genome.fa.s31.2.7.7.80.10.50.1000.4.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: Scaffold31
Parameters: 2 7 7 80 10 50 1000
Length:  2401195

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

This is table  4  of  16  ( 1858 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)
483085--484366	49	26.8	49	79	10	1205	31	17	25	24	1.97
483484--484361	43	19.1	43	77	12	820	31	18	25	24	1.98
484016--484084	22	3.2	22	63	19	54	30	15	28	24	1.96
483995--484105	21	5.2	21	61	23	52	28	17	27	26	1.97
483133--484369	92	13.1	93	90	3	1040	31	18	25	24	1.97
484390--484711	27	10.3	32	69	19	184	30	13	33	22	1.93
484390--484693	61	5.0	61	81	6	328	30	13	33	23	1.92
484426--484659	120	2.0	119	86	5	330	30	13	33	23	1.92
484691--484824	32	4.3	30	84	6	153	31	17	26	24	1.97
484667--484824	32	5.1	31	83	5	151	30	16	29	23	1.96
484674--484819	61	2.3	63	81	8	165	27	17	29	25	1.98
484704--484825	31	4.0	30	82	7	129	30	17	27	24	1.97
486039--486069	10	3.1	10	95	0	53	0	3	9	87	0.66
492933--493113	52	3.5	52	93	0	308	29	17	17	35	1.93
493191--493242	13	3.5	13	73	26	50	36	17	13	32	1.89
494649--494730	30	3.3	24	64	29	64	25	20	8	45	1.80
500010--500062	20	2.6	21	84	3	72	39	15	16	28	1.89
500114--500139	13	2.0	13	100	0	52	30	15	15	38	1.88
500094--500161	33	2.1	32	88	2	100	35	17	13	33	1.89
501292--501325	17	2.1	17	94	5	61	23	17	8	50	1.74
502829--502880	15	3.2	16	72	8	52	44	0	0	55	0.99
502826--502903	33	2.4	32	83	12	97	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503017--503055	14	2.8	14	92	0	60	48	0	0	51	1.00
503004--503054	20	2.6	20	78	9	61	50	0	0	49	1.00
503628--503665	13	2.9	13	84	11	51	5	7	5	81	0.98
504081--504308	113	2.0	113	97	1	431	30	10	23	35	1.89
505118--505146	2	14.5	2	100	0	58	51	0	0	48	1.00
505634--505663	14	2.1	14	100	0	60	53	13	13	20	1.72
510876--510904	2	14.5	2	100	0	58	48	0	0	51	1.00
511015--511039	12	2.1	12	100	0	50	48	0	0	52	1.00
510997--511042	17	2.5	18	86	10	58	45	0	0	54	0.99
514096--514141	21	2.2	20	82	14	58	21	17	19	41	1.90
519133--519280	79	1.9	80	82	4	192	28	13	29	28	1.94
521740--521790	21	2.5	21	84	6	61	33	15	13	37	1.87
522577--523168	55	10.3	55	86	8	699	24	21	27	27	1.99
522629--522715	27	3.2	27	63	15	70	22	20	31	25	1.98
522577--523169	233	2.6	230	87	5	857	24	21	27	27	1.99
528760--528801	21	2.0	21	85	0	57	40	0	0	59	0.97
528930--528968	11	3.5	11	79	6	51	69	0	0	30	0.89
529914--529945	2	16.0	2	100	0	64	50	0	0	50	1.00
530106--530148	19	2.2	21	84	12	56	72	6	2	18	1.19
530114--530169	23	2.5	22	79	5	58	66	7	1	25	1.27
530327--530388	27	2.4	25	79	12	63	59	0	4	35	1.19
531174--531239	33	2.0	32	85	8	89	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531183--531247	33	1.9	33	84	9	87	55	0	0	44	0.99
531379--531413	17	2.0	18	88	5	54	45	11	8	34	1.71
531827--531889	30	2.1	30	93	0	108	50	22	0	26	1.49
533094--533137	2	22.0	2	100	0	88	50	0	0	50	1.00
536786--536836	15	3.3	16	76	15	54	31	0	1	66	1.03
536786--536848	14	4.4	14	73	11	56	28	0	1	69	0.97
536907--536956	25	2.0	26	84	11	68	38	0	0	62	0.96
537075--537115	17	2.3	18	84	12	50	29	4	0	65	1.13
537456--537504	19	2.4	21	80	10	57	44	0	0	55	0.99
537511--537566	19	2.9	19	97	2	103	48	0	0	51	1.00
537990--538025	18	2.0	18	89	10	56	58	0	0	41	0.98
542490--542530	13	3.1	14	79	10	50	63	2	0	34	1.08
542607--542646	19	2.1	19	86	9	55	75	0	0	25	0.81
545831--545911	32	2.5	32	80	7	92	43	6	8	41	1.60
548377--548419	21	2.0	22	86	4	61	37	2	0	60	1.10
548787--548842	12	4.7	12	77	16	62	60	17	1	19	1.45
548904--548958	15	3.3	17	72	12	51	45	12	5	36	1.66
549133--549166	17	2.0	17	88	11	52	20	2	0	76	0.92
551034--551070	9	3.9	9	86	13	56	10	2	2	83	0.84
551030--551069	20	2.0	20	100	0	80	10	5	5	80	1.02
551116--551168	23	2.3	23	80	3	63	79	3	5	11	1.03
551243--551274	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
552957--552982	2	13.0	2	100	0	52	50	0	0	50	1.00
553241--553290	25	2.0	26	84	11	68	30	0	4	66	1.10
553344--553422	39	2.0	39	83	11	99	34	3	1	60	1.23
553394--553436	22	2.0	22	82	8	54	34	9	0	55	1.32
554171--554209	21	2.0	21	90	10	64	51	0	0	48	1.00
554173--554220	22	2.2	21	82	10	53	56	0	0	43	0.99
555017--555055	17	2.1	18	86	13	53	58	0	0	41	0.98
555162--555199	15	2.6	15	87	4	51	28	2	0	68	1.03
556344--556411	34	1.9	36	85	8	95	54	0	0	45	0.99
556382--556424	21	2.0	21	86	13	61	65	0	0	34	0.93
558001--558069	34	2.0	34	88	0	102	47	8	11	31	1.70
558037--558104	28	2.4	28	80	7	75	41	11	11	35	1.78
558177--558244	14	5.0	14	73	16	54	60	0	0	39	0.97
558383--558418	15	2.4	15	100	0	72	58	0	0	41	0.98
558857--558897	17	2.3	18	83	8	57	51	0	0	48	1.00
558858--558923	28	2.4	28	74	5	71	56	0	0	43	0.99
558859--558962	48	2.2	47	81	14	117	56	0	0	42	1.05
558914--558976	27	2.3	25	77	17	63	53	0	1	44	1.10
560580--560616	19	1.9	19	89	10	58	70	0	0	29	0.88
561443--561468	2	13.0	2	100	0	52	50	0	0	50	1.00
561857--561924	25	2.7	26	78	17	81	48	0	0	51	1.00
561857--561930	24	3.0	24	74	20	73	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562525--562563	20	2.0	20	90	10	62	53	0	0	46	1.00
565099--565147	16	2.9	16	73	8	53	36	4	4	55	1.38
565946--566006	28	2.1	27	82	14	70	31	8	4	55	1.50
566970--567012	20	2.2	19	84	12	52	39	0	4	55	1.20
566958--567064	43	2.5	43	83	8	121	42	0	4	52	1.22
567606--567650	2	22.5	2	100	0	90	51	0	0	48	1.00
568480--568517	15	2.6	14	91	4	58	23	0	7	68	1.16
568507--568549	18	2.4	18	80	7	52	27	0	0	72	0.85
569141--569184	13	3.3	13	90	3	70	56	0	0	43	0.99
569704--569752	17	3.0	16	77	11	55	65	0	0	34	0.93
570847--570882	18	2.0	18	88	0	54	36	2	13	47	1.58
570847--570892	22	2.1	22	91	0	74	36	2	13	47	1.54
573592--573621	10	3.0	10	95	0	51	0	13	0	86	0.57
573585--573648	20	3.1	21	76	10	62	4	18	0	76	0.95
574889--575412	32	16.4	32	94	0	870	15	18	34	31	1.93
575409--576528	27	41.0	27	91	2	1754	28	14	34	22	1.94
575394--576552	273	4.2	272	92	2	1815	28	14	33	23	1.94
575409--576528	464	2.4	464	95	0	2010	28	14	34	22	1.94
584345--584401	11	4.5	12	80	19	55	1	19	0	78	0.83
584347--584399	16	3.2	16	73	5	52	1	20	0	77	0.87
584348--584401	24	2.5	21	78	21	58	1	20	0	77	0.86
586570--586602	14	2.3	15	89	5	50	69	15	0	15	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587204--587232	2	14.5	2	100	0	58	48	0	0	51	1.00
592649--592680	2	16.0	2	100	0	64	0	0	50	50	1.00
596689--596750	17	3.3	21	82	12	66	41	0	0	58	0.98
596702--596749	15	3.0	16	82	11	53	37	0	0	62	0.95
596705--596760	17	3.4	17	87	7	71	41	0	0	58	0.98
599113--599146	17	2.0	17	88	0	50	23	2	8	64	1.36
607083--607109	2	13.5	2	100	0	54	48	0	0	51	1.00
608862--609186	77	4.2	78	75	8	311	37	19	12	31	1.88
609242--609335	29	3.3	28	71	8	82	45	7	14	31	1.73
609247--609814	58	10.0	58	75	7	488	47	13	11	28	1.76

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