genome.fa.s28.2.7.7.80.10.50.1000.6.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: Scaffold28
Parameters: 2 7 7 80 10 50 1000
Length:  2815568

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

This is table  6  of  16  ( 1890 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)
961060--961188	52	2.5	52	98	0	249	35	17	17	28	1.93
968355--968400	16	2.9	16	78	18	51	78	8	13	0	0.97
968360--968422	29	2.1	29	85	8	81	77	7	14	0	0.97
969374--969532	31	5.1	30	81	7	131	22	28	15	33	1.94
969377--969524	61	2.4	61	83	7	183	24	28	16	31	1.96
969503--969706	34	6.3	34	74	19	168	22	34	12	31	1.91
969380--969694	62	5.0	61	79	10	262	21	31	13	33	1.92
969592--969661	35	2.0	36	88	2	106	18	35	11	34	1.87
969628--969681	27	2.0	27	96	0	99	22	35	14	27	1.93
969689--970052	33	11.2	33	89	4	533	28	33	18	20	1.96
969689--970051	65	5.6	65	87	8	515	28	33	18	20	1.96
969697--970055	131	2.8	128	89	5	562	28	33	18	19	1.96
970099--970519	43	9.1	43	77	13	401	24	25	18	31	1.97
970215--970282	21	3.2	21	63	19	50	27	27	16	27	1.97
970052--970476	144	3.0	143	89	4	590	24	25	17	32	1.97
970042--970572	187	2.8	184	83	10	573	25	25	17	32	1.97
970286--970572	95	3.0	92	89	4	414	25	25	17	32	1.97
971287--971345	13	4.1	13	73	23	55	32	13	16	37	1.88
971268--971368	32	3.1	32	94	1	166	34	11	17	35	1.87
971266--971363	19	5.8	18	70	28	81	33	12	17	36	1.87
971406--971430	13	1.9	13	100	0	50	32	16	16	36	1.90
974666--974695	3	10.0	3	92	0	51	36	0	30	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
979044--979099	20	2.8	20	91	2	87	50	12	7	30	1.67
979136--979201	27	2.4	27	92	0	114	25	13	19	40	1.89
986247--986370	56	2.2	56	80	0	140	33	17	21	26	1.96
986529--986673	79	1.9	77	82	5	184	31	8	24	35	1.86
990589--990658	22	3.2	22	83	0	86	35	5	12	45	1.66
993745--993882	51	2.7	52	88	3	199	42	16	13	27	1.86
995122--995191	22	3.2	22	79	0	86	37	7	14	41	1.73
995122--995209	44	2.0	44	81	0	104	36	5	14	43	1.70
995260--995346	22	4.0	22	70	15	72	18	10	25	45	1.80
995940--996004	19	3.8	17	75	24	66	30	12	18	38	1.88
995942--996009	32	2.1	32	94	0	118	32	11	19	36	1.88
995961--995985	13	1.9	13	100	0	50	36	16	16	32	1.90
996077--996205	52	2.5	52	90	0	213	35	16	17	30	1.92
999756--999835	22	3.7	22	77	11	85	16	10	23	50	1.75
999756--999837	43	1.9	43	89	0	128	15	9	24	50	1.75
999776--999844	22	3.2	22	71	17	63	24	8	23	43	1.82
1000770--1000818	22	2.2	22	88	0	71	30	6	14	48	1.67
1001720--1001789	21	3.4	19	73	11	59	40	32	11	15	1.83
1002370--1002399	13	2.3	13	100	0	60	30	16	13	40	1.87
1002386--1002457	29	2.5	29	97	0	135	26	19	18	36	1.94
1004710--1004873	51	3.2	51	73	5	145	29	23	12	34	1.91
1004867--1004937	28	2.6	27	88	8	99	23	29	16	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1004971--1005045	28	2.7	30	77	20	83	22	29	21	26	1.99
1005030--1005148	51	2.3	51	83	0	157	31	26	11	30	1.92
1004813--1005094	110	2.6	107	77	5	307	27	24	14	32	1.94
1017580--1017664	1	85.0	1	73	0	71	87	11	1	0	0.61
1017579--1017663	8	10.0	8	84	14	100	85	12	1	0	0.65
1017579--1017664	15	5.9	14	81	13	102	86	12	1	0	0.64
1017579--1017664	23	3.3	27	81	17	110	86	12	1	0	0.64
1017580--1017664	27	3.3	24	76	17	82	87	11	1	0	0.61
1018636--1019217	60	9.6	59	82	6	574	25	29	20	25	1.99
1018633--1019146	180	2.8	180	86	3	672	26	30	20	23	1.98
1019209--1019429	42	5.0	43	77	14	173	19	26	12	41	1.87
1019269--1019429	87	1.8	86	85	10	229	20	25	14	39	1.91
1019208--1019423	47	4.9	42	79	10	211	19	26	12	41	1.88
1019428--1019526	41	2.4	41	88	6	139	20	26	10	43	1.83
1020138--1020175	20	1.9	20	100	0	76	26	18	15	39	1.91
1020158--1020187	13	2.3	13	100	0	60	30	16	13	40	1.87
1022539--1022682	51	2.8	51	78	4	157	31	22	10	35	1.88
1022751--1022820	28	2.5	28	79	4	79	24	27	20	28	1.99
1022807--1022922	51	2.3	51	89	0	169	31	22	12	33	1.91
1024570--1024637	32	2.1	32	91	0	109	27	16	20	35	1.94
1027270--1027306	19	1.9	19	94	0	65	40	10	8	40	1.70
1031755--1031779	12	2.1	12	100	0	50	24	32	0	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1032879--1032943	34	1.9	33	90	3	103	32	23	12	32	1.91
1033556--1033619	32	2.0	33	87	3	94	42	15	15	26	1.87
1034617--1034641	13	1.9	13	100	0	50	32	16	16	36	1.90
1034650--1034769	52	2.3	52	95	0	213	35	18	16	29	1.93
1041667--1041700	12	2.7	12	90	9	50	88	11	0	0	0.52
1041937--1041991	1	55.0	1	77	0	56	89	5	5	0	0.61
1041936--1041980	17	2.7	16	90	10	72	88	8	2	0	0.58
1041939--1041991	22	2.3	23	93	3	90	88	5	5	0	0.62
1041938--1041997	22	2.5	24	86	10	88	86	6	6	0	0.70
1041938--1041994	11	5.2	11	81	8	71	87	5	7	0	0.66
1042237--1042359	21	6.1	20	83	5	149	37	15	13	34	1.86
1042237--1042340	41	2.6	41	98	1	201	36	15	13	34	1.87
1042395--1042462	19	3.9	19	78	21	85	35	11	14	38	1.83
1042397--1042459	32	2.0	32	96	0	117	34	12	15	36	1.86
1042416--1042440	13	1.9	13	100	0	50	36	16	16	32	1.90
1042502--1042527	13	2.0	13	100	0	52	30	15	15	38	1.88
1042482--1042548	33	2.0	33	88	0	98	25	14	16	43	1.86
1045015--1045184	52	3.3	51	79	12	186	29	24	12	32	1.93
1045168--1045244	28	2.8	28	87	0	100	23	33	19	23	1.97
1044921--1045323	107	3.8	107	72	10	277	27	27	14	30	1.95
1047242--1047391	31	4.9	30	82	9	160	24	29	18	28	1.98
1047242--1047495	34	8.0	31	85	10	196	22	32	15	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047239--1047362	62	2.0	63	92	4	207	23	27	18	30	1.98
1047273--1047924	34	19.8	32	82	10	599	21	32	13	32	1.92
1047273--1047924	33	19.8	33	83	9	598	21	32	13	32	1.92
1047965--1048793	49	17.8	48	84	8	981	24	25	18	30	1.98
1047965--1048798	92	9.0	92	86	8	941	24	26	18	30	1.98
1048703--1048856	52	2.9	53	80	4	184	24	22	15	37	1.93
1049811--1049835	13	1.9	13	100	0	50	32	16	16	36	1.90
1049844--1049963	52	2.3	52	97	0	222	35	18	17	29	1.94
1053147--1053202	19	2.9	19	83	2	67	32	19	12	35	1.89
1053231--1053280	20	2.5	20	100	0	100	38	14	20	28	1.91
1058016--1058047	16	2.0	16	93	0	55	56	0	9	34	1.32
1059463--1059502	13	3.1	13	81	0	53	35	12	12	40	1.81
1062040--1062094	19	2.8	19	77	2	65	36	14	7	41	1.74
1062946--1063014	22	3.1	22	74	0	66	46	11	8	33	1.71
1066691--1066737	20	2.3	20	81	3	58	36	6	19	38	1.77
1066706--1066744	20	2.0	20	89	0	60	41	7	17	33	1.79
1074801--1074850	24	2.1	23	82	14	57	22	4	8	66	1.35
1075276--1075315	11	3.5	11	84	15	55	85	0	15	0	0.61
1075276--1075316	12	3.5	12	90	3	66	85	0	14	0	0.60
1075352--1075408	30	2.0	28	82	6	69	31	1	1	64	1.13
1075670--1075727	23	2.6	22	78	10	64	22	1	5	70	1.16
1075671--1075728	18	3.3	18	75	2	55	22	1	5	70	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1078962--1079347	190	2.0	190	95	0	700	43	9	11	35	1.73
1079995--1080205	76	2.8	75	79	2	233	35	11	15	37	1.84
1079986--1080223	76	3.1	76	79	3	230	35	11	16	36	1.84
1081617--1081664	22	2.2	21	81	3	60	62	0	0	37	0.95
1082006--1082051	22	2.1	22	84	11	60	21	15	0	63	1.31
1082006--1082048	23	1.9	22	85	4	59	20	16	0	62	1.32
1082139--1082172	14	2.6	13	90	9	52	44	0	0	55	0.99
1088239--1088297	23	2.5	24	78	13	61	52	1	1	44	1.21
1088937--1089037	32	3.2	32	82	8	120	47	4	8	38	1.57
1090916--1091028	20	5.7	20	71	13	81	31	17	16	33	1.93

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