genome.fa.s279.2.7.7.80.10.50.1000.3.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: Scaffold279
Parameters: 2 7 7 80 10 50 1000
Length:  1516008

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

This is table  3  of  10  ( 1159 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)
356036--356527	61	8.2	61	86	3	588	28	17	26	27	1.98
356026--356527	180	2.8	178	83	6	620	28	17	26	27	1.98
356030--356534	241	2.1	239	86	2	699	28	17	26	27	1.98
367819--369190	79	17.4	78	76	6	851	34	11	25	28	1.91
367830--369164	157	8.5	156	76	9	884	35	11	25	28	1.91
369149--369220	28	2.6	28	90	0	117	26	11	29	33	1.91
370795--370849	19	2.8	19	86	2	65	34	20	9	36	1.84
370877--370943	33	2.0	33	85	5	91	38	11	17	31	1.87
372994--373041	15	3.1	16	79	11	55	50	4	14	31	1.62
377442--377607	81	2.0	81	90	0	260	40	3	18	37	1.68
378241--378294	19	2.8	20	82	2	74	31	14	14	38	1.87
381183--381688	61	8.4	60	81	6	537	29	19	24	26	1.98
381225--381686	241	1.9	238	84	3	622	29	19	24	26	1.98
381185--381688	180	2.8	177	81	8	606	29	19	24	26	1.98
382676--382712	19	1.9	19	89	10	58	0	0	10	89	0.49
382676--382712	15	2.6	14	91	4	56	0	0	10	89	0.49
393156--393985	79	10.6	77	76	8	576	37	11	22	28	1.89
393069--393985	387	2.4	388	78	8	913	37	12	22	28	1.90
395458--395483	13	2.0	13	100	0	52	30	15	15	38	1.88
397859--397905	21	2.3	21	76	23	55	42	4	19	34	1.70
398029--398067	13	3.0	13	96	0	69	35	15	17	30	1.91
398053--398131	20	3.7	20	78	15	77	44	15	15	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400149--400179	15	2.1	15	93	0	53	12	22	16	48	1.80
401983--402027	21	2.1	21	84	8	56	22	20	4	53	1.63
404247--404272	13	2.0	13	100	0	52	30	15	15	38	1.88
407784--407824	20	2.1	19	90	4	64	48	7	12	31	1.68
412295--412346	27	1.9	27	88	0	77	28	17	32	21	1.96
414030--414054	13	1.9	13	100	0	50	32	16	16	36	1.90
414010--414074	33	2.0	33	87	6	96	33	18	12	35	1.88
414105--414176	20	3.7	19	87	7	83	40	16	13	29	1.87
414737--414778	22	1.9	22	90	0	66	21	33	4	40	1.74
418038--418093	20	2.8	20	91	0	85	39	10	16	33	1.83
418123--418185	19	3.7	18	72	24	64	38	17	11	33	1.85
418115--418185	32	2.2	32	94	0	124	38	18	11	32	1.86
418485--418547	19	3.7	18	74	24	64	33	11	17	38	1.85
418504--418528	13	1.9	13	100	0	50	36	16	16	32	1.90
418483--418555	32	2.3	32	95	0	128	34	10	17	36	1.85
418599--418637	13	3.0	13	100	0	78	30	15	15	38	1.88
421003--421389	52	7.4	52	70	13	249	30	27	11	30	1.91
421169--421389	51	4.3	51	80	4	212	30	26	11	30	1.92
421324--421523	108	1.8	108	82	3	258	27	28	15	29	1.96
421402--421584	79	2.3	79	81	4	199	25	29	15	30	1.96
424529--424555	13	2.1	13	100	0	54	40	14	14	29	1.86
431864--432046	51	3.5	52	77	9	194	33	10	25	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432521--433085	55	9.9	54	81	9	583	26	20	27	26	1.99
432516--433116	171	3.5	170	82	7	684	26	20	26	26	1.99
434085--434173	1	89.0	1	75	0	61	0	3	11	85	0.71
434078--434173	13	7.2	13	80	14	72	0	5	10	84	0.77
434067--434111	20	2.3	19	88	7	63	0	17	2	80	0.82
434108--434174	11	6.5	11	79	10	70	0	0	14	85	0.61
434098--434174	25	3.0	25	85	14	95	0	1	14	84	0.69
434085--434173	15	6.4	14	77	8	83	0	3	11	85	0.71
446562--446638	28	2.8	28	85	0	91	22	19	35	23	1.96
446621--446803	51	3.5	51	77	12	176	33	11	25	29	1.91
446715--446838	51	2.4	51	81	7	137	35	11	25	28	1.90
449352--449410	13	5.0	13	70	29	60	42	15	15	27	1.86
449364--449430	20	3.7	20	74	25	85	46	14	14	23	1.83
449331--449430	33	3.0	33	95	1	173	45	14	16	25	1.84
449454--449505	13	3.5	13	73	26	50	34	17	15	32	1.91
449461--449526	19	3.8	18	74	24	70	36	16	13	33	1.88
449454--449524	32	2.2	32	94	0	124	35	18	14	32	1.90
449562--449619	21	2.7	22	81	7	75	32	15	15	36	1.89
449955--449981	13	2.1	13	100	0	54	40	14	14	29	1.86
449939--450000	33	1.9	32	87	9	90	41	16	14	27	1.87
452230--452303	21	3.6	20	78	14	71	32	18	12	36	1.88
452505--452542	19	2.0	19	94	0	67	44	5	7	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452660--452988	112	2.9	112	84	0	399	37	13	15	32	1.87
461177--461203	13	2.1	13	100	0	54	37	14	7	40	1.74
461187--461243	19	2.9	19	86	2	78	33	17	14	35	1.90
462821--462855	15	2.3	15	95	0	61	42	0	28	28	1.56
464481--464746	79	3.4	78	83	2	307	35	12	24	28	1.91
464513--464765	79	3.2	79	85	5	316	33	15	24	27	1.95
465754--465826	20	3.7	20	90	0	110	45	10	15	28	1.80
466226--466254	3	9.7	3	100	0	58	31	0	0	68	0.89
466502--466708	61	3.4	61	91	2	319	25	19	29	25	1.99
467654--467709	7	7.9	7	80	11	69	1	12	3	82	0.88
478026--478056	4	7.8	4	92	0	53	74	0	3	22	0.96
480081--480509	79	5.4	79	85	3	501	34	13	24	27	1.93
480081--480509	157	2.7	156	85	4	533	34	13	24	27	1.93
487049--487083	13	2.7	13	90	0	52	42	20	11	25	1.85
489542--489568	13	2.1	13	100	0	54	29	14	14	40	1.86
489654--489683	13	2.3	13	94	0	51	30	20	13	36	1.90
489637--489707	33	2.2	32	85	10	90	29	15	18	36	1.92
491368--491423	20	2.8	19	83	5	67	37	16	16	30	1.90
491482--491507	13	2.0	13	100	0	52	38	15	15	30	1.88
491464--491525	31	2.0	32	87	9	92	38	16	16	29	1.90
493966--494012	21	2.2	21	100	0	94	8	0	38	53	1.32
495170--495194	13	1.9	13	100	0	50	32	16	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495266--495290	13	1.9	13	100	0	50	36	16	16	32	1.90
495961--496023	19	3.6	19	76	24	84	39	15	15	28	1.89
495979--496036	13	4.0	13	76	23	62	39	15	15	29	1.88
495961--496040	32	2.5	32	100	0	160	41	16	15	27	1.88
498257--498306	21	2.3	21	80	10	57	56	4	18	22	1.58
503810--503852	23	2.0	21	81	9	50	13	9	16	60	1.58
504772--504797	13	2.0	13	100	0	52	38	15	15	30	1.88
513916--514032	32	3.6	31	71	15	94	23	17	10	49	1.76
513904--514109	31	6.5	32	72	11	120	21	17	12	48	1.81
514284--514388	29	3.6	29	80	7	106	23	29	13	33	1.93
514284--514410	29	4.2	29	77	13	84	24	27	11	36	1.90
518069--518216	78	1.9	78	83	2	190	31	10	12	45	1.76
519477--519525	22	2.3	21	82	6	62	34	8	14	42	1.75
520241--520265	13	1.9	13	100	0	50	36	16	16	32	1.90
520283--520356	20	3.7	19	85	7	94	28	14	13	43	1.84
522709--522767	28	2.1	28	83	0	73	18	25	27	28	1.98
525331--525376	20	2.3	21	81	7	60	54	4	2	39	1.32
526616--526727	52	2.2	52	90	0	170	29	14	12	43	1.82
526641--526753	52	2.2	52	83	0	136	28	15	13	42	1.85
528880--529123	96	2.5	96	81	6	267	27	20	12	39	1.89
533688--533745	20	2.9	20	86	0	71	36	10	15	37	1.82
534655--534781	32	4.1	30	81	8	148	21	20	30	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534655--534775	63	1.9	63	85	6	165	22	20	30	26	1.98
534711--535351	28	22.5	28	81	6	577	23	18	29	28	1.98
534742--535351	171	3.6	170	82	5	673	24	18	28	28	1.98
534711--535355	143	4.5	141	79	5	665	23	18	29	28	1.98
536664--536698	11	3.2	11	84	15	54	0	0	8	91	0.42
536664--536705	9	4.6	9	85	14	59	0	2	9	88	0.61
536653--536698	22	2.0	22	91	4	74	4	0	8	86	0.68
536654--536705	13	3.7	14	85	12	63	3	1	9	84	0.82
554155--554194	16	2.5	16	88	8	55	40	12	0	47	1.41
561582--561679	50	1.9	50	89	6	151	48	12	13	25	1.76

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