genome.fa.s39.2.7.7.80.10.50.1000.22.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: Scaffold39
Parameters: 2 7 7 80 10 50 1000
Length:  4724573

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   

This is table  22  of  27  ( 3195 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)
3723310--3723414	48	2.2	48	93	5	185	24	17	12	45	1.82
3723481--3723607	58	2.2	58	81	8	152	26	12	14	45	1.81
3723581--3723637	30	1.9	30	89	7	89	28	10	8	52	1.65
3723515--3723691	88	2.0	87	86	5	250	28	10	13	47	1.75
3727748--3727800	22	2.4	22	100	0	106	26	24	22	26	2.00
3731629--3731672	21	2.1	21	83	8	54	25	31	4	38	1.76
3733455--3733480	13	2.0	13	100	0	52	38	15	15	30	1.88
3735550--3735580	15	2.1	15	93	0	53	12	22	16	48	1.80
3737382--3737426	21	2.1	21	84	8	56	22	20	4	53	1.63
3739653--3739678	13	2.0	13	100	0	52	30	15	15	38	1.88
3741207--3741244	20	1.9	20	100	0	76	39	10	18	31	1.85
3744690--3744727	18	2.1	18	100	0	76	50	0	5	44	1.24
3748562--3748735	88	2.0	88	82	4	217	29	24	13	33	1.93
3748737--3749044	103	2.9	105	79	5	318	32	22	9	35	1.86
3748786--3749097	106	3.0	107	79	6	298	32	22	8	36	1.85
3750557--3750655	26	3.8	25	81	5	101	54	5	6	34	1.47
3750559--3750659	13	7.8	13	70	18	59	52	5	5	35	1.50
3750612--3750745	27	5.0	26	76	11	117	49	2	8	39	1.48
3750691--3750737	13	3.5	13	77	11	58	53	0	6	40	1.27
3750611--3750863	28	9.3	28	70	11	127	46	2	11	39	1.54
3750722--3750901	55	3.3	55	82	1	200	44	4	13	37	1.65
3750722--3750876	54	2.8	55	84	1	195	43	3	14	38	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3750831--3750970	68	2.0	68	83	4	174	48	6	10	35	1.62
3750896--3750990	28	3.4	28	80	2	111	47	5	9	37	1.59
3750939--3750998	28	2.1	28	81	0	66	51	5	8	35	1.54
3751405--3751446	16	2.4	18	80	11	52	61	0	0	38	0.96
3758602--3759138	259	2.1	259	95	1	970	35	13	17	33	1.90
3766246--3766297	8	6.8	8	78	22	58	75	0	1	23	0.91
3766246--3766295	15	3.3	15	86	13	75	76	0	2	22	0.89
3766245--3766297	23	2.3	24	84	12	67	73	0	1	24	0.93
3776410--3776463	20	2.8	19	86	10	74	35	16	14	33	1.90
3779238--3779262	13	1.9	13	100	0	50	40	16	0	44	1.47
3781000--3781067	20	3.8	20	67	25	69	38	8	13	39	1.75
3780977--3781068	33	2.8	33	89	0	139	39	8	13	39	1.75
3784486--3784550	26	2.5	26	94	0	112	29	15	27	27	1.96
3786951--3787023	20	3.8	20	68	15	64	52	10	10	26	1.69
3787076--3787129	20	2.6	21	79	2	65	33	18	9	38	1.83
3788704--3788776	20	3.6	20	81	3	101	35	13	19	31	1.91
3788722--3788797	21	3.7	21	78	3	91	40	11	17	30	1.85
3788704--3788797	41	2.3	41	96	0	170	38	12	18	30	1.88
3788836--3788861	13	2.0	13	100	0	52	38	15	15	30	1.88
3790563--3790654	45	2.0	45	89	0	139	51	20	4	23	1.66
3791767--3791818	22	2.6	20	82	11	63	51	3	0	44	1.19
3794159--3794218	20	2.9	22	80	14	74	38	5	11	45	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3794400--3795385	493	2.0	493	100	0	1972	33	14	23	28	1.94
3803337--3803367	16	1.9	16	93	0	53	38	16	6	38	1.74
3807904--3808151	137	1.8	137	86	3	365	37	20	16	25	1.93
3808125--3808415	149	1.9	150	82	3	363	40	21	15	23	1.91
3810726--3811215	165	3.0	162	80	8	544	46	7	13	32	1.70
3810823--3811262	165	2.7	162	81	7	442	46	7	13	32	1.70
3813252--3813338	43	2.0	43	100	0	174	27	13	19	39	1.90
3816556--3816581	12	2.2	12	100	0	52	30	15	15	38	1.88
3824306--3824346	13	3.2	13	92	0	73	31	14	14	39	1.87
3826828--3826854	13	2.1	13	100	0	54	29	14	14	40	1.86
3826809--3826873	32	2.0	32	90	3	103	26	16	16	40	1.90
3826839--3826895	19	2.9	19	89	5	87	31	14	17	36	1.89
3826835--3826894	20	3.0	20	85	4	86	31	13	18	36	1.89
3829652--3829847	85	2.3	87	83	6	240	35	10	22	30	1.89
3829654--3829871	85	2.6	85	81	6	219	34	11	23	29	1.90
3835477--3835550	20	3.8	20	82	8	80	31	17	13	37	1.89
3835578--3835603	13	2.0	13	100	0	52	30	15	15	38	1.88
3840015--3840045	16	1.9	16	93	0	53	51	3	6	38	1.44
3841385--3841443	20	2.6	23	87	12	79	40	11	16	30	1.85
3844064--3844116	19	2.7	19	79	2	61	33	20	11	33	1.88
3846074--3846103	2	14.5	2	93	6	51	46	0	3	50	1.18
3850274--3850976	79	8.9	78	75	9	462	33	11	25	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3850274--3850976	158	4.5	157	79	5	679	33	11	25	29	1.92
3850274--3850976	237	3.0	235	80	6	740	33	11	25	29	1.92
3852137--3852243	36	3.0	36	94	1	180	50	16	15	16	1.78
3853479--3853556	41	1.9	41	86	0	111	42	10	11	35	1.75
3854098--3854237	75	1.9	75	82	7	178	38	15	23	22	1.92
3854228--3854331	44	2.4	44	79	10	115	43	12	26	17	1.85
3854337--3855056	120	5.9	120	80	6	690	29	17	27	25	1.98
3854335--3855085	61	12.3	61	81	7	724	29	17	27	26	1.98
3856052--3856111	15	4.1	14	75	10	50	5	10	6	78	1.08
3856058--3856111	22	2.4	23	77	22	62	5	9	7	77	1.11
3865675--3865714	22	1.9	21	90	10	64	35	10	12	42	1.76
3877751--3878454	79	8.8	79	78	8	617	34	12	24	28	1.92
3877762--3878338	158	3.6	157	82	6	691	35	12	23	27	1.92
3877774--3878454	238	2.9	236	79	7	732	34	12	24	28	1.92
3878369--3878442	31	2.4	31	90	4	114	25	13	32	28	1.94
3880826--3880866	20	2.0	20	85	0	55	46	9	17	26	1.79
3886942--3887653	166	4.3	163	78	6	573	31	11	8	49	1.69
3893834--3893972	52	2.7	52	89	0	215	43	12	16	27	1.85
3893939--3893992	20	2.7	20	94	0	90	46	9	16	27	1.78
3895501--3895639	51	2.7	52	90	1	217	31	15	10	42	1.80
3895505--3895639	52	2.6	51	90	1	207	30	16	10	42	1.81
3898122--3898257	20	6.7	19	70	15	85	31	15	16	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3898040--3898257	82	2.6	82	94	2	366	31	16	16	35	1.91
3906522--3906598	40	1.9	40	89	5	120	32	15	20	31	1.94
3906595--3906619	13	1.9	13	100	0	50	36	16	16	32	1.90
3906680--3906704	13	1.9	13	100	0	50	36	16	16	32	1.90
3906558--3906726	85	2.0	86	96	1	313	33	15	18	31	1.93
3906745--3906811	33	2.0	33	88	0	98	40	14	11	32	1.83
3906767--3906791	13	1.9	13	100	0	50	32	16	16	36	1.90
3907506--3907568	32	1.9	33	87	3	92	39	12	17	30	1.87
3912236--3912308	20	3.7	19	85	7	85	27	16	17	38	1.91
3913986--3914018	3	11.0	3	93	0	57	30	0	36	33	1.58
3920331--3920392	20	3.2	19	71	8	61	33	1	32	32	1.68
3920911--3921002	19	4.7	19	91	2	130	27	16	18	38	1.92
3920911--3921002	39	2.4	39	88	3	132	27	16	18	38	1.92
3921977--3922002	13	2.0	13	100	0	52	30	15	15	38	1.88
3922041--3922116	21	3.7	21	80	3	100	28	17	11	42	1.84
3922062--3922134	20	3.6	20	81	3	101	31	19	13	35	1.91
3922041--3922134	41	2.3	41	98	0	179	29	18	12	39	1.88
3924461--3924507	21	2.3	21	76	23	55	38	4	23	34	1.74
3924628--3924666	13	3.0	13	96	0	69	35	15	17	30	1.91
3924652--3924730	20	3.7	20	70	20	70	45	16	12	25	1.82
3926746--3926776	15	2.1	15	93	0	53	12	22	16	48	1.80
3930839--3930864	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3930903--3930978	21	3.7	21	80	3	100	28	17	11	42	1.84
3930924--3930996	20	3.6	20	81	3	101	31	19	13	35	1.91
3930903--3930996	41	2.3	41	98	0	179	29	18	12	39	1.88
3933971--3934047	22	3.5	22	83	3	93	38	3	31	25	1.74
3934572--3934625	20	2.8	19	88	5	81	33	12	16	37	1.87
3934669--3934721	13	4.5	13	71	26	55	33	13	16	35	1.88
3934653--3934721	33	2.1	33	86	5	95	33	13	17	36	1.88
3936212--3936237	13	2.0	13	100	0	52	38	15	15	30	1.88
3938451--3938495	21	2.1	21	84	8	56	53	4	20	22	1.63
3940299--3940328	15	2.0	15	93	0	51	50	13	23	13	1.77

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