genome.fa.s6.2.7.7.80.10.50.1000.5.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: Scaffold6
Parameters: 2 7 7 80 10 50 1000
Length:  1308201

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

This is table  5  of  11  ( 1316 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)
361854--361878	13	1.9	13	100	0	50	44	0	0	56	0.99
361864--361911	25	1.9	25	87	8	71	47	2	0	50	1.12
362220--362280	29	2.1	30	84	9	81	57	0	0	42	0.98
362554--362616	28	2.3	26	81	10	63	55	1	1	41	1.19
362690--362754	26	2.4	26	78	12	69	38	0	0	61	0.96
362709--362795	28	3.2	29	80	13	87	37	1	0	60	1.04
362686--362795	57	2.0	54	81	13	127	38	0	0	60	1.03
362684--362767	20	4.4	20	69	24	65	39	0	0	60	0.97
370469--370509	20	2.0	22	85	9	59	39	0	0	60	0.96
370495--370549	28	2.0	27	86	10	76	56	0	0	43	0.99
370502--370571	27	2.5	29	79	11	74	62	0	0	37	0.95
370580--370609	13	2.2	14	94	5	53	53	0	0	46	1.00
370683--370749	17	3.9	17	76	7	55	49	0	0	50	1.00
370690--370790	33	2.9	35	80	11	93	43	0	0	56	0.99
370979--371010	3	10.7	3	100	0	64	31	0	0	68	0.90
371246--371351	20	5.4	18	73	16	86	41	1	4	51	1.33
371256--371351	38	2.4	39	86	11	126	44	1	4	50	1.28
371290--371352	18	3.4	18	77	10	74	44	0	3	52	1.17
371607--371645	19	2.1	18	85	9	51	61	0	2	35	1.10
372008--372059	27	1.9	27	84	7	70	42	0	0	57	0.98
372025--372071	14	3.0	15	75	22	51	44	0	0	55	0.99
372099--372133	16	2.2	16	94	0	61	34	0	2	62	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372408--372452	11	4.0	11	78	16	56	64	0	0	35	0.94
372443--372490	16	3.1	16	77	20	57	45	0	0	54	0.99
373718--373807	32	2.8	32	82	1	117	43	27	14	14	1.84
373718--373811	16	5.8	16	75	1	80	43	27	14	13	1.84
373717--373811	48	2.0	49	82	2	120	43	27	14	14	1.85
376734--376784	22	2.3	23	82	3	59	54	5	1	37	1.36
377310--377343	15	2.1	17	89	10	54	0	17	0	82	0.67
378326--378672	32	10.8	32	92	1	552	16	19	32	31	1.94
378658--379449	27	28.9	27	90	2	1172	29	14	33	23	1.93
378658--379449	55	14.5	54	90	2	1172	29	14	33	23	1.93
378658--379449	82	9.6	81	91	2	1190	29	14	33	23	1.93
380501--380530	15	2.0	15	100	0	60	0	0	13	86	0.57
386701--386751	22	2.3	23	82	3	59	54	5	1	37	1.36
387277--387310	15	2.1	17	89	10	54	0	17	0	82	0.67
388365--388407	17	2.6	17	81	3	52	69	0	0	30	0.88
389534--389598	33	2.0	34	87	6	98	52	4	0	43	1.22
389549--389598	18	3.1	16	72	27	52	56	2	0	42	1.11
390477--390519	20	2.2	20	91	0	68	44	6	6	41	1.58
390584--390636	28	1.9	27	84	3	70	64	1	1	32	1.15
390761--390808	24	2.0	24	100	0	96	50	8	4	37	1.52
391477--391526	19	2.6	19	70	0	55	56	0	6	38	1.24
392954--392996	14	2.9	15	79	6	52	48	0	2	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393167--393216	21	2.3	22	83	10	68	42	0	0	58	0.98
395723--395762	19	2.2	18	86	4	53	52	2	2	42	1.28
395745--395771	14	1.9	14	100	0	54	55	0	0	44	0.99
395909--395978	23	3.1	23	74	13	65	58	0	0	41	0.98
395962--396004	22	2.0	21	82	13	52	53	2	2	41	1.26
399523--399565	16	2.5	17	81	11	52	30	2	0	67	1.03
399592--399626	14	2.6	14	90	4	54	71	0	0	28	0.86
401084--401188	55	1.9	56	81	11	128	53	0	0	46	1.00
401448--401509	14	4.7	14	77	18	62	56	0	0	43	0.99
402384--402425	17	2.5	17	81	14	52	57	4	0	38	1.20
402880--402918	17	2.3	17	90	0	60	66	0	0	33	0.92
407440--407492	27	1.9	28	82	17	67	56	0	0	43	0.99
407652--407710	21	2.8	21	84	5	66	55	0	1	42	1.09
407655--407747	42	2.1	43	82	13	109	49	0	3	47	1.17
407840--407895	27	2.1	26	83	3	67	26	3	1	67	1.16
408863--408919	20	2.7	21	81	13	73	40	0	0	59	0.97
409702--409736	3	11.7	3	93	0	61	31	2	0	65	1.07
410330--410412	22	3.7	22	79	6	78	49	15	1	33	1.53
411652--411690	17	2.3	17	86	0	51	74	0	0	25	0.82
411649--411701	19	2.7	19	80	14	63	71	0	0	28	0.86
412126--412164	14	2.7	15	92	8	71	41	12	0	46	1.42
412392--412430	19	2.0	21	90	10	64	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412526--412551	7	3.7	7	100	0	52	53	0	0	46	1.00
412666--412692	2	13.5	2	100	0	54	48	0	0	51	1.00
414640--414674	17	2.1	17	100	0	70	34	14	17	34	1.90
418514--418556	23	1.9	22	85	4	59	58	0	0	41	0.98
420605--420679	34	2.1	35	88	9	109	62	0	0	37	0.95
420594--420688	30	3.0	32	77	18	92	61	0	0	38	0.96
420634--420701	20	3.2	21	76	11	68	66	0	0	33	0.92
420680--420713	13	2.8	12	86	8	50	64	0	2	32	1.08
420672--420714	19	2.3	19	83	0	50	67	0	2	30	1.03
420900--420946	18	2.7	18	71	15	53	44	0	0	55	0.99
420893--421039	47	3.1	48	79	12	160	38	0	2	59	1.14
420959--421054	47	2.0	48	89	4	149	36	0	3	60	1.13
420997--421392	144	2.8	141	77	9	383	32	1	8	57	1.37
421001--421392	71	5.5	71	78	8	318	32	1	8	57	1.37
421651--421740	36	2.5	35	79	15	105	44	0	0	55	0.99
421658--421754	38	2.4	38	80	17	101	41	0	1	57	1.05
422145--422245	50	2.0	50	100	0	202	40	11	5	41	1.66
424082--424138	16	3.5	16	87	2	69	42	17	17	22	1.89
424923--424976	26	2.1	26	86	6	74	59	1	0	38	1.08
424904--424950	16	2.9	16	90	3	67	57	4	0	38	1.18
425295--425753	229	2.0	233	90	2	730	51	6	6	34	1.55
426971--427023	23	2.3	23	78	12	56	50	3	0	45	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
427213--427269	20	2.8	20	75	5	60	47	0	0	52	1.00
427767--427856	32	2.8	33	75	9	89	48	2	6	42	1.41
430094--430134	2	20.5	2	94	0	73	51	2	0	46	1.14
430694--430751	17	3.1	17	81	18	62	39	0	0	60	0.97
430699--430755	21	2.5	23	79	17	66	43	0	0	56	0.99
430792--430827	10	3.7	10	85	7	56	44	0	0	55	0.99
430792--430828	9	3.9	9	89	10	56	43	0	0	56	0.99
431073--431109	18	2.1	18	89	0	56	48	0	10	40	1.38
433021--433077	21	2.7	21	76	15	64	45	0	0	54	0.99
433002--433060	14	4.4	14	70	12	52	44	0	1	54	1.10
434556--434591	15	2.5	14	90	4	54	8	0	36	55	1.30
437439--437486	18	2.6	18	83	16	62	54	0	0	45	0.99
437752--437802	24	2.1	24	85	0	66	47	0	0	52	1.00
437769--437803	12	3.0	11	88	12	52	45	0	0	54	0.99
438459--438564	56	1.9	55	83	9	137	23	14	16	45	1.84
439922--439952	14	2.2	14	94	0	53	16	3	0	80	0.83
440009--440084	30	2.6	29	76	15	75	46	0	1	52	1.08
440236--440276	20	2.1	19	86	4	55	58	4	2	34	1.32
440714--440755	15	2.9	15	85	3	50	57	0	2	40	1.12
440843--440876	8	4.1	8	96	3	59	64	0	0	35	0.94
440843--440898	16	3.2	17	82	9	69	60	0	1	37	1.07
440847--440897	19	2.8	18	85	11	61	62	0	1	35	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441565--441602	2	19.0	2	100	0	76	50	0	0	50	1.00
442642--442716	22	3.5	21	78	8	80	49	0	1	49	1.09
442653--442713	21	2.8	22	82	7	81	47	0	0	52	1.00
442674--442706	14	2.4	14	100	0	66	51	0	0	48	1.00
443967--444006	21	1.9	21	85	10	55	37	2	5	55	1.35
444553--444675	5	24.2	5	69	19	60	40	0	0	59	0.97
444538--444656	14	7.9	14	69	23	66	41	0	0	57	1.04
445041--445078	18	2.1	19	95	5	69	50	0	0	50	1.00
445336--445369	8	4.4	8	88	7	52	50	0	0	50	1.00
445337--445368	15	2.1	15	94	0	55	46	0	0	53	1.00

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