genome.fa.s256.2.7.7.80.10.50.1000.3.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: Scaffold256
Parameters: 2 7 7 80 10 50 1000
Length:  1244454

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 886 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)
380950--381025	39	2.0	38	92	2	125	31	13	18	36	1.89
386864--386953	31	2.9	31	79	0	108	26	31	26	15	1.96
387013--387107	31	3.1	31	79	0	118	28	29	25	16	1.97
386831--387627	149	5.4	149	92	0	1247	28	24	25	21	1.99
387162--387256	31	3.1	31	76	0	109	28	28	25	17	1.98
387311--387401	31	2.9	31	83	0	119	25	29	27	17	1.97
387460--387540	30	2.6	30	84	11	94	29	28	24	17	1.97
387521--387723	87	2.3	87	89	0	307	29	21	23	25	1.99
387700--387789	31	2.9	31	74	0	99	27	30	24	17	1.97
387373--387960	236	2.5	236	86	2	826	29	22	23	24	1.99
387757--388014	88	3.0	87	87	2	374	28	21	23	26	1.99
391621--391673	19	2.7	20	88	2	72	35	16	15	32	1.90
391645--391706	32	2.0	31	84	9	81	40	14	12	32	1.84
397446--397572	19	7.7	18	71	28	113	30	14	18	35	1.92
397446--397580	32	4.2	32	99	0	261	30	14	19	35	1.92
397465--397553	13	5.9	13	72	27	70	32	15	17	33	1.92
397604--397631	13	2.2	13	100	0	56	28	14	17	39	1.89
397660--397702	20	2.1	21	95	4	79	32	23	11	32	1.90
399998--400268	51	5.3	49	84	4	301	29	25	11	33	1.91
399998--400268	102	2.7	102	83	5	334	29	25	11	33	1.91
400322--400452	51	2.5	51	85	3	165	29	27	11	32	1.91
400121--400459	181	1.9	181	81	3	414	30	25	10	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400335--400629	130	2.3	131	81	5	357	27	25	12	33	1.92
400110--400490	181	2.1	180	78	6	394	29	26	11	33	1.91
403241--403276	18	2.0	18	94	0	63	30	33	0	36	1.58
404869--404915	20	2.3	20	85	7	60	38	25	12	23	1.90
407174--407221	25	2.0	22	88	11	69	68	0	0	31	0.90
407206--407300	16	5.6	17	66	20	56	58	0	0	41	0.98
407200--407307	31	3.6	31	69	20	86	59	0	0	40	0.98
415525--415833	153	2.0	153	98	0	600	28	19	17	34	1.95
416232--416258	12	2.2	12	100	0	54	44	11	29	14	1.80
417835--417919	37	2.3	37	100	0	170	20	15	29	35	1.93
422015--422067	20	2.7	20	91	5	81	32	20	13	33	1.91
422097--422123	13	2.1	13	100	0	54	40	14	14	29	1.86
424583--424608	13	2.0	13	100	0	52	38	15	15	30	1.88
427422--427447	13	2.0	13	100	0	52	38	15	15	30	1.88
429654--429698	21	2.1	21	84	8	56	53	4	20	22	1.63
433516--433624	33	3.3	33	76	11	114	26	16	13	43	1.85
433599--433624	13	2.0	13	100	0	52	30	15	15	38	1.88
436171--436196	13	2.0	13	100	0	52	38	15	15	30	1.88
441140--441443	167	1.8	167	87	4	461	29	10	8	51	1.65
441140--441480	167	2.1	166	84	4	447	29	9	8	52	1.63
441450--441476	14	1.9	14	100	0	54	29	3	0	66	1.09
444152--444181	15	1.9	16	93	6	53	26	20	13	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449489--449527	20	1.9	20	89	5	60	38	23	15	23	1.92
449537--449561	13	1.9	13	100	0	50	32	16	16	36	1.90
449516--449579	33	2.0	33	90	3	103	31	15	15	37	1.89
449777--449819	20	2.0	20	82	13	50	46	18	6	27	1.75
450117--450240	32	3.8	32	80	14	130	30	12	24	32	1.93
450115--450240	35	3.8	34	81	12	147	30	12	24	31	1.92
451586--451704	52	2.3	52	88	5	172	41	12	15	30	1.85
455007--455079	20	3.5	20	86	3	92	39	9	17	32	1.82
461166--461238	20	3.7	19	81	9	76	28	17	15	38	1.90
461184--461237	19	2.8	20	88	2	83	27	18	14	38	1.90
467997--468338	104	3.2	104	75	10	241	34	16	24	24	1.96
467997--468251	52	5.0	52	79	6	243	33	16	25	24	1.96
468455--468576	52	2.3	52	85	2	165	32	14	27	25	1.95
468613--468726	32	3.6	33	81	7	103	21	17	30	29	1.96
468897--468970	28	2.7	29	81	14	93	29	17	27	25	1.97
468897--468980	28	3.0	28	76	10	84	29	16	27	26	1.97
470306--470369	6	11.0	6	79	18	66	1	0	14	84	0.70
470321--470358	14	2.8	14	88	4	51	2	0	15	81	0.80
472747--472811	32	2.0	32	100	0	130	30	21	18	29	1.97
486489--486552	33	1.9	33	87	6	94	40	15	15	28	1.88
487939--487992	20	2.7	21	85	8	76	37	18	12	31	1.89
488525--488569	22	2.1	22	83	4	56	46	20	2	31	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496610--496648	13	3.0	13	100	0	78	38	15	15	30	1.88
496719--496745	13	2.1	13	100	0	54	40	14	14	29	1.86
497614--497678	21	3.1	21	71	4	60	32	13	16	36	1.89
497596--497678	41	2.0	41	85	0	112	34	13	14	37	1.85
500231--500256	13	2.0	13	100	0	52	30	15	15	38	1.88
502059--502201	41	3.5	41	94	0	241	40	2	22	34	1.69
506276--506320	21	2.2	20	84	11	56	28	15	17	37	1.91
506707--506761	20	2.7	21	94	0	87	25	16	14	43	1.86
506777--506850	20	3.7	19	82	7	85	31	16	10	41	1.82
509205--509688	79	6.2	80	85	4	603	27	26	14	32	1.95
511916--511968	26	2.0	26	88	0	79	39	22	7	30	1.82
514065--514118	20	2.7	21	85	8	76	35	18	12	33	1.89
514168--514193	13	2.0	13	100	0	52	38	15	15	30	1.88
514745--514800	22	2.5	22	91	0	85	23	33	3	39	1.72
522721--522789	33	2.1	33	86	5	95	34	17	13	34	1.88
522818--522875	19	3.0	20	85	7	84	34	17	15	32	1.91
522859--522883	13	1.9	13	100	0	50	32	16	16	36	1.90
522840--522904	33	2.0	32	88	8	96	38	15	15	30	1.88
525740--525974	121	1.9	121	93	0	407	49	10	7	32	1.65
527731--527774	16	2.8	15	82	6	52	9	9	2	79	1.02
528764--528823	29	2.2	28	82	11	79	23	13	5	58	1.55
529926--529972	13	4.1	13	70	30	52	36	19	12	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530833--530991	78	2.0	78	81	2	185	38	16	12	32	1.87
531208--531331	58	2.1	59	82	4	153	46	13	13	25	1.80
535028--535081	20	2.7	20	91	2	81	33	16	11	38	1.84
536526--536583	20	2.8	20	85	10	73	36	12	15	36	1.85
537080--537134	20	2.7	20	86	8	67	36	10	14	38	1.81
537586--537673	46	1.9	46	92	0	149	48	7	3	39	1.49
538573--538611	21	2.0	21	85	10	55	64	0	5	30	1.15
541288--541474	93	2.0	93	94	0	329	36	13	22	26	1.92
541534--541562	9	3.2	9	100	0	58	34	20	10	34	1.87
542118--542150	2	16.5	2	100	0	66	48	0	0	51	1.00
542555--542599	2	22.5	2	90	0	72	46	0	2	51	1.13
544196--544248	25	2.1	25	82	0	61	41	0	0	58	0.98
544202--544258	11	4.5	13	79	18	59	42	0	0	57	0.98
544202--544258	25	2.3	24	79	8	69	42	0	0	57	0.98
544276--544308	17	1.9	17	93	0	57	48	0	0	51	1.00
545967--546019	24	2.2	24	86	3	72	24	22	9	43	1.83
545991--546055	33	1.9	34	93	3	114	23	24	9	43	1.83
546064--546105	13	3.2	13	79	0	57	30	14	14	40	1.85
547085--547112	14	2.0	14	100	0	56	28	14	7	50	1.69
556602--556668	37	1.9	35	88	11	102	29	25	11	32	1.92
557126--557151	13	2.0	13	100	0	52	30	15	15	38	1.88
557190--557265	21	3.7	21	82	3	109	28	18	11	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
557210--557283	20	3.7	20	81	3	103	31	20	13	35	1.91
557190--557283	41	2.3	41	100	0	188	29	19	12	38	1.89
557902--557963	32	1.9	32	100	0	124	45	25	3	25	1.69
559133--559157	13	1.9	13	100	0	50	32	16	16	36	1.90
561945--562011	37	1.9	35	88	11	102	29	25	11	32	1.92
562469--562494	13	2.0	13	100	0	52	30	15	15	38	1.88
562533--562608	21	3.7	21	82	3	109	28	18	11	40	1.86
562553--562626	20	3.7	20	81	3	103	31	20	13	35	1.91
562533--562626	41	2.3	41	100	0	188	29	19	12	38	1.89
564113--564137	13	1.9	13	100	0	50	32	16	16	36	1.90

Tables:   1   2   3   4   5   6   7   8