.9	42	80	2	122	22	36	17	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9267587--9267653	21	3.2	21	66	6	55	23	35	20	19	1.95
9269011--9269046	14	2.6	14	95	0	63	30	0	25	44	1.54
9269225--9269308	19	4.7	19	78	14	106	13	23	19	44	1.85
9269275--9269328	19	2.8	19	85	2	63	18	20	20	40	1.91
9273094--9273130	14	2.6	14	86	0	56	48	21	0	29	1.50
9273236--9273293	14	3.9	14	79	16	71	8	17	25	48	1.75
9273221--9273309	32	2.7	33	94	3	162	10	19	23	47	1.79
9273294--9273348	20	2.8	19	83	8	65	14	23	23	38	1.92
9273821--9273865	18	2.5	18	88	0	72	17	15	40	26	1.90
9275182--9275235	20	2.8	20	80	2	65	48	22	16	12	1.80
9275469--9275512	22	2.0	22	95	0	79	18	15	45	20	1.85
9275681--9275795	20	5.7	20	77	5	79	24	17	22	35	1.95
9275784--9275859	21	3.7	21	78	3	91	17	25	18	39	1.91
9275784--9275879	41	2.3	41	96	0	138	19	23	16	39	1.92
9275784--9275876	20	4.6	20	77	4	87	19	24	17	38	1.92
9277215--9277249	6	5.8	6	100	0	70	48	0	17	34	1.47
9279687--9279741	23	2.4	24	75	9	60	50	7	0	41	1.30
9281948--9281997	13	3.8	13	83	0	64	46	0	0	54	1.00
9281946--9281997	26	2.0	26	88	0	77	48	0	0	51	1.00
9281979--9282026	25	2.0	24	87	4	69	37	2	2	58	1.22
9286163--9286193	2	15.5	2	100	0	62	0	51	0	48	1.00
9288984--9289019	2	18.0	2	88	0	54	2	47	0	50	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9303179--9303213	18	1.9	18	88	11	54	54	5	17	22	1.64
9303272--9303309	19	1.9	19	89	5	58	44	0	21	34	1.52
9304179--9304479	149	2.0	146	94	1	530	27	18	20	33	1.96
9304458--9304502	23	2.0	23	86	0	63	20	24	28	26	1.99
9308314--9308354	21	1.9	22	85	5	57	46	0	21	31	1.52
9309229--9309531	148	2.0	149	94	0	536	28	17	19	34	1.95
9309510--9309554	23	2.0	23	86	0	63	20	24	28	26	1.99
9316932--9316996	31	2.1	30	85	2	85	29	3	4	63	1.30
9325263--9325321	25	2.3	25	85	8	75	62	3	32	1	1.21
9329631--9329848	103	2.1	103	100	0	436	25	13	24	36	1.92
9329865--9329924	23	2.6	23	89	0	84	20	28	28	23	1.99
9329855--9329932	23	3.3	23	78	1	75	23	21	23	32	1.98
9332672--9332750	35	2.3	34	82	10	97	44	17	0	37	1.49
9332745--9332819	35	2.1	35	90	0	114	29	0	25	45	1.54
9333059--9333096	20	1.9	20	94	0	67	39	10	28	21	1.86
9336360--9336410	23	2.2	24	82	10	61	25	17	21	35	1.95
9350118--9350187	30	2.3	30	82	0	95	42	12	11	32	1.79
9356879--9356912	17	2.0	17	88	0	50	35	0	0	64	0.94
9356877--9356931	22	2.8	20	84	15	71	36	1	0	61	1.06
9364641--9364670	2	15.0	2	100	0	60	50	0	0	50	1.00
9374440--9374482	20	2.2	20	100	0	86	32	9	13	44	1.76
9379497--9379543	23	2.0	23	95	0	85	38	6	17	38	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9381153--9381209	30	1.9	30	92	0	96	52	5	8	33	1.55
9387470--9387511	22	1.9	22	90	0	66	40	14	21	23	1.90
9394443--9394479	2	18.5	2	100	0	74	48	0	0	51	1.00
9394548--9394591	6	7.5	6	92	2	72	52	0	15	31	1.44
9394644--9394680	19	1.9	19	88	0	56	51	2	21	24	1.61
9394989--9395055	31	2.2	31	83	0	80	28	10	10	50	1.69
9401693--9401734	14	3.0	14	85	0	57	66	0	21	11	1.23
9407098--9407154	15	3.7	15	72	9	60	22	31	26	19	1.98
9409878--9409935	18	3.2	18	100	0	116	39	12	5	43	1.64
9409940--9409971	2	16.0	2	100	0	64	50	0	0	50	1.00
9411515--9411584	31	2.3	31	97	0	131	35	20	22	21	1.96
9414541--9414574	18	1.9	17	94	5	59	70	5	0	23	1.09
9415805--9415919	3	38.7	3	87	5	171	63	1	0	33	1.11
9416215--9416885	113	5.9	113	94	0	1121	28	19	14	37	1.91
9417441--9417796	53	6.7	52	93	3	579	38	22	15	23	1.92
9418736--9418851	1	116.0	1	68	0	61	0	16	0	83	0.64
9418736--9418851	9	13.2	9	74	16	102	0	16	0	83	0.64
9418739--9418849	6	17.8	6	73	22	79	0	17	0	82	0.66
9418735--9418854	21	5.1	23	80	18	117	0	17	0	82	0.67
9430223--9430257	18	1.9	18	88	11	54	71	5	0	22	1.07
9431494--9431625	3	42.7	3	88	8	194	64	2	0	32	1.11
9435974--9436001	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9436072--9436097	3	8.7	3	100	0	52	34	0	0	65	0.93
9439853--9439897	21	2.1	21	87	0	63	31	28	24	15	1.96
9441289--9441347	29	2.0	28	81	12	66	40	3	18	37	1.68
9441417--9441485	25	2.8	25	95	0	129	17	27	26	28	1.97
9441599--9441643	23	2.0	23	86	0	63	20	26	26	26	1.99
9442718--9442754	18	2.1	18	90	10	58	67	2	0	29	1.04
9448151--9448318	80	2.0	82	86	4	232	45	15	7	32	1.73
9449108--9449144	14	2.6	15	83	12	51	29	2	0	67	1.04
9456681--9456778	50	2.0	49	87	2	142	22	27	15	34	1.94
9458533--9458571	21	1.9	20	84	5	51	33	5	0	61	1.18

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