genome.fa.s8620.2.7.7.80.10.50.1000.47.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   63   64   

This is table  47  of  64  ( 7674 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)
9422831--9423122	12	22.8	12	77	13	214	83	2	13	1	0.81
9422968--9423113	1	146.0	1	83	0	184	91	0	7	0	0.44
9424374--9424413	19	2.0	20	90	4	64	32	25	2	40	1.69
9424510--9424590	37	2.2	37	86	4	110	23	14	14	46	1.82
9424619--9425564	45	21.0	45	77	8	644	25	15	18	40	1.90
9424619--9425564	135	7.0	134	78	5	764	25	15	18	40	1.90
9424621--9425167	224	2.4	223	82	5	640	23	15	19	42	1.89
9424619--9425564	90	10.5	90	79	4	832	25	15	18	40	1.90
9425838--9425883	3	15.3	3	100	0	92	67	0	0	32	0.91
9426693--9426960	129	2.1	129	77	5	274	32	22	16	29	1.95
9427151--9427182	3	11.0	3	93	6	57	34	0	0	65	0.93
9430306--9430334	15	1.9	15	100	0	58	0	34	0	65	0.93
9434119--9434161	2	21.5	2	100	0	86	51	0	0	48	1.00
9434184--9434356	85	2.0	85	80	6	190	30	17	20	32	1.95
9434475--9434793	59	5.4	59	77	5	306	37	11	21	29	1.88
9434496--9434800	118	2.6	118	81	4	339	38	10	21	28	1.88
9434739--9434911	58	2.9	60	83	6	217	35	13	21	28	1.92
9435041--9435371	44	7.4	44	86	3	423	38	6	21	33	1.78
9435048--9435371	89	3.6	89	87	3	472	38	6	21	33	1.79
9438568--9438745	37	4.9	37	69	11	93	33	18	9	38	1.83
9438720--9438905	52	3.6	52	75	9	173	26	20	11	41	1.86
9438899--9439087	53	3.6	52	84	6	213	24	24	12	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9439052--9439134	38	2.2	38	84	2	105	27	22	10	38	1.88
9439180--9439342	35	4.5	35	73	13	143	30	19	10	39	1.85
9439155--9439348	73	2.7	72	84	4	241	29	18	10	41	1.84
9441191--9441220	3	10.0	3	92	0	51	30	0	3	66	1.07
9442019--9442053	17	2.1	17	100	0	70	11	42	5	40	1.65
9442469--9443128	183	3.6	183	84	2	819	44	10	14	30	1.79
9443732--9443797	19	3.4	19	72	12	71	50	1	12	36	1.49
9445444--9445486	15	2.9	15	79	3	52	23	4	51	20	1.66
9445607--9445736	66	2.0	66	87	0	188	32	3	41	23	1.70
9450057--9451604	200	7.8	200	88	3	2101	38	13	15	32	1.86
9451568--9451611	22	2.0	22	86	4	63	31	6	11	50	1.65
9454472--9454527	24	2.3	25	84	9	80	33	5	12	48	1.64
9454491--9454526	18	2.0	18	88	0	54	33	5	11	50	1.61
9454483--9454535	24	2.2	24	83	6	63	37	3	13	45	1.61
9456210--9456284	22	3.5	22	80	8	82	26	16	16	41	1.88
9461653--9461696	6	6.7	7	87	12	51	43	0	0	56	0.99
9461667--9461693	2	13.5	2	100	0	54	48	0	0	51	1.00
9461801--9461861	14	4.4	14	78	12	54	22	4	1	70	1.15
9461856--9461891	17	2.2	17	95	5	65	0	11	0	88	0.50
9461856--9461903	17	2.9	16	82	11	53	4	14	0	81	0.84
9475408--9475434	2	13.5	2	100	0	54	48	0	0	51	1.00
9475482--9475515	2	17.0	2	100	0	68	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)
9475533--9475582	16	3.3	15	76	20	50	14	2	8	76	1.10
9476565--9476631	22	2.9	23	82	12	68	16	10	4	68	1.34
9478070--9478113	17	2.5	17	81	7	52	56	2	4	36	1.32
9480304--9480338	16	2.2	16	89	0	52	20	14	14	51	1.76
9480495--9480540	2	23.0	2	100	0	92	50	0	0	50	1.00
9481110--9481160	19	2.7	19	96	0	93	29	27	21	21	1.99
9481207--9481259	21	2.5	21	81	6	63	22	26	18	32	1.97
9481245--9481445	20	9.5	20	72	14	118	33	20	18	26	1.96
9481245--9481445	40	4.8	40	67	16	136	33	20	18	26	1.96
9481181--9481443	131	2.0	131	100	0	526	30	23	18	28	1.97
9481338--9481390	21	2.5	21	81	6	63	22	26	18	32	1.97
9482307--9482360	24	2.2	24	96	0	99	20	16	20	42	1.89
9484890--9484987	19	5.7	18	68	24	77	44	19	24	11	1.83
9484890--9484983	33	2.8	33	96	0	170	44	19	24	11	1.84
9485031--9485085	14	3.6	14	73	21	56	10	23	20	45	1.82
9484993--9485102	33	3.4	33	93	3	181	11	22	20	44	1.84
9486599--9486678	42	1.9	42	84	0	106	22	17	38	21	1.93
9487074--9487199	19	6.8	19	79	10	136	45	21	22	11	1.83
9487098--9487199	33	2.9	36	84	11	138	44	22	23	9	1.83
9487205--9487242	20	1.9	20	100	0	76	5	15	28	50	1.66
9487231--9487320	33	2.5	37	80	12	107	8	20	20	51	1.73
9487257--9487318	20	3.2	20	83	4	90	9	20	17	51	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9487206--9487320	39	3.1	38	73	16	116	7	19	21	51	1.72
9487413--9487871	94	5.0	94	92	3	720	47	18	12	21	1.81
9489402--9489489	17	5.1	17	67	24	67	46	20	23	9	1.79
9489396--9489538	19	8.1	19	67	18	94	45	20	21	12	1.84
9489396--9489516	33	3.5	33	86	4	152	45	20	21	12	1.84
9489565--9489655	20	4.6	20	82	9	114	12	17	19	50	1.77
9489880--9490050	85	2.0	86	96	3	319	32	11	24	31	1.91
9490265--9490345	20	4.0	20	86	1	117	38	17	19	24	1.93
9492471--9492629	78	2.0	79	92	3	268	42	18	13	25	1.87
9493805--9493917	56	2.0	56	100	0	226	31	17	13	37	1.89
9495329--9495406	35	2.3	34	84	4	95	29	1	21	47	1.59
9499028--9499071	3	15.0	3	92	4	72	68	2	0	29	1.02
9499015--9499063	23	2.1	24	85	11	66	67	6	4	22	1.30
9502739--9502769	16	2.0	15	93	6	53	58	3	0	38	1.15
9505567--9505701	41	3.3	41	77	12	150	35	19	17	27	1.94
9505566--9505695	42	3.1	42	77	12	151	36	16	17	28	1.92
9505772--9505871	42	2.4	42	94	1	175	34	22	15	29	1.94
9506908--9507058	82	1.9	81	88	1	221	33	17	19	28	1.95
9506910--9507229	41	7.8	42	74	10	197	33	19	17	29	1.95
9508268--9508584	41	7.8	41	73	11	163	32	18	18	30	1.95
9508486--9508580	42	2.3	41	90	3	154	33	21	15	29	1.94
9512419--9512483	30	2.1	31	83	13	82	15	13	9	61	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9518783--9518994	59	3.7	58	83	5	241	30	10	17	41	1.83
9519449--9519483	7	4.9	7	86	6	52	85	0	5	8	0.73
9519448--9519497	22	2.3	22	77	19	59	80	4	6	10	1.02
9519946--9520133	42	4.5	42	81	3	184	30	24	17	27	1.97
9521114--9521153	18	2.2	18	90	0	62	50	5	40	5	1.46
9524581--9524632	2	27.0	2	88	7	81	51	0	0	48	1.00
9526573--9526612	20	2.0	21	90	5	64	42	2	10	45	1.51
9527362--9527415	21	2.4	22	75	12	56	25	27	20	25	1.99
9527373--9527415	21	2.0	21	86	0	59	23	30	23	23	1.99
9534563--9534607	19	2.4	19	100	0	90	24	26	22	26	2.00
9536080--9536118	20	1.9	21	94	5	71	53	10	0	35	1.35
9536455--9536521	32	2.1	32	97	0	125	52	10	0	37	1.36
9538637--9538740	53	2.0	53	100	0	208	33	12	13	40	1.82
9551818--9551867	21	2.4	21	90	6	75	60	8	18	14	1.58
9554065--9554096	12	2.6	12	95	5	55	34	12	9	43	1.75
9559018--9559097	13	6.3	13	78	18	89	87	0	12	0	0.54
9559023--9559097	25	3.1	23	94	5	107	88	0	12	0	0.53
9559027--9559098	1	72.0	1	77	0	72	88	0	11	0	0.50
9559018--9559097	17	4.7	17	85	14	112	87	0	12	0	0.54
9559018--9559098	14	6.0	14	80	11	89	87	0	12	0	0.54
9566627--9566988	181	2.0	181	100	0	724	31	19	16	32	1.94
9568405--9568455	26	2.0	26	92	0	84	29	29	15	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9571091--9571121	14	2.2	14	100	0	62	35	22	6	35	1.80
9573184--9574284	278	4.0	279	88	2	1538	29	15	20	34	1.94
9574149--9574212	20	3.0	22	73	15	71	21	20	26	31	1.98
9574147--9574260	42	2.7	42	83	4	133	27	21	22	28	1.99
9574296--9574405	57	1.9	59	84	3	152	29	28	15	27	1.96
9576100--9576161	22	2.8	22	90	0	97	29	22	19	29	1.98
9576334--9576379	24	1.9	24	100	0	92	43	21	0	34	1.53
9576333--9576385	24	2.2	24	89	0	88	43	22	0	33	1.54
9576949--9577091	64	2.2	64	94	0	259	30	19	13	37	1.90
9578877--9578901	5	5.0	5	100	0	50	20	0	0	80	0.72

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   63   64