genome.fa.s60.2.7.7.80.10.50.1000.20.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: Scaffold60
Parameters: 2 7 7 80 10 50 1000
Length:  3815296

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  20  of  21  ( 2419 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)
3629257--3629293	19	1.9	19	88	0	56	45	0	5	48	1.25
3629516--3629569	19	2.9	18	79	15	65	57	1	0	40	1.09
3629845--3629902	19	3.0	19	90	7	82	41	0	0	58	0.98
3631052--3631081	10	3.0	10	95	0	51	50	6	0	43	1.28
3631374--3631398	2	12.5	2	100	0	50	48	0	0	52	1.00
3632111--3632135	2	12.5	2	100	0	50	48	0	0	52	1.00
3632439--3632474	4	8.8	4	87	6	54	27	2	0	69	1.02
3635016--3635050	2	17.5	2	100	0	70	51	0	0	48	1.00
3638524--3638567	15	2.9	15	82	0	52	50	2	0	47	1.13
3648402--3648435	17	2.0	17	100	0	68	23	35	23	17	1.95
3653253--3653301	3	16.0	3	91	4	80	65	2	2	30	1.15
3655543--3655658	30	3.9	29	82	5	142	31	15	22	31	1.95
3655537--3655658	60	2.0	60	85	3	165	31	14	22	31	1.94
3655829--3655892	31	2.0	33	84	6	87	18	15	10	54	1.70
3660447--3660509	30	2.1	30	90	0	99	30	11	25	33	1.90
3668727--3668763	2	18.5	2	94	0	65	48	2	48	0	1.15
3669655--3669705	27	1.9	27	92	4	86	31	1	11	54	1.47
3670775--3670805	3	10.3	3	100	0	62	67	0	0	32	0.91
3670898--3670927	2	15.0	2	100	0	60	50	0	0	50	1.00
3675477--3675522	3	15.3	3	100	0	92	32	0	0	67	0.91
3678918--3678948	2	15.5	2	100	0	62	51	0	0	48	1.00
3679537--3679574	2	19.0	2	94	0	67	50	0	2	47	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3682472--3682503	9	3.6	9	100	0	64	90	0	9	0	0.45
3683049--3683079	2	15.5	2	93	0	53	0	48	0	51	1.00
3685069--3685271	34	6.0	34	95	0	352	40	36	0	22	1.54
3685160--3685261	25	4.4	25	65	28	80	41	38	0	20	1.53
3688218--3688243	13	2.0	13	100	0	52	30	15	15	38	1.88
3688197--3688261	32	2.0	33	90	3	105	32	13	16	36	1.89
3695955--3696399	222	2.0	222	97	0	845	31	25	20	22	1.98
3702453--3702518	9	7.4	9	81	8	66	86	12	1	0	0.64
3702453--3702518	11	5.6	11	77	12	60	86	12	1	0	0.64
3702453--3702518	25	2.6	24	88	7	87	86	12	1	0	0.64
3702463--3702509	20	2.4	20	92	3	78	89	10	0	0	0.49
3702456--3702509	16	3.4	16	87	10	76	87	11	1	0	0.63
3702453--3702506	1	54.0	1	77	0	54	88	9	1	0	0.58
3702464--3702518	17	3.3	16	82	7	65	87	12	0	0	0.55
3703957--3704015	29	2.0	29	100	0	118	28	27	16	27	1.97
3704030--3704117	30	3.0	30	79	3	97	26	32	17	23	1.96
3704030--3704110	29	2.8	29	80	1	81	28	33	18	19	1.96
3704095--3704169	35	2.2	35	85	2	107	21	32	10	36	1.88
3704095--3704186	35	2.7	35	81	5	98	19	30	13	36	1.90
3704160--3704311	28	5.3	28	82	5	164	38	28	14	18	1.90
3704331--3704669	49	7.0	48	77	12	311	26	23	16	33	1.95
3704380--3704556	43	4.0	44	83	8	232	26	25	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3704331--3704613	92	3.0	92	91	2	431	26	23	16	33	1.96
3704514--3704664	55	2.8	54	82	5	173	27	23	14	35	1.93
3705272--3705338	32	2.0	34	85	5	93	37	10	11	40	1.77
3710611--3710779	34	5.0	34	92	0	257	40	34	0	24	1.55
3714016--3714050	3	11.7	3	87	0	52	68	0	28	2	1.04
3725719--3725848	21	6.2	21	84	5	138	18	38	13	29	1.89
3725718--3725884	42	4.0	42	79	6	151	20	37	13	28	1.91
3725742--3725884	63	2.3	62	81	2	169	20	37	13	28	1.91
3725931--3726301	21	17.7	21	77	4	126	27	42	9	21	1.83
3725982--3726146	63	2.6	64	77	7	153	28	42	9	20	1.82
3726044--3726289	84	2.9	85	80	3	214	26	43	8	21	1.81
3726066--3726272	42	4.9	42	84	4	213	26	43	8	21	1.80
3725928--3726289	42	8.6	42	78	6	175	27	42	8	21	1.82
3726264--3726321	21	2.8	21	83	0	80	31	34	8	25	1.86
3726254--3726347	42	2.2	41	76	9	100	30	35	12	21	1.91
3731461--3731495	2	17.5	2	87	0	52	2	42	0	54	1.15
3733477--3733507	2	15.5	2	100	0	62	0	48	0	51	1.00
3734144--3734171	2	14.0	2	100	0	56	0	50	0	50	1.00
3741086--3741134	18	2.9	17	85	8	64	77	0	14	8	0.98
3743297--3743331	6	5.8	6	86	0	52	62	20	0	17	1.32
3744170--3744195	2	13.0	2	100	0	52	50	0	0	50	1.00
3745074--3745104	4	7.8	4	92	0	53	70	0	3	25	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3745432--3745460	2	14.5	2	100	0	58	51	0	0	48	1.00
3746768--3746800	3	11.0	3	100	0	66	33	0	0	66	0.92
3747109--3747166	30	1.9	30	96	0	107	56	6	15	20	1.62
3747462--3747492	3	10.3	3	92	0	53	64	0	0	35	0.94
3747501--3747539	3	13.0	3	94	0	69	33	0	2	64	1.08
3747786--3747813	2	14.0	2	100	0	56	50	0	0	50	1.00
3749790--3749863	27	2.7	27	80	0	94	47	20	5	27	1.72
3751734--3751775	21	2.0	21	85	0	57	19	28	21	30	1.97
3754439--3754484	13	3.6	13	80	11	51	39	6	39	15	1.73
3753983--3754597	307	2.0	307	96	0	1142	39	19	17	23	1.92
3754563--3754636	27	2.7	27	89	0	112	47	22	6	22	1.75
3755764--3755951	50	3.8	50	90	0	268	30	15	23	30	1.95
3760202--3760334	50	2.7	50	91	0	221	30	15	25	28	1.96
3770578--3770610	2	16.5	2	100	0	66	51	0	0	48	1.00
3770797--3770824	13	2.2	13	100	0	56	53	0	0	46	1.00
3771807--3771847	2	20.5	2	100	0	82	48	0	0	51	1.00
3775389--3775419	2	15.5	2	100	0	62	48	0	51	0	1.00
3775624--3775658	2	17.5	2	100	0	70	51	0	0	48	1.00
3784962--3784990	2	14.5	2	100	0	58	48	0	0	51	1.00
3789444--3789506	28	2.2	28	94	0	108	19	3	19	58	1.52
3789480--3789539	24	2.4	26	80	5	70	26	3	21	48	1.66
3789618--3789659	13	3.3	13	93	3	68	21	38	7	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3789604--3789676	26	2.8	26	72	10	78	17	36	6	38	1.77
3794054--3794108	28	2.0	28	96	0	101	20	10	20	49	1.78
3794452--3794478	12	2.2	12	100	0	54	33	0	48	18	1.49
3796032--3796058	2	13.5	2	100	0	54	0	0	48	51	1.00
3796563--3796598	2	18.0	2	100	0	72	50	0	0	50	1.00
3797112--3797142	16	1.9	16	93	0	53	22	32	19	25	1.97
3797374--3797431	20	2.9	21	79	7	66	56	3	1	37	1.26
3798744--3798814	4	17.8	4	76	5	63	1	21	0	77	0.85
3798742--3798817	13	5.4	14	78	13	77	1	21	0	77	0.84
3798742--3798814	20	3.6	19	85	10	85	1	20	0	78	0.83
3799680--3799719	20	2.0	20	100	0	80	20	10	25	45	1.81
3805350--3805382	3	11.0	3	93	0	57	30	0	3	66	1.06
3807892--3808146	7	36.4	7	76	6	194	9	1	50	38	1.41
3808148--3810651	15	158.8	15	70	21	918	37	39	16	7	1.76
3808268--3810050	31	55.7	31	69	25	256	38	39	15	7	1.75
3808148--3810671	7	320.1	7	71	23	1226	37	39	16	7	1.76
3809305--3809580	82	3.3	80	77	15	190	40	37	15	6	1.73
3809798--3810054	23	10.9	24	71	24	85	38	38	14	8	1.76
3810030--3810087	17	3.6	17	76	17	54	34	43	12	10	1.76
3810161--3810229	26	2.6	27	84	11	81	40	34	17	7	1.77
3810451--3810545	38	2.4	39	81	11	106	36	42	18	2	1.63
3810555--3810669	16	7.0	17	75	14	75	33	40	20	5	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3810594--3810671	24	3.2	24	77	16	72	37	38	17	6	1.76
3810984--3811067	14	5.5	15	76	18	77	36	41	16	4	1.70
3811031--3811067	7	5.3	7	93	0	65	37	48	13	0	1.43
3811291--3811363	8	9.7	7	80	12	74	39	38	19	2	1.66
3811292--3811365	30	2.4	31	86	6	98	37	37	21	2	1.68
3811452--3811534	8	10.4	7	74	23	51	37	42	18	2	1.63
3811452--3811516	17	4.1	15	75	14	58	38	40	18	3	1.66
3811777--3811899	8	15.0	8	71	21	62	41	49	8	0	1.38
3812061--3812150	9	11.1	7	74	24	63	37	50	6	5	1.52
3812061--3812148	16	5.4	15	75	20	63	37	50	6	5	1.53

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21