genome.fa.s400.2.7.7.80.10.50.1000.5.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: Scaffold400
Parameters: 2 7 7 80 10 50 1000
Length:  2847997

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  5  of  17  ( 1977 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)
649068--649416	124	2.8	127	81	3	393	31	29	18	20	1.96
649927--649997	20	3.6	19	86	5	97	32	14	12	40	1.83
653277--653349	36	2.0	36	100	0	146	45	10	21	21	1.83
653757--653807	3	17.0	3	83	0	66	70	0	27	1	0.98
653757--653803	24	2.0	24	95	0	85	70	0	27	2	0.99
658761--658838	38	2.1	38	87	0	111	32	8	17	41	1.81
659241--659308	31	2.1	33	81	10	77	61	1	0	36	1.05
667963--668023	31	2.0	31	100	0	122	31	9	19	39	1.84
668153--668212	23	2.6	23	91	2	93	11	20	30	38	1.88
672625--672689	31	2.1	31	97	0	121	29	10	21	38	1.87
673614--673674	28	2.3	28	80	8	74	37	8	8	45	1.64
674028--674057	2	15.0	2	92	0	51	50	0	3	46	1.18
675936--675978	12	3.5	12	81	12	52	74	4	0	20	1.00
678563--678613	26	2.0	26	96	0	93	41	17	9	31	1.82
680101--680175	29	2.6	29	80	0	87	29	5	25	40	1.78
684303--684377	20	3.8	20	87	0	105	42	12	12	33	1.79
688008--688092	19	4.7	18	75	19	72	36	15	11	36	1.84
687995--688070	32	2.4	32	90	0	116	36	15	13	34	1.87
690213--690255	21	2.0	22	86	4	61	39	13	18	27	1.89
692825--692893	29	2.4	29	85	0	102	30	4	27	37	1.76
693673--693788	45	2.6	45	88	1	178	39	9	12	37	1.76
697997--698059	30	2.1	30	90	0	99	31	20	11	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
701020--701073	13	4.3	13	77	15	60	53	1	0	44	1.11
701137--701212	36	2.2	34	83	9	91	50	1	0	48	1.09
701224--701261	12	3.0	13	76	7	51	50	0	0	50	1.00
703267--703320	24	2.3	23	84	9	65	22	9	25	42	1.83
706299--706393	24	4.0	23	69	18	68	41	0	2	56	1.11
707930--707989	2	30.0	2	100	0	120	0	50	0	50	1.00
707989--708014	2	13.0	2	100	0	52	50	0	0	50	1.00
708714--708784	21	3.5	20	74	12	65	40	0	1	57	1.07
708792--708840	18	2.6	18	77	6	53	65	0	0	34	0.93
710104--710182	11	7.0	11	76	11	70	72	0	0	27	0.85
710087--710182	23	4.1	24	74	18	87	69	1	1	28	1.01
710102--710187	35	2.5	34	85	9	104	70	0	0	29	0.87
710065--710170	17	6.1	17	71	14	65	67	0	2	28	1.10
710106--710213	32	3.2	32	80	8	101	65	0	0	34	0.93
713455--713505	25	2.1	24	88	3	75	7	15	0	76	1.00
716222--716336	31	3.8	29	70	15	81	42	0	0	56	1.05
716289--716340	22	2.3	23	75	18	56	44	0	0	55	0.99
717079--717129	19	2.7	18	82	8	57	45	0	0	54	0.99
717088--717140	23	2.4	22	84	9	63	49	0	0	50	1.00
717136--717173	18	2.1	18	90	0	58	60	0	0	39	0.97
718412--718467	25	2.2	24	87	6	76	10	14	0	75	1.06
719364--719407	15	2.9	16	81	18	58	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)
720106--720130	13	1.9	13	100	0	50	48	12	0	40	1.40
721246--721286	21	2.0	21	85	9	57	51	0	2	46	1.14
721247--721293	22	2.2	21	81	11	51	51	0	2	46	1.13
721334--721364	6	5.2	6	92	0	53	51	0	0	48	1.00
721758--721885	62	2.1	62	86	2	177	52	4	3	39	1.41
722063--722148	39	2.2	39	82	4	100	48	0	1	50	1.08
722092--722149	18	3.1	18	74	18	55	44	0	0	55	0.99
722296--722354	30	2.0	30	86	6	84	55	1	0	42	1.09
722305--722366	16	4.0	15	77	12	63	53	1	0	45	1.10
722321--722404	36	2.3	36	81	4	98	54	2	0	42	1.13
722993--723032	18	2.2	18	82	8	55	42	2	0	55	1.13
723478--723521	11	3.9	11	80	16	54	27	0	0	72	0.85
723759--723799	21	1.9	21	90	5	64	39	0	0	60	0.96
723760--723880	32	4.0	31	74	19	80	34	0	1	62	1.11
723809--723886	30	2.6	31	76	15	83	32	1	1	65	1.09
723893--723940	15	3.3	15	81	18	50	35	0	0	64	0.94
724214--724270	23	2.6	21	81	10	60	47	3	0	49	1.18
724740--724776	19	1.9	19	89	10	58	13	0	2	83	0.74
724785--724817	17	1.9	17	93	0	57	48	0	0	51	1.00
725010--725034	11	2.3	11	100	0	50	28	8	8	56	1.57
729895--729951	21	2.7	21	91	0	96	42	0	24	33	1.55
733211--733495	145	2.0	145	89	0	435	37	6	7	48	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
733550--733887	170	2.0	168	96	1	622	38	7	19	34	1.81
734737--734797	30	2.0	30	96	0	113	29	9	13	47	1.74
738179--738203	11	2.3	11	100	0	50	44	28	0	28	1.55
738570--738599	14	2.1	14	93	0	51	53	0	3	43	1.17
741801--741845	22	2.1	21	84	12	56	51	0	2	46	1.13
741799--741847	24	2.0	24	84	8	62	51	0	2	46	1.12
742151--742182	15	2.1	15	94	0	55	46	6	9	37	1.61
742383--742410	2	14.0	2	100	0	56	50	0	0	50	1.00
743123--743199	32	2.3	33	82	10	95	62	1	0	36	1.04
745514--745799	34	8.5	34	88	1	414	39	25	8	26	1.83
745514--745795	101	2.8	101	97	0	519	39	25	8	26	1.84
750210--750493	34	8.4	34	88	1	410	39	25	8	26	1.83
750210--750491	101	2.8	101	97	0	519	39	25	8	26	1.84
752010--752200	103	1.9	103	85	2	267	40	10	12	36	1.78
753074--753142	36	1.9	36	83	13	90	49	1	1	47	1.19
757759--757941	34	5.4	34	88	0	260	25	7	26	39	1.83
758248--758310	19	3.3	19	90	0	90	28	17	19	34	1.94
762376--762560	34	5.5	34	88	0	264	25	7	26	40	1.82
763198--763321	52	2.4	51	93	4	205	29	17	18	34	1.94
763198--763341	52	2.8	50	84	13	177	30	17	18	33	1.94
763330--763354	13	1.9	13	100	0	50	36	16	16	32	1.90
763395--763494	33	3.0	33	94	0	164	38	14	12	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
763417--763474	13	3.9	13	73	26	53	32	15	13	37	1.87
763430--763495	20	3.7	20	73	26	83	34	15	12	37	1.84
763532--763573	21	2.0	21	90	0	66	35	14	14	35	1.86
766352--766414	21	3.0	21	79	6	65	47	0	0	52	1.00
773042--773078	2	18.5	2	94	0	65	48	0	2	48	1.15
774327--774351	11	2.3	11	100	0	50	24	0	20	56	1.43
777005--777038	15	2.3	15	94	0	59	50	0	0	50	1.00
777718--777842	47	2.7	49	81	14	142	42	12	7	37	1.71
777937--778012	36	2.1	36	83	11	93	44	0	0	55	0.99
778203--778259	29	2.0	29	86	6	80	35	1	3	59	1.25
778946--778999	22	2.5	22	81	6	65	55	0	1	42	1.10
779398--779455	2	29.5	2	89	3	91	46	0	1	51	1.11
779398--779469	8	8.4	9	83	13	75	44	0	1	54	1.08
779482--779530	15	3.3	15	74	25	50	51	0	0	48	1.00
783695--783740	19	2.5	18	85	3	56	58	4	0	36	1.18
789574--789605	16	1.9	17	93	6	57	12	3	6	78	1.06
789837--789874	15	2.5	15	83	12	51	26	0	7	65	1.19
790763--790794	16	2.0	16	93	0	55	40	0	0	59	0.97
792441--792494	22	2.3	23	75	15	58	59	0	0	40	0.98
792448--792495	21	2.2	21	85	10	62	56	0	0	43	0.99
794343--794392	2	25.0	2	100	0	100	50	0	0	50	1.00
794407--794449	17	2.4	18	84	3	52	65	2	4	27	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
794898--794943	22	2.1	22	84	4	58	43	0	0	56	0.99
798511--798558	16	2.9	17	85	11	57	52	2	0	45	1.12
798511--798546	17	2.2	16	90	5	54	47	0	0	52	1.00
799897--799951	28	2.0	28	92	7	94	52	0	0	47	1.00
799926--799986	23	2.6	24	74	5	63	45	0	8	45	1.33
800139--800195	26	2.2	26	84	6	71	29	0	12	57	1.35
800645--800681	19	1.9	19	88	0	56	43	8	0	48	1.32
801800--801866	32	2.1	32	85	0	89	38	2	11	46	1.56
804098--804180	32	2.9	29	71	26	77	55	0	1	43	1.07
804155--804245	21	4.2	21	67	21	64	53	0	0	46	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17