genome.fa.s12.2.7.7.80.10.50.1000.3.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: Scaffold12
Parameters: 2 7 7 80 10 50 1000
Length:  2382857

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1413 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)
335065--335117	20	2.7	20	88	5	72	28	20	16	33	1.95
342534--342585	21	2.6	20	93	6	88	46	15	11	26	1.80
344785--344834	21	2.3	21	80	10	57	56	4	18	22	1.58
348746--348784	13	3.0	13	92	0	69	35	17	15	30	1.91
348900--348939	22	2.0	20	85	14	55	25	20	5	50	1.68
351315--351340	13	2.0	13	100	0	52	38	15	15	30	1.88
351297--351361	34	2.0	33	90	6	105	46	15	10	27	1.79
356438--356493	23	2.4	23	78	0	67	78	12	5	3	1.05
357742--358455	28	25.1	28	85	4	697	31	28	16	23	1.96
359373--359423	20	2.5	20	83	0	66	33	11	15	39	1.84
365479--367315	27	67.4	27	80	4	1083	24	32	14	28	1.94
365476--367534	54	37.8	55	80	4	1883	24	32	14	29	1.94
365479--367534	55	37.8	54	82	3	2156	24	32	14	29	1.94
365479--367534	518	4.0	518	87	2	2556	24	32	14	29	1.94
365483--367523	82	25.0	82	82	4	2090	24	32	14	29	1.94
367369--367424	27	2.0	28	86	3	78	32	25	10	32	1.90
367382--367534	27	5.6	27	74	12	107	26	30	13	30	1.93
367559--367716	32	5.0	32	87	1	203	31	29	18	20	1.96
367432--368091	28	22.7	29	81	7	541	28	30	16	24	1.96
367554--368109	144	3.8	146	81	7	594	29	30	16	23	1.96
367456--368101	173	3.7	173	78	10	594	28	30	16	23	1.97
368217--368332	48	2.4	48	92	0	205	18	29	17	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372318--372372	13	4.5	13	80	13	62	21	0	3	74	0.97
372318--372363	11	3.9	11	85	8	56	23	0	2	73	0.94
372330--372378	11	4.0	12	81	10	55	20	0	4	75	0.96
372326--372380	22	2.5	22	80	14	60	20	0	5	74	1.01
372862--373593	42	17.4	42	78	7	603	35	17	29	17	1.92
372868--373593	85	8.6	84	77	7	616	36	16	30	17	1.92
372862--373593	127	5.8	126	76	7	563	35	17	29	17	1.92
375363--375388	13	2.0	13	100	0	52	30	15	15	38	1.88
375342--375406	32	2.0	33	93	6	114	27	12	15	44	1.82
375342--375406	19	3.6	19	73	26	70	27	12	15	44	1.82
377459--377501	20	2.1	20	82	4	50	9	27	44	18	1.80
377932--377969	13	2.9	13	96	0	67	31	15	18	34	1.92
380050--380080	15	2.1	15	93	0	53	12	22	16	48	1.80
381883--381927	21	2.1	21	84	8	56	22	20	4	53	1.63
385208--385233	13	2.0	13	100	0	52	30	15	15	38	1.88
385187--385251	32	2.0	33	93	6	114	27	12	15	44	1.82
385187--385251	19	3.6	19	73	26	70	27	12	15	44	1.82
387716--387762	23	2.0	23	100	0	94	29	25	10	34	1.90
392858--392902	22	2.0	23	82	4	56	44	2	20	33	1.63
398349--398389	21	2.0	21	90	0	64	14	21	41	21	1.89
398378--398423	22	2.1	22	84	4	58	13	13	43	30	1.81
398479--398564	31	2.8	31	83	1	102	17	10	40	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401362--401413	20	2.6	20	90	0	77	38	13	9	38	1.77
405209--405283	20	3.8	19	85	7	96	42	12	16	29	1.83
405322--405347	13	2.0	13	100	0	52	38	15	15	30	1.88
406649--406746	31	3.2	31	85	0	124	21	13	36	28	1.91
406849--406924	31	2.5	31	86	0	116	15	15	42	26	1.87
407162--407198	17	2.1	18	90	5	58	8	24	10	56	1.60
407159--407372	45	4.8	45	87	1	295	8	24	13	53	1.67
407833--407868	16	2.2	17	90	5	56	33	0	0	66	0.92
408387--408926	42	12.8	42	72	10	264	35	17	29	17	1.93
408471--408577	43	2.5	43	81	3	126	36	22	28	13	1.91
408388--408634	127	2.0	126	81	8	297	36	19	29	14	1.92
408378--408659	127	2.2	128	77	9	285	36	18	29	15	1.91
408391--408926	211	2.5	211	78	7	525	34	17	29	17	1.93
408665--408935	128	2.1	126	80	5	287	34	15	30	19	1.93
408996--409172	43	4.1	42	79	9	196	31	19	29	19	1.96
411165--411190	13	2.0	13	100	0	52	30	15	15	38	1.88
415281--415361	1	81.0	1	77	0	81	88	11	0	0	0.50
415277--415359	14	6.2	13	86	10	107	87	12	0	0	0.53
415277--415358	26	3.1	26	89	10	123	87	12	0	0	0.53
415277--415361	31	2.9	30	85	14	117	88	11	0	0	0.52
415277--415359	40	2.1	40	91	8	134	87	12	0	0	0.53
416640--417615	30	31.1	32	80	9	756	22	29	14	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
416640--417614	62	15.5	62	77	10	744	22	29	14	33	1.93
416684--417425	32	23.5	33	82	7	222	22	29	14	33	1.93
417430--417767	34	10.8	33	77	12	222	20	31	13	34	1.91
416633--417672	157	6.6	155	78	10	656	22	29	13	34	1.93
417586--417922	34	10.7	32	72	13	161	21	32	12	33	1.90
417464--417922	61	7.3	61	73	14	237	21	32	12	33	1.90
416633--417672	191	5.5	190	80	9	836	22	29	13	34	1.93
417647--417795	27	5.2	27	78	13	156	20	34	12	32	1.90
417615--417795	88	2.0	89	89	1	274	20	33	12	33	1.90
417916--417995	32	2.5	30	76	11	88	27	33	18	20	1.96
417928--417993	32	2.0	32	91	2	105	28	31	18	21	1.96
418045--418588	49	11.3	49	78	7	533	24	26	18	30	1.97
418045--418552	92	5.3	97	87	3	631	25	26	18	30	1.98
419373--419429	19	3.3	18	70	27	52	35	10	17	36	1.84
419392--419416	13	1.9	13	100	0	50	36	16	16	32	1.90
419373--419448	32	2.4	32	88	0	107	36	11	15	35	1.85
419487--419512	13	2.0	13	100	0	52	30	15	15	38	1.88
420428--420465	20	1.9	20	88	0	58	26	15	10	47	1.78
426748--426773	13	2.0	13	100	0	52	38	15	15	30	1.88
427207--427273	37	1.9	35	88	11	102	32	11	25	29	1.92
431803--431828	13	2.0	13	100	0	52	38	15	15	30	1.88
431785--431848	32	2.0	33	90	3	103	42	15	14	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432262--432328	37	1.9	35	88	11	102	32	11	25	29	1.92
440245--440276	3	10.7	3	100	0	64	31	0	0	68	0.90
441297--441365	31	2.2	31	76	5	77	20	17	36	26	1.94
441389--441477	40	2.2	40	84	4	117	10	19	42	28	1.83
441444--441539	31	3.1	30	83	7	88	15	16	40	27	1.89
441466--441543	31	2.5	31	91	0	120	17	14	42	25	1.87
441777--441817	17	2.4	18	88	8	59	7	24	9	58	1.55
441795--441895	45	2.2	45	96	0	184	5	23	15	54	1.63
445397--445436	20	2.0	20	95	0	71	42	10	17	30	1.82
446392--447555	56	20.9	56	81	8	745	25	16	32	26	1.96
446313--446959	28	22.3	28	81	8	608	24	17	30	28	1.97
446941--446976	17	2.1	17	94	0	63	22	5	44	27	1.75
446913--447004	45	2.0	45	93	0	157	21	13	39	26	1.90
446997--447654	27	24.1	27	87	2	897	27	14	33	24	1.94
446997--447654	137	4.8	136	89	2	946	27	14	33	24	1.94
446997--447666	110	6.1	109	85	5	881	27	14	33	24	1.94
448624--448662	20	2.0	20	89	0	60	20	25	10	43	1.83
458909--458968	30	2.0	30	90	0	93	20	35	6	38	1.79
461538--461565	13	2.2	13	100	0	56	28	14	17	39	1.89
461520--461583	33	1.9	33	87	12	96	31	14	12	42	1.82
464967--465076	50	2.2	50	83	3	141	27	23	15	33	1.95
467548--467703	84	1.9	84	89	2	242	29	22	14	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467583--468179	79	7.5	79	76	7	458	27	23	14	35	1.93
467622--468179	158	3.5	157	76	4	519	27	23	13	34	1.93
470204--470233	4	7.5	4	100	0	60	23	0	0	76	0.78
479499--479545	9	5.2	9	87	7	60	87	4	8	0	0.67
480548--480665	39	3.0	37	83	9	137	23	27	12	35	1.92
480626--481065	61	7.1	61	85	3	522	25	26	18	29	1.98
480474--480724	139	1.8	139	89	1	396	23	28	15	32	1.95
480625--481063	183	2.3	184	86	4	585	25	26	18	29	1.98
481426--481536	50	2.2	50	91	0	177	27	18	15	39	1.90
483488--483513	13	2.0	13	100	0	52	38	15	15	30	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12