genome.fa.s17.2.7.7.80.10.50.1000.3.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: Scaffold17
Parameters: 2 7 7 80 10 50 1000
Length:  1562583

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1002 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)
222954--222979	13	2.0	13	100	0	52	30	15	15	38	1.88
222934--223001	33	2.1	32	89	8	102	35	14	16	33	1.89
228632--228803	90	1.9	89	85	3	238	29	26	15	28	1.96
228669--228871	91	2.2	91	82	7	227	29	28	14	28	1.95
228983--230567	43	37.3	44	75	9	1020	18	26	17	37	1.92
229367--230238	383	2.3	381	81	4	993	18	27	17	36	1.93
229022--230570	85	18.2	86	77	5	1085	18	26	17	37	1.93
231431--231947	166	3.1	166	78	6	444	31	11	6	50	1.65
231575--231947	166	2.2	166	85	6	497	31	9	8	51	1.63
232615--232642	13	2.2	13	100	0	56	32	0	28	39	1.57
237828--237870	18	2.3	19	84	4	61	67	2	0	30	1.03
239272--239301	13	2.2	14	94	5	53	20	0	6	73	1.05
239942--239995	2	27.5	2	84	3	65	51	7	0	40	1.30
239942--239993	16	3.3	16	89	2	79	51	7	0	40	1.30
239947--239995	18	2.7	18	90	0	80	51	8	0	40	1.32
244114--244142	2	14.5	2	100	0	58	51	0	48	0	1.00
247710--247753	8	5.9	8	75	24	51	38	0	0	61	0.96
247710--247770	29	2.1	30	87	9	90	37	1	0	60	1.07
247710--247754	15	3.1	15	75	18	58	40	0	0	60	0.97
248009--248054	23	2.1	21	88	8	65	63	0	0	36	0.95
248481--248505	2	12.5	2	100	0	50	48	0	0	52	1.00
248870--248904	6	5.8	6	100	0	70	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
255097--255653	293	1.9	293	96	0	1026	42	16	15	24	1.87
256818--256867	4	12.5	4	91	0	55	50	10	0	40	1.36
256818--256867	6	8.3	6	81	0	55	50	10	0	40	1.36
257032--257062	2	15.5	2	100	0	62	51	0	0	48	1.00
257413--257444	16	2.0	16	100	0	64	37	31	12	18	1.88
261416--261473	29	2.0	29	93	0	98	53	17	8	20	1.70
266472--266497	13	2.0	13	100	0	52	38	15	15	30	1.88
266450--266517	33	2.1	32	88	2	100	33	13	19	33	1.90
267173--267221	22	2.1	23	85	14	66	32	26	0	40	1.56
269282--269306	8	3.1	8	100	0	50	64	24	0	12	1.27
275295--275349	21	2.6	21	97	0	101	36	16	10	36	1.84
275355--275385	13	2.4	13	94	0	53	35	12	16	35	1.87
278807--279253	28	15.8	28	82	4	416	29	28	17	25	1.97
279951--280065	20	5.8	20	68	8	92	32	14	11	41	1.82
280973--281012	21	2.0	21	85	5	55	25	17	10	47	1.78
283800--283825	13	2.0	13	100	0	52	30	15	15	38	1.88
286605--286649	22	2.0	22	95	0	81	35	0	31	33	1.58
287329--287354	13	2.0	13	100	0	52	30	15	15	38	1.88
287309--287371	33	1.9	33	90	3	101	36	19	12	31	1.89
293202--293227	8	3.2	8	100	0	52	15	0	23	61	1.33
293573--293613	22	2.0	20	86	13	57	31	21	4	41	1.74
293875--293926	20	2.4	21	87	9	70	21	50	25	3	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
295277--295321	22	2.0	22	95	0	81	35	0	31	33	1.58
295877--295901	13	1.9	13	100	0	50	32	16	16	36	1.90
295982--296048	33	2.1	32	85	2	89	34	17	11	35	1.87
296924--296949	13	2.0	13	100	0	52	38	15	15	30	1.88
299106--299150	21	2.1	21	84	8	56	53	4	20	22	1.63
300928--300958	15	2.1	15	93	0	53	48	16	22	12	1.80
303037--303062	13	2.0	13	100	0	52	30	15	15	38	1.88
303183--303228	21	2.2	20	81	11	58	32	19	4	43	1.71
305601--305626	13	2.0	13	100	0	52	38	15	15	30	1.88
418885--418925	17	2.4	18	80	19	52	36	2	2	58	1.24
421400--421461	11	5.2	12	71	24	51	30	0	0	69	0.89
421420--421455	7	5.6	7	81	18	51	27	0	0	72	0.85
421419--421460	12	3.6	12	87	3	59	26	0	0	73	0.83
425025--425054	15	2.0	15	93	0	51	46	0	3	50	1.18
427486--427537	20	2.6	20	81	0	59	34	15	13	36	1.87
427565--427620	21	2.7	21	83	5	69	30	19	14	35	1.91
428200--428321	63	1.9	63	84	0	163	16	24	28	30	1.96
428427--428546	31	3.7	31	74	12	105	15	24	30	30	1.95
428458--428530	37	2.0	37	89	5	112	17	24	27	30	1.97
428417--428547	68	1.9	68	85	3	183	16	24	29	30	1.96
428493--428559	31	2.1	31	86	2	89	16	25	28	29	1.97
428855--428948	40	2.4	40	85	8	147	44	19	22	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428729--429407	268	2.5	268	80	4	737	41	14	23	20	1.89
429116--429217	40	2.5	40	88	3	152	38	16	27	17	1.91
429306--429441	43	3.2	41	84	3	137	44	11	24	19	1.83
429341--429441	41	2.4	42	91	3	168	42	14	23	18	1.88
433668--433740	20	3.6	20	81	3	101	35	13	19	31	1.91
433686--433761	21	3.7	21	78	3	91	40	11	17	30	1.85
433668--433761	41	2.3	41	96	0	170	38	12	18	30	1.88
433800--433825	13	2.0	13	100	0	52	38	15	15	30	1.88
437887--437917	15	2.1	15	93	0	53	48	16	22	12	1.80
439925--440004	20	3.8	20	75	15	79	26	15	15	43	1.85
439990--440028	13	3.0	13	96	0	69	30	17	15	35	1.91
442471--442543	20	3.6	20	81	3	101	35	13	19	31	1.91
442489--442564	21	3.7	21	78	3	91	40	11	17	30	1.85
442471--442564	41	2.3	41	96	0	170	38	12	18	30	1.88
442603--442628	13	2.0	13	100	0	52	38	15	15	30	1.88
459766--459839	20	3.7	20	76	7	78	39	12	17	31	1.86
459828--459921	48	2.0	48	91	0	152	40	9	17	32	1.81
460903--461109	56	3.6	56	81	3	236	21	18	31	28	1.97
460903--461110	28	7.3	28	81	6	204	21	18	31	28	1.97
461404--461493	19	5.1	18	71	22	75	35	12	15	36	1.85
461450--461474	13	1.9	13	100	0	50	36	16	16	32	1.90
461429--461499	32	2.2	32	97	0	133	35	11	16	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463888--464072	51	3.6	50	82	9	228	30	26	11	31	1.91
464055--464159	28	3.8	28	90	0	120	22	36	20	20	1.95
464115--464347	79	2.9	79	79	4	263	27	27	13	31	1.94
465306--465527	28	7.9	28	84	0	264	25	17	28	28	1.97
465306--465529	84	2.7	84	88	0	331	25	17	29	28	1.97
466812--466847	16	2.3	15	95	4	63	2	5	11	80	0.98
471785--471861	20	3.8	20	86	6	111	38	11	16	32	1.85
478935--479297	41	8.4	42	78	11	299	42	11	26	19	1.85
478917--479251	129	2.6	129	86	0	445	42	12	24	20	1.87
478961--479287	88	3.8	87	81	7	305	40	12	25	20	1.88
479050--479287	86	2.8	87	84	6	317	41	13	24	20	1.88
478962--479297	129	2.6	127	83	6	365	41	12	25	20	1.87
479291--480543	122	10.3	122	87	3	1625	29	20	25	24	1.99
479291--480545	62	20.5	61	86	3	1593	30	20	25	24	1.99
479294--480521	553	2.2	551	94	1	2127	29	20	25	24	1.99
482180--482204	13	1.9	13	100	0	50	32	16	16	36	1.90
482293--482318	13	2.0	13	100	0	52	30	15	15	38	1.88
482273--482340	33	2.1	32	91	8	111	35	16	16	32	1.91
487247--487375	52	2.5	52	89	0	195	30	17	15	37	1.90
487384--487408	13	1.9	13	100	0	50	36	16	16	32	1.90
487473--487497	13	1.9	13	100	0	50	32	16	16	36	1.90
487451--487517	33	2.0	33	88	0	98	40	14	11	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489870--489998	52	2.5	52	98	0	249	28	17	18	34	1.94
489870--490018	52	2.9	51	92	4	237	30	17	18	33	1.94
490007--490031	13	1.9	13	100	0	50	36	16	16	32	1.90
490069--490137	32	2.1	33	94	2	122	36	17	11	34	1.86
490093--490117	13	1.9	13	100	0	50	32	16	16	36	1.90
497936--498085	79	1.9	79	84	5	205	32	16	25	26	1.96
498020--498148	51	2.6	50	85	4	163	32	14	25	27	1.95
502162--502310	52	2.9	52	91	2	246	30	17	18	32	1.94
502299--502323	13	1.9	13	100	0	50	36	16	16	32	1.90
502385--502409	13	1.9	13	100	0	50	32	16	16	36	1.90

Tables:   1   2   3   4   5   6   7   8   9