genome.fa.s7999.2.7.7.80.10.50.1000.38.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  38  of  50  ( 5918 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)
9136311--9136436	48	2.6	48	82	2	146	37	22	19	20	1.95
9141339--9141365	2	13.5	2	100	0	54	51	0	0	48	1.00
9142406--9142445	21	2.0	20	90	5	62	30	5	7	57	1.48
9142669--9142749	21	3.8	21	86	6	92	24	38	17	19	1.93
9144741--9144777	19	1.9	19	100	0	74	43	5	18	32	1.73
9144742--9144790	19	2.6	18	87	12	64	42	4	18	34	1.69
9145852--9145891	21	1.9	21	89	0	62	30	10	10	50	1.69
9146212--9146264	20	2.7	20	87	0	70	16	28	20	33	1.95
9148325--9148437	29	3.9	29	79	4	129	33	3	15	47	1.62
9148316--9148436	58	2.1	58	85	3	163	33	2	17	47	1.61
9149371--9149446	31	2.4	31	77	2	80	15	25	31	27	1.96
9155746--9155926	29	6.2	29	81	5	222	29	5	18	45	1.72
9155775--9155968	58	3.3	59	84	3	241	29	5	18	46	1.72
9155855--9155945	29	3.1	29	63	17	71	31	8	15	43	1.77
9157001--9157052	25	2.0	26	85	3	70	25	9	25	40	1.85
9163537--9163576	15	2.7	15	84	3	55	40	5	20	35	1.74
9166900--9167225	103	3.2	103	93	1	575	39	23	12	25	1.89
9167728--9167849	64	1.9	64	84	3	165	26	16	19	37	1.93
9167727--9167869	64	2.2	63	81	6	162	26	16	20	35	1.94
9173981--9174026	23	2.0	23	86	0	65	28	26	26	19	1.99
9174035--9174362	103	3.2	103	98	0	629	37	24	13	24	1.91
9177559--9177609	23	2.2	23	86	6	68	23	21	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9180768--9180928	74	2.1	75	88	2	234	53	1	6	37	1.39
9183847--9183915	32	2.2	32	92	2	113	36	0	31	31	1.58
9187331--9187373	21	2.0	21	90	0	68	53	16	18	11	1.72
9193064--9193098	17	2.1	17	100	0	70	34	20	11	34	1.88
9193219--9193539	165	1.9	166	87	0	464	28	22	26	22	1.99
9202820--9202863	20	2.3	19	88	11	72	25	29	9	36	1.86
9202825--9202862	20	1.9	20	100	0	76	23	28	10	36	1.88
9203833--9203904	20	3.6	19	79	9	63	34	25	15	25	1.94
9203935--9204059	20	6.2	20	72	7	83	26	20	14	38	1.91
9203914--9204003	40	2.2	40	86	4	117	28	23	12	35	1.91
9203936--9204044	40	2.7	40	85	2	130	28	22	12	36	1.91
9203935--9204105	60	2.8	60	79	1	155	28	20	13	38	1.90
9203974--9204052	40	2.0	40	84	0	104	29	21	15	34	1.94
9204089--9204127	20	2.0	20	100	0	78	35	23	5	35	1.77
9204223--9204265	22	2.0	22	90	0	68	18	46	13	20	1.83
9204282--9204321	16	2.5	16	95	0	71	32	2	0	65	1.06
9204917--9204950	12	2.8	12	90	0	50	55	29	0	14	1.40
9207455--9207490	12	3.0	12	83	0	54	44	33	5	16	1.71
9207449--9207488	18	2.2	18	90	0	62	50	30	2	17	1.59
9207658--9207685	14	2.0	14	100	0	56	35	28	21	14	1.92
9208834--9208867	13	2.6	13	100	0	68	14	26	14	44	1.84
9209335--9209451	20	6.2	20	71	11	93	42	21	12	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9209347--9209451	54	1.9	54	84	3	140	40	22	13	22	1.89
9209452--9209506	20	2.8	20	88	0	83	14	12	20	52	1.73
9210150--9210197	20	2.4	20	100	0	96	43	10	20	25	1.83
9220859--9220900	6	7.0	6	78	10	50	76	0	4	19	0.96
9220859--9220906	18	2.7	18	87	6	62	75	0	4	20	0.97
9220956--9220986	16	1.9	16	93	0	53	74	0	3	22	0.96
9221781--9221817	18	2.1	18	100	0	74	5	10	35	48	1.61
9222316--9222349	2	18.0	2	88	11	54	50	0	0	50	1.00
9222357--9222793	36	12.6	34	74	19	272	45	5	3	45	1.44
9222541--9222663	25	5.0	26	66	14	82	43	4	2	50	1.34
9222438--9222674	128	1.8	129	91	6	392	44	5	3	46	1.43
9222546--9222795	73	3.4	73	84	5	308	44	6	2	46	1.43
9222610--9222814	112	1.8	110	83	7	270	45	6	3	43	1.47
9223313--9223587	81	3.4	79	83	4	291	27	18	23	30	1.98
9223590--9223678	28	3.1	28	84	9	124	33	8	14	42	1.77
9223584--9223728	31	4.6	32	79	12	126	33	8	17	40	1.81
9223837--9223884	19	2.4	21	86	13	82	43	4	18	33	1.69
9223842--9223884	19	2.3	19	100	0	86	44	4	18	32	1.71
9223861--9224088	36	6.5	36	75	14	224	40	12	18	27	1.87
9223770--9224058	92	3.0	93	76	13	287	40	12	19	27	1.88
9223994--9224058	21	3.4	21	68	24	70	41	10	20	27	1.85
9223973--9224115	72	2.0	73	87	6	211	39	11	19	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9223990--9224115	36	3.5	35	83	12	150	40	12	19	27	1.88
9223992--9224142	73	2.1	72	82	8	182	41	15	15	27	1.88
9229258--9229305	4	12.0	4	78	8	53	70	0	6	22	1.09
9229317--9229451	13	9.6	14	68	13	64	76	0	10	12	1.07
9229319--9229481	8	19.2	8	67	17	64	76	1	9	12	1.09
9229320--9229428	7	14.7	7	69	20	53	77	0	8	13	1.04
9229289--9229481	57	3.2	57	74	17	130	74	1	9	14	1.15
9229346--9229420	19	3.9	19	70	19	57	74	1	9	14	1.12
9229345--9229480	14	10.4	14	67	24	50	75	1	10	13	1.12
9229337--9229465	54	2.5	50	76	16	122	75	0	10	13	1.07
9230192--9230227	18	2.0	18	100	0	72	5	5	33	55	1.46
9230666--9230717	11	4.7	11	80	17	63	78	0	1	19	0.84
9230666--9230717	10	4.8	10	81	11	50	78	0	1	19	0.84
9230677--9230713	18	2.1	17	90	5	56	81	0	0	18	0.70
9230666--9230717	17	3.1	16	78	8	59	78	0	1	19	0.84
9230914--9230978	30	2.2	30	94	2	114	43	6	4	46	1.49
9230939--9231105	39	4.4	38	83	6	171	46	7	2	43	1.46
9230746--9231056	105	3.0	104	78	10	321	45	6	3	44	1.48
9230944--9231103	37	4.2	38	84	4	198	45	6	3	44	1.46
9232135--9232293	30	5.4	30	71	8	112	57	11	12	17	1.64
9233644--9233786	3	48.0	3	98	1	279	66	0	0	33	0.92
9234560--9234594	6	5.8	6	96	0	52	40	34	8	17	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9234593--9234699	2	53.0	2	84	1	133	43	1	6	47	1.40
9235115--9235143	14	2.0	15	93	6	51	48	6	0	44	1.29
9238318--9238364	18	2.6	19	83	10	62	65	2	6	25	1.27
9246883--9246932	18	2.8	17	78	6	55	64	2	6	28	1.28
9248617--9248694	8	9.8	8	97	0	138	41	25	8	24	1.84
9248869--9249154	55	5.2	55	84	0	324	33	9	15	40	1.80
9249361--9249592	37	6.3	37	72	8	179	31	18	11	38	1.87
9249398--9249518	36	3.3	36	76	2	143	28	19	12	38	1.88
9249356--9249598	73	3.3	73	87	3	346	30	18	11	38	1.87
9250019--9250386	139	2.6	139	89	0	565	37	17	20	24	1.94
9256194--9256223	12	2.5	12	100	0	60	33	26	6	33	1.83
9258632--9258883	126	2.0	123	85	5	337	32	17	16	34	1.92
9259097--9259338	119	2.0	120	82	4	292	30	12	16	40	1.86
9262209--9262272	23	2.8	23	95	0	110	14	23	26	35	1.93
9269341--9269441	32	3.1	32	85	2	130	55	14	8	20	1.66
9278537--9278767	85	2.7	86	87	4	308	35	20	22	21	1.96
9278540--9278784	43	5.7	42	81	6	269	34	21	22	21	1.97
9278761--9278806	22	2.1	22	91	0	74	39	23	23	13	1.90
9282447--9282763	41	7.7	42	83	6	373	32	18	20	28	1.97
9282458--9282763	83	3.7	82	87	3	404	33	19	20	27	1.97
9290300--9290337	3	12.7	3	100	0	76	31	0	0	68	0.90
9292792--9292846	19	2.8	19	81	10	58	54	16	0	29	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9294145--9294183	15	2.5	16	83	4	53	74	0	2	23	0.94
9294562--9294601	15	2.7	15	96	0	71	40	2	0	57	1.12
9295048--9295089	22	1.9	22	85	9	59	66	4	2	26	1.23
9302302--9302367	23	2.8	23	84	6	80	6	12	22	59	1.55
9303176--9303217	22	1.9	22	100	0	84	35	9	14	40	1.78
9304243--9304311	30	2.2	30	85	15	95	34	5	17	42	1.73
9304252--9304311	30	2.0	30	93	6	104	33	6	16	43	1.74
9304391--9304468	21	3.8	19	76	15	75	24	33	20	21	1.97
9304489--9304562	20	3.7	20	83	3	94	18	27	24	29	1.98
9304489--9304571	41	2.0	41	88	4	123	19	26	26	27	1.99

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