genome.fa.s35.2.7.7.80.10.50.1000.25.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  25  of  30  ( 3549 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)
3946422--3946515	42	2.3	40	81	7	100	20	28	9	41	1.83
3947132--3947187	20	2.7	21	80	2	69	37	12	16	33	1.86
3947907--3948455	62	8.8	62	87	3	694	28	18	26	25	1.98
3947907--3948455	186	2.9	187	87	2	775	28	18	26	25	1.98
3948602--3948650	17	2.8	18	87	6	82	26	14	34	24	1.94
3963566--3963855	29	9.6	30	76	11	184	27	28	15	27	1.96
3963721--3963795	35	2.2	34	85	2	105	22	30	9	37	1.86
3963731--3963812	34	2.4	36	79	8	98	19	25	14	40	1.90
3963786--3963909	28	4.3	29	79	12	123	37	29	16	16	1.91
3963929--3964158	48	4.8	48	79	8	254	26	23	16	32	1.96
3963929--3964114	43	4.1	43	80	10	147	27	24	16	31	1.96
3963929--3964167	92	2.5	95	84	6	295	26	24	16	32	1.96
3964068--3964221	52	2.9	53	78	4	184	25	22	14	37	1.93
3964962--3965013	20	2.6	20	84	0	68	30	9	13	46	1.75
3965057--3965081	13	1.9	13	100	0	50	32	16	16	36	1.90
3965069--3965121	20	2.7	20	100	0	106	26	18	15	39	1.90
3966484--3966514	15	2.1	15	93	0	53	12	22	16	48	1.80
3968316--3968360	21	2.1	21	84	8	56	22	20	4	53	1.63
3971005--3971087	19	4.6	19	78	18	97	38	18	10	32	1.85
3971041--3971065	13	1.9	13	100	0	50	32	16	16	36	1.90
3971022--3971085	32	2.0	33	96	3	121	34	18	12	34	1.89
3971927--3972713	49	16.5	49	85	7	1003	31	17	24	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3971915--3972713	239	3.4	238	88	4	1154	31	17	24	26	1.97
3971853--3972713	288	3.0	288	88	4	1190	31	17	24	26	1.97
3972713--3973000	32	8.9	33	87	6	430	19	18	33	29	1.95
3972706--3973022	65	5.0	64	89	4	434	18	17	33	29	1.95
3973815--3973840	13	2.0	13	100	0	52	30	15	15	38	1.88
3974536--3974579	21	2.1	21	83	8	54	25	31	4	38	1.76
3978467--3978497	15	2.1	15	93	0	53	12	22	16	48	1.80
3980301--3980345	21	2.1	21	84	8	56	22	20	4	53	1.63
3982563--3982588	13	2.0	13	100	0	52	30	15	15	38	1.88
3982976--3983392	34	12.8	34	79	12	405	33	12	33	20	1.90
3983011--3983392	129	3.0	129	88	3	535	33	12	33	20	1.90
3982975--3983362	95	4.0	96	76	16	372	33	12	33	20	1.89
3983335--3983551	30	7.1	30	77	8	204	33	16	28	22	1.95
3983138--3983518	95	4.0	95	78	11	305	32	13	32	21	1.93
3983011--3983563	61	8.7	62	73	15	255	33	13	31	20	1.92
3983363--3983563	93	2.2	93	94	0	348	34	16	27	21	1.95
3991766--3991881	52	2.2	52	85	0	160	27	18	18	35	1.94
3991764--3991908	52	2.8	52	76	8	159	29	16	18	35	1.93
3991897--3991921	13	1.9	13	100	0	50	36	16	16	32	1.90
3991966--3992061	13	5.7	18	68	28	77	38	17	10	33	1.84
3991966--3992059	32	2.9	32	93	1	161	37	18	10	34	1.85
3997117--3997141	12	2.1	12	100	0	50	52	16	16	16	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3997956--3998012	20	2.8	20	94	0	96	47	7	12	33	1.68
3998313--3998568	52	4.9	52	76	4	160	34	16	25	23	1.95
3998649--3998833	28	6.5	28	81	3	199	27	15	27	30	1.96
3998666--3998834	57	2.9	57	86	5	241	28	16	25	29	1.97
3998666--3998834	58	2.9	58	88	0	250	28	16	25	29	1.97
3999092--3999116	13	1.9	13	100	0	50	36	16	16	32	1.90
3999182--3999206	13	1.9	13	100	0	50	32	16	16	36	1.90
3999215--3999335	52	2.3	52	97	0	224	34	18	18	28	1.94
4002449--4002515	28	2.4	27	77	2	80	31	13	22	32	1.92
4002606--4003110	30	16.7	29	78	7	235	32	12	29	25	1.93
4002613--4002727	59	1.9	59	84	6	153	32	10	33	24	1.89
4002716--4002850	32	4.2	32	78	9	125	34	12	27	25	1.92
4002621--4002880	64	4.2	63	77	13	177	34	11	28	25	1.91
4002888--4003074	59	3.2	59	81	3	189	28	15	29	26	1.96
4002844--4003074	89	2.6	88	80	5	234	28	15	29	26	1.96
4002821--4003102	89	3.1	88	73	4	199	30	14	28	26	1.95
4003660--4003710	20	2.5	20	87	6	68	37	11	17	33	1.86
4003678--4003732	20	2.7	21	82	2	67	38	12	14	34	1.84
4006215--4006489	79	3.5	78	80	3	304	27	25	13	33	1.93
4006445--4006520	28	2.7	28	91	0	107	25	26	19	28	1.99
4006369--4006596	104	2.2	107	83	5	277	27	23	14	33	1.94
4006202--4006492	158	1.9	157	85	3	408	27	25	13	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4006215--4006715	261	1.9	262	84	1	664	28	23	12	35	1.92
4006661--4006768	48	2.2	48	96	0	198	31	20	6	41	1.77
4006707--4006952	76	3.2	75	82	9	264	30	21	11	36	1.89
4006833--4007068	107	2.2	106	82	7	291	27	22	13	36	1.92
4006911--4006971	28	2.2	27	79	2	68	26	19	21	32	1.97
4006940--4007814	78	11.2	78	72	10	516	29	22	11	36	1.90
4006756--4007141	184	2.1	183	81	5	431	27	23	13	35	1.92
4006257--4007168	464	2.0	466	84	5	1193	28	22	12	37	1.90
4007211--4007498	161	1.8	158	81	6	366	29	25	10	34	1.90
4007763--4007876	52	2.1	55	82	8	144	30	23	6	39	1.79
4014724--4014774	6	8.0	6	78	20	50	1	3	13	80	0.94
4014721--4014767	21	2.2	21	77	7	51	2	6	10	80	0.96
4014722--4014790	33	2.1	32	84	10	86	5	7	10	76	1.14
4017413--4017562	70	2.2	69	93	1	255	38	8	13	40	1.74
4017544--4017582	20	2.0	20	89	0	60	38	10	17	33	1.84
4018403--4018453	20	2.6	20	87	3	68	27	13	19	39	1.90
4018487--4018537	20	2.5	20	87	0	66	29	17	13	39	1.88
4020826--4020866	22	2.0	21	86	13	59	41	4	21	31	1.74
4025513--4025548	18	2.0	18	94	0	63	19	33	5	41	1.75
4027155--4027179	13	1.9	13	100	0	50	36	16	16	32	1.90
4027132--4027199	33	2.1	33	88	2	102	32	14	17	35	1.91
4028791--4028816	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4028885--4028941	20	2.8	20	86	7	80	26	15	15	42	1.87
4029524--4029567	21	2.1	21	83	8	54	25	31	4	38	1.76
4033460--4033490	15	2.1	15	93	0	53	12	22	16	48	1.80
4035293--4035337	21	2.1	21	84	8	56	22	20	4	53	1.63
4037583--4037608	13	2.0	13	100	0	52	30	15	15	38	1.88
4037563--4037626	32	2.0	33	90	3	103	28	14	15	42	1.86
4039808--4040362	79	7.1	79	77	7	456	31	12	27	28	1.93
4039786--4040362	158	3.7	157	80	4	601	30	12	27	28	1.93
4039808--4040279	237	2.0	235	79	6	517	31	12	27	28	1.93
4042072--4042173	27	3.7	27	78	10	91	20	2	5	70	1.21
4042893--4043784	52	17.6	50	70	12	273	33	16	24	25	1.96
4043183--4043269	43	2.0	43	82	4	104	31	18	25	25	1.98
4042831--4043538	361	2.0	350	81	7	818	33	16	25	24	1.96
4043443--4043731	95	3.0	93	77	8	301	31	17	24	26	1.97
4043494--4043824	150	2.3	140	81	10	382	31	18	24	25	1.97
4043962--4044051	32	2.8	32	78	9	94	24	14	28	32	1.94
4045641--4045684	20	2.2	20	91	0	70	4	0	13	81	0.83
4045635--4045701	22	3.0	22	74	10	64	7	2	8	80	0.99
4045658--4045682	12	2.1	12	100	0	50	0	0	16	84	0.63
4052742--4053101	129	2.9	125	80	7	374	32	13	26	27	1.93
4052970--4053132	79	2.1	79	88	2	238	30	15	27	26	1.96
4053084--4053160	28	2.8	28	81	0	82	23	22	32	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4053193--4053262	26	2.6	26	82	11	88	25	21	30	22	1.99
4053085--4053369	133	2.1	134	89	3	439	30	18	25	25	1.98
4055673--4055702	13	2.3	13	94	0	51	36	13	20	30	1.90
4055682--4055719	20	2.0	19	90	10	60	42	15	15	26	1.87
4055735--4055789	20	2.8	20	85	0	74	45	12	14	27	1.81
4057699--4057724	13	2.0	13	100	0	52	7	46	7	38	1.61
4061577--4061676	50	2.0	51	84	5	132	34	8	27	31	1.85
4061616--4062035	79	5.3	78	75	6	314	32	12	26	27	1.93
4061486--4061757	130	2.1	130	82	4	336	31	13	26	27	1.94
4061616--4062031	158	2.6	156	82	5	482	32	12	26	27	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30