genome.fa.s113.2.7.7.80.10.50.1000.4.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: Scaffold113
Parameters: 2 7 7 80 10 50 1000
Length:  3764034

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  4  of  23  ( 2678 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)
489197--489267	20	3.5	20	88	0	115	40	14	12	32	1.83
489992--490693	28	24.3	30	81	8	429	23	17	28	29	1.97
490003--490446	28	15.6	28	85	4	500	24	17	28	29	1.97
490003--490705	56	12.2	56	82	7	745	23	16	29	30	1.97
490003--490705	84	8.2	84	83	7	772	23	16	29	30	1.97
490408--490485	39	2.0	39	89	0	120	26	15	28	29	1.96
490380--490509	67	1.9	67	95	0	233	25	16	26	30	1.97
491915--491948	13	2.8	12	87	12	52	0	0	17	82	0.67
493941--494187	42	5.9	41	77	10	209	40	12	26	19	1.88
493971--494188	41	5.2	42	76	12	200	42	11	27	18	1.85
493940--494142	81	2.5	82	86	4	257	40	12	26	20	1.88
494149--494431	60	4.6	61	84	5	293	32	20	21	25	1.97
494149--494439	63	4.7	62	83	6	308	31	20	22	25	1.98
494209--494435	122	1.9	125	85	5	322	32	18	22	25	1.97
494450--495219	61	12.6	61	83	3	897	34	18	20	25	1.96
494450--495228	184	4.2	183	83	2	931	34	18	20	25	1.96
502759--502811	19	2.7	20	85	2	72	35	16	15	32	1.90
504446--504494	21	2.4	21	90	10	75	48	0	18	32	1.48
505289--505315	13	2.1	13	100	0	54	40	37	0	22	1.54
509152--509177	12	2.2	12	100	0	52	30	42	0	26	1.56
510773--510826	20	2.7	20	88	5	74	37	16	14	31	1.89
510855--510912	19	3.0	20	85	7	84	34	17	15	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513079--513469	79	4.9	79	85	3	477	27	24	13	34	1.93
513079--513469	157	2.5	159	84	4	522	27	24	13	34	1.93
515938--516320	79	4.9	78	77	5	324	34	11	22	31	1.90
517633--517697	33	2.0	33	84	3	87	35	13	13	36	1.85
517747--517815	20	3.8	18	70	14	52	31	14	17	36	1.90
518207--518250	23	1.9	23	81	9	54	29	6	25	38	1.81
519391--519421	3	10.3	3	92	0	53	38	0	32	29	1.57
525935--525992	30	1.9	30	100	0	116	34	13	13	37	1.85
527212--527590	79	4.8	79	82	5	403	31	14	26	27	1.95
527518--527640	51	2.4	51	84	2	149	34	11	25	28	1.90
527447--527702	129	2.0	130	84	8	335	33	11	25	29	1.91
530142--530194	20	2.7	20	91	5	81	33	13	20	32	1.91
530229--530266	20	2.0	20	94	5	69	36	10	15	36	1.82
538841--538897	19	2.9	19	86	2	78	33	17	15	33	1.92
538926--538992	33	2.0	33	88	5	100	34	13	19	32	1.91
539027--539064	20	2.0	20	94	5	69	36	10	15	36	1.82
539595--539651	20	2.8	20	94	0	105	47	15	12	24	1.80
539584--539613	13	2.3	13	100	0	60	40	13	16	30	1.87
540314--541699	62	22.5	60	86	4	1560	29	19	26	24	1.98
540313--541697	246	5.6	245	86	3	1816	29	19	26	24	1.98
540313--541697	370	3.7	372	88	3	1933	29	19	26	24	1.98
547857--548239	79	4.8	79	81	5	416	32	14	25	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548173--548295	51	2.4	49	80	9	140	30	13	25	30	1.93
548096--548354	130	2.0	130	87	3	369	31	12	26	29	1.92
551710--552324	310	2.0	309	89	0	944	32	18	14	33	1.91
553312--553485	44	3.9	44	85	6	210	37	7	4	50	1.49
553308--553486	90	2.0	89	84	7	238	37	7	3	50	1.50
558156--558778	43	14.1	43	75	15	556	28	18	26	26	1.98
558104--558830	92	8.1	92	86	4	970	29	18	26	25	1.98
558511--558578	21	3.2	20	66	25	50	29	16	27	26	1.97
558110--558825	179	4.0	181	87	5	983	28	18	26	25	1.98
558830--558892	33	1.9	33	100	0	126	19	19	31	30	1.96
558818--558895	33	2.5	31	86	10	122	19	16	35	28	1.93
558897--559300	33	12.7	32	84	8	232	33	15	30	20	1.94
558898--559300	65	6.3	64	84	8	405	33	15	30	20	1.94
559019--559303	98	3.0	97	89	4	436	34	15	29	21	1.94
560193--560231	19	2.1	18	85	4	51	0	0	17	82	0.68
560495--560553	6	10.0	6	76	10	59	0	0	18	81	0.69
560479--560551	29	2.5	28	82	10	85	1	0	17	80	0.78
560494--560552	23	2.7	22	85	10	77	0	0	16	83	0.66
560480--560534	16	3.4	16	78	9	58	1	0	18	80	0.81
560480--560548	35	2.0	33	88	5	102	1	0	17	81	0.77
567547--567572	13	2.0	13	100	0	52	38	15	15	30	1.88
568533--569235	49	15.5	45	75	15	551	29	18	26	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568578--569203	43	14.1	43	76	14	576	28	18	26	26	1.98
568526--569235	92	7.9	92	87	4	993	30	18	25	25	1.98
569255--569317	33	1.9	33	96	0	117	20	19	30	30	1.97
569243--569337	33	3.0	31	79	11	104	20	16	35	27	1.94
569322--569661	33	10.6	33	83	6	181	34	14	29	21	1.93
569413--569693	62	4.4	65	83	7	339	34	14	29	21	1.93
569415--569693	32	8.8	32	84	6	338	34	14	29	21	1.93
570889--570940	6	9.0	6	82	4	54	1	0	13	84	0.70
570871--570937	19	3.8	18	84	9	93	2	0	13	83	0.76
570871--570938	17	3.8	18	78	21	81	2	0	13	83	0.75
580336--580433	34	2.9	34	83	4	126	31	19	11	37	1.87
581143--581190	22	2.2	22	81	7	53	39	14	6	39	1.71
581706--581791	17	5.1	17	89	0	136	18	40	1	39	1.58
586459--586558	34	2.9	34	92	4	157	29	28	11	32	1.91
587720--587745	13	2.0	13	100	0	52	30	15	15	38	1.88
587820--587867	20	2.3	21	82	13	64	31	14	8	45	1.74
592122--592174	23	2.3	22	90	6	79	41	47	1	9	1.47
605289--605313	13	1.9	13	100	0	50	32	16	16	36	1.90
609692--609730	16	2.4	16	86	0	51	84	2	0	12	0.72
610885--610975	40	2.2	41	86	1	121	19	32	10	36	1.87
611001--611122	31	3.9	31	81	2	138	28	31	24	14	1.95
611090--611622	87	6.0	87	66	14	307	28	25	24	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
611179--611302	31	4.0	31	72	4	106	26	30	25	16	1.97
611001--611563	180	3.1	179	88	0	802	28	27	24	19	1.99
617930--618041	55	2.0	55	98	0	215	34	30	3	31	1.75
619505--619595	30	3.0	29	73	19	87	24	35	16	24	1.95
619575--619727	32	4.5	33	81	7	166	19	28	10	41	1.84
619575--619751	93	1.8	98	84	8	247	20	28	10	39	1.86
619752--620238	32	15.2	33	80	7	497	29	32	16	21	1.95
619752--620241	65	7.7	65	78	8	497	30	32	16	21	1.95
619851--620224	97	4.0	90	77	11	243	29	32	16	21	1.95
620253--621197	52	17.7	51	72	12	488	24	23	15	37	1.93
620253--620806	156	3.6	156	81	5	602	24	23	14	37	1.93
620751--621310	61	9.8	60	71	12	268	23	23	15	37	1.93
620591--621100	278	1.8	279	88	0	779	24	23	15	36	1.93
620969--621209	113	2.1	113	85	0	320	22	21	14	41	1.90
620969--621248	113	2.5	113	83	1	301	23	22	15	38	1.92
620405--621198	278	3.0	272	79	7	680	24	23	15	37	1.93
625825--626169	52	6.9	51	78	6	302	33	17	24	24	1.96
626176--626231	30	2.0	27	86	10	76	21	19	26	32	1.97
636574--636632	13	4.9	13	73	26	67	35	13	16	33	1.88
636574--636653	34	2.4	34	100	0	160	35	12	17	35	1.88
636685--636749	19	3.7	19	75	23	79	38	16	12	32	1.86
636680--636747	32	2.1	32	97	0	127	36	17	11	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636704--636728	13	1.9	13	100	0	50	32	16	16	36	1.90
637338--637525	97	1.9	97	83	2	243	34	11	26	28	1.91
637478--637577	52	1.9	52	91	4	166	41	9	18	32	1.81
637381--637677	149	2.0	148	97	0	558	35	10	22	30	1.88
639652--639677	13	2.0	13	100	0	52	30	15	15	38	1.88
639631--639695	32	2.0	34	87	6	98	26	13	16	43	1.86
642232--642270	13	3.0	13	96	0	69	35	15	17	30	1.91
648453--648478	13	2.0	13	100	0	52	30	15	15	38	1.88
648432--648496	32	2.0	34	87	6	98	26	13	16	43	1.86
650136--650324	51	3.8	51	84	6	228	42	11	15	30	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23