genome.fa.s53.2.7.7.80.10.50.1000.27.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  27  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)
4155844--4155900	20	2.8	21	83	2	80	33	15	14	36	1.88
4157530--4157562	17	1.9	17	100	0	66	36	9	18	36	1.82
4158561--4158653	19	4.8	20	86	4	118	36	13	17	32	1.89
4158561--4158653	39	2.4	39	96	0	168	36	13	17	32	1.89
4158561--4158670	39	2.8	39	89	5	134	37	12	17	32	1.87
4158581--4158670	19	4.6	19	84	6	83	38	12	16	32	1.86
4159230--4159274	21	2.1	21	87	0	63	33	22	4	40	1.74
4162094--4162186	20	4.7	20	88	4	127	29	15	12	43	1.83
4164487--4164986	79	6.3	78	72	12	331	27	25	14	33	1.94
4164566--4164683	51	2.3	50	86	4	164	31	27	11	29	1.91
4164669--4164737	28	2.5	27	86	11	95	26	30	17	26	1.97
4164618--4164818	107	1.9	106	87	4	296	27	27	13	30	1.94
4164699--4164986	79	3.6	79	84	3	339	26	24	15	34	1.95
4164710--4165021	158	2.0	158	80	6	355	26	23	15	34	1.95
4171421--4171445	13	1.9	13	100	0	50	32	16	16	36	1.90
4171495--4171550	19	2.9	19	81	2	58	33	14	17	33	1.90
4171535--4171561	13	2.1	13	100	0	54	33	14	22	29	1.94
4175698--4175738	17	2.4	17	83	0	55	63	4	0	31	1.15
4177599--4177632	16	2.1	16	88	0	50	58	17	0	23	1.38
4181893--4181924	3	10.7	3	93	0	55	65	0	0	34	0.93
4184204--4184254	14	3.7	14	80	17	54	35	0	3	60	1.15
4184200--4184254	29	2.0	27	86	13	76	38	0	3	58	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4184200--4184263	29	2.2	29	81	15	71	39	1	3	56	1.25
4184620--4184749	64	2.0	64	100	0	260	34	9	15	40	1.79
4196608--4196785	6	29.5	6	67	16	75	76	1	19	2	0.98
4196606--4196758	35	4.5	34	76	12	120	77	1	17	2	0.97
4196651--4196788	30	4.8	30	75	18	116	76	0	19	2	0.95
4196724--4196791	5	12.8	5	80	14	66	77	1	20	0	0.84
4196642--4196758	7	16.6	7	69	24	61	79	1	15	3	0.95
4205931--4205981	12	3.9	12	78	16	57	39	11	5	43	1.66
4205984--4206009	12	2.2	12	100	0	52	23	26	34	15	1.94
4210475--4210517	21	2.0	21	81	0	50	25	2	4	67	1.22
4211956--4212506	157	3.5	153	80	7	551	26	13	19	40	1.88
4211866--4212515	157	4.2	154	77	9	545	27	12	19	41	1.87
4216708--4216882	20	7.7	20	68	23	98	29	17	11	42	1.84
4216708--4216882	91	1.9	90	94	1	305	29	17	11	42	1.84
4217232--4217351	61	2.0	61	91	3	197	29	28	11	30	1.92
4222734--4222919	79	2.4	76	90	4	284	31	15	26	25	1.96
4225301--4225326	13	2.0	13	100	0	52	38	15	15	30	1.88
4225364--4225421	13	4.0	13	74	23	53	34	15	15	34	1.89
4225378--4225482	19	5.7	19	78	16	105	36	18	12	33	1.88
4225365--4225440	32	2.4	32	95	0	134	35	17	14	32	1.90
4232163--4232188	13	2.0	13	100	0	52	84	0	0	15	0.62
4233114--4233537	30	13.7	30	84	5	490	23	29	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4233114--4233537	61	6.9	60	84	5	490	23	29	15	31	1.95
4233526--4234027	34	15.6	33	73	14	392	20	30	12	36	1.90
4233118--4233644	280	1.9	276	81	8	624	22	29	15	32	1.95
4233648--4233707	27	2.2	27	87	0	84	21	31	11	35	1.90
4233615--4234000	65	6.1	61	77	14	283	19	30	12	36	1.89
4233541--4234000	160	2.9	160	85	5	591	19	30	12	37	1.89
4233575--4233932	126	2.9	118	76	16	355	19	29	13	37	1.90
4233808--4233928	33	4.0	27	78	18	89	19	32	14	33	1.93
4233675--4234038	193	1.9	191	84	6	495	20	30	12	36	1.89
4234022--4234431	43	9.2	43	70	17	268	26	26	17	29	1.97
4234028--4234727	49	14.9	49	73	10	480	25	25	17	31	1.97
4234022--4234482	92	5.1	91	88	3	580	26	26	17	29	1.98
4234189--4234258	21	3.3	21	66	18	54	27	24	17	31	1.97
4234282--4234425	39	3.5	39	74	15	144	27	26	20	25	1.99
4234390--4234725	150	2.2	148	80	3	377	24	25	18	32	1.97
4235759--4235804	21	2.2	21	84	7	58	32	23	17	26	1.97
4235830--4235884	20	2.7	21	97	0	87	25	12	14	47	1.80
4235900--4235974	20	3.8	19	87	7	105	28	16	13	42	1.85
4238319--4238434	51	2.3	51	83	3	144	29	23	15	31	1.95
4238426--4238498	28	2.6	27	80	10	94	24	28	19	27	1.98
4238415--4238614	109	1.8	109	84	0	274	24	23	17	35	1.95
4238590--4238706	51	2.3	51	84	0	171	30	24	11	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4238657--4238860	79	2.6	79	81	3	248	28	25	12	33	1.92
4251216--4251304	1	89.0	1	72	0	70	86	10	1	2	0.71
4251216--4251304	27	3.2	28	90	4	135	86	10	1	2	0.71
4251216--4251304	36	2.5	35	85	10	110	86	10	1	2	0.71
4251216--4251303	26	3.2	25	84	15	97	86	10	1	2	0.72
4252306--4252731	156	2.8	155	89	3	630	25	27	19	27	1.98
4252457--4252584	61	2.1	62	88	4	188	23	27	18	30	1.98
4252592--4252974	62	6.4	61	83	9	472	25	25	20	27	1.99
4252590--4252974	118	3.2	118	86	6	530	25	25	20	28	1.99
4252947--4253137	42	4.5	42	80	8	206	21	26	13	38	1.90
4253147--4253272	41	3.1	39	76	12	112	18	29	11	40	1.86
4253189--4253272	40	2.1	40	82	6	98	17	28	11	41	1.85
4253771--4253816	21	2.2	21	84	7	58	32	23	17	26	1.97
4253860--4253889	13	2.3	13	100	0	60	30	16	13	40	1.87
4253842--4253991	33	4.1	34	69	25	108	28	16	15	40	1.89
4253905--4253959	20	2.8	20	86	5	76	27	16	16	40	1.89
4253905--4253992	20	4.8	20	71	23	75	29	15	13	40	1.86
4253942--4253971	13	2.3	13	100	0	60	30	16	13	40	1.87
4256293--4256461	51	3.3	51	82	1	205	28	25	13	33	1.93
4256448--4256520	28	2.6	28	84	4	94	23	30	19	27	1.98
4256399--4256677	109	2.6	109	75	9	297	27	25	12	34	1.92
4256614--4256781	51	3.3	52	82	5	209	32	26	8	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4265650--4266379	28	25.5	29	84	5	823	28	30	17	23	1.97
4265650--4266379	170	4.2	168	84	5	874	28	30	17	23	1.97
4266315--4266412	32	3.1	31	82	2	115	32	32	15	19	1.93
4266325--4266435	31	3.5	31	79	6	116	30	29	17	22	1.96
4267372--4267457	31	2.8	32	74	20	92	30	18	10	40	1.84
4272868--4272967	50	2.0	50	98	0	191	28	18	17	37	1.92
4275116--4276091	165	6.0	163	79	10	963	27	11	7	52	1.65
4275699--4275997	144	2.1	146	85	7	405	26	12	8	52	1.68
4275849--4276203	164	2.2	163	81	5	387	29	11	8	51	1.67
4276676--4276711	10	3.6	10	84	0	54	77	0	11	11	0.99
4277799--4278423	159	3.9	160	86	3	877	35	11	12	40	1.79
4278134--4278529	160	2.6	145	79	10	363	33	12	13	39	1.83
4278726--4279026	154	1.9	155	82	3	374	23	15	21	39	1.92
4281503--4281576	28	2.6	28	86	0	94	24	21	32	21	1.98
4281564--4281680	52	2.2	52	83	5	139	31	14	25	28	1.95
4281498--4281811	160	2.0	160	83	6	404	31	14	26	27	1.95
4281654--4281738	27	3.1	27	80	5	100	28	21	28	22	1.99
4281726--4281844	51	2.3	53	86	7	163	34	11	21	31	1.90
4284265--4284332	19	3.9	18	76	23	83	38	14	11	35	1.83
4284287--4284311	13	1.9	13	100	0	50	32	16	16	36	1.90
4284268--4284330	32	2.0	32	96	0	117	36	15	12	34	1.86
4284388--4284444	21	2.7	21	97	0	105	36	19	10	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4285165--4285852	55	12.3	55	88	6	872	22	20	29	27	1.99
4285320--4285407	26	3.3	26	67	14	70	20	17	35	27	1.94
4286843--4286891	5	10.8	5	82	12	54	0	2	12	85	0.68
4286838--4286905	14	5.0	13	89	8	68	0	5	10	83	0.79
4286837--4286890	19	3.0	18	82	15	67	0	3	9	87	0.67
4286847--4286905	14	4.4	13	93	4	82	0	5	10	84	0.76
4286836--4286904	13	4.8	15	84	14	67	0	7	8	84	0.79
4286843--4286890	18	2.7	18	90	6	71	0	2	10	87	0.62
4299384--4299457	28	2.6	28	86	0	94	24	21	32	21	1.98
4299580--4299698	51	2.3	53	85	7	154	33	11	22	31	1.90

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