genome.fa.s7999.2.7.7.80.10.50.1000.40.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: 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  40  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)
9531056--9533175	4	534.8	4	98	1	4107	49	25	0	24	1.50
9534243--9534332	20	4.6	20	74	12	87	31	15	20	33	1.93
9536947--9536985	20	2.0	20	90	9	64	51	0	0	48	1.00
9540446--9541017	4	146.2	4	77	5	418	37	0	61	0	1.02
9540446--9541017	6	97.5	6	78	5	418	37	0	61	0	1.02
9540448--9541019	12	48.1	12	76	16	466	37	0	61	0	1.02
9540445--9541019	14	42.1	14	78	12	567	37	0	61	0	1.02
9558715--9558769	24	2.3	24	93	0	92	16	10	18	54	1.70
9561534--9561608	10	7.7	10	72	21	70	9	10	21	58	1.59
9561540--9561604	16	4.1	16	91	0	112	7	10	23	58	1.57
9561534--9561608	32	2.7	26	74	21	69	9	10	21	58	1.59
9561674--9561705	16	2.0	16	100	0	64	6	12	25	56	1.59
9565872--9565922	20	2.5	20	100	0	102	15	27	21	35	1.94
9568197--9568229	12	2.6	13	85	9	50	42	9	6	42	1.61
9571883--9571925	6	6.8	6	79	10	50	0	20	2	76	0.89
9571883--9571925	19	2.3	19	87	0	59	0	20	2	76	0.89
9571883--9571925	13	3.4	12	87	6	50	0	20	2	76	0.89
9580818--9580897	21	3.7	22	79	8	85	23	36	23	16	1.94
9585106--9585144	4	9.8	4	100	0	78	76	0	23	0	0.78
9586155--9586219	2	32.5	2	100	0	130	49	0	0	50	1.00
9586236--9586350	46	2.5	47	76	13	114	43	0	6	49	1.33
9586228--9586386	48	3.5	43	72	16	117	44	1	7	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9586430--9586498	3	22.3	3	74	11	59	26	1	4	68	1.17
9586994--9587033	21	1.9	21	84	0	53	55	25	10	10	1.64
9589647--9589727	31	2.6	31	90	0	117	19	17	22	40	1.91
9595341--9595391	21	2.5	21	81	9	61	29	11	23	35	1.90
9597365--9597389	13	1.9	13	100	0	50	16	0	24	60	1.36
9597803--9597840	18	2.1	18	90	0	58	34	7	5	52	1.53
9598046--9598080	18	1.9	18	88	0	52	37	20	20	22	1.95
9601661--9601706	19	2.3	21	71	17	53	45	2	0	52	1.13
9601814--9601855	20	2.1	20	90	0	66	40	4	7	47	1.52
9607630--9607665	17	2.1	17	100	0	72	50	16	13	19	1.79
9610032--9610112	6	13.5	6	88	0	99	40	1	0	58	1.06
9610032--9610112	9	9.0	9	86	0	99	40	1	0	58	1.06
9610060--9610134	9	8.2	9	83	5	53	45	1	0	53	1.08
9610459--9610497	17	2.2	17	86	9	51	64	12	20	2	1.40
9610459--9610501	19	2.3	19	84	8	52	65	11	20	2	1.36
9622516--9622596	14	6.1	13	79	17	87	80	0	19	0	0.72
9622531--9622593	11	5.5	11	82	14	83	82	0	17	0	0.67
9622520--9622595	25	2.8	27	80	15	95	82	0	17	0	0.66
9622521--9622597	39	2.0	38	87	7	111	80	0	19	0	0.71
9622534--9622593	23	2.6	23	87	7	95	83	0	16	0	0.65
9622517--9622594	24	3.3	23	77	18	81	82	0	17	0	0.68
9622523--9622595	29	2.6	29	72	25	50	82	0	17	0	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9623746--9624372	83	7.6	83	95	1	1114	26	13	22	37	1.91
9625081--9625614	113	4.6	113	88	5	745	39	13	19	26	1.89
9625554--9625662	42	2.7	41	92	2	184	47	11	22	19	1.80
9625552--9625948	175	2.3	175	97	0	742	44	14	20	21	1.87
9625729--9625837	42	2.7	41	92	2	184	47	11	21	19	1.81
9626089--9626190	3	34.0	3	87	0	150	38	0	0	60	1.03
9626310--9626347	16	2.4	16	91	4	60	13	47	18	21	1.82
9626318--9626357	16	2.6	16	92	4	64	10	55	17	17	1.69
9626551--9626589	17	2.2	17	86	9	51	64	12	20	2	1.40
9626551--9626593	19	2.3	19	84	8	52	65	11	20	2	1.36
9632440--9632484	21	2.1	21	95	0	81	15	31	6	46	1.72
9634620--9634666	20	2.3	20	100	0	94	29	23	25	21	1.99
9638297--9638326	2	15.5	2	93	6	53	50	0	0	50	1.00
9644359--9644400	18	2.3	19	84	15	54	42	0	9	47	1.36
9648440--9648523	23	3.7	23	90	0	132	29	27	25	17	1.98
9649159--9649261	44	2.3	45	81	5	120	26	16	21	35	1.94
9655309--9655377	23	3.0	23	84	0	75	30	24	24	20	1.99
9656084--9656142	23	2.6	23	81	5	66	32	25	23	18	1.97
9654720--9656248	765	2.0	765	93	0	2592	36	20	14	28	1.92
9656784--9656940	63	2.5	65	81	9	182	24	19	20	35	1.95
9658116--9658153	18	2.1	18	100	0	76	18	10	10	60	1.57
9660682--9660707	13	2.0	13	100	0	52	7	23	23	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9661291--9661332	18	2.3	19	84	15	54	42	0	9	47	1.36
9668839--9668890	13	4.0	13	80	9	52	25	15	5	53	1.63
9672241--9672279	9	4.1	9	83	9	51	87	0	12	0	0.55
9672247--9672271	11	2.3	11	100	0	50	92	0	8	0	0.40
9672702--9672774	4	15.6	5	84	11	61	87	1	9	1	0.66
9672718--9672770	1	53.0	1	88	0	70	92	0	7	0	0.39
9672700--9672774	10	8.1	9	81	16	75	88	1	9	1	0.65
9672700--9672774	14	5.1	14	80	12	87	88	1	9	1	0.65
9672701--9672774	23	3.1	24	84	11	100	87	1	9	1	0.65
9676287--9676682	74	5.3	72	82	6	436	32	17	10	39	1.84
9676303--9676559	37	6.9	37	68	9	150	33	17	10	38	1.83
9676322--9676670	36	9.4	35	67	12	178	32	16	10	40	1.83
9676688--9677264	123	4.7	123	87	1	816	39	14	19	26	1.90
9677321--9677600	118	2.4	119	82	5	356	39	15	21	24	1.91
9678613--9678655	17	2.5	17	84	3	50	30	11	2	55	1.48
9680086--9680110	11	2.3	11	100	0	50	64	8	0	28	1.22
9680765--9680986	71	2.9	73	78	9	234	36	6	18	37	1.77
9680821--9680967	72	2.1	72	92	1	242	37	6	19	37	1.76
9681990--9682347	101	3.5	100	80	4	389	41	10	10	36	1.75
9682475--9682692	77	2.8	77	84	4	278	34	18	9	37	1.83
9683215--9683276	14	4.2	15	75	17	58	14	11	1	72	1.19
9683220--9683284	25	2.6	25	80	9	80	16	9	1	72	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9685828--9685853	13	2.0	13	100	0	52	7	23	23	46	1.78
9686636--9686684	21	2.3	21	100	0	98	30	18	12	38	1.87
9694081--9694139	20	3.0	19	85	7	75	23	16	6	52	1.68
9697508--9697545	9	4.1	9	89	3	58	89	0	10	0	0.49
9697966--9698034	11	6.3	11	81	9	79	88	1	8	1	0.64
9697968--9698031	5	12.8	5	84	12	53	87	1	9	1	0.68
9697984--9698034	1	51.0	1	84	0	66	92	0	7	0	0.40
9697966--9698038	19	3.8	18	80	10	83	87	1	9	1	0.66
9701544--9701944	73	5.4	72	85	5	475	31	18	11	38	1.86
9701544--9701944	146	2.7	146	84	7	524	31	18	11	38	1.86
9701569--9701925	36	9.6	36	69	10	209	32	17	10	39	1.84
9701943--9702519	123	4.7	123	87	1	816	39	14	19	26	1.90
9701944--9702804	246	3.5	244	78	9	836	38	14	20	26	1.91
9702576--9702855	118	2.4	119	82	5	356	39	15	21	24	1.91
9703036--9703085	22	2.3	22	100	0	100	22	44	20	14	1.86
9705366--9705390	11	2.3	11	100	0	50	64	8	0	28	1.22
9706107--9706230	38	3.4	37	65	15	96	38	8	20	32	1.82
9706042--9706269	72	3.0	77	81	10	281	35	7	19	37	1.79
9707277--9707635	101	3.5	100	81	3	407	41	10	11	36	1.76
9707763--9707980	77	2.8	77	84	4	278	34	18	9	37	1.83
9708504--9708565	14	4.2	15	75	17	58	14	11	1	72	1.19
9708509--9708573	25	2.6	25	80	9	80	16	9	1	72	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9710099--9710143	14	2.9	15	83	12	56	17	8	2	71	1.23
9710099--9710168	25	2.9	23	77	14	70	18	8	1	71	1.19
9710102--9710149	14	3.1	16	82	8	55	18	10	2	68	1.28
9711113--9711138	13	2.0	13	100	0	52	7	23	23	46	1.78
9711722--9711763	18	2.3	19	84	15	54	42	0	9	47	1.36
9711921--9711969	21	2.3	21	100	0	98	30	18	12	38	1.87
9719746--9719782	2	18.5	2	100	0	74	51	0	0	48	1.00
9721676--9721707	17	1.9	17	93	6	57	78	0	21	0	0.76
9722179--9722275	5	17.8	5	78	16	63	75	0	18	6	1.01
9722175--9722276	6	17.2	6	71	20	56	75	0	18	5	1.00

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