genome.fa.s6.2.7.7.80.10.50.1000.6.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  6  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)
446180--446268	20	4.8	20	75	14	77	56	0	1	42	1.06
446199--446278	33	2.5	33	80	11	87	58	0	1	40	1.06
446241--446275	17	2.1	17	88	0	52	65	0	0	34	0.93
446241--446281	17	2.5	17	77	18	50	63	0	0	36	0.95
448473--448498	2	13.0	2	100	0	52	50	0	0	50	1.00
453142--453188	21	2.3	21	78	14	53	57	2	0	40	1.11
454068--454107	17	2.2	18	86	8	55	40	12	0	47	1.41
454704--454765	17	3.5	17	78	18	65	50	1	0	48	1.10
455357--455417	23	2.5	23	81	7	68	55	0	0	44	0.99
459712--459753	21	2.0	22	85	4	59	23	2	16	57	1.51
459779--459844	22	3.0	23	78	12	59	46	1	1	50	1.20
459818--459851	16	2.2	15	89	5	50	58	0	0	41	0.98
460529--460584	29	1.9	29	85	7	78	53	0	1	44	1.11
460618--460644	6	4.5	6	100	0	54	14	0	0	85	0.61
461561--461623	29	2.2	30	77	13	69	41	1	0	57	1.08
461568--461635	28	2.4	29	76	11	79	41	1	0	57	1.08
461702--461776	27	2.7	29	82	14	86	61	1	0	37	1.05
462869--462946	39	2.0	38	82	9	95	53	1	0	44	1.08
465984--466016	16	2.0	17	88	5	50	33	0	3	63	1.10
465993--466037	22	2.0	21	83	12	54	46	0	0	53	1.00
465993--466039	24	2.0	22	84	8	58	46	0	0	53	1.00
466759--466784	13	2.0	13	100	0	52	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466760--466838	16	5.0	16	76	11	67	37	0	0	62	0.96
466793--466849	27	2.1	27	86	0	78	42	0	0	57	0.98
466759--466838	32	2.5	32	76	13	83	38	0	0	61	0.96
467629--467653	2	12.5	2	100	0	50	48	0	0	52	1.00
468595--468676	38	2.4	35	84	13	100	36	1	0	62	1.03
468652--468705	22	2.5	22	75	3	56	46	0	1	51	1.11
470304--470329	7	3.7	7	100	0	52	53	0	0	46	1.00
470461--470551	27	3.4	27	75	14	89	45	0	1	53	1.07
470531--470607	23	3.0	26	69	25	65	38	0	1	59	1.06
470515--470614	49	2.0	50	84	9	134	38	0	1	61	1.03
470540--470614	26	3.1	23	76	16	80	34	0	1	64	1.02
475021--475097	31	2.5	31	80	6	84	49	0	0	50	1.00
475086--475124	16	2.4	17	78	4	53	56	0	0	43	0.99
475045--475144	50	2.0	49	81	13	114	51	1	0	48	1.07
475509--475533	6	4.2	6	100	0	50	0	84	0	16	0.63
475983--476016	2	17.0	2	100	0	68	50	0	0	50	1.00
486375--486471	36	2.8	33	73	7	86	49	0	1	49	1.07
486443--486485	22	2.0	22	86	9	61	58	0	0	41	0.98
486748--486790	2	21.5	2	100	0	86	51	0	0	48	1.00
491668--491726	20	3.0	20	79	0	73	35	13	10	40	1.78
491668--491741	20	3.7	20	78	7	69	33	12	10	43	1.77
492597--492671	20	3.8	20	78	0	87	34	13	12	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492597--492674	40	2.0	39	87	2	111	34	12	12	39	1.82
499736--499778	15	2.7	17	79	17	56	65	11	18	4	1.42
499759--499808	22	2.3	22	83	13	59	74	8	12	6	1.22
499723--499800	37	2.1	36	81	6	86	69	10	15	5	1.34
501087--502233	27	42.0	27	91	2	1817	23	34	14	27	1.93
501087--502233	82	14.0	81	91	1	1817	23	34	14	27	1.93
501087--502233	109	10.5	108	92	2	1817	23	34	14	27	1.93
502232--502801	32	18.3	32	90	3	753	29	32	18	19	1.95
503315--503389	20	3.8	20	78	0	87	34	13	12	40	1.81
503315--503392	40	2.0	39	87	2	111	34	12	12	39	1.82
509492--509913	224	1.9	223	85	3	580	31	13	16	38	1.87
512537--512575	20	2.1	18	85	9	51	58	7	10	23	1.56
513494--513568	20	3.8	19	78	7	87	41	12	13	33	1.81
513491--513568	40	2.0	39	89	2	120	41	12	12	33	1.82
514204--514255	26	2.0	26	96	0	95	42	13	19	25	1.87
516940--517025	43	2.0	44	90	2	138	38	6	15	39	1.74
518322--518420	42	2.4	42	100	0	198	43	19	6	31	1.75
522653--522696	22	2.0	21	86	4	61	40	2	0	56	1.11
522635--522696	28	2.3	27	81	13	65	41	1	0	56	1.09
523179--523241	9	6.6	10	78	15	55	33	0	0	66	0.92
523188--523228	8	4.8	9	88	11	68	29	0	0	70	0.87
523185--523232	17	2.8	17	90	9	71	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523749--523779	16	1.9	16	93	0	53	77	0	0	22	0.77
523887--523913	2	13.5	2	100	0	54	51	0	0	48	1.00
525350--525400	12	3.9	12	78	16	57	39	11	5	43	1.66
530262--530307	22	2.0	23	84	12	60	39	2	0	58	1.10
531162--531202	17	2.4	18	80	12	50	58	2	0	39	1.11
532058--532091	13	2.5	14	85	9	52	73	0	0	26	0.83
534914--535022	18	6.1	18	83	8	141	39	10	9	41	1.71
534914--535022	36	3.0	36	90	4	166	39	10	9	41	1.71
537321--537393	18	4.1	18	75	8	69	38	5	12	43	1.65
537342--537401	18	3.3	19	73	19	56	36	3	8	51	1.49
538513--538552	14	2.9	14	85	10	55	55	2	2	40	1.27
538839--538880	3	14.0	3	100	0	84	33	0	0	66	0.92
539324--539394	23	3.1	23	72	11	65	38	0	0	61	0.96
539334--539453	23	4.9	24	71	13	75	42	0	0	56	1.05
539384--539434	15	3.2	16	73	26	54	43	0	1	54	1.11
539368--539429	18	3.2	20	72	19	60	45	0	1	53	1.10
539406--539451	13	3.5	13	72	21	51	47	0	0	52	1.00
546895--546949	12	4.2	13	79	13	60	27	0	0	72	0.85
546895--546949	26	2.1	27	87	12	80	27	0	0	72	0.85
546874--546949	24	3.0	25	81	11	77	30	0	1	68	0.98
546920--546972	16	3.1	17	78	13	56	35	0	0	64	0.94
546896--547017	13	9.6	13	67	26	66	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547033--547087	9	6.1	9	76	6	58	61	1	0	36	1.06
547035--547088	26	2.0	27	82	7	65	59	1	0	38	1.08
552137--552346	54	3.8	54	75	15	187	18	13	30	37	1.89
552188--552382	59	3.4	59	73	15	210	17	10	32	38	1.85
552127--552382	113	2.3	112	86	5	356	17	12	32	38	1.86
557567--557600	14	2.3	15	90	5	52	76	0	0	23	0.79
558787--558827	2	22.5	2	81	18	54	56	0	0	43	0.99
558787--558827	7	5.6	8	81	18	54	56	0	0	43	0.99
558785--558828	5	8.6	5	90	9	63	56	0	0	43	0.99
559398--559439	21	2.0	22	85	4	59	52	7	2	38	1.42
559588--559641	18	3.1	18	73	5	58	42	0	1	55	1.10
559642--559693	25	2.1	25	96	0	95	46	7	5	40	1.57
563330--563365	16	2.2	17	90	5	56	44	0	0	55	0.99
563330--563377	16	2.8	17	84	12	55	47	0	0	52	1.00
564288--564325	2	19.0	2	100	0	76	50	0	0	50	1.00
565797--565870	22	3.4	21	80	15	73	56	0	0	43	0.99
565787--565878	21	4.3	21	77	13	82	56	0	0	43	0.99
566706--566751	15	3.0	15	82	14	58	4	17	0	78	0.91
566712--566752	21	1.9	22	85	5	57	4	19	0	75	0.98
567356--567404	3	16.7	3	95	4	91	69	0	0	30	0.89
567948--568025	27	2.9	29	80	15	80	48	0	0	51	1.00
567956--568025	30	2.6	29	82	14	87	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568011--568052	20	2.1	20	91	8	68	42	0	0	57	0.99
567950--568058	53	2.0	55	81	10	127	49	0	0	50	1.00
569578--569609	2	16.0	2	100	0	64	50	0	0	50	1.00
573794--573848	24	2.2	24	77	6	56	50	1	10	36	1.48
574008--574040	3	11.0	3	100	0	66	66	0	0	33	0.92
580532--580581	24	2.1	24	85	7	66	30	4	6	60	1.39
582097--582143	21	2.2	21	85	7	60	46	23	23	6	1.75
587351--587401	14	3.8	13	82	7	57	86	1	9	1	0.73
589326--589375	24	2.1	24	85	7	66	30	4	6	60	1.39
592105--592129	12	2.1	12	100	0	50	56	0	0	44	0.99

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