genome.fa.s53.2.7.7.80.10.50.1000.26.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: Scaffold53
Parameters: 2 7 7 80 10 50 1000
Length:  4419549

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   

This is table  26  of  28  ( 3325 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)
4026971--4027034	22	3.0	22	72	6	60	39	0	3	57	1.14
4028844--4028877	17	2.0	17	88	0	50	35	0	0	64	0.94
4029426--4029489	20	3.4	20	70	27	59	42	0	0	57	0.98
4029693--4029752	19	3.2	18	75	17	59	38	0	0	61	0.96
4031574--4031598	13	1.9	13	100	0	50	36	16	16	32	1.90
4033782--4034008	98	2.3	98	83	0	301	26	23	14	35	1.93
4039890--4039930	21	2.0	21	85	0	55	58	12	9	19	1.61
4043012--4043094	27	3.0	28	85	3	114	21	32	16	28	1.96
4043062--4043253	34	5.9	34	82	9	215	21	31	12	34	1.91
4043169--4043260	33	3.3	27	79	19	107	22	32	15	29	1.95
4043036--4043250	60	3.4	60	76	16	229	21	32	13	32	1.92
4043248--4044988	49	36.8	49	76	11	1122	25	25	18	30	1.98
4043244--4044988	192	9.2	189	77	12	1406	25	25	18	30	1.98
4043252--4044655	235	6.0	233	77	11	1211	25	25	18	30	1.98
4043921--4044124	39	5.0	39	79	12	203	26	25	22	25	2.00
4043872--4044085	87	2.4	88	88	0	313	27	25	20	27	1.99
4044091--4044323	101	2.3	98	81	3	261	24	25	19	30	1.98
4044503--4044682	39	4.4	39	79	12	207	25	27	22	24	2.00
4043254--4044996	569	3.1	560	82	8	1923	25	25	18	30	1.98
4044441--4044682	126	1.9	127	90	0	387	26	26	20	27	1.99
4045420--4045486	33	2.0	33	88	0	98	34	11	13	40	1.81
4045440--4045464	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4045530--4045554	13	1.9	13	100	0	50	32	16	16	36	1.90
4045563--4045683	52	2.3	52	97	0	224	34	18	18	28	1.94
4051133--4051171	21	1.9	20	85	15	53	53	2	2	41	1.28
4054034--4054070	18	2.1	18	100	0	74	32	21	10	35	1.88
4056181--4056231	19	2.6	20	90	3	77	27	15	13	43	1.85
4057820--4057853	2	17.0	2	100	0	68	50	0	0	50	1.00
4058169--4058212	21	2.1	21	86	0	61	70	0	0	29	0.88
4058224--4058269	17	2.7	18	83	9	62	34	0	0	65	0.93
4064514--4064582	27	2.6	26	77	11	68	26	2	4	66	1.24
4064566--4064603	15	2.5	15	84	12	51	34	0	0	65	0.93
4065538--4065601	29	2.2	28	83	2	74	45	1	10	42	1.49
4065966--4066242	143	1.9	145	86	5	393	45	4	7	42	1.51
4066443--4066474	2	16.0	2	100	0	64	50	0	0	50	1.00
4067561--4067623	24	2.6	24	80	5	65	60	1	4	33	1.27
4067605--4067670	7	9.3	7	75	20	57	59	0	1	39	1.07
4067605--4067670	16	4.6	14	77	17	57	59	0	1	39	1.07
4067936--4067984	20	2.5	20	82	0	71	34	0	0	65	0.93
4068469--4068506	20	1.9	20	84	10	51	71	7	7	13	1.31
4068591--4068642	23	2.3	23	83	3	61	71	3	3	21	1.18
4068856--4068897	18	2.3	18	88	8	59	59	0	2	38	1.10
4068848--4068899	17	2.9	17	75	16	52	53	1	1	42	1.23
4078532--4078963	97	4.5	96	81	7	457	32	6	26	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4078546--4078963	194	2.2	194	83	7	528	32	6	26	34	1.83
4080898--4080952	16	3.2	18	82	15	62	25	0	1	72	0.94
4080900--4080952	17	3.1	18	84	10	58	24	0	1	73	0.93
4080919--4080952	8	4.2	8	100	0	68	23	0	0	76	0.79
4080918--4080997	8	9.2	8	74	14	52	22	1	1	75	0.95
4080918--4080990	37	1.9	38	86	8	105	21	1	1	75	0.96
4080954--4080998	17	2.7	17	86	3	56	24	2	0	73	0.95
4080912--4080975	29	2.3	29	84	7	80	20	1	1	76	0.95
4084169--4084225	21	2.7	21	77	0	69	31	22	3	42	1.71
4091090--4091132	21	2.0	21	81	0	50	25	2	4	67	1.22
4092598--4093133	156	3.4	155	81	5	566	27	13	18	40	1.88
4097320--4097386	20	3.3	20	82	0	89	31	14	13	40	1.85
4108413--4108480	1	68.0	1	76	0	64	88	11	0	0	0.52
4108413--4108477	6	10.8	6	80	12	80	87	12	0	0	0.54
4108413--4108480	11	6.3	11	85	10	95	88	11	0	0	0.52
4108797--4108821	13	1.9	13	100	0	50	84	0	0	16	0.63
4109749--4110209	62	7.5	61	80	7	475	24	28	15	31	1.95
4109749--4110277	30	17.2	30	81	7	510	23	29	14	32	1.95
4109747--4110246	216	2.3	221	80	8	562	24	28	14	32	1.95
4110192--4110663	34	14.8	33	77	13	436	19	31	12	36	1.90
4110192--4110632	60	7.0	59	77	10	300	19	31	12	36	1.90
4110281--4110338	27	2.2	26	87	6	89	22	32	12	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4110340--4110403	31	2.3	27	86	13	85	18	34	12	34	1.89
4110261--4110631	159	2.3	160	86	4	482	19	31	12	36	1.89
4110307--4110670	193	1.9	191	87	5	529	19	31	12	36	1.89
4110654--4111164	48	11.3	43	71	17	225	26	24	17	32	1.97
4110660--4111453	49	16.8	49	73	11	534	25	23	17	33	1.96
4110654--4110939	92	3.1	92	90	2	414	26	24	16	32	1.96
4110945--4111107	39	3.9	39	74	13	146	26	22	20	30	1.98
4110756--4111022	142	1.9	140	86	3	385	26	23	17	31	1.97
4110902--4111158	87	2.9	87	94	0	433	25	23	19	31	1.98
4111071--4111453	150	2.6	147	80	4	385	24	23	17	33	1.96
4112052--4112090	21	1.9	20	89	5	60	38	12	12	35	1.82
4112530--4112559	13	2.3	13	100	0	60	30	16	13	40	1.87
4112575--4112629	20	2.8	19	83	8	74	25	18	14	41	1.88
4114569--4114642	28	2.6	28	91	0	112	21	32	21	24	1.98
4114557--4114767	110	1.9	109	91	0	341	24	25	15	34	1.95
4114676--4114752	28	2.8	28	87	0	109	22	32	19	25	1.97
4114738--4114854	51	2.3	51	83	2	155	31	29	9	29	1.88
4114788--4115015	79	2.9	78	78	3	249	28	25	12	33	1.92
4127072--4127150	1	79.0	1	71	0	59	86	12	1	0	0.64
4127072--4127149	9	8.7	9	80	19	92	85	12	1	0	0.65
4127071--4127134	7	8.7	7	85	13	67	85	14	0	0	0.59
4127071--4127143	17	4.2	17	87	6	94	84	15	0	0	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4127072--4127150	38	2.1	38	88	9	117	86	12	1	0	0.64
4128123--4128770	156	4.0	156	80	8	608	25	24	18	31	1.98
4128317--4128432	62	1.9	62	87	1	171	27	25	18	28	1.98
4128474--4128886	61	6.9	61	79	8	433	25	22	19	31	1.98
4128868--4129009	42	3.3	42	71	7	106	23	25	11	39	1.89
4129051--4129154	41	2.5	41	80	11	115	16	26	11	45	1.81
4129091--4129181	41	2.2	40	78	9	92	16	26	12	45	1.82
4129714--4129770	20	2.8	20	97	0	105	24	15	15	43	1.86
4129732--4129794	13	5.3	13	73	21	66	28	19	14	38	1.90
4129810--4129884	20	3.8	19	80	7	78	26	16	13	44	1.84
4132181--4132341	51	3.2	51	76	3	146	27	24	14	32	1.94
4132216--4132340	50	2.5	51	77	5	137	28	22	13	35	1.92
4132332--4132397	28	2.3	29	80	15	84	24	27	22	25	2.00
4132282--4132559	107	2.6	106	75	10	271	28	23	14	33	1.93
4132506--4132663	51	3.1	52	84	5	198	33	25	6	34	1.83
4140192--4140240	21	2.3	21	80	13	57	75	12	8	4	1.16
4141534--4141864	28	11.7	28	87	3	418	30	32	16	21	1.95
4141534--4141864	142	2.3	141	87	4	495	30	32	16	21	1.95
4141843--4141937	31	3.0	30	81	14	111	27	30	18	23	1.98
4142902--4142954	11	5.1	11	74	21	60	33	16	9	39	1.81
4142899--4142971	30	2.4	30	100	0	146	34	16	10	38	1.84
4144080--4144148	36	1.9	36	82	11	88	34	21	5	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4148385--4148484	50	2.0	50	98	0	191	28	18	17	37	1.92
4150629--4151367	165	4.5	164	81	8	777	28	11	7	52	1.65
4151005--4151047	22	2.0	22	86	9	61	37	4	0	58	1.19
4150655--4151619	330	3.0	329	79	10	940	28	11	7	52	1.65
4151216--4151512	143	2.1	144	83	8	374	26	11	8	53	1.65
4151261--4151562	145	2.1	144	78	10	305	28	9	8	53	1.63
4151357--4151718	164	2.2	165	80	4	383	29	10	7	52	1.63
4152438--4152759	178	1.8	177	86	2	468	27	13	18	39	1.89
4152989--4153613	159	3.9	160	87	3	886	35	11	12	40	1.79
4153917--4154217	154	1.9	155	82	2	372	24	15	21	39	1.91

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