genome.fa.s148.2.7.7.80.10.50.1000.4.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: Scaffold148
Parameters: 2 7 7 80 10 50 1000
Length:  1464219

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1072 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)
542289--542336	15	3.1	15	77	14	53	12	20	0	66	1.24
542875--542918	22	2.0	22	82	4	54	40	15	13	29	1.86
544276--544324	25	2.0	25	95	0	89	36	24	6	32	1.80
548726--548751	2	13.0	2	100	0	52	50	0	0	50	1.00
548898--549382	52	9.1	52	77	11	432	53	4	1	40	1.31
548898--549381	54	9.1	53	77	12	408	53	4	1	40	1.31
549091--549253	47	3.2	47	69	26	141	53	3	1	40	1.29
548898--549381	108	4.6	108	82	9	518	53	4	1	40	1.31
549575--549609	2	17.5	2	100	0	70	51	0	0	48	1.00
549807--549831	2	12.5	2	100	0	50	52	48	0	0	1.00
549895--549940	18	2.4	19	82	17	60	41	0	0	58	0.98
549923--549987	21	3.0	21	79	2	76	52	6	0	41	1.26
560534--560586	21	2.5	21	75	0	52	50	5	9	33	1.58
560874--561431	52	11.2	50	72	16	353	38	1	6	53	1.37
560885--561430	105	5.5	102	76	15	475	37	1	5	54	1.35
561213--561412	91	2.2	92	83	8	237	37	2	7	53	1.42
561814--561852	2	19.5	2	100	0	78	51	0	0	48	1.00
562060--562098	18	2.1	18	85	9	51	48	2	0	48	1.15
564237--564275	6	6.5	6	85	8	53	82	0	15	2	0.79
565758--565797	2	20.0	2	94	0	71	52	0	0	47	1.00
573155--573211	23	2.6	23	78	18	68	59	1	3	35	1.25
573940--574008	22	3.5	20	79	13	70	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573972--574010	18	2.2	18	95	0	69	35	0	0	64	0.94
574826--574850	2	12.5	2	100	0	50	52	0	0	48	1.00
575414--575445	2	16.0	2	100	0	64	50	0	0	50	1.00
575915--576036	11	11.0	11	66	20	51	58	0	0	40	1.10
575921--576003	18	4.9	18	73	16	56	57	1	1	39	1.14
575915--576050	16	8.4	16	67	17	59	57	0	0	41	1.09
575903--576036	36	3.8	36	67	19	95	57	0	0	41	1.09
581182--581261	35	2.2	37	80	6	92	53	1	2	42	1.22
581215--581329	29	4.0	29	73	7	101	53	1	2	41	1.25
581368--581412	18	2.4	18	88	7	63	55	2	0	42	1.12
581382--581445	29	2.2	29	83	8	78	59	1	0	39	1.07
583740--583774	3	11.7	3	87	0	52	0	31	2	65	1.07
584320--584426	33	3.6	29	74	17	85	43	0	0	55	1.06
584379--584408	15	2.1	14	93	6	51	46	0	0	53	1.00
584411--584467	11	5.4	11	81	10	66	29	0	0	70	0.88
584391--584467	30	2.5	30	85	8	93	32	0	0	67	0.91
584422--584465	9	4.6	9	78	15	52	27	0	0	72	0.85
584423--584475	20	2.7	19	85	5	70	32	0	0	67	0.91
587387--587417	14	2.2	14	94	0	53	32	0	3	64	1.09
587411--587485	25	3.2	24	67	27	63	33	1	2	62	1.17
593802--593836	2	17.5	2	100	0	70	48	0	0	51	1.00
598526--598578	27	2.0	27	96	0	97	35	11	7	45	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609283--609332	5	10.4	5	74	8	50	60	0	2	38	1.09
609268--609330	20	3.3	19	76	8	56	60	0	4	34	1.18
609284--609332	14	3.4	14	77	5	53	61	0	2	36	1.08
609328--609387	17	3.7	16	76	14	52	41	0	1	56	1.09
609955--610009	19	2.8	20	83	8	60	47	1	0	50	1.11
609979--610035	19	3.1	19	78	17	66	38	0	0	61	0.96
610000--610044	13	3.5	13	82	17	58	35	0	0	64	0.94
610086--610160	20	3.9	18	69	20	55	61	1	0	37	1.05
610914--610943	9	3.3	9	90	0	51	36	0	0	63	0.95
611616--611658	23	2.0	23	86	9	63	46	4	4	44	1.45
616433--616472	21	2.0	19	85	9	53	57	0	15	27	1.38
622557--622633	20	3.7	20	78	10	82	44	12	15	27	1.83
624842--624880	2	19.5	2	100	0	78	48	0	0	51	1.00
625694--625718	10	2.5	10	100	0	50	20	8	0	72	1.10
625682--625739	24	2.5	23	86	8	82	17	6	0	75	1.01
625890--625922	2	16.5	2	93	0	57	51	3	0	45	1.16
626736--626787	21	2.4	21	87	3	68	11	19	1	67	1.31
627531--627640	33	3.4	32	79	5	105	26	15	28	30	1.96
627518--627638	33	3.8	32	75	10	104	25	17	27	29	1.97
627684--628702	59	16.9	59	81	4	902	26	18	23	30	1.98
627665--628701	122	8.6	119	83	4	1080	27	18	23	30	1.98
627684--628701	302	3.4	297	81	5	1102	26	18	23	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
628671--628735	32	2.0	32	93	0	112	30	16	24	27	1.97
628610--628797	91	2.0	93	88	2	281	28	18	24	29	1.98
628548--628854	151	2.0	153	87	3	449	28	18	24	28	1.98
628702--629180	59	8.1	59	85	2	593	26	19	26	27	1.99
628702--629141	119	3.7	118	84	2	578	26	19	25	28	1.99
628701--629174	178	2.7	177	83	3	628	27	19	25	28	1.99
630017--630099	43	1.9	43	92	0	139	26	24	18	31	1.97
630031--630098	21	3.2	21	63	19	50	27	26	16	29	1.97
630053--630206	52	2.9	53	78	4	175	25	23	14	36	1.93
630225--630418	49	4.0	49	84	11	256	25	24	17	32	1.96
630102--630323	116	1.9	120	83	5	299	24	24	14	36	1.93
630276--630365	43	2.1	43	97	0	171	26	24	17	31	1.97
630276--630343	22	3.1	22	62	26	54	26	25	17	30	1.97
630319--630429	52	2.1	55	88	5	165	23	24	14	37	1.92
629996--630536	266	2.0	267	92	2	892	24	24	16	35	1.95
631135--631191	13	3.9	13	76	24	60	35	14	17	33	1.90
631115--631212	32	3.0	32	96	1	178	34	12	17	35	1.87
631113--631210	19	5.8	18	71	28	90	33	12	17	36	1.87
631232--631256	13	1.9	13	100	0	50	32	16	16	36	1.90
631265--631393	52	2.5	52	88	5	206	35	17	16	31	1.92
647313--647362	13	4.3	13	72	27	58	40	12	18	30	1.86
647293--647400	20	5.8	18	77	20	91	42	12	15	29	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
647313--647382	33	2.1	33	92	5	115	41	12	17	28	1.86
647293--647400	53	2.0	53	90	0	171	42	12	15	29	1.83
647956--648048	40	2.3	39	81	9	107	45	11	24	18	1.83
648087--648226	45	3.2	42	77	7	147	44	11	26	17	1.83
648095--648252	83	1.8	82	84	14	212	40	13	25	20	1.89
648095--648252	88	1.8	85	84	14	218	40	13	25	20	1.89
648216--648466	122	2.0	124	87	3	357	31	19	24	24	1.98
648217--648465	61	4.1	61	83	2	311	32	19	24	24	1.98
648517--649639	60	18.1	60	81	7	1235	28	19	27	24	1.98
648517--649639	61	18.1	61	80	7	1235	28	19	27	24	1.98
648517--649639	308	3.6	307	84	5	1345	28	19	27	24	1.98
653370--653418	21	2.3	20	83	10	62	16	6	0	77	0.96
653383--653428	10	4.6	10	84	7	58	13	6	0	80	0.89
653372--653428	29	1.9	30	89	3	89	14	5	0	80	0.87
656805--656879	20	3.8	20	76	0	78	41	10	13	34	1.79
656802--656879	40	2.0	39	87	2	111	41	11	12	34	1.80
657421--658124	29	24.5	29	87	3	960	24	16	29	29	1.96
657421--658124	57	12.3	58	89	2	960	24	16	29	29	1.96
659364--659400	5	7.8	5	88	8	51	0	0	10	89	0.49
659365--659400	9	3.9	9	92	7	63	0	0	11	88	0.50
659341--659401	10	5.7	10	79	14	61	1	3	11	83	0.83
659341--659403	11	5.7	11	78	14	60	1	3	12	82	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659365--659400	19	1.9	19	94	5	65	0	0	11	88	0.50
668593--668637	20	2.2	20	88	0	63	68	6	11	13	1.37
672888--672962	20	3.8	20	80	7	98	42	10	13	33	1.78
673990--674036	20	2.5	20	86	6	62	14	19	0	65	1.26
673990--674037	19	2.5	21	80	16	59	14	20	0	64	1.28
674300--674348	16	2.9	17	85	14	66	4	0	8	87	0.65
674300--674348	17	2.9	16	90	6	71	4	0	8	87	0.65
674300--674336	12	2.9	13	92	8	58	2	0	8	89	0.58
675854--675916	18	3.7	18	79	16	62	84	7	1	6	0.85
675854--675917	33	1.9	33	87	0	92	84	7	1	6	0.84

Tables:   1   2   3   4   5   6   7   8   9