genome.fa.s324.2.7.7.80.10.50.1000.7.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: Scaffold324
Parameters: 2 7 7 80 10 50 1000
Length:  2336777

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

This is table  7  of  16  ( 1878 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)
966970--967009	17	2.2	19	86	8	57	75	2	0	22	0.93
967272--967304	2	16.5	2	93	0	57	48	3	0	48	1.17
967545--967591	4	11.5	4	86	4	58	21	0	6	72	1.07
968867--968927	30	2.0	30	100	0	122	22	19	14	42	1.88
969341--969374	5	6.8	5	100	0	68	41	0	0	58	0.98
970885--970928	22	2.0	22	86	0	61	68	2	6	22	1.25
970871--971121	137	1.8	136	91	1	414	53	6	5	33	1.52
971021--971064	23	2.0	22	86	4	61	79	2	0	18	0.83
971093--971126	14	2.5	14	90	4	52	64	0	2	32	1.08
971136--971198	29	2.2	29	86	11	85	36	0	1	61	1.05
971746--971796	21	2.3	23	77	19	63	29	0	3	66	1.09
971820--971864	24	1.9	23	86	4	63	55	2	0	42	1.12
973714--973756	22	2.0	22	90	0	68	13	9	23	53	1.69
974081--974119	19	2.1	19	90	0	60	28	17	20	33	1.96
978199--978245	22	2.1	22	92	0	76	14	8	27	48	1.73
978221--978316	34	2.8	34	90	0	156	21	7	27	43	1.79
978183--978352	89	1.9	88	84	4	225	22	6	25	45	1.76
978590--978758	34	5.0	34	92	0	257	24	0	34	40	1.55
983488--983575	34	2.6	34	87	3	124	29	0	28	42	1.56
984853--984930	26	3.0	26	80	9	72	60	2	0	37	1.11
985111--985139	6	5.0	6	95	4	51	68	0	0	31	0.89
986225--986257	10	3.3	10	91	8	50	18	6	3	72	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
987272--987335	18	3.4	18	77	14	58	64	0	0	35	0.94
988308--988368	22	2.9	20	76	11	59	55	0	1	42	1.09
989125--989157	16	2.1	16	88	11	50	9	9	0	81	0.87
994032--994057	2	13.0	2	100	0	52	0	0	50	50	1.00
996752--996799	16	2.9	17	78	9	55	6	10	2	81	0.95
996838--996876	16	2.2	17	86	13	53	53	0	0	46	1.00
996822--996876	19	3.1	17	80	19	60	54	0	0	45	0.99
996822--996883	18	3.4	18	79	20	67	56	0	0	43	0.99
997419--997464	17	2.6	18	82	10	58	45	2	0	52	1.13
997682--997715	15	2.2	15	89	5	50	55	0	0	44	0.99
997818--997866	23	2.1	23	81	11	55	40	10	0	48	1.37
997937--997992	28	2.0	29	82	3	69	51	0	0	48	1.00
999300--999341	2	21.0	2	100	0	84	50	0	0	50	1.00
1000334--1000376	20	2.2	20	83	8	52	44	0	0	55	0.99
1002438--1002463	2	13.0	2	100	0	52	50	0	0	50	1.00
1002964--1003079	33	3.6	32	75	14	96	54	1	1	42	1.21
1002964--1003045	33	2.5	33	81	13	98	52	1	2	43	1.22
1002988--1003034	16	2.9	16	72	12	51	51	0	2	46	1.13
1002969--1003051	32	2.9	27	69	23	69	53	2	1	43	1.21
1006394--1006433	20	2.0	20	90	0	62	62	0	2	35	1.09
1007064--1007103	22	1.9	20	85	10	53	47	0	2	50	1.14
1009615--1009665	25	2.0	25	92	0	84	56	11	11	19	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1016418--1016448	2	15.5	2	100	0	62	51	0	0	48	1.00
1017482--1017550	24	2.9	24	72	8	61	36	0	0	63	0.94
1017709--1017743	18	1.9	18	88	0	52	45	0	0	54	0.99
1017953--1017994	21	2.0	20	86	13	59	54	0	4	40	1.21
1019595--1019642	21	2.3	22	78	10	55	45	0	2	52	1.12
1020755--1020790	15	2.5	15	90	4	56	50	0	0	50	1.00
1022800--1022824	3	8.3	3	100	0	50	0	0	64	36	0.94
1024472--1024522	15	3.1	16	80	11	59	54	0	1	43	1.11
1025050--1025103	15	3.4	15	73	14	54	48	3	0	48	1.19
1025974--1026104	9	15.2	8	70	17	59	54	0	1	43	1.09
1025971--1026031	16	3.8	16	77	14	54	54	0	0	45	1.00
1026012--1026104	46	2.0	47	81	10	111	54	0	2	43	1.12
1026117--1026159	20	2.1	21	95	4	79	51	9	4	34	1.55
1026450--1026527	30	2.5	31	80	12	81	52	5	1	41	1.32
1026532--1026571	20	2.0	20	85	4	55	70	5	0	25	1.08
1033975--1034000	2	13.0	2	100	0	52	50	0	0	50	1.00
1034030--1034094	32	2.1	31	85	8	87	38	0	3	58	1.14
1035086--1035119	12	2.8	12	83	16	52	8	11	0	79	0.94
1039549--1039586	2	19.0	2	94	0	67	52	0	47	0	1.00
1043063--1043128	29	2.2	29	76	12	73	50	0	0	50	1.00
1044158--1044194	17	2.2	17	90	4	58	35	0	0	64	0.94
1044742--1044781	7	6.0	7	88	11	66	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045542--1045587	20	2.3	20	88	3	67	8	17	2	71	1.21
1045692--1045734	21	2.0	21	82	8	52	23	2	4	69	1.18
1047379--1047425	2	24.0	2	82	4	51	44	4	2	48	1.34
1047743--1047784	15	2.5	17	81	11	52	35	0	2	61	1.09
1047802--1047852	17	3.0	17	85	5	68	52	0	1	45	1.12
1047957--1047997	19	2.2	20	91	8	68	41	4	0	53	1.22
1050097--1050135	8	4.9	8	100	0	78	23	12	25	38	1.90
1050361--1050404	5	8.8	5	85	9	54	6	18	0	75	1.02
1051348--1051386	2	19.5	2	100	0	78	48	0	0	51	1.00
1053759--1053797	2	19.0	2	84	5	51	46	7	0	46	1.31
1053759--1053820	25	2.5	24	89	10	90	43	9	3	43	1.53
1053954--1054007	3	18.0	3	96	0	99	33	1	0	64	1.04
1054329--1054372	23	1.9	23	86	9	63	50	0	0	50	1.00
1054435--1054479	22	2.1	22	87	4	65	62	0	2	35	1.08
1058702--1058801	47	2.1	48	96	1	184	46	5	18	31	1.70
1063480--1063537	23	2.8	19	75	25	64	60	1	3	34	1.24
1064403--1064465	25	2.5	25	77	10	65	36	0	1	61	1.05
1064601--1064634	11	3.2	11	83	8	52	58	5	0	35	1.22
1064796--1064825	2	15.0	2	100	0	60	50	0	0	50	1.00
1065311--1065360	20	2.4	21	83	6	66	66	0	0	34	0.92
1065314--1065360	10	4.4	11	78	13	53	68	0	0	31	0.90
1069351--1069475	51	2.3	54	89	6	193	20	10	28	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076589--1076644	2	28.0	2	88	0	85	46	1	1	50	1.22
1078191--1078310	20	5.5	22	73	20	94	65	0	0	33	0.98
1078192--1078316	14	8.5	15	65	21	59	66	0	0	32	0.98
1078191--1078302	26	4.1	27	78	13	106	66	0	0	33	0.98
1078235--1078316	4	21.0	4	68	22	50	68	1	0	30	0.98
1078263--1078316	23	2.3	24	78	9	67	70	1	0	27	0.98
1081780--1082099	170	1.9	171	96	1	597	26	18	14	40	1.89
1085024--1085103	30	2.7	29	77	9	90	43	0	1	55	1.08
1084989--1085094	54	2.0	54	88	3	160	45	0	3	50	1.19
1085045--1085120	25	3.0	26	80	5	84	43	0	1	55	1.08
1085067--1085120	26	2.1	25	89	3	81	40	0	1	57	1.09
1087697--1087738	21	2.0	21	81	9	50	64	0	2	33	1.07
1090842--1090882	16	2.5	17	92	4	66	56	2	0	41	1.13
1091102--1091177	15	5.1	15	77	4	73	60	3	0	35	1.15
1091235--1091322	20	4.8	20	72	19	68	44	1	1	53	1.15
1091235--1091356	19	6.7	19	69	18	82	41	0	0	56	1.10
1091245--1091320	33	2.3	32	84	13	93	44	1	1	52	1.17
1093460--1093511	24	2.1	24	85	7	68	67	0	0	32	0.91
1093496--1093547	25	2.1	25	86	10	72	50	0	0	50	1.00
1094326--1094369	17	2.5	18	92	3	72	38	0	0	61	0.96
1094574--1094623	21	2.4	20	83	6	55	72	0	2	26	0.96
1095255--1095296	13	3.5	13	81	18	63	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1095248--1095296	23	2.1	23	100	0	98	59	0	0	40	0.98
1095524--1095569	19	2.4	19	92	0	74	67	8	4	19	1.35
1095594--1095621	2	14.0	2	100	0	56	50	0	0	50	1.00
1098111--1098184	33	2.3	31	84	9	87	48	0	8	43	1.32
1098694--1098735	21	2.0	21	82	17	52	28	4	23	42	1.74
1098702--1098743	21	2.0	21	81	13	50	28	4	26	40	1.76
1099439--1099469	14	2.2	14	100	0	62	29	0	22	48	1.51
1101719--1101760	16	2.6	16	85	14	52	50	0	0	50	1.00
1104170--1104202	17	1.9	17	88	11	50	21	0	3	75	0.93
1104789--1104829	19	2.2	19	90	0	64	48	0	0	51	1.00

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