genome.fa.s196.2.7.7.80.10.50.1000.25.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   

This is table  25  of  47  ( 5587 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)
3877091--3877137	24	2.0	24	87	8	69	85	6	4	4	0.84
3877079--3877138	18	3.3	18	79	9	59	81	6	8	3	0.96
3877087--3877137	9	6.1	8	80	11	50	84	7	3	3	0.86
3878572--3878750	57	3.2	55	81	10	211	31	30	18	18	1.96
3878569--3878750	85	2.2	85	86	6	255	31	30	18	19	1.96
3878566--3878750	28	6.6	28	78	10	209	31	30	18	19	1.96
3878767--3879100	49	6.8	49	79	8	340	25	25	17	32	1.97
3878813--3879153	101	3.4	101	88	2	463	24	24	17	33	1.96
3878865--3879179	52	6.2	51	75	10	216	25	24	16	33	1.96
3879867--3879891	13	1.9	13	100	0	50	32	16	16	36	1.90
3879847--3879984	33	4.0	33	68	18	93	34	17	13	34	1.89
3879808--3879963	72	2.2	72	96	0	285	35	19	14	30	1.92
3880897--3880971	20	3.8	19	78	7	87	41	12	13	33	1.81
3880894--3880971	40	2.0	39	89	2	120	41	12	12	33	1.82
3881583--3881849	28	9.3	28	84	4	300	22	17	31	28	1.96
3881542--3881858	28	10.9	28	80	8	278	23	18	30	27	1.98
3881859--3885448	28	128.5	28	77	8	2652	24	17	30	28	1.97
3881787--3881930	72	2.0	72	91	0	234	23	17	31	27	1.97
3881859--3885445	111	31.6	114	76	12	2776	24	17	29	28	1.97
3886677--3886719	22	2.0	22	90	4	70	0	4	9	86	0.71
3886676--3886717	15	2.7	15	86	13	59	0	4	9	85	0.72
3886677--3886719	11	4.0	11	82	14	54	0	4	9	86	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3888953--3888982	15	1.9	16	93	6	53	26	33	30	10	1.89
3899787--3899837	22	2.3	22	100	0	102	58	9	11	19	1.60
3900747--3900821	20	3.8	19	78	7	87	41	12	13	33	1.81
3900744--3900821	40	2.0	39	89	2	120	41	12	12	33	1.82
3901432--3902578	28	40.6	28	83	3	1347	22	18	31	27	1.97
3908368--3910159	28	63.5	28	84	3	2216	22	18	31	27	1.97
3908368--3910153	512	3.5	509	90	3	2590	22	18	31	27	1.97
3913444--3913513	25	2.8	25	75	16	72	2	8	35	52	1.47
3914010--3914142	36	3.8	36	87	2	189	14	24	10	50	1.74
3914280--3914319	16	2.6	15	88	4	53	12	2	2	82	0.87
3914279--3914313	13	2.6	14	86	4	54	11	5	0	82	0.82
3918238--3918262	3	8.3	3	100	0	50	36	0	0	64	0.94
3918253--3918287	16	2.1	17	89	5	54	51	0	0	48	1.00
3924748--3924803	27	2.0	27	86	10	76	37	16	25	21	1.93
3924572--3924800	79	2.9	78	83	3	300	37	10	22	30	1.87
3924554--3924812	79	3.3	78	79	7	274	37	11	22	28	1.88
3924812--3924908	51	1.9	51	85	4	133	43	5	18	32	1.72
3926475--3926499	13	1.9	13	100	0	50	36	16	16	32	1.90
3926550--3926613	20	3.5	20	72	27	79	31	17	18	32	1.94
3926551--3926648	33	3.0	33	90	0	151	34	14	17	33	1.90
3926571--3926595	13	1.9	13	100	0	50	36	16	16	32	1.90
3928860--3928885	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)
3928924--3929011	20	4.8	20	76	21	93	27	14	15	42	1.87
3928942--3929023	33	2.5	33	95	0	146	29	14	14	41	1.86
3928961--3929023	13	5.3	13	71	21	66	30	14	14	41	1.85
3931232--3931408	51	3.5	50	80	6	189	28	26	10	33	1.90
3931345--3931642	79	3.8	79	87	4	408	27	26	14	31	1.95
3931578--3931742	51	3.2	51	85	1	222	28	26	13	31	1.94
3931578--3931765	104	1.8	102	83	4	252	28	27	13	31	1.94
3939057--3939113	19	2.9	19	84	2	69	29	15	15	38	1.89
3939143--3939207	33	2.0	33	84	0	85	35	15	16	32	1.91
3941011--3941065	20	2.6	21	82	8	67	34	14	12	38	1.84
3944889--3945071	54	3.3	54	65	15	147	32	13	18	35	1.90
3945037--3945088	20	2.5	21	81	15	63	32	13	19	34	1.90
3944890--3945130	113	2.1	113	98	0	464	29	13	19	36	1.90
3949676--3949975	158	1.9	157	82	4	372	25	15	18	41	1.89
3950885--3950955	19	3.7	19	92	1	106	32	16	12	38	1.87
3957222--3957261	20	2.0	20	85	14	55	32	22	0	45	1.53
3958944--3959030	31	2.9	28	79	15	95	42	8	18	31	1.79
3959567--3959623	19	2.9	19	84	2	78	33	17	14	35	1.90
3962003--3962429	51	8.4	51	82	3	320	33	11	25	29	1.91
3961824--3962122	130	2.3	129	77	6	309	33	13	25	27	1.93
3962003--3962429	102	4.2	102	82	1	444	33	11	25	29	1.91
3962014--3962439	153	2.8	151	78	4	433	35	11	24	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3964848--3964905	13	4.0	13	74	23	53	34	15	15	34	1.89
3968294--3968620	111	2.9	109	81	6	325	36	14	12	36	1.84
3969525--3969824	119	2.5	120	82	4	338	21	15	18	45	1.85
3969506--3969824	60	5.3	59	82	3	343	20	15	18	45	1.85
3970068--3970199	40	3.3	40	75	2	131	21	23	7	46	1.77
3971521--3971556	6	6.2	6	87	6	56	27	2	0	69	1.02
3972475--3972527	16	3.3	16	79	10	63	28	7	15	49	1.71
3985936--3986047	51	2.2	51	96	0	215	38	7	27	26	1.82
3986566--3986603	13	2.7	15	84	12	53	23	15	18	42	1.89
3986588--3986625	19	2.0	19	100	0	76	31	15	10	42	1.81
3986591--3986728	20	6.8	19	72	11	89	33	18	15	32	1.92
3986692--3986763	33	2.2	33	87	5	101	36	13	16	33	1.89
3988207--3988404	49	4.2	48	74	16	146	40	12	14	32	1.83
3988443--3988682	59	4.1	58	82	3	268	48	14	10	27	1.75
3988524--3988617	29	3.2	29	70	16	86	47	15	9	26	1.76
3989309--3989343	8	4.2	8	88	3	52	0	14	0	85	0.59
3995036--3995089	20	2.7	20	85	2	72	38	11	16	33	1.84
3995147--3995193	19	2.4	20	89	3	78	29	17	10	42	1.82
3998927--3998977	20	2.5	20	90	0	75	41	13	11	33	1.81
3999035--3999059	13	1.9	13	100	0	50	32	16	16	36	1.90
3999785--4000456	52	12.8	52	69	15	201	36	16	22	25	1.94
3999841--4000070	49	4.6	49	76	6	165	34	17	23	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3999889--4000184	150	2.0	150	84	2	389	34	16	22	26	1.95
4000248--4000367	61	2.0	62	86	1	170	40	11	23	24	1.87
4000505--4000589	32	2.7	32	94	0	143	27	14	27	31	1.94
4000767--4000837	28	2.6	28	86	6	92	26	21	26	25	1.99
4002187--4002233	12	3.7	12	81	13	58	0	0	12	87	0.55
4002189--4002231	17	2.6	17	88	3	70	0	0	11	88	0.52
4002189--4002233	22	2.0	22	91	8	74	0	0	13	86	0.57
4007121--4007178	27	2.1	27	81	6	64	31	12	25	31	1.92
4011715--4011983	148	1.8	148	82	1	342	40	21	15	22	1.90
4013619--4014165	167	3.3	166	80	8	549	48	8	10	32	1.66
4019123--4019809	167	4.1	165	80	8	718	29	8	8	52	1.62
4020369--4020410	13	3.3	13	90	3	59	71	0	28	0	0.86
4022984--4023023	2	20.0	2	100	0	80	50	0	0	50	1.00
4023584--4023622	7	5.6	7	87	0	51	30	10	2	56	1.46
4027255--4027315	23	2.7	23	90	5	90	47	6	0	45	1.28
4027497--4027758	127	2.0	130	93	3	449	48	14	2	35	1.57
4028004--4028289	153	1.9	153	89	5	454	51	18	10	19	1.74
4030809--4030854	23	2.0	23	95	0	83	28	8	8	54	1.61
4030881--4031363	236	2.0	239	93	2	841	49	2	7	40	1.45
4030881--4031418	235	2.3	235	89	4	782	48	2	6	41	1.43
4032235--4032268	16	2.1	16	88	0	50	35	2	8	52	1.47
4035140--4035191	13	4.5	13	73	26	62	36	17	13	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4035140--4035208	33	2.1	33	89	5	104	37	17	11	33	1.86
4035257--4035283	13	2.1	13	100	0	54	40	14	14	29	1.86
4035238--4035302	32	2.0	33	90	3	105	40	13	16	29	1.88
4037811--4037837	13	2.1	13	100	0	54	40	14	14	29	1.86
4038165--4038526	27	11.9	32	74	13	220	21	32	14	32	1.93
4038164--4038370	94	2.2	92	90	1	315	19	33	13	32	1.91
4038292--4038558	88	3.0	88	81	5	283	22	32	14	30	1.94
4038508--4038599	29	3.2	29	83	9	109	32	34	16	16	1.91
4038526--4038609	28	2.9	30	79	16	97	32	30	17	19	1.95
4038628--4038918	87	3.3	87	90	3	442	26	24	19	29	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