genome.fa.s29.2.7.7.80.10.50.1000.20.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   31   32   
          33   34   

This is table  20  of  34  ( 4030 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)
2982859--2983762	332	2.7	332	84	4	1214	52	7	12	27	1.65
2985196--2985295	42	2.4	41	78	8	103	39	18	27	16	1.91
2985273--2985806	84	6.4	85	76	5	426	40	17	26	15	1.89
2985234--2985888	42	15.6	42	75	7	382	40	18	26	15	1.90
2987079--2987225	43	3.4	43	83	0	168	36	17	27	18	1.93
2987438--2987592	48	3.3	47	81	4	168	40	17	20	22	1.92
2989262--2989333	20	3.6	20	80	0	90	33	13	11	41	1.80
3002700--3002762	1	63.0	1	77	0	54	87	7	3	1	0.71
3002702--3002760	9	6.9	9	75	11	61	86	8	3	1	0.75
3003965--3004435	28	16.5	28	85	4	557	29	30	17	23	1.97
3003965--3004435	203	2.4	198	86	3	667	29	30	17	23	1.97
3003965--3004480	231	2.2	232	83	6	665	29	29	18	23	1.97
3004557--3004670	49	2.4	46	81	8	131	21	26	20	31	1.98
3004709--3004832	29	4.1	29	83	6	149	22	35	12	29	1.91
3004683--3004804	62	1.9	63	90	3	192	22	33	13	30	1.93
3004797--3004880	36	2.4	35	84	7	100	20	34	10	34	1.87
3004896--3005256	65	5.6	64	91	3	528	29	34	17	18	1.94
3004896--3005266	32	11.5	32	89	4	527	29	34	17	18	1.94
3004896--3005259	129	2.8	129	89	3	545	28	34	17	18	1.94
3005305--3005762	43	10.1	43	79	10	493	25	24	17	32	1.97
3005254--3005815	92	6.1	92	91	1	881	25	24	17	32	1.97
3005254--3006035	184	4.0	184	83	9	900	24	24	16	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3005716--3006026	49	5.7	55	77	12	168	24	24	15	35	1.94
3005884--3006049	49	3.4	49	95	0	296	23	26	16	33	1.95
3006763--3006787	13	1.9	13	100	0	50	36	16	16	32	1.90
3006743--3006821	33	2.4	33	86	0	104	31	12	15	40	1.84
3006762--3006842	33	2.5	33	97	0	153	27	12	14	45	1.81
3006883--3006907	13	1.9	13	100	0	50	32	16	16	36	1.90
3006896--3007044	52	2.9	50	85	6	190	34	16	16	32	1.91
3010745--3010803	32	1.9	30	83	13	75	59	10	10	20	1.58
3011084--3011109	13	2.0	13	100	0	52	30	15	15	38	1.88
3011063--3011127	32	2.0	34	90	6	107	27	12	15	44	1.82
3011179--3011234	20	2.8	20	89	5	78	28	17	16	37	1.91
3013182--3013224	20	2.1	20	86	4	59	9	25	44	20	1.81
3013655--3013692	13	2.9	13	88	0	58	31	13	18	36	1.89
3015773--3015803	15	2.1	15	93	0	53	12	22	16	48	1.80
3017607--3017651	21	2.1	21	84	8	56	22	20	4	53	1.63
3019546--3019604	32	1.9	30	83	13	75	59	10	10	20	1.58
3019885--3019910	13	2.0	13	100	0	52	30	15	15	38	1.88
3019864--3019928	32	2.0	34	90	6	107	27	12	15	44	1.82
3019980--3020035	20	2.8	20	89	5	78	28	17	16	37	1.91
3024011--3024301	155	1.9	156	80	3	345	40	20	16	22	1.91
3024043--3024885	155	5.4	155	73	11	459	39	21	17	22	1.93
3023987--3024992	156	6.5	153	74	7	467	38	21	17	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3023986--3024992	307	3.2	311	76	8	696	38	21	17	22	1.93
3025209--3025502	149	2.0	152	83	5	375	38	13	11	36	1.82
3026917--3027012	36	2.9	32	83	13	115	30	11	27	31	1.91
3028585--3028645	21	2.9	22	79	20	76	52	3	24	19	1.61
3031908--3031979	19	3.7	19	94	1	117	29	16	16	37	1.91
3032516--3032608	36	2.7	36	81	15	117	30	12	26	30	1.93
3033865--3033889	13	1.9	13	100	0	50	36	16	16	32	1.90
3033951--3034100	52	2.9	51	87	5	212	34	16	18	30	1.93
3034940--3034992	21	2.5	21	78	6	63	24	22	16	35	1.95
3039003--3039035	13	2.7	12	90	9	57	0	24	0	75	0.80
3039634--3040330	166	4.2	166	82	6	738	50	9	12	26	1.71
3039611--3040330	332	2.2	331	81	4	828	50	9	12	27	1.71
3042829--3042872	22	2.0	23	90	4	72	0	18	0	81	0.68
3042838--3042877	13	3.2	13	85	7	55	0	20	0	80	0.72
3042829--3042872	23	2.0	22	86	13	63	0	18	0	81	0.68
3042828--3042878	10	5.0	10	84	13	59	0	19	0	80	0.71
3043496--3044313	157	4.9	165	79	9	822	52	7	12	27	1.66
3048191--3048626	62	7.3	62	81	6	471	25	20	27	25	1.99
3048250--3048596	55	6.0	55	77	11	309	25	20	27	25	1.99
3049587--3049661	1	75.0	1	75	0	69	1	4	6	88	0.69
3049608--3049658	6	8.8	6	89	8	79	1	0	9	88	0.60
3049587--3049661	17	4.5	16	83	8	89	1	4	6	88	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3049587--3049661	28	2.7	28	85	6	98	1	4	6	88	0.69
3049598--3049659	23	2.7	23	87	2	88	1	1	8	88	0.64
3050630--3050709	33	2.4	33	91	0	133	36	15	8	40	1.78
3050652--3050710	13	5.0	13	73	23	58	35	16	10	37	1.83
3051630--3051675	21	2.2	20	82	14	58	26	17	15	41	1.88
3063660--3063726	13	5.2	13	81	5	73	83	11	1	2	0.82
3063659--3063735	29	2.7	28	84	6	100	83	12	1	2	0.82
3063673--3063735	21	3.0	20	78	17	74	84	14	0	1	0.71
3063658--3063735	14	5.6	13	73	22	61	82	14	1	2	0.85
3065164--3065220	31	1.9	29	86	10	80	33	28	17	21	1.96
3065271--3065650	49	8.0	49	80	9	401	23	26	17	32	1.97
3065220--3065653	92	4.7	89	82	10	419	24	26	17	32	1.97
3065229--3065595	49	8.0	43	79	9	245	23	27	17	30	1.97
3065219--3065650	141	3.1	139	78	9	469	23	26	17	32	1.96
3076759--3076813	20	2.8	20	88	5	76	40	12	14	32	1.84
3084638--3084855	79	2.8	78	85	3	278	32	15	25	26	1.95
3084789--3084904	51	2.3	51	85	5	146	29	12	28	29	1.94
3084762--3085009	130	1.9	129	82	5	313	33	12	25	29	1.92
3084925--3085048	50	2.5	50	82	4	133	37	10	22	29	1.87
3087314--3087343	13	2.3	13	100	0	60	40	13	16	30	1.87
3091064--3091353	42	7.2	42	67	15	139	16	25	15	41	1.88
3091105--3091186	35	2.3	35	85	0	101	17	25	15	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3091045--3091259	77	2.8	77	86	2	279	19	25	17	38	1.93
3091393--3091509	31	3.8	31	68	6	85	25	29	25	18	1.98
3092386--3092463	20	3.8	21	81	11	90	38	8	12	39	1.75
3092385--3092463	41	1.9	42	84	7	108	39	8	12	39	1.75
3095135--3095185	20	2.6	20	84	3	68	35	19	9	35	1.85
3095133--3095184	19	2.7	19	84	3	68	34	19	9	36	1.84
3098596--3098620	13	1.9	13	100	0	50	36	16	16	32	1.90
3098576--3098642	33	2.0	33	88	0	98	32	11	14	40	1.83
3098683--3098707	13	1.9	13	100	0	50	32	16	16	36	1.90
3098716--3098844	52	2.5	52	92	0	213	34	16	18	31	1.93
3107581--3107627	20	2.4	20	82	3	60	31	19	14	34	1.92
3107574--3107626	19	2.7	19	82	2	70	30	16	13	39	1.87
3113717--3113771	20	2.8	20	88	5	76	40	12	14	32	1.84
3113820--3113859	21	2.0	20	85	9	55	27	10	15	47	1.77
3114042--3114070	9	3.2	9	100	0	58	41	10	10	37	1.73
3114625--3114861	49	4.9	49	76	10	218	31	15	25	27	1.95
3114465--3114861	52	8.0	49	71	12	220	32	14	25	27	1.95
3114629--3114816	101	1.9	101	87	0	277	32	14	25	27	1.95
3114771--3114856	43	2.0	43	86	0	118	31	17	24	26	1.97
3114904--3115372	57	8.2	58	79	8	421	20	17	29	32	1.95
3114878--3115372	85	5.8	87	81	9	495	20	17	29	32	1.95
3114878--3115373	142	3.5	142	90	2	753	20	17	29	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3115613--3115642	15	2.1	14	93	6	51	33	16	13	36	1.88
3115746--3115818	37	2.0	37	94	0	128	42	15	13	28	1.85
3116846--3116891	10	4.6	10	84	10	67	0	0	13	86	0.56
3116855--3116887	7	4.9	7	85	7	50	0	0	12	87	0.53
3116846--3116890	17	2.6	17	93	6	74	0	0	11	88	0.50
3128010--3128051	15	2.6	17	85	10	54	23	7	14	54	1.64
3138061--3138385	79	4.1	79	82	5	370	35	14	23	26	1.93
3138281--3138336	28	2.0	28	83	10	71	32	17	26	23	1.97
3140895--3141173	79	3.5	79	79	1	274	32	12	25	29	1.93
3143921--3143974	20	2.7	20	85	2	72	33	14	9	42	1.78

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   31   32   
          33   34