genome.fa.s79.2.7.7.80.10.50.1000.7.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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   

This is table  7  of  26  ( 3105 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)
922107--922148	2	21.0	2	95	0	75	47	0	2	50	1.14
922239--922271	2	16.5	2	100	0	66	51	48	0	0	1.00
922148--922356	105	2.0	105	98	0	400	44	27	3	23	1.69
922259--922414	85	1.8	85	90	0	249	44	22	3	29	1.70
923564--923594	3	10.3	3	100	0	62	67	0	0	32	0.91
923804--923835	14	2.4	14	90	10	50	37	0	0	62	0.95
928470--928521	25	2.1	25	85	0	68	59	5	0	34	1.21
929064--929102	20	2.0	20	85	10	53	66	7	2	23	1.30
931651--931685	12	2.7	13	86	13	54	54	2	0	42	1.15
931917--931970	24	2.2	24	78	12	58	74	7	5	12	1.21
934393--934426	17	2.0	17	88	11	52	44	0	0	55	0.99
934377--934435	25	2.4	24	80	8	73	40	0	0	59	0.97
934477--934518	20	2.1	20	86	8	59	45	2	0	52	1.13
934797--934830	3	11.3	3	93	0	59	35	0	0	64	0.94
936797--936840	2	22.5	2	95	4	81	50	0	0	50	1.00
939915--939939	13	1.9	13	100	0	50	0	0	8	92	0.40
940253--940297	23	2.0	23	83	8	58	42	0	2	55	1.12
947294--947353	14	4.1	14	76	21	52	73	0	21	5	1.02
947291--947330	20	2.0	20	85	4	55	72	0	25	2	0.97
947290--947357	31	2.2	31	85	12	88	73	0	22	4	1.01
947397--947467	18	3.9	18	74	3	72	40	0	0	59	0.98
948487--948530	17	2.6	17	88	0	61	72	2	22	2	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
948530--948571	19	2.2	19	87	8	59	26	0	4	69	1.08
948605--948656	20	2.6	20	81	6	61	36	0	1	61	1.07
949275--949316	17	2.4	18	88	4	59	45	0	0	54	0.99
949340--949402	28	2.2	30	83	11	78	28	7	6	57	1.52
949700--949741	21	2.1	19	86	13	57	59	0	0	40	0.97
951547--951578	16	2.0	16	100	0	64	31	12	12	43	1.80
955246--955301	15	3.6	15	88	7	85	39	0	1	58	1.08
955813--955856	13	3.2	13	81	18	54	65	2	0	31	1.05
955813--955865	12	4.2	13	81	11	58	66	1	1	30	1.13
956517--956545	6	4.8	6	100	0	58	0	34	17	48	1.47
956981--957006	3	8.7	3	100	0	52	65	0	0	34	0.93
957236--957274	2	20.0	2	89	5	62	46	0	2	51	1.14
960262--960402	2	70.5	2	100	0	282	49	0	50	0	1.00
960737--960793	22	2.4	25	77	8	66	59	7	1	31	1.34
961711--961778	35	1.9	35	82	5	84	67	10	2	19	1.33
964472--964497	2	13.0	2	100	0	52	50	0	0	50	1.00
964939--965023	44	1.9	44	83	4	109	48	7	15	29	1.71
969363--969420	28	2.1	27	81	12	64	44	0	1	53	1.10
969419--969479	23	2.9	22	80	11	74	49	1	0	49	1.10
970025--970088	22	3.0	22	74	2	67	35	6	9	48	1.61
975327--975382	28	2.0	28	89	6	87	35	5	16	42	1.70
977742--977767	7	3.7	7	100	0	52	84	0	0	15	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
977961--978012	24	2.2	23	80	10	59	46	11	9	32	1.73
977970--978018	24	2.0	24	96	0	89	44	10	8	36	1.68
981425--981469	2	22.5	2	100	0	90	51	0	0	48	1.00
982183--982216	11	3.1	11	88	12	52	67	0	0	32	0.91
984586--984618	17	2.0	17	88	5	50	30	0	3	66	1.06
986006--986072	5	13.6	5	71	14	50	61	2	0	35	1.12
986006--986071	25	2.6	25	83	11	82	62	3	0	34	1.11
986006--986071	14	4.9	14	70	19	59	62	3	0	34	1.11
990146--990179	2	17.0	2	100	0	68	50	0	0	50	1.00
990610--990656	17	2.7	17	77	22	53	46	0	2	51	1.13
991353--991391	17	2.3	17	86	0	51	53	0	2	43	1.14
992662--992723	33	1.9	33	90	3	99	41	14	14	29	1.85
993757--993824	17	3.9	18	79	9	70	41	0	5	52	1.25
1000751--1000783	14	2.3	15	89	5	50	30	0	0	69	0.88
1001176--1001246	31	2.2	33	76	16	78	57	1	0	40	1.07
1001209--1001303	30	3.2	30	69	16	74	54	1	0	44	1.07
1001754--1001823	26	2.7	26	82	8	81	40	0	0	60	0.97
1001788--1001851	20	3.0	21	78	19	71	43	0	0	56	0.99
1001793--1001851	19	2.9	19	87	10	73	42	0	0	57	0.98
1001769--1001840	20	3.6	20	79	9	76	41	0	0	58	0.98
1001785--1001855	21	3.5	19	83	12	72	42	0	0	57	0.98
1001852--1001891	19	2.1	18	90	9	62	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1001856--1001897	18	2.4	18	85	14	61	57	0	0	42	0.99
1002453--1002496	16	2.8	15	82	6	52	54	11	11	22	1.68
1002657--1002706	22	2.3	22	89	6	75	54	2	6	38	1.37
1002667--1002710	22	2.0	22	100	0	88	50	4	4	40	1.43
1003052--1003084	2	16.5	2	100	0	66	51	0	0	48	1.00
1004684--1004780	48	2.0	48	100	0	194	24	14	10	50	1.74
1004693--1004769	24	3.2	24	62	20	61	27	15	9	48	1.75
1005067--1005091	2	12.5	2	100	0	50	48	0	0	52	1.00
1006692--1006738	16	3.1	15	80	20	53	61	2	0	36	1.08
1006668--1006714	19	2.4	19	85	3	58	57	0	0	42	0.98
1006872--1006946	30	2.4	31	77	4	80	53	20	9	17	1.71
1007246--1007319	32	2.2	32	85	7	94	41	0	2	55	1.14
1008750--1008792	15	2.9	15	78	0	50	65	0	4	30	1.13
1012066--1012098	12	2.6	13	95	4	59	78	0	0	21	0.75
1014066--1014120	18	3.1	18	80	12	60	49	0	0	50	1.00
1014860--1014900	19	2.2	19	90	0	64	26	19	9	43	1.82
1015547--1015599	18	3.1	18	78	8	56	30	3	0	66	1.10
1019765--1019804	19	2.2	18	95	4	71	35	0	0	65	0.93
1032392--1032458	26	2.6	25	80	2	80	43	0	4	52	1.21
1043415--1043443	1	29.0	1	100	0	58	100	0	0	0	0.00
1045328--1045359	14	2.2	15	94	5	57	59	3	0	37	1.13
1045357--1045392	16	2.2	16	90	0	54	55	8	2	33	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045488--1045524	15	2.4	16	91	8	60	40	10	0	48	1.38
1045780--1045825	20	2.2	20	82	14	58	26	4	0	69	1.07
1045781--1045825	21	2.1	21	88	8	65	24	4	0	71	1.05
1045987--1046144	15	11.1	15	66	16	70	51	3	6	37	1.47
1045981--1046144	28	5.8	28	73	9	136	50	3	6	39	1.46
1045973--1046156	56	3.2	56	76	11	178	50	3	8	38	1.50
1046370--1046414	23	2.0	23	86	8	65	62	4	6	26	1.39
1047433--1047482	25	2.0	26	92	4	84	22	8	2	68	1.26
1047803--1047866	23	2.8	23	86	9	78	43	0	0	56	0.99
1047858--1047915	20	3.1	18	83	13	73	58	1	0	39	1.08
1048773--1048822	26	1.9	26	87	0	73	22	2	6	70	1.20
1048798--1048828	16	1.9	16	93	0	53	25	0	6	67	1.14
1049055--1049088	17	2.0	17	88	0	50	38	2	17	41	1.65
1049114--1049201	30	2.9	30	85	9	101	42	4	17	36	1.69
1049552--1049586	17	2.1	17	88	0	52	28	0	0	71	0.86
1049538--1049622	21	3.9	21	73	9	55	40	0	1	58	1.05
1052721--1052761	18	2.3	18	100	0	82	51	4	17	26	1.65
1062123--1062159	17	2.2	17	90	0	56	51	2	2	43	1.30
1062741--1062803	19	3.2	19	82	13	65	34	3	0	61	1.12
1064486--1064528	21	2.2	19	83	8	50	37	2	0	60	1.10
1064496--1064538	22	2.0	21	86	4	59	34	0	2	62	1.08
1067115--1067167	19	2.8	20	75	16	58	52	1	0	45	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1067188--1067228	10	4.2	10	78	15	50	68	0	0	31	0.90
1067179--1067222	18	2.4	18	92	0	70	63	0	0	36	0.95
1067186--1067230	9	4.8	9	82	17	56	66	0	0	33	0.92
1067472--1067506	3	11.7	3	100	0	70	31	0	0	68	0.90
1067549--1067584	18	2.0	18	88	0	54	16	11	22	50	1.77
1068594--1068672	2	40.5	2	71	18	51	50	2	3	43	1.33
1068623--1068668	17	2.6	18	76	13	51	45	2	6	45	1.41
1068638--1068682	23	2.0	23	82	8	56	51	0	4	44	1.21
1069474--1069507	16	2.1	16	89	10	52	61	0	2	35	1.11
1070051--1070094	23	1.9	23	85	0	61	63	0	0	36	0.95

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