genome.fa.s105.2.7.7.80.10.50.1000.6.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: Scaffold105
Parameters: 2 7 7 80 10 50 1000
Length:  2918491

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  6  of  16  ( 1849 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)
870786--870846	16	3.8	16	72	10	52	63	0	1	34	1.04
872135--872254	33	3.5	35	76	15	99	55	0	0	43	1.05
872179--872245	27	2.3	29	82	12	77	53	0	1	44	1.09
872736--872774	19	2.1	18	86	13	53	56	0	0	43	0.99
874848--874894	22	2.1	22	100	0	94	40	10	4	44	1.59
874988--875036	2	24.5	2	84	15	66	51	0	4	44	1.20
874990--875035	16	2.9	16	100	0	92	50	0	4	45	1.21
875127--875182	28	2.0	28	83	10	71	55	1	1	41	1.21
875126--875184	27	2.2	27	79	11	68	55	1	1	40	1.20
880080--880136	27	2.1	27	83	6	71	52	1	0	45	1.11
880478--880539	19	3.3	19	76	13	65	54	0	0	45	0.99
880449--880514	27	2.4	27	82	9	73	53	0	0	46	1.00
882426--882465	2	20.0	2	100	0	80	50	0	50	0	1.00
883069--883099	2	15.5	2	93	0	53	48	3	0	48	1.17
883443--883468	2	13.0	2	100	0	52	50	0	0	50	1.00
884249--884276	3	9.3	3	100	0	56	32	0	0	67	0.91
887430--887456	4	6.8	4	100	0	54	77	0	22	0	0.76
890359--890384	2	13.0	2	100	0	52	0	0	50	50	1.00
890577--890612	18	2.0	18	88	0	54	44	0	0	55	0.99
893973--894009	3	12.3	3	100	0	74	67	0	0	32	0.91
894476--894517	4	10.0	4	90	10	66	71	0	4	23	1.05
894541--894581	21	1.9	22	90	5	66	60	7	4	26	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
894946--895004	29	2.0	29	86	0	82	45	6	1	45	1.40
948104--948143	3	13.3	3	100	0	80	67	0	0	32	0.91
948407--948445	3	13.0	3	100	0	78	66	0	0	33	0.92
952330--952363	16	2.2	15	89	5	50	47	0	0	52	1.00
954035--954114	10	8.8	9	73	20	51	40	0	0	60	0.97
954034--954173	20	6.9	21	64	20	57	40	0	0	60	0.97
954053--954151	27	3.4	27	74	20	76	44	0	0	55	0.99
954061--954123	18	3.4	19	73	20	53	42	0	0	57	0.99
954064--954132	17	4.2	17	74	23	67	43	0	0	56	0.99
954035--954152	32	3.7	33	79	13	115	41	0	0	58	0.98
954019--954124	19	5.1	20	67	23	58	38	0	0	60	1.03
954064--954141	17	4.7	18	73	22	62	44	0	0	55	0.99
959554--959610	21	2.8	22	82	12	77	52	0	0	47	1.00
959547--959602	22	2.4	25	83	16	77	51	0	0	48	1.00
960469--960532	21	3.0	22	76	17	55	35	0	0	64	0.94
961061--961101	19	2.4	18	81	18	52	58	0	0	41	0.98
961058--961102	18	2.5	18	86	10	65	57	0	0	42	0.98
961513--961568	27	2.1	27	93	0	94	16	30	7	46	1.73
961865--961893	2	14.5	2	100	0	58	48	0	0	51	1.00
962447--962514	28	2.4	29	78	11	79	45	1	0	52	1.09
962447--962514	29	2.4	28	79	13	77	45	1	0	52	1.09
963680--963732	24	2.2	25	89	3	81	32	13	13	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
964205--964269	32	2.1	30	83	16	80	69	0	1	29	0.98
964416--964506	37	2.6	34	77	17	87	49	0	2	48	1.13
964493--964588	40	2.3	40	75	8	95	44	0	0	55	0.99
964542--964582	14	3.1	14	79	10	50	43	0	0	56	0.99
964515--964565	20	2.5	20	77	22	54	49	0	0	50	1.00
965884--966351	237	2.0	237	91	0	756	34	14	19	32	1.91
966776--966800	7	3.6	7	100	0	50	60	0	0	40	0.97
974073--974126	22	2.5	21	73	8	54	53	1	0	44	1.11
975650--975690	19	2.3	17	87	8	55	31	0	0	68	0.90
976225--976276	24	2.3	23	83	12	63	46	0	0	53	1.00
977560--977603	22	2.2	20	84	12	54	56	9	2	31	1.43
977638--977680	12	3.1	15	81	18	58	46	6	0	46	1.30
977638--977726	27	3.3	25	77	13	79	46	3	2	48	1.31
977660--977738	27	2.9	26	80	12	88	45	1	2	50	1.23
977711--977743	17	2.0	17	88	5	50	45	0	0	54	0.99
977683--977746	21	3.0	20	80	13	65	46	0	1	51	1.10
984819--984863	7	6.4	7	100	0	90	0	13	0	86	0.57
985416--985472	27	2.1	27	87	6	80	49	0	1	49	1.11
985427--985469	20	2.0	21	86	8	61	48	0	0	51	1.00
986490--986522	17	1.9	17	88	11	50	24	0	3	72	0.98
987834--987862	2	14.5	2	100	0	58	51	0	0	48	1.00
991466--991510	18	2.3	21	85	11	60	60	0	6	33	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
991752--991787	19	1.9	18	94	5	63	38	0	0	61	0.96
991821--991880	13	4.5	13	72	15	50	40	1	0	58	1.08
991822--991880	28	2.2	26	82	11	66	40	1	0	57	1.09
994350--994383	16	2.1	16	88	0	50	32	11	11	44	1.77
997181--997230	2	25.0	2	100	0	100	50	0	0	50	1.00
1007662--1007712	21	2.3	22	83	6	59	52	0	0	47	1.00
1008057--1008115	23	2.6	23	73	10	66	52	16	1	28	1.54
1009858--1009884	4	6.8	4	100	0	54	25	0	22	51	1.48
1014782--1014824	19	2.3	19	87	0	68	39	6	6	46	1.58
1014841--1014891	26	2.0	26	84	7	68	45	7	5	41	1.57
1016011--1016092	37	2.2	37	75	14	89	54	1	1	42	1.15
1016441--1016596	27	5.4	27	69	22	86	54	1	1	42	1.16
1016482--1016538	15	3.3	18	66	28	52	57	0	0	42	0.98
1016487--1016551	34	2.0	34	93	6	116	58	0	0	41	0.98
1016487--1016548	17	3.8	16	79	10	63	59	0	0	40	0.97
1017165--1017223	30	2.0	30	86	3	84	40	8	8	42	1.66
1017712--1017741	15	2.0	15	93	0	51	36	0	0	63	0.95
1017760--1017829	15	4.7	15	74	12	63	57	1	0	41	1.08
1017771--1017820	20	2.5	20	83	3	75	56	0	0	44	0.99
1018246--1018274	14	2.0	15	93	6	51	41	0	0	58	0.98
1018221--1018275	20	2.8	19	76	10	58	47	0	0	52	1.00
1018459--1018488	14	2.1	14	93	0	51	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018458--1018501	24	1.9	23	86	9	63	61	0	0	38	0.96
1019504--1019562	8	7.4	8	76	14	59	55	0	0	44	0.99
1019502--1019590	32	2.7	32	82	5	106	52	0	0	47	1.00
1020385--1020449	4	16.2	4	81	12	71	72	0	26	1	0.94
1020468--1020539	34	2.2	33	82	12	85	36	0	1	62	1.04
1020537--1020605	21	3.5	21	76	11	65	34	5	2	56	1.38
1020546--1020605	17	3.4	17	80	13	59	35	5	3	56	1.37
1020504--1020619	46	2.4	46	80	8	108	37	3	1	57	1.26
1020855--1020902	11	4.0	11	80	19	60	87	0	10	2	0.62
1020857--1020902	12	3.5	13	85	8	67	89	0	8	2	0.57
1020857--1020903	21	2.2	21	82	17	62	87	0	10	2	0.63
1020851--1020924	25	2.8	26	78	15	89	78	0	18	2	0.87
1021440--1021474	12	3.2	11	88	11	54	88	0	11	0	0.51
1022563--1022610	21	2.2	21	82	13	62	18	2	8	70	1.22
1022572--1022610	11	3.6	11	86	3	53	17	0	5	76	0.96
1023856--1023899	20	2.1	22	83	8	56	54	0	0	45	0.99
1024562--1024594	10	3.3	10	95	0	57	36	9	15	39	1.79
1024586--1024685	40	2.5	39	87	12	157	33	12	26	29	1.92
1028269--1028381	10	11.3	10	72	11	61	29	10	26	33	1.90
1028272--1028400	20	6.4	20	66	10	75	29	10	27	32	1.89
1028283--1028392	40	2.7	39	87	5	157	29	10	29	31	1.89
1028616--1028647	14	2.1	16	88	11	50	46	0	43	9	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029453--1029502	13	3.6	14	79	10	50	50	0	0	50	1.00
1032163--1032272	39	2.7	41	73	5	107	17	55	5	21	1.62
1032259--1032317	15	3.9	15	77	0	64	18	66	3	11	1.38
1032285--1032382	39	2.5	39	84	0	115	20	57	4	18	1.57
1038517--1038545	11	2.6	11	100	0	58	65	6	6	20	1.40
1038726--1038806	33	2.5	33	100	0	162	30	23	24	20	1.99
1042409--1042461	24	2.2	24	100	0	106	50	13	16	18	1.77
1044438--1044487	4	12.8	4	95	4	93	76	0	0	24	0.80
1045298--1045335	13	3.0	13	88	3	51	52	0	0	47	1.00
1053295--1053326	2	16.0	2	100	0	64	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16