genome.fa.s98.2.7.7.80.10.50.1000.4.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: Scaffold98
Parameters: 2 7 7 80 10 50 1000
Length:  1546936

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

This is table  4  of  13  ( 1465 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)
414691--414716	13	2.0	13	100	0	52	30	15	15	38	1.88
417208--417246	13	3.0	13	96	0	69	35	15	17	30	1.91
417232--417310	20	3.7	20	78	15	77	44	15	15	25	1.85
423406--423431	13	2.0	13	100	0	52	30	15	15	38	1.88
426818--426854	6	6.2	6	90	0	56	83	16	0	0	0.64
428146--428613	62	7.5	61	83	8	509	24	30	14	30	1.94
428136--428612	32	15.3	31	83	9	517	23	31	14	30	1.94
428136--428546	187	2.2	186	87	5	569	23	31	14	30	1.94
428591--428947	34	11.2	33	78	12	331	19	31	13	35	1.90
428224--428640	93	4.4	96	81	9	287	23	31	14	30	1.94
428615--428789	27	6.0	27	75	19	147	21	33	13	31	1.92
428587--428924	95	3.6	93	82	11	395	20	31	13	34	1.92
428591--428947	61	5.6	66	75	15	331	19	31	13	35	1.90
428591--428960	156	2.3	156	80	14	457	19	31	13	34	1.91
428938--429062	29	4.3	29	80	9	139	31	33	18	16	1.93
429079--429567	48	10.9	48	74	16	442	25	24	19	30	1.98
429186--430060	39	20.8	39	72	17	600	26	25	20	27	1.99
429134--429592	87	5.3	87	95	0	830	26	24	20	28	1.99
429564--429622	30	2.0	30	96	0	109	28	30	20	20	1.97
429389--429787	203	2.0	195	89	4	611	26	26	20	26	1.99
429728--430214	87	5.4	86	85	7	596	25	26	18	28	1.98
430024--430360	49	6.7	51	75	8	255	24	25	17	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430024--430262	101	2.4	101	88	0	343	24	25	17	31	1.97
441206--441257	19	2.7	20	87	3	70	26	17	15	40	1.89
441187--441275	20	4.5	19	77	5	79	30	21	14	33	1.93
441327--441352	13	2.0	13	100	0	52	30	15	15	38	1.88
441309--441376	33	2.1	33	86	5	93	36	11	17	33	1.86
443733--443766	17	2.0	17	100	0	68	64	0	5	29	1.17
447597--447942	79	4.4	79	80	4	378	31	13	27	27	1.94
447602--447942	159	2.2	158	83	5	431	32	13	26	27	1.94
450303--450344	21	2.0	21	95	0	75	28	16	9	45	1.79
450369--450441	19	3.7	19	81	5	83	36	15	10	36	1.82
453329--453357	2	14.5	2	100	0	58	51	0	0	48	1.00
454928--454958	2	15.5	2	100	0	62	48	0	0	51	1.00
454998--455024	4	6.8	4	100	0	54	74	0	0	25	0.83
455911--455966	28	2.0	29	85	3	78	44	16	12	26	1.83
456594--456629	15	2.4	15	85	0	54	55	2	13	27	1.52
463296--463339	21	2.1	21	83	8	54	25	31	4	38	1.76
463491--463539	25	2.1	24	88	11	75	53	20	14	12	1.73
467235--467265	15	2.1	15	93	0	53	12	22	16	48	1.80
469069--469113	21	2.1	21	84	8	56	22	20	4	53	1.63
470601--470667	33	2.0	33	88	0	98	34	11	13	40	1.81
470621--470645	13	1.9	13	100	0	50	36	16	16	32	1.90
470742--470862	52	2.3	52	94	0	215	35	18	17	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474969--475021	20	2.6	21	85	8	74	28	15	15	41	1.87
476060--476188	52	2.5	52	93	0	222	28	17	18	35	1.93
476232--476334	32	3.2	32	94	0	179	37	18	11	32	1.87
476272--476335	19	3.7	19	76	23	86	35	18	12	32	1.89
476259--476315	13	3.9	13	74	24	51	35	17	12	35	1.87
479398--479433	3	12.0	3	100	0	72	33	0	33	33	1.58
486358--486409	21	2.5	21	93	0	86	34	3	13	48	1.61
486558--486584	13	2.1	13	100	0	54	29	14	14	40	1.86
491066--491120	20	2.8	20	88	0	74	32	14	9	43	1.77
495398--495469	20	3.7	20	75	3	74	37	18	16	27	1.92
499967--500064	19	5.8	18	67	28	72	33	12	17	36	1.87
499969--500069	32	3.1	32	92	1	166	34	11	17	35	1.87
500140--500424	52	5.5	52	94	0	498	34	19	18	27	1.95
508881--508936	20	2.7	21	86	2	78	39	14	17	28	1.89
514604--515009	166	2.4	164	78	6	449	32	11	8	47	1.69
515471--515531	6	10.3	6	78	16	65	80	0	19	0	0.72
515473--515528	14	4.2	14	78	19	66	78	0	21	0	0.75
515477--515531	11	4.7	11	86	6	65	81	0	18	0	0.68
515477--515531	22	2.3	24	87	9	78	81	0	18	0	0.68
515475--515539	10	6.7	9	74	20	51	80	0	18	1	0.80
515471--515539	14	4.6	14	75	20	59	79	0	18	1	0.80
518684--518737	20	2.7	20	82	5	65	38	20	11	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518787--518811	13	1.9	13	100	0	50	32	16	20	32	1.94
518768--518830	32	1.9	32	90	3	99	36	15	17	30	1.91
525664--525691	13	2.2	13	100	0	56	39	17	14	28	1.89
527530--527582	27	1.9	28	92	3	90	24	39	16	18	1.91
533225--533620	53	7.5	52	76	4	287	34	14	25	25	1.94
533356--533626	105	2.6	106	80	4	280	36	15	23	24	1.93
533672--533992	31	10.1	32	81	9	311	22	16	31	29	1.96
534033--534532	60	8.3	60	77	8	394	35	11	29	23	1.90
534054--534184	34	4.0	34	75	13	130	40	10	28	20	1.86
534029--534532	27	16.7	32	70	16	215	35	11	29	23	1.90
534529--534595	29	2.3	30	86	2	91	28	13	31	26	1.94
540832--540885	20	2.8	20	85	2	74	29	14	18	37	1.91
544730--544755	13	2.0	13	100	0	52	38	15	15	30	1.88
544712--544775	32	2.0	33	90	3	103	39	20	14	26	1.90
545204--545270	37	1.9	35	88	11	102	32	11	25	29	1.92
548083--548121	19	2.1	19	85	0	51	23	5	5	66	1.32
548429--548453	13	1.9	13	100	0	50	36	16	16	32	1.90
549307--549554	124	2.0	124	98	0	478	38	3	27	29	1.74
550396--550451	20	2.8	20	88	0	76	37	16	16	30	1.90
550521--550546	13	2.0	13	100	0	52	38	15	15	30	1.88
550503--550566	32	2.0	33	90	3	103	39	18	14	28	1.90
550995--551061	37	1.9	35	88	11	102	32	11	25	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554143--554182	20	2.0	21	90	5	64	35	22	0	42	1.54
555738--555789	22	2.3	22	93	3	86	44	0	13	42	1.44
557179--557219	21	2.0	22	85	9	59	43	17	21	17	1.87
558261--558299	21	1.9	21	89	5	62	38	20	7	33	1.81
562753--562883	52	2.5	52	91	0	199	29	16	18	35	1.93
562753--562903	52	2.9	50	84	7	167	30	15	18	35	1.93
562892--562916	13	1.9	13	100	0	50	36	16	16	32	1.90
562959--563023	19	3.7	19	69	23	61	40	15	10	33	1.82
562954--563014	32	1.9	32	96	0	113	37	16	9	36	1.82
563795--563921	67	1.9	68	88	4	195	40	12	22	23	1.88
563871--564761	49	18.9	52	73	17	290	33	17	23	25	1.96
563925--564762	92	9.1	92	92	1	1295	33	17	23	25	1.97
564867--565231	33	10.9	34	77	11	317	32	12	34	20	1.91
564819--565145	100	3.3	100	86	3	410	33	12	33	20	1.90
564871--565199	136	2.4	135	82	7	400	32	13	34	20	1.91
566181--566226	1	46.0	1	86	0	65	0	0	6	93	0.35
566181--566225	10	4.6	10	97	2	83	0	0	6	93	0.35
566464--566518	17	3.4	16	75	12	58	1	1	14	81	0.85
566476--566518	16	2.7	16	82	7	52	2	2	11	83	0.83
578534--578574	21	2.0	21	85	9	57	39	12	9	39	1.76
578611--578667	21	2.8	20	81	5	69	40	15	14	29	1.87
578655--578791	53	2.6	53	91	3	213	37	18	16	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578815--578845	10	3.1	10	90	0	53	22	29	6	41	1.78
580285--580445	84	1.9	84	80	9	186	53	3	17	25	1.60
581643--581953	92	3.4	91	83	4	347	31	27	13	27	1.94
582558--582664	45	2.4	45	83	1	142	22	19	13	44	1.85
582864--582952	45	2.0	45	81	0	106	21	22	13	42	1.87
586453--586507	20	2.8	20	85	0	83	30	16	9	43	1.79
586841--586896	19	2.9	19	83	2	76	28	17	14	39	1.89
587852--587950	45	2.2	45	83	3	119	20	22	17	40	1.91
587897--588154	78	3.2	80	73	6	245	19	20	14	45	1.85
592229--592319	32	2.8	33	76	14	107	29	25	14	30	1.95

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