genome.fa.s444.2.7.7.80.10.50.1000.4.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: Scaffold444
Parameters: 2 7 7 80 10 50 1000
Length:  554371

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 509 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)
353968--354005	11	3.2	12	85	11	51	42	0	5	52	1.24
361717--361767	24	2.2	22	83	10	66	70	3	5	19	1.24
362165--362285	11	11.8	10	69	14	77	31	0	2	65	1.12
362165--362278	42	2.8	41	77	10	117	31	0	2	64	1.13
362736--362778	19	2.4	17	80	7	50	55	9	0	34	1.32
367104--367139	17	2.1	17	89	0	54	33	13	19	33	1.91
372204--372258	28	2.0	28	92	0	92	52	0	9	38	1.33
372243--372275	14	2.4	14	90	10	50	36	0	6	57	1.23
372333--372385	21	2.5	20	73	8	52	60	0	0	39	0.97
372393--372457	28	2.3	28	79	10	69	52	9	0	38	1.34
372415--372459	23	2.0	23	90	0	72	53	8	0	37	1.32
372451--372505	12	4.8	11	78	13	58	63	9	0	27	1.24
372398--372482	23	3.7	23	76	13	70	52	10	0	36	1.36
372834--372865	15	2.1	15	100	0	64	56	0	0	43	0.99
373066--373142	25	3.0	25	70	12	59	44	1	1	53	1.17
373770--373812	23	1.9	22	85	4	59	51	0	0	48	1.00
378855--378924	15	4.9	14	73	17	56	38	0	0	61	0.96
378830--378916	30	3.0	30	80	11	94	40	0	1	58	1.05
378856--378935	18	4.9	17	76	15	73	38	0	1	60	1.05
378848--378924	30	2.8	25	71	25	66	37	0	0	62	0.96
383310--383446	69	2.0	69	98	0	265	32	15	15	36	1.89
389262--389353	17	5.5	17	78	10	84	30	0	6	63	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389325--389413	36	2.5	35	72	15	92	33	1	8	56	1.38
389782--389806	12	2.1	12	100	0	50	56	0	0	44	0.99
389758--389811	28	2.0	27	81	3	63	48	0	1	50	1.11
390543--390586	22	2.0	22	87	12	65	61	0	0	38	0.96
390539--390593	23	2.4	23	82	8	69	56	0	0	43	0.99
392992--393150	81	2.0	80	88	3	239	20	13	25	40	1.89
393728--393811	43	2.0	43	92	0	141	19	9	21	50	1.75
395357--395439	43	1.9	44	92	2	141	14	22	7	55	1.64
413251--413301	19	2.6	19	78	9	50	60	0	0	39	0.97
415959--416136	93	1.9	92	93	1	302	47	16	11	24	1.80
416331--416490	81	2.0	81	92	0	266	33	17	15	34	1.91
416412--416691	128	2.2	127	82	5	334	32	20	13	33	1.91
417496--417527	11	2.8	12	90	9	50	71	0	0	28	0.86
420954--420987	16	2.1	17	88	5	52	61	0	0	38	0.96
421319--421348	15	2.0	15	93	0	51	60	3	0	36	1.14
422006--422049	15	2.9	15	81	15	54	43	4	2	50	1.35
423634--423658	3	8.3	3	100	0	50	68	0	0	32	0.90
425466--425521	2	28.0	2	100	0	112	50	0	0	50	1.00
428939--431209	287	8.0	287	91	2	3637	38	11	9	41	1.73
428939--431209	569	4.0	567	93	1	3690	38	11	9	41	1.73
434889--434922	16	2.1	16	89	10	52	29	0	0	70	0.87
446791--446849	26	2.3	25	85	8	75	35	0	6	57	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447302--447368	18	3.6	19	86	9	86	62	0	0	37	0.95
447741--447787	17	2.8	16	80	6	58	63	0	0	36	0.94
447958--448003	15	3.0	16	78	18	53	56	0	0	43	0.99
448802--448868	26	2.5	27	83	9	75	47	1	0	50	1.10
448839--448863	9	2.8	9	100	0	50	48	0	0	52	1.00
449051--449105	24	2.3	23	76	14	58	56	0	1	41	1.10
450205--450237	17	1.9	17	93	0	57	39	0	0	60	0.97
451015--451067	21	2.6	19	77	11	52	45	0	0	54	0.99
451010--451074	32	2.1	32	83	11	82	44	0	0	55	0.99
452277--452317	18	2.2	19	86	4	57	70	0	0	29	0.87
455778--455816	2	19.5	2	100	0	78	51	0	0	48	1.00
457185--457239	16	3.5	16	73	11	51	65	1	0	32	1.03
457162--457254	19	4.7	19	72	12	64	62	2	0	35	1.07
457430--457474	14	3.1	14	78	12	54	35	0	0	64	0.94
458194--458225	15	2.0	17	88	11	50	53	6	3	37	1.42
459964--459990	13	2.1	13	100	0	54	48	7	0	44	1.31
460643--460682	18	2.2	18	86	13	55	47	0	0	52	1.00
460678--460717	20	2.0	20	90	9	64	62	0	0	37	0.95
461165--461190	4	6.5	4	100	0	52	53	0	0	46	1.00
461422--461463	17	2.3	18	92	8	68	73	0	0	26	0.83
462025--462063	20	2.0	20	85	10	53	46	0	0	53	1.00
462382--462456	30	2.6	29	80	6	89	54	1	13	30	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463573--463612	7	5.7	7	100	0	80	75	0	0	25	0.81
464407--464440	17	1.9	17	88	5	50	61	2	0	35	1.11
464681--464719	14	2.9	13	85	14	53	66	0	2	30	1.05
467048--467088	18	2.4	17	83	4	55	43	0	2	53	1.13
467885--467924	19	2.1	19	85	4	53	37	2	7	52	1.43
468629--468671	10	4.2	10	79	5	50	37	0	0	62	0.95
468659--468724	24	2.7	25	83	6	82	43	0	0	56	0.99
468880--469033	15	11.4	14	67	22	80	57	0	0	41	1.03
468882--468932	21	2.4	21	78	9	59	64	0	1	33	1.05
468917--469005	24	3.4	27	77	16	98	55	0	0	44	0.99
468995--469038	19	2.4	18	81	7	54	59	0	0	40	0.98
470167--470198	3	10.7	3	100	0	64	68	0	0	31	0.90
471087--471131	2	22.5	2	90	0	72	51	2	2	44	1.26
471369--471402	15	2.3	15	90	10	52	44	0	0	55	0.99
471421--471468	16	2.9	16	84	3	60	31	0	0	68	0.90
471921--471957	15	2.4	16	90	4	58	54	0	0	45	1.00
472143--472423	110	2.5	109	76	6	271	37	14	13	35	1.85
472751--472813	3	21.3	3	81	15	78	66	0	4	28	1.12
475439--475475	17	2.2	17	100	0	74	37	13	35	13	1.84
479050--479074	13	1.9	13	100	0	50	32	0	28	40	1.57
480093--480125	14	2.3	15	89	5	50	36	0	0	63	0.95
480627--480669	7	6.1	7	81	8	52	30	2	0	67	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484504--484530	13	2.1	13	100	0	54	22	7	25	44	1.79
485976--486036	8	7.9	8	78	7	72	36	0	13	50	1.41
485976--486038	4	15.8	4	83	0	54	36	0	12	50	1.41
485976--486054	20	3.8	20	84	3	95	34	0	15	50	1.44
485976--486052	28	2.8	28	83	0	100	33	0	15	50	1.44
485976--486042	14	4.8	14	86	0	98	35	0	13	50	1.42
485998--486055	16	3.5	16	88	9	89	31	0	18	50	1.48
486543--486598	24	2.1	27	84	12	73	44	0	0	55	0.99
486927--486996	31	2.2	31	84	2	86	62	0	2	34	1.10
487545--487594	18	2.6	19	84	6	66	48	2	0	50	1.12
487999--488043	19	2.4	19	76	0	54	48	0	0	51	1.00
488035--488112	22	3.5	22	70	18	63	53	0	0	46	1.00
488900--488964	16	4.0	16	80	9	78	38	0	3	58	1.14
489553--489582	11	2.7	11	89	0	51	50	0	0	50	1.00
490208--490251	20	2.2	20	87	0	61	34	4	50	11	1.59
490330--490400	27	2.6	27	86	6	90	46	22	7	23	1.76
493321--493352	16	2.0	16	100	0	64	37	31	18	12	1.88
493538--493583	20	2.3	20	84	0	56	34	6	50	8	1.59
493660--493730	27	2.6	29	80	11	94	49	19	5	25	1.70
495479--495522	23	1.9	23	86	9	63	56	0	0	43	0.99
496041--496085	2	22.5	2	100	0	90	51	0	0	48	1.00
498597--498651	15	3.5	15	76	9	65	40	1	5	52	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498597--498654	16	3.7	16	75	11	66	41	1	5	51	1.34
498589--498668	16	5.0	16	75	3	63	41	2	5	51	1.37
498602--498677	32	2.3	33	86	2	100	36	2	6	53	1.41
499242--499287	14	3.8	12	83	16	60	43	0	0	56	0.99
499405--499456	27	1.9	27	84	7	70	42	5	0	51	1.25
502031--502071	2	20.5	2	100	0	82	51	0	0	48	1.00
504362--504420	3	19.7	3	80	13	68	66	5	0	28	1.13
504987--505067	43	1.9	42	82	12	103	46	1	1	50	1.17
505468--505552	44	1.9	44	83	4	109	50	0	0	49	1.00
505484--505546	32	1.9	33	83	6	83	50	0	0	49	1.00

Tables:   1   2   3   4   5