genome.fa.s140.2.7.7.80.10.50.1000.3.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: Scaffold140
Parameters: 2 7 7 80 10 50 1000
Length:  3130556

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  3  of  20  ( 2326 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)
423011--423039	13	2.1	14	93	6	51	82	0	17	0	0.66
423767--423818	26	2.0	26	81	7	61	67	3	19	9	1.35
424889--424927	15	2.6	16	88	12	64	56	0	0	43	0.99
424889--424943	15	3.7	15	80	7	60	58	0	0	41	0.98
425417--425460	3	15.0	3	95	4	81	31	0	0	68	0.90
426337--426401	29	2.2	31	86	8	91	56	1	4	36	1.29
427537--427566	2	15.0	2	100	0	60	50	0	0	50	1.00
428790--428829	3	13.3	3	100	0	80	65	0	0	35	0.93
429908--429935	2	14.0	2	100	0	56	50	0	0	50	1.00
431068--431097	13	2.4	12	94	5	51	80	0	0	20	0.72
431988--432033	19	2.4	19	75	10	58	47	0	0	52	1.00
432671--432720	22	2.4	20	80	6	55	48	2	0	50	1.12
433824--433867	22	2.1	20	87	8	61	38	0	0	61	0.96
433831--433885	22	2.5	23	80	16	64	38	0	0	61	0.96
433820--433887	22	3.2	21	72	15	52	36	0	0	63	0.95
439696--439731	2	18.0	2	100	0	72	50	0	0	50	1.00
440510--440567	22	2.8	21	87	7	75	48	0	0	51	1.00
441189--441228	2	20.0	2	100	0	80	50	0	50	0	1.00
441330--441359	13	2.3	13	100	0	60	43	0	0	56	0.99
441916--441943	2	14.0	2	100	0	56	50	0	50	0	1.00
447288--447322	15	2.3	15	90	0	52	42	0	0	57	0.99
447286--447382	45	2.2	41	78	8	104	43	0	1	55	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447552--447585	18	1.9	17	94	5	59	0	5	2	91	0.51
447876--447933	23	2.5	24	80	11	66	46	0	6	46	1.29
448131--448185	17	3.4	16	82	7	67	69	0	1	29	0.99
448130--448185	8	6.9	8	76	10	51	69	0	1	28	0.98
448131--448185	16	3.4	17	82	12	71	69	0	1	29	0.99
448207--448255	20	2.5	20	80	16	57	51	2	2	44	1.24
449537--449589	15	3.6	14	77	7	52	37	0	0	62	0.96
451154--451206	21	2.7	20	82	5	63	43	1	0	54	1.11
451367--451398	2	16.0	2	100	0	64	50	0	50	0	1.00
453656--453709	26	2.0	27	89	10	83	55	0	0	44	0.99
455018--455074	29	2.0	29	96	0	105	38	1	3	56	1.27
457593--457646	26	2.1	26	92	0	90	27	33	0	38	1.57
457844--457952	39	2.8	38	81	8	132	39	13	11	34	1.82
463474--463513	10	4.3	9	87	12	55	67	0	0	32	0.91
463474--463513	18	2.2	19	86	13	57	67	0	0	32	0.91
463475--463514	8	4.4	10	84	15	52	65	0	0	35	0.93
470604--470641	6	6.3	6	82	11	51	0	21	0	78	0.74
470609--470644	18	1.9	19	94	5	65	0	25	0	75	0.81
470837--470877	16	2.5	17	80	15	50	48	2	2	46	1.28
472201--472240	15	2.5	16	84	8	55	60	0	0	40	0.97
472407--472465	22	2.6	22	78	10	57	57	1	0	40	1.09
472469--472511	21	2.1	20	83	12	52	48	9	0	41	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474199--474227	2	14.5	2	100	0	58	48	0	0	51	1.00
474734--474778	18	2.4	19	82	17	51	48	0	0	51	1.00
475095--475144	19	2.6	20	78	18	61	60	0	0	40	0.97
475385--475417	2	16.5	2	100	0	66	48	0	0	51	1.00
475545--475579	18	1.9	18	100	0	70	2	28	0	68	1.04
476795--476840	24	1.9	24	100	0	92	26	13	30	30	1.93
476956--476996	20	2.0	20	100	0	82	34	9	14	41	1.79
483677--483719	2	21.5	2	100	0	86	0	51	0	48	1.00
485241--485284	15	2.9	15	100	0	88	54	38	0	6	1.27
485644--485687	17	2.6	18	82	13	58	27	0	0	72	0.85
485646--485687	16	2.5	17	81	14	52	28	0	0	71	0.86
487145--487197	21	2.6	21	85	8	65	60	0	1	37	1.08
487624--487657	17	1.9	18	94	5	61	47	0	5	47	1.26
487669--487774	30	3.6	30	80	9	110	49	0	7	43	1.31
488287--488319	6	5.7	6	92	7	59	15	0	0	84	0.61
488696--488756	22	2.7	23	80	12	72	39	0	0	60	0.97
488696--488766	21	3.2	23	76	13	69	42	0	0	57	0.98
494690--494740	23	2.3	23	89	3	77	49	0	3	47	1.20
505613--505650	20	2.0	20	94	5	69	52	42	0	5	1.24
507541--507588	20	2.3	20	82	10	62	60	0	4	35	1.16
508034--508066	17	1.9	17	93	0	57	45	0	3	51	1.16
508696--508725	6	4.8	6	95	4	51	16	0	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516343--516391	22	2.1	22	85	11	62	48	0	0	51	1.00
517677--517722	24	1.9	24	100	0	92	26	13	30	30	1.93
517838--517878	20	2.0	20	100	0	82	34	9	14	41	1.79
524556--524602	2	24.5	2	91	8	80	0	53	0	46	1.00
526125--526168	15	2.9	15	100	0	88	54	38	0	6	1.27
526526--526573	16	3.1	15	82	14	53	25	0	0	75	0.81
528027--528079	21	2.6	21	85	8	65	60	0	1	37	1.08
528506--528539	17	1.9	18	94	5	61	47	0	5	47	1.26
528551--528656	30	3.6	30	80	9	110	49	0	7	43	1.31
529169--529201	6	5.7	6	92	7	59	15	0	0	84	0.61
529578--529638	22	2.7	23	80	12	72	39	0	0	60	0.97
529578--529648	21	3.2	23	76	13	69	42	0	0	57	0.98
535520--535555	18	2.1	18	89	5	56	44	2	2	50	1.31
535577--535627	23	2.3	23	89	3	77	49	0	3	47	1.20
543578--543611	17	1.9	17	88	5	50	47	2	5	44	1.42
544608--544688	38	2.1	38	84	8	103	35	3	17	43	1.67
555798--555865	33	2.1	33	97	0	127	27	13	11	47	1.78
561753--561788	2	18.0	2	100	0	72	50	0	50	0	1.00
563372--563407	2	18.0	2	94	0	63	47	0	0	52	1.00
574936--575042	33	3.7	29	67	23	73	54	1	1	42	1.22
575000--575085	27	3.0	27	72	18	75	54	0	0	45	0.99
575019--575077	17	3.4	17	71	15	50	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580382--580408	7	3.9	7	100	0	54	11	0	0	88	0.50
581488--581554	11	5.7	12	72	15	59	64	5	5	23	1.39
581479--581547	22	3.1	23	81	10	81	68	4	4	23	1.26
582175--582236	22	2.7	22	80	14	65	67	4	1	25	1.19
582202--582261	11	5.5	11	71	13	52	65	3	5	26	1.29
583219--583383	27	6.2	27	70	24	93	41	1	0	56	1.11
583223--583361	48	2.8	47	77	17	131	41	0	0	57	1.09
583276--583313	20	2.0	20	89	5	60	47	0	0	52	1.00
583268--583360	17	5.4	18	72	22	67	43	0	0	56	0.99
583278--583369	20	5.0	20	69	23	58	40	0	0	59	0.97
583284--583358	32	2.3	32	93	6	125	42	0	0	57	0.98
583362--583440	39	2.0	39	82	4	97	41	6	1	50	1.36
584013--584057	19	2.4	19	88	7	65	46	0	0	53	1.00
584013--584056	21	2.2	21	88	11	67	47	0	0	52	1.00
584053--584094	21	2.0	21	90	9	68	59	0	0	40	0.97
585296--585340	3	15.0	3	100	0	90	33	0	0	66	0.92
589089--589138	26	1.9	26	95	0	91	34	18	10	38	1.84
589290--589344	27	2.0	29	92	7	96	36	14	12	36	1.84
595633--595664	2	16.0	2	100	0	64	50	0	0	50	1.00
596449--596477	2	14.5	2	100	0	58	48	0	0	51	1.00
596747--596794	21	2.3	20	83	16	62	56	0	0	43	0.99
597408--597459	2	26.0	2	100	0	104	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)
598275--598327	17	2.9	20	73	21	62	47	0	0	52	1.00
603803--603835	2	16.5	2	100	0	66	48	0	0	51	1.00
605791--605884	32	3.0	32	80	14	115	52	1	0	46	1.07
607814--607845	12	2.7	12	95	0	55	81	0	3	15	0.82
609114--609146	2	16.5	2	100	0	66	48	0	0	51	1.00
610102--610133	1	32.0	1	93	0	55	3	0	96	0	0.20
615239--615269	16	2.0	16	93	6	55	45	0	0	54	0.99
615243--615306	29	2.2	28	78	18	69	39	3	0	57	1.14
615224--615296	23	3.3	21	71	16	67	42	2	1	53	1.23
615619--615661	20	2.1	21	91	8	72	55	0	0	44	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20