genome.fa.s401.2.7.7.80.10.50.1000.4.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: Scaffold401
Parameters: 2 7 7 80 10 50 1000
Length:  1910012

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  4  of  13  ( 1464 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)
398609--398663	24	2.2	25	87	9	78	38	1	0	60	1.08
398623--398693	27	3.0	23	74	22	65	39	1	0	59	1.06
399104--399141	12	3.2	12	82	17	53	63	0	0	36	0.95
399853--399881	12	2.3	13	94	5	51	37	6	0	55	1.27
405899--405928	10	3.0	10	95	0	51	0	43	0	56	0.99
407549--407711	79	2.1	79	100	0	326	24	9	26	38	1.87
411524--411560	2	18.5	2	88	0	56	0	43	2	54	1.14
412652--412770	21	5.3	22	70	17	68	38	0	1	59	1.07
412664--412712	20	2.5	19	87	9	71	42	0	0	57	0.99
412652--412725	11	6.7	11	73	14	64	43	0	2	54	1.14
412733--412778	11	4.4	11	86	10	69	32	2	0	65	1.05
412731--412770	20	2.0	20	100	0	80	30	0	0	70	0.88
413237--413280	2	22.0	2	100	0	88	50	0	0	50	1.00
424247--424295	18	2.7	18	84	12	57	67	0	4	28	1.09
424284--424313	15	1.9	16	93	6	53	80	6	0	13	0.91
424357--424407	15	3.5	15	81	5	59	37	0	3	58	1.16
424366--424405	14	2.8	14	84	3	53	40	0	0	60	0.97
424498--424531	18	1.9	17	88	5	50	64	0	0	35	0.94
424493--424534	19	2.3	19	80	16	52	61	0	0	38	0.96
424830--424883	27	2.0	27	89	7	83	22	20	18	38	1.93
425282--425343	23	2.7	23	75	9	65	56	0	0	43	0.99
425269--425371	14	6.8	14	70	20	57	52	0	0	46	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431246--431286	2	20.5	2	100	0	82	51	0	0	48	1.00
432701--432757	14	3.9	15	77	9	55	31	14	17	36	1.89
432731--432758	14	2.0	14	100	0	56	28	21	21	28	1.99
433424--433581	43	3.7	43	78	2	147	27	15	20	36	1.92
433397--433597	14	14.0	14	72	9	118	27	15	20	35	1.94
435902--435968	34	2.0	34	93	0	116	38	11	13	35	1.82
435934--436274	117	2.9	117	87	3	438	31	15	14	38	1.88
436074--436474	120	3.3	120	87	3	479	29	15	16	37	1.90
437324--437370	24	1.9	24	86	4	67	36	21	19	23	1.95
440100--440168	14	5.1	14	76	11	63	57	4	2	34	1.33
440100--440162	13	4.8	13	77	11	65	61	3	1	33	1.21
440187--440220	13	2.8	12	86	8	50	17	5	0	76	0.98
440914--440982	3	22.7	3	86	2	93	30	1	1	66	1.09
441012--441042	2	15.5	2	100	0	62	48	0	0	51	1.00
441292--441323	14	2.3	14	94	0	55	28	25	18	28	1.98
441320--441383	14	4.5	14	80	3	56	25	20	20	34	1.96
441347--441418	14	4.9	15	75	10	51	27	15	15	41	1.87
441306--441382	29	2.7	29	83	2	84	25	20	19	33	1.96
441345--441437	29	3.2	29	78	14	84	31	13	15	39	1.86
441390--441432	15	2.9	15	82	3	61	37	11	9	41	1.74
448678--448714	2	18.5	2	100	0	74	0	48	0	51	1.00
449918--450000	27	2.9	28	77	20	98	54	0	1	44	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449897--449990	33	2.9	32	81	12	111	56	0	2	41	1.11
449938--449992	17	3.4	17	75	25	64	56	0	0	43	0.99
458526--458570	23	2.0	21	91	8	72	55	0	0	44	0.99
461682--461715	10	3.5	10	92	4	52	47	0	0	52	1.00
462488--462526	15	2.4	17	87	12	55	41	0	5	53	1.23
462470--462547	41	1.9	42	84	10	108	44	0	5	50	1.24
462530--462563	16	2.1	16	89	10	52	41	0	0	58	0.98
463469--463502	15	2.3	15	90	5	52	41	0	2	55	1.15
463527--463579	21	2.6	21	80	11	58	56	0	0	43	0.99
467221--467304	21	4.1	20	76	11	62	54	4	1	39	1.29
467248--467304	11	5.4	11	75	14	57	59	3	0	36	1.14
467245--467320	21	3.7	20	77	12	73	56	6	1	35	1.34
467348--467396	21	2.3	20	82	6	62	51	8	2	38	1.43
469654--469689	2	18.0	2	100	0	72	50	0	0	50	1.00
475061--475137	30	2.5	31	81	12	86	54	1	1	42	1.16
475119--475177	21	2.8	21	76	7	57	42	0	1	55	1.09
476165--476195	11	2.8	11	90	0	53	32	0	0	67	0.91
477798--477859	32	2.0	32	81	9	74	45	3	14	37	1.61
481391--481426	18	2.0	18	100	0	72	44	16	0	38	1.48
482852--482894	21	2.0	21	95	0	77	18	13	27	39	1.89
483428--483481	11	4.9	11	77	8	56	40	0	1	57	1.09
483461--483496	12	3.0	13	84	15	51	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484459--484500	21	2.0	21	86	9	59	57	2	0	40	1.12
485982--486006	2	12.5	2	100	0	50	52	0	0	48	1.00
489464--489518	17	3.4	16	85	10	76	29	0	0	70	0.87
489467--489538	23	3.1	23	75	13	76	29	0	0	70	0.87
489469--489560	20	4.9	19	71	18	59	33	0	1	65	1.00
489494--489552	23	2.5	24	80	8	75	35	0	1	62	1.05
489593--489627	7	5.0	7	86	13	54	25	0	0	74	0.82
489595--489623	8	3.8	8	95	4	51	24	0	0	75	0.80
489595--489626	15	2.2	14	94	5	55	21	0	0	78	0.76
489778--489820	22	2.0	22	90	4	70	16	0	0	83	0.64
500061--500102	22	1.9	21	81	18	50	57	2	0	40	1.12
506479--506514	6	6.2	6	87	6	56	19	0	63	16	1.30
506480--506514	11	3.1	11	88	8	52	20	0	62	17	1.32
506479--506514	17	2.1	18	89	5	56	19	0	63	16	1.30
508027--508111	43	2.0	43	95	0	152	27	18	21	32	1.97
512489--512535	24	2.0	23	83	4	58	53	2	2	42	1.25
512983--513047	28	2.4	27	83	14	82	44	0	0	55	0.99
512993--513046	14	3.9	14	78	7	58	40	0	0	59	0.98
514796--514822	2	13.5	2	100	0	54	48	0	51	0	1.00
515053--515080	11	2.5	11	100	0	56	0	17	0	82	0.68
515752--515800	25	1.9	26	87	4	73	53	0	0	46	1.00
517648--517693	23	2.0	23	83	8	58	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520343--520386	22	2.0	22	82	8	54	63	4	2	29	1.26
521024--521079	14	4.1	14	71	11	53	41	1	0	57	1.09
522054--522097	2	22.0	2	95	0	79	47	0	0	52	1.00
523615--523660	2	23.0	2	100	0	92	0	50	0	50	1.00
527519--527552	3	11.3	3	100	0	68	32	0	0	67	0.91
530200--530225	7	3.7	7	100	0	52	46	0	42	11	1.40
533068--533096	2	14.5	2	100	0	58	51	0	0	48	1.00
534854--534905	23	2.2	25	86	6	72	48	1	1	48	1.24
535254--535284	16	1.9	16	93	0	53	54	0	0	45	0.99
535247--535297	26	2.0	26	84	7	68	52	0	0	47	1.00
536549--536578	13	2.4	13	94	5	53	63	0	0	36	0.95
536543--536585	20	2.1	21	86	4	61	60	0	0	39	0.97
537205--537249	21	2.2	20	84	8	54	42	2	4	51	1.34
538357--538431	16	4.9	15	85	12	100	64	0	2	33	1.08
538357--538431	30	2.5	30	93	4	125	64	0	2	33	1.08
541035--541074	21	1.9	21	89	0	62	55	0	0	45	0.99
542856--542895	21	2.0	20	85	5	53	47	2	5	45	1.38
543338--543390	17	3.0	17	80	5	61	67	3	0	28	1.07
543347--543390	22	2.0	22	82	8	54	72	2	0	25	0.96
543708--543741	2	17.0	2	100	0	68	50	0	0	50	1.00
544063--544098	4	9.0	4	93	0	63	75	2	22	0	0.94
545389--545423	15	2.2	17	90	10	56	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548443--548496	20	2.9	19	75	8	58	35	5	0	59	1.21
558482--558537	27	2.1	27	93	0	94	37	8	8	44	1.67
558614--558674	31	2.0	31	87	3	88	44	6	6	42	1.56
561246--561285	17	2.3	18	83	12	57	47	0	0	52	1.00
562077--562115	18	2.1	18	85	9	51	46	0	0	53	1.00
571631--571664	3	11.3	3	100	0	68	67	0	32	0	0.91
574039--574074	18	1.9	19	88	5	56	69	0	0	30	0.89
574814--574894	28	2.9	27	81	9	92	59	3	2	34	1.29
574814--574894	29	2.9	27	83	9	92	59	3	2	34	1.29
577748--577786	20	2.0	19	90	5	60	61	0	2	35	1.10

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13