genome.fa.s449.2.7.7.80.10.50.1000.3.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: Scaffold449
Parameters: 2 7 7 80 10 50 1000
Length:  551709

Tables:   1   2   3   

This is table  3  of  3  ( 359 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)
403194--403254	29	2.1	29	90	6	97	63	0	0	36	0.94
403519--403543	9	2.8	9	100	0	50	64	0	0	36	0.94
403558--403624	20	3.4	20	81	4	73	35	0	0	64	0.94
403554--403639	11	8.4	11	72	22	62	34	0	0	65	0.93
403599--403657	11	5.4	11	80	13	59	38	0	0	61	0.96
403647--403678	15	2.1	15	94	0	55	56	0	0	43	0.99
403659--403723	26	2.5	26	78	14	64	49	0	0	50	1.00
403895--403953	17	3.5	17	77	11	59	13	11	0	74	1.07
404122--404175	20	2.8	18	76	20	56	57	0	1	40	1.09
404184--404241	26	2.3	25	83	16	75	20	6	0	72	1.07
404636--404694	29	2.1	29	87	9	86	62	0	0	37	0.95
406291--406332	14	2.9	15	89	6	61	71	0	2	26	0.98
406299--406352	23	2.3	23	84	12	65	74	3	1	20	1.07
407120--407167	6	7.5	6	84	9	60	14	4	0	81	0.84
407120--407165	10	4.3	10	79	15	56	15	4	0	80	0.86
409446--409486	5	8.2	5	94	0	73	0	21	0	78	0.76
411391--411437	17	2.8	18	84	12	64	38	0	0	61	0.96
411838--411883	21	2.2	21	84	7	58	17	8	0	73	1.07
412196--412265	28	2.3	32	85	9	94	58	0	1	40	1.07
412196--412273	32	2.7	29	84	11	90	52	0	1	46	1.08
412807--412840	16	2.1	17	88	5	52	58	0	0	41	0.98
412941--412985	2	23.5	2	78	17	51	44	2	2	51	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412941--412985	17	2.6	17	85	3	63	44	2	2	51	1.26
414336--414373	18	2.1	18	85	9	51	71	0	0	28	0.87
417122--417153	17	1.9	17	93	6	57	68	0	3	28	1.04
417364--417399	2	18.0	2	94	0	63	50	2	0	47	1.15
418656--418699	14	3.1	14	86	3	52	45	0	0	54	0.99
419252--419298	2	23.5	2	79	16	53	46	4	0	48	1.21
419242--419300	30	1.9	31	93	3	102	44	5	0	50	1.24
419957--419990	17	2.0	17	88	0	50	58	2	0	38	1.13
421426--421582	79	2.0	80	92	1	262	33	7	8	50	1.62
422523--422565	16	2.6	17	82	10	54	53	2	0	44	1.13
422647--422710	24	2.5	26	80	7	78	64	7	0	28	1.21
422647--422710	27	2.5	24	77	7	65	64	7	0	28	1.21
424646--424696	8	6.4	8	80	17	52	0	15	1	82	0.76
424647--424718	26	3.0	24	80	13	76	0	19	1	79	0.81
424646--424718	16	4.4	16	88	6	92	0	19	1	79	0.81
424656--424718	4	16.2	4	80	6	76	0	19	1	79	0.82
426732--426852	52	2.3	52	81	2	145	28	8	14	49	1.71
428642--428972	170	2.0	163	86	6	459	35	10	9	45	1.70
432610--432648	18	2.2	18	90	0	60	7	28	0	64	1.21
433916--433957	20	2.2	20	82	4	50	54	0	2	42	1.13
433988--434023	2	18.0	2	100	0	72	50	0	50	0	1.00
434512--434551	9	4.8	9	82	14	50	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434921--434959	21	1.9	21	84	5	53	15	7	2	74	1.15
435267--435302	15	2.4	15	90	0	54	58	2	2	36	1.27
435307--435364	26	2.2	24	78	21	64	37	3	0	58	1.15
436091--436142	2	26.0	2	84	7	61	46	5	1	46	1.38
437208--437292	29	2.8	29	82	5	89	54	3	2	40	1.31
446410--446461	15	3.3	15	76	10	50	53	0	1	44	1.11
446404--446446	16	2.6	16	81	3	50	58	0	2	39	1.11
448743--448775	17	2.0	17	88	5	50	51	3	0	45	1.16
450089--450137	14	3.5	13	81	15	53	40	0	0	59	0.98
450994--451034	3	13.7	3	94	0	73	65	2	0	31	1.05
451261--451307	13	3.2	16	72	27	50	63	0	0	36	0.94
451236--451359	66	1.9	61	81	16	144	57	0	0	41	1.04
451715--451924	74	2.9	70	75	8	206	28	0	15	55	1.47
451991--452064	4	20.0	4	75	18	63	72	0	25	1	0.92
451992--452071	11	7.8	10	76	18	76	75	0	23	1	0.88
452439--452995	137	4.1	137	84	4	700	29	5	15	48	1.69
452439--452995	272	2.0	271	84	4	728	29	5	15	48	1.69
455631--455677	20	2.5	19	83	10	53	34	8	0	57	1.29
455890--455945	13	4.5	13	76	12	55	69	1	0	28	0.98
460667--460970	79	3.9	77	77	8	283	32	14	25	27	1.95
468025--468057	12	2.8	12	95	0	57	63	0	12	24	1.28
468445--468653	113	1.9	112	80	3	249	39	15	14	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469689--470161	61	8.0	62	82	6	521	27	18	26	27	1.98
469697--470165	115	4.0	121	83	7	555	27	18	26	27	1.98
469912--470161	54	4.5	55	79	9	249	24	19	26	29	1.99
470112--470328	94	2.3	94	93	0	371	27	18	29	24	1.98
471342--471404	1	63.0	1	77	0	63	3	1	6	88	0.66
471342--471404	20	3.2	20	86	6	76	3	1	6	88	0.66
471342--471403	27	2.4	25	84	12	81	3	1	6	88	0.66
471342--471403	16	3.9	15	83	10	79	3	1	6	88	0.66
471342--471404	24	2.6	25	90	5	94	3	1	6	88	0.66
477022--477150	52	2.5	52	93	0	213	32	17	15	34	1.91
477022--477170	52	2.9	51	86	6	210	32	16	16	34	1.91
477159--477183	13	1.9	13	100	0	50	36	16	16	32	1.90
485170--485200	4	7.8	4	100	0	62	77	0	0	22	0.77
487269--487411	51	2.8	51	79	9	150	37	11	20	30	1.88
487368--487568	78	2.6	79	83	2	244	35	12	22	29	1.91
491143--491513	79	4.7	77	77	7	354	34	14	22	28	1.94
491150--491512	158	2.3	157	79	7	421	34	14	22	28	1.93
495801--495835	12	2.9	12	91	0	52	65	2	11	20	1.37
497438--497492	19	2.8	20	80	2	67	30	12	16	40	1.86
497409--497471	32	1.9	33	84	9	85	28	11	14	46	1.78
497522--497586	33	2.0	32	85	11	87	40	16	12	30	1.86
499147--499179	15	2.2	15	94	0	57	42	0	27	30	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503725--503764	13	3.1	13	85	0	62	32	12	15	40	1.84
506326--506379	20	2.7	19	83	11	65	31	12	18	37	1.89
515000--515128	52	2.5	51	84	5	186	36	18	15	29	1.92
522365--522404	15	2.7	15	88	0	53	55	15	17	12	1.70
524477--524501	13	1.9	13	100	0	50	36	16	16	32	1.90
526079--526122	23	2.0	21	82	8	52	15	9	15	59	1.61
526307--526342	18	2.0	18	100	0	72	38	5	16	38	1.72
527002--527027	13	2.0	13	100	0	52	38	15	15	30	1.88
526984--527047	32	2.0	33	90	9	105	40	15	14	29	1.86
527015--527181	71	2.5	66	88	11	238	37	14	13	34	1.86
528799--528847	19	2.5	21	83	12	68	53	14	8	24	1.68
528613--528849	111	2.1	110	79	5	255	40	15	13	31	1.86
528799--528861	20	3.2	20	82	10	69	50	17	6	25	1.69
529407--529465	11	5.4	11	83	0	82	37	0	0	62	0.95
529399--529454	22	2.9	18	76	19	58	33	1	0	64	1.04
529406--529465	22	2.7	22	100	0	120	36	0	0	63	0.95
529716--529740	10	2.5	10	100	0	50	20	8	0	72	1.10
529284--529972	307	2.2	314	88	3	1034	36	9	7	46	1.65
530302--530378	40	1.9	40	100	0	154	33	12	10	42	1.77
531256--531737	183	2.6	183	80	7	514	33	15	8	42	1.77
531256--531748	92	5.4	92	77	8	407	34	15	7	41	1.77
531616--531900	143	2.0	143	93	1	491	35	16	5	42	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531755--531998	89	2.7	88	86	5	310	35	16	5	41	1.73
532085--532134	24	2.1	24	92	0	82	56	0	0	44	0.99
537251--537300	20	2.5	20	90	6	75	34	18	14	34	1.90
537332--537405	20	3.8	19	85	8	87	36	16	14	32	1.89
537918--538276	165	2.2	165	83	4	438	33	15	7	42	1.76
541499--541542	22	2.0	22	86	8	63	47	0	4	47	1.22
544754--544779	13	2.0	13	100	0	52	38	15	15	30	1.88
544735--544799	33	2.0	33	87	6	96	41	16	13	27	1.87
548293--548322	15	2.0	15	93	0	51	50	16	20	13	1.78

Tables:   1   2   3

The End!