genome.fa.s349.2.7.7.80.10.50.1000.6.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: Scaffold349
Parameters: 2 7 7 80 10 50 1000
Length:  1036866

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 717 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)
910426--910548	51	2.4	51	82	5	140	32	11	24	31	1.91
912802--912848	20	2.3	20	100	0	94	40	12	27	19	1.88
912924--912949	13	2.0	13	100	0	52	38	15	15	30	1.88
912987--913076	13	6.0	13	71	26	63	34	15	14	35	1.88
913001--913096	19	5.7	18	68	26	77	36	16	12	34	1.87
912988--913095	32	3.4	32	90	0	180	35	16	13	34	1.89
913139--913210	21	3.4	22	81	9	87	34	18	12	34	1.88
914083--914146	33	1.9	33	90	0	101	34	17	10	37	1.85
914197--914251	19	2.8	20	77	5	67	36	14	20	29	1.92
914197--914240	20	2.2	20	84	4	63	34	13	22	29	1.93
917094--917190	48	2.0	48	97	0	185	43	16	9	30	1.79
923116--923170	19	2.8	20	86	5	85	38	14	16	30	1.89
924596--924741	66	2.2	67	97	1	276	32	16	13	36	1.88
926044--926122	14	5.4	15	75	7	65	31	13	17	36	1.89
926040--926134	29	3.3	29	76	10	88	33	12	17	35	1.88
926142--926178	14	2.6	15	83	8	51	35	13	18	32	1.90
926059--926235	85	2.1	84	80	4	194	32	10	20	36	1.87
926227--926335	29	3.8	29	74	2	85	30	12	16	40	1.86
926294--926363	14	4.9	14	89	1	95	34	18	14	32	1.91
928515--928629	60	1.9	61	85	5	162	44	6	2	46	1.44
928687--928759	24	2.9	24	76	12	67	41	2	2	53	1.29
929739--929765	4	6.8	4	100	0	54	0	25	0	74	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
931456--931480	1	25.0	1	100	0	50	0	0	100	0	0.00
933095--933136	22	1.9	22	85	9	59	52	0	0	47	1.00
937603--937800	71	2.6	75	77	6	188	27	38	9	24	1.85
937668--937823	79	2.0	78	88	1	231	26	37	10	24	1.89
937668--937884	78	2.8	78	82	2	213	26	36	12	23	1.91
943306--943332	13	2.1	13	100	0	54	40	14	14	29	1.86
943376--943427	13	3.5	13	73	26	50	32	17	15	34	1.91
943376--943446	32	2.2	32	97	0	133	32	18	15	33	1.92
943383--943468	19	4.7	19	75	20	78	31	16	15	37	1.89
951981--952021	19	2.2	19	90	0	64	48	4	0	46	1.23
952295--952362	29	2.4	28	82	9	75	45	1	2	50	1.26
953071--953169	47	2.1	47	84	3	128	43	8	6	42	1.59
953380--953424	21	2.2	20	88	4	63	40	13	2	44	1.56
955046--955080	2	18.0	2	94	5	63	51	0	0	48	1.00
955564--955634	20	3.5	20	80	0	88	33	14	11	40	1.81
960866--960938	20	3.6	20	81	3	101	35	13	19	31	1.91
960866--960960	41	2.3	42	96	1	174	40	12	17	29	1.87
960999--961024	13	2.0	13	100	0	52	38	15	15	30	1.88
965086--965116	15	2.1	15	93	0	53	48	16	22	12	1.80
967196--967234	13	3.0	13	96	0	69	30	17	15	35	1.91
969027--969126	36	2.8	36	96	3	186	24	3	24	49	1.64
969747--969819	20	3.6	20	81	3	101	35	13	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
969747--969841	41	2.3	42	96	1	174	40	12	17	29	1.87
969880--969905	13	2.0	13	100	0	52	38	15	15	30	1.88
972459--972483	13	1.9	13	100	0	50	36	16	16	32	1.90
972439--972504	32	2.0	33	88	2	98	34	12	13	39	1.82
972545--972569	13	1.9	13	100	0	50	32	16	16	36	1.90
972577--972707	52	2.5	53	91	3	205	32	19	16	32	1.93
983301--983371	13	5.8	12	76	12	63	83	9	4	2	0.89
983303--983340	13	2.8	13	96	4	67	92	7	0	0	0.40
983303--983360	18	3.1	18	85	5	71	86	8	3	1	0.76
983303--983341	1	39.0	1	84	0	51	92	7	0	0	0.39
984593--985782	28	42.2	27	84	7	1371	27	30	17	23	1.97
986376--986450	20	3.8	20	80	0	96	33	13	12	41	1.81
986376--986453	40	2.0	39	89	2	120	33	12	12	41	1.82
987360--987410	22	2.3	22	100	0	102	19	11	9	58	1.60
989990--990033	15	2.9	15	80	10	54	68	0	27	4	1.09
990118--990181	17	3.7	17	73	17	60	40	0	3	56	1.15
991634--991681	21	2.3	21	85	3	62	56	0	4	39	1.19
991672--991702	16	1.9	16	93	0	53	67	0	3	29	1.06
992675--992800	64	2.0	64	96	0	234	40	10	18	30	1.84
994633--994670	19	2.0	19	100	0	76	31	5	10	52	1.58
996134--996204	2	36.0	2	91	2	117	49	1	1	47	1.18
996339--996378	20	2.1	19	85	4	53	55	2	2	40	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997413--997455	12	3.4	12	78	12	50	23	2	0	74	0.93
999437--999723	79	3.7	77	80	9	303	35	12	24	27	1.91
1003036--1003104	25	2.6	27	82	11	81	15	1	11	71	1.22
1003066--1003106	19	2.2	19	86	4	57	14	2	9	73	1.19
1003006--1003106	8	12.8	8	70	17	52	16	0	8	73	1.14
1004010--1004234	61	3.7	61	72	9	190	40	13	21	24	1.90
1004006--1004231	120	1.9	120	84	1	301	39	13	21	24	1.90
1004179--1004283	52	2.0	52	86	0	147	40	16	19	24	1.91
1004360--1004748	29	13.4	28	76	12	297	23	17	29	29	1.97
1004478--1005564	57	19.4	56	74	10	664	23	16	29	30	1.97
1004451--1004748	29	10.3	29	82	4	300	22	17	29	29	1.97
1004451--1005570	86	12.9	86	70	11	468	23	16	28	30	1.97
1004757--1005478	29	25.1	28	79	6	554	24	16	28	30	1.97
1004767--1004924	27	5.7	27	78	10	115	25	18	25	30	1.98
1004767--1004901	54	2.4	56	80	6	141	27	18	25	28	1.98
1005413--1005552	74	1.9	75	84	4	192	20	17	32	30	1.96
1005493--1005587	27	3.4	28	84	7	122	27	15	27	29	1.96
1006733--1006814	21	3.8	20	75	16	67	7	9	8	74	1.22
1006733--1006800	20	3.3	22	84	8	72	5	10	7	76	1.15
1012058--1012090	14	2.3	15	89	5	50	18	0	15	66	1.25
1015533--1015558	13	2.0	13	100	0	52	30	15	15	38	1.88
1018374--1018408	17	2.1	17	100	0	70	22	5	11	60	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019741--1019787	20	2.3	20	92	0	76	46	10	8	34	1.69
1020288--1020347	30	2.0	30	83	9	77	66	3	0	30	1.07
1020305--1020360	21	2.7	20	83	5	67	71	3	0	25	1.02
1020305--1020360	10	5.4	10	81	8	67	71	3	0	25	1.02
1020305--1020359	11	5.2	11	78	6	51	72	3	0	23	1.00
1020764--1020806	16	2.7	16	92	0	68	46	25	11	16	1.80
1021048--1021091	22	2.0	22	100	0	88	45	9	9	36	1.68
1022053--1022453	201	2.0	200	94	0	694	34	17	8	39	1.80
1026189--1026241	20	2.7	20	85	5	72	39	13	18	28	1.88
1026262--1026326	19	3.7	19	76	23	88	32	18	15	33	1.92
1026283--1026307	13	1.9	13	100	0	50	32	16	16	36	1.90
1026264--1026326	32	2.0	32	100	0	126	31	19	15	33	1.93
1027996--1028077	28	3.0	27	82	12	87	28	17	30	24	1.97
1028060--1028343	52	5.4	52	70	15	165	30	11	26	30	1.92
1027974--1028338	160	2.3	159	86	4	502	31	12	26	29	1.93
1028162--1028236	27	2.7	28	87	6	100	21	20	34	24	1.96
1028220--1028342	51	2.3	53	87	4	169	31	11	24	32	1.91
1030710--1030735	13	2.0	13	100	0	52	38	15	15	30	1.88
1030689--1030755	33	2.0	33	88	0	98	43	16	14	25	1.86
1030797--1030821	13	1.9	13	100	0	50	32	16	16	36	1.90
1030778--1030838	32	1.9	32	89	0	95	36	11	13	39	1.80
1030773--1030844	19	4.2	17	71	25	62	38	9	11	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1030882--1030931	21	2.5	20	93	6	84	38	20	10	32	1.85
1031710--1031850	28	5.1	27	62	15	65	21	19	30	27	1.98
1031663--1032198	59	9.3	58	90	4	663	23	20	29	26	1.99
1033187--1033213	12	2.2	12	100	0	54	0	0	14	85	0.61
1033181--1033241	17	3.6	16	75	18	61	0	8	9	81	0.86
1033163--1033238	15	5.1	15	75	9	66	0	13	6	80	0.90
1033191--1033241	12	4.4	12	78	14	54	0	7	9	82	0.85

Tables:   1   2   3   4   5   6

The End!