genome.fa.s7.2.7.7.80.10.50.1000.26.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   

This is table  26  of  37  ( 4421 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)
4493869--4493915	21	2.3	21	76	23	55	44	4	17	34	1.68
4494036--4494074	13	3.0	13	96	0	69	35	15	17	30	1.91
4494060--4494098	20	2.0	20	94	0	69	51	10	15	23	1.73
4496142--4496172	15	2.1	15	93	0	53	12	22	16	48	1.80
4497976--4498020	21	2.1	21	84	8	56	22	20	4	53	1.63
4500238--4500262	13	1.9	13	100	0	50	32	16	16	36	1.90
4500218--4500281	33	2.0	32	87	3	92	29	14	15	40	1.86
4503063--4503101	17	2.3	17	83	12	53	74	0	2	23	0.94
4503272--4503321	22	2.3	22	89	0	82	38	26	6	30	1.80
4506805--4506855	21	2.5	20	84	9	59	39	9	17	33	1.83
4509354--4509698	80	4.4	80	73	11	257	26	22	13	37	1.91
4509417--4509553	73	1.9	74	80	4	161	26	22	13	37	1.92
4509403--4509699	153	1.9	156	80	8	345	25	22	14	37	1.92
4509494--4509731	80	3.0	81	79	5	254	25	21	13	39	1.90
4510773--4510951	58	3.1	57	78	10	202	45	13	13	27	1.81
4511677--4511735	13	5.1	13	73	26	69	28	13	15	42	1.85
4511677--4511755	32	2.4	33	91	2	124	30	13	16	39	1.88
4511802--4511826	13	1.9	13	100	0	50	32	8	16	44	1.76
4511658--4511850	33	6.0	32	72	17	141	30	15	16	38	1.89
4518328--4518352	13	1.9	13	100	0	50	36	16	16	32	1.90
4518390--4518514	52	2.4	52	95	0	223	36	16	17	28	1.92
4525394--4525462	12	5.6	12	83	6	84	85	13	1	0	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4525394--4525450	26	2.2	25	87	6	87	87	12	0	0	0.54
4525394--4525462	26	3.0	22	76	15	75	85	13	1	0	0.66
4525394--4525450	1	57.0	1	78	0	51	87	12	0	0	0.54
4526677--4526924	32	7.8	32	84	8	233	21	31	15	31	1.95
4526808--4527265	34	13.8	33	80	8	409	20	34	12	32	1.90
4526798--4527265	168	2.8	164	82	10	564	20	33	11	33	1.89
4526804--4527285	105	4.8	104	80	12	424	20	34	11	32	1.89
4526729--4527200	34	14.5	31	77	12	285	20	33	13	32	1.91
4526804--4527285	202	2.4	196	81	11	541	20	34	11	32	1.89
4526807--4527271	139	3.5	133	80	8	382	20	34	12	32	1.89
4527268--4527339	33	2.2	33	94	0	126	25	34	16	23	1.95
4527339--4528032	49	14.8	48	83	9	801	26	24	18	31	1.97
4527428--4527495	22	3.1	22	62	19	52	25	23	19	32	1.97
4527339--4528041	92	7.5	92	90	5	1050	26	24	17	31	1.97
4527942--4528095	52	2.9	53	79	8	177	25	24	15	34	1.95
4528966--4528990	13	1.9	13	100	0	50	36	16	16	32	1.90
4529052--4529111	13	5.1	13	73	22	69	40	15	16	28	1.89
4529054--4529168	33	3.5	33	91	1	178	32	16	16	34	1.91
4529100--4529164	20	3.6	20	73	26	81	27	18	15	38	1.91
4529087--4529144	13	4.9	13	72	23	56	31	17	15	36	1.91
4529133--4529273	52	2.7	53	86	4	198	32	17	18	31	1.94
4533799--4533875	22	3.6	21	85	3	91	38	3	32	24	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4534421--4534472	19	2.7	20	87	3	70	30	17	17	34	1.93
4534518--4534570	13	4.5	13	71	26	55	33	13	16	35	1.88
4537126--4537642	142	3.6	141	85	3	621	36	9	8	45	1.68
4537126--4537642	287	1.8	282	83	3	687	36	9	8	45	1.68
4541062--4541426	159	2.3	159	82	3	441	33	12	24	28	1.92
4541062--4541426	80	4.6	78	81	4	354	33	12	24	28	1.92
4545168--4545209	6	7.0	6	84	10	59	0	19	0	80	0.70
4545159--4545207	24	2.0	24	92	0	80	0	20	0	79	0.73
4545161--4545209	12	4.1	12	86	0	71	0	22	0	77	0.77
4545170--4545201	9	3.6	9	91	0	55	0	18	0	81	0.70
4548062--4548087	13	2.0	13	100	0	52	38	15	15	30	1.88
4550303--4550347	21	2.1	21	84	8	56	53	4	20	22	1.63
4552150--4552180	15	2.1	15	93	0	53	48	16	22	12	1.80
4553873--4553918	21	2.2	20	81	11	58	32	19	4	43	1.71
4555929--4555980	20	2.6	20	81	0	59	53	3	3	38	1.37
4558386--4558419	3	11.3	3	87	0	50	29	2	2	64	1.22
4558728--4558792	18	3.3	19	74	21	55	40	1	0	58	1.07
4558730--4558785	20	2.7	21	83	13	71	41	1	0	57	1.09
4562566--4562619	20	2.7	20	82	8	65	42	7	14	35	1.74
4562675--4562807	52	2.5	52	79	3	151	33	13	9	43	1.75
4573512--4573557	24	1.9	24	91	8	76	54	0	4	41	1.20
4573679--4573720	18	2.3	19	84	15	61	33	2	7	57	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4577662--4577707	20	2.3	20	88	0	65	39	15	19	26	1.91
4577664--4577712	20	2.5	20	86	0	62	38	14	20	26	1.91
4579232--4579257	13	2.0	13	100	0	52	30	15	15	38	1.88
4581375--4581437	13	4.8	13	86	0	90	36	12	14	36	1.84
4581375--4581436	26	2.4	26	100	0	124	35	12	14	37	1.85
4584387--4584412	13	2.0	13	100	0	52	30	15	15	38	1.88
4584451--4584526	21	3.7	21	80	3	100	28	17	11	42	1.84
4584472--4584544	20	3.6	20	81	3	101	31	19	13	35	1.91
4584451--4584544	41	2.3	41	98	0	179	29	18	12	39	1.88
4586985--4587023	13	3.0	13	96	0	69	35	15	17	30	1.91
4587009--4587087	20	3.7	20	75	18	70	45	15	13	25	1.83
4592354--4592379	13	2.0	13	100	0	52	30	15	15	38	1.88
4592418--4592493	21	3.7	21	80	3	100	28	17	11	42	1.84
4592439--4592511	20	3.6	20	81	3	101	31	19	13	35	1.91
4592418--4592511	41	2.3	41	98	0	179	29	18	12	39	1.88
4597604--4597815	32	6.9	31	73	14	147	26	16	26	31	1.96
4597602--4597803	62	3.3	60	86	6	235	25	16	27	31	1.96
4597649--4597815	29	5.6	29	71	16	108	26	14	27	31	1.95
4597800--4597830	16	1.9	16	100	0	62	29	6	25	38	1.81
4597773--4597859	45	1.9	45	92	0	147	28	12	24	34	1.92
4597743--4597888	74	2.0	73	82	6	179	28	14	23	33	1.94
4597977--4598277	32	9.9	32	78	6	152	22	16	29	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4597863--4598328	179	2.6	179	86	4	602	22	16	29	30	1.96
4597923--4598357	211	2.1	206	83	4	554	22	17	30	29	1.96
4598252--4598593	111	3.1	112	77	5	269	24	18	28	29	1.98
4597816--4598666	28	29.1	28	76	9	410	23	16	28	30	1.97
4598527--4598684	32	5.2	31	87	6	193	23	18	28	29	1.98
4603749--4603800	12	4.2	12	78	9	52	3	0	17	78	0.89
4603741--4603793	27	2.0	27	85	7	72	5	1	15	77	1.04
4603768--4603805	16	2.4	16	95	0	67	2	0	13	84	0.73
4603747--4603802	27	2.0	28	86	10	78	5	0	16	78	0.92
4606796--4606865	33	2.1	34	91	2	115	28	14	11	45	1.79
4606816--4606847	13	2.5	13	94	0	55	28	15	9	46	1.77
4606799--4606865	20	3.8	18	72	27	63	28	14	11	44	1.81
4609230--4609351	51	2.4	51	79	6	149	29	25	12	32	1.92
4609329--4609383	28	2.0	28	100	0	110	25	27	14	32	1.95
4609332--4609403	28	2.6	28	88	4	101	26	27	16	29	1.97
4609357--4609607	79	3.2	79	83	3	247	27	22	14	35	1.93
4613507--4613561	28	2.0	28	96	0	101	23	30	16	29	1.96
4613507--4613574	28	2.4	27	88	9	93	25	27	19	27	1.98
4620561--4620632	39	1.9	36	86	8	99	19	20	33	26	1.97
4620837--4620973	33	4.2	33	79	7	127	10	27	11	51	1.70
4621459--4621488	9	3.4	9	90	9	53	10	6	0	83	0.81
4621459--4621498	17	2.2	19	91	8	66	12	5	0	82	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4621457--4621498	9	4.6	9	82	14	50	14	4	0	80	0.86
4624052--4624561	155	3.3	154	80	4	526	41	17	13	28	1.87
4624295--4624677	155	2.5	155	79	4	391	42	16	12	28	1.84
4625248--4625304	29	2.0	29	83	13	73	45	14	0	40	1.44
4625844--4625915	34	2.1	34	100	0	144	48	26	2	22	1.64
4626350--4626413	20	3.5	20	68	27	61	40	17	12	29	1.86
4626351--4626433	33	2.5	34	90	5	134	39	18	9	32	1.83
4627350--4627392	20	2.2	19	84	12	52	18	4	4	72	1.20
4628147--4629137	527	1.9	527	95	0	1797	35	13	20	31	1.91
4631057--4631109	20	2.6	21	88	8	74	32	18	9	39	1.83

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