genome.fa.s61.2.7.7.80.10.50.1000.3.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: Scaffold61
Parameters: 2 7 7 80 10 50 1000
Length:  1437555

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

This is table  3  of  10  ( 1115 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)
288140--288169	8	3.8	8	100	0	60	90	0	0	10	0.47
288140--288219	19	4.3	18	79	9	72	82	8	3	5	0.93
288140--288197	8	6.8	8	83	14	53	86	6	1	5	0.77
288140--288197	16	3.4	16	78	17	62	86	6	1	5	0.77
288139--288204	10	6.4	10	75	22	50	83	9	3	4	0.89
289464--290017	28	19.4	29	84	5	609	29	29	16	24	1.97
289464--290035	84	6.7	84	84	4	673	29	29	17	24	1.97
290929--290999	20	3.5	20	82	0	97	33	12	14	39	1.83
298972--299029	24	2.5	23	78	15	57	41	8	6	43	1.62
303917--303967	10	5.4	9	82	13	59	84	3	7	3	0.86
303920--303975	20	2.8	19	83	5	67	83	3	7	5	0.88
305370--305498	67	1.9	67	81	9	156	18	19	13	48	1.81
305399--305595	100	2.0	100	80	6	220	20	22	13	44	1.86
305535--305692	67	2.4	67	78	8	178	17	22	15	45	1.85
306517--306542	13	2.0	13	100	0	52	30	7	15	46	1.74
308153--308184	3	10.7	3	93	0	55	37	0	34	28	1.57
314481--314532	19	2.7	19	87	3	68	30	19	13	36	1.90
321583--321808	96	2.3	96	85	0	290	36	11	23	28	1.90
326544--326569	13	2.0	13	100	0	52	30	15	15	38	1.88
326608--326683	21	3.7	21	76	3	91	30	17	11	40	1.85
326632--326701	20	3.5	20	80	3	95	31	20	12	35	1.90
326608--326701	41	2.3	41	96	0	170	30	18	12	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329152--329190	13	3.0	13	96	0	69	35	15	17	30	1.91
329176--329254	20	3.7	20	78	15	77	44	15	15	25	1.85
333096--333140	21	2.1	21	84	8	56	22	20	4	53	1.63
335354--335379	13	2.0	13	100	0	52	30	15	15	38	1.88
335418--335493	21	3.7	21	78	3	100	30	18	10	40	1.84
335442--335511	20	3.5	20	80	3	95	31	20	12	35	1.90
335418--335511	41	2.3	41	98	0	179	30	19	11	38	1.87
338306--338331	13	2.0	13	100	0	52	30	15	15	38	1.88
338370--338442	21	3.5	20	79	3	83	30	15	12	42	1.83
338370--338460	41	2.3	40	90	5	141	30	16	13	39	1.87
340903--340941	13	3.0	13	96	0	69	35	15	17	30	1.91
340927--341005	20	3.7	20	75	18	70	45	15	13	25	1.83
343019--343049	15	2.1	15	93	0	53	12	22	16	48	1.80
347111--347136	13	2.0	13	100	0	52	30	15	15	38	1.88
347175--347251	21	3.8	20	79	5	91	29	15	11	42	1.82
347196--347268	20	3.6	20	81	3	101	31	19	13	35	1.91
347175--347268	41	2.3	41	96	0	170	30	17	12	39	1.87
347588--348788	44	27.3	41	69	16	365	41	14	23	20	1.89
347593--348724	132	8.6	131	81	3	1168	41	14	23	20	1.89
347686--348788	88	12.5	88	72	10	618	41	14	23	20	1.89
350241--350289	7	6.9	7	77	13	55	0	12	4	83	0.77
350241--350291	15	3.6	14	82	10	59	0	11	3	84	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
350241--350290	22	2.3	22	86	13	68	0	12	4	84	0.76
363087--363234	57	2.6	57	84	0	188	38	18	18	24	1.93
363333--363374	18	2.3	19	88	12	61	23	0	0	76	0.79
364633--364695	30	2.1	30	100	0	126	36	28	6	28	1.82
372913--372939	13	2.1	13	100	0	54	29	14	14	40	1.86
373047--373096	21	2.4	22	83	9	61	32	20	0	48	1.50
375463--375527	33	2.0	32	88	11	96	32	15	20	32	1.93
375483--375507	13	1.9	13	100	0	50	32	16	20	32	1.94
380680--380727	21	2.3	21	88	0	78	4	20	16	58	1.55
387964--388011	22	2.1	23	84	3	62	60	16	8	14	1.57
388481--388630	75	2.0	73	93	2	255	50	16	10	22	1.75
388837--388875	18	2.2	18	86	9	53	7	15	25	51	1.70
389146--389197	16	3.3	15	74	10	50	5	13	11	69	1.35
389489--389513	5	5.0	5	100	0	50	40	20	20	20	1.92
389380--389543	57	2.7	61	78	13	187	36	20	18	24	1.95
394886--395124	100	2.4	100	76	6	236	27	27	12	33	1.92
398797--398823	13	2.1	13	100	0	54	29	14	14	40	1.86
398807--398863	19	2.9	19	89	2	87	29	15	17	36	1.91
398908--398938	13	2.4	13	94	0	53	35	16	9	38	1.81
398895--398958	33	1.9	33	90	6	103	34	14	15	35	1.88
405224--405264	21	2.0	22	85	9	59	34	26	0	39	1.57
410751--410876	52	2.4	52	97	0	234	26	17	19	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
410751--410896	52	2.8	51	91	4	222	28	17	19	34	1.94
410885--410909	13	1.9	13	100	0	50	36	16	16	32	1.90
410972--411092	13	7.9	13	71	28	80	33	18	13	34	1.89
410951--411113	32	5.1	32	98	0	308	34	17	12	34	1.87
411761--411803	22	2.0	22	95	0	77	27	16	25	30	1.97
411819--411945	67	1.9	68	90	1	202	40	12	23	23	1.89
411895--412141	55	4.9	52	79	9	185	36	16	23	24	1.94
412002--412140	43	3.1	43	81	11	179	33	17	23	24	1.96
411958--412152	49	4.0	49	82	9	231	34	17	23	23	1.96
411958--412140	92	2.0	93	91	3	296	33	18	23	24	1.96
412161--412412	28	8.7	28	79	12	204	17	15	33	32	1.92
412161--412412	58	4.3	55	80	13	256	17	15	33	32	1.92
412173--412412	89	2.7	88	87	4	342	18	15	33	32	1.93
413843--413910	1	68.0	1	73	0	55	2	2	7	86	0.75
413843--413910	21	3.3	19	75	20	66	2	2	7	86	0.75
413834--413910	8	8.9	9	75	12	56	2	2	9	85	0.78
413834--413905	13	5.4	13	77	19	60	2	2	9	84	0.82
413835--413910	27	2.8	26	84	5	89	2	2	9	85	0.79
427752--427877	52	2.4	52	94	0	225	27	17	19	35	1.94
427752--427897	52	2.8	51	89	4	213	29	17	19	34	1.94
429109--429286	97	1.8	97	85	2	250	41	11	19	28	1.86
431431--431568	51	2.7	51	80	2	161	42	12	13	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431623--431676	20	2.7	20	82	8	65	31	18	9	40	1.82
433348--433396	20	2.5	20	93	0	80	46	6	16	30	1.71
433463--433585	52	2.4	52	82	5	142	30	13	11	44	1.79
442264--442330	32	2.1	32	94	0	116	41	2	19	35	1.67
442299--442355	21	2.7	21	77	2	60	38	3	17	40	1.67
442929--442955	13	2.1	13	100	0	54	29	7	14	48	1.71
444575--444618	20	2.2	20	95	0	79	45	4	15	34	1.67
444708--444826	52	2.3	52	89	0	175	29	13	11	45	1.79
448161--448214	23	2.5	21	81	6	63	1	11	27	59	1.42
449109--449133	11	2.3	11	100	0	50	52	16	16	16	1.76
449321--449425	52	2.0	52	94	0	183	40	16	20	21	1.91
450106--450429	42	7.7	42	72	7	203	37	17	26	18	1.93
450106--450408	126	2.4	126	84	2	376	37	18	26	18	1.93
450067--450297	84	2.8	84	81	2	277	38	18	26	16	1.92
450267--450536	84	3.3	82	74	8	235	34	18	27	19	1.95
450478--450556	39	2.0	39	87	4	115	31	17	29	21	1.96
450574--451611	42	24.7	42	70	6	318	38	15	25	20	1.92
450658--451220	126	4.5	125	76	4	391	38	16	25	19	1.92
451004--451375	125	3.0	125	81	2	397	38	14	26	21	1.91
451532--451695	42	3.9	43	80	4	154	35	17	27	19	1.94
451024--451890	84	10.3	82	71	10	321	37	14	25	21	1.92
453234--453266	7	4.7	7	100	0	66	24	0	0	75	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457368--457414	24	2.0	24	95	0	85	31	17	23	27	1.96
465108--465153	23	2.0	23	86	0	65	8	6	26	58	1.52
465408--465476	25	2.7	26	80	12	81	4	8	14	72	1.24
468453--468516	24	2.7	23	83	9	74	4	6	14	75	1.17
468453--468521	25	2.7	26	82	10	90	4	5	15	73	1.18
468962--469054	20	4.6	20	79	2	96	37	15	18	29	1.91
469000--469072	21	3.7	20	77	12	80	41	12	17	28	1.86
468982--469072	41	2.3	39	92	5	148	38	13	18	29	1.89
469111--469136	13	2.0	13	100	0	52	38	15	15	30	1.88
472870--472894	13	1.9	13	100	0	50	36	16	16	32	1.90

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