genome.fa.s47.2.7.7.80.10.50.1000.4.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: Scaffold47
Parameters: 2 7 7 80 10 50 1000
Length:  2157611

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

This is table  4  of  15  ( 1735 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)
350064--350289	115	1.9	119	81	8	277	43	5	6	44	1.53
350668--350700	2	16.5	2	93	0	57	48	3	0	48	1.17
350776--350830	17	3.2	17	78	14	60	69	1	0	29	0.99
351895--351929	2	17.5	2	100	0	70	48	0	51	0	1.00
354197--354351	79	2.0	80	82	6	190	30	14	27	27	1.95
354306--354377	28	2.6	28	88	0	99	23	19	34	22	1.96
354365--354764	52	7.6	52	70	13	237	33	11	25	29	1.91
354365--354589	55	4.3	53	78	9	203	33	12	24	29	1.91
354365--354589	106	2.1	104	81	3	254	33	12	24	29	1.91
354572--354647	27	2.8	28	85	2	100	22	21	32	23	1.98
357298--357350	20	2.7	20	93	0	88	33	15	22	28	1.94
366079--366103	13	1.9	13	100	0	50	36	16	16	32	1.90
366057--366122	33	2.0	32	88	2	96	31	16	15	36	1.90
366088--366145	20	3.1	19	79	16	75	36	17	15	31	1.91
366196--366242	13	4.0	13	74	25	59	34	12	17	36	1.87
366173--366242	33	2.1	34	86	7	99	34	12	18	34	1.89
367523--367558	18	2.0	18	88	0	54	52	0	8	38	1.32
367921--368026	51	2.1	52	92	1	178	40	20	13	25	1.89
372747--372811	29	2.2	29	97	0	121	36	9	7	46	1.65
375485--375522	9	4.1	9	86	6	58	42	0	0	57	0.98
375454--375538	15	5.3	16	71	17	61	47	2	0	50	1.14
375461--375523	19	3.0	21	86	11	78	42	3	0	53	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375382--375654	104	2.6	104	80	11	297	46	4	2	46	1.36
377875--377954	40	2.0	40	85	0	106	36	5	20	38	1.74
379101--379149	26	1.9	25	87	4	71	24	14	10	51	1.73
382035--382096	21	2.9	21	75	22	65	16	3	3	77	1.03
382957--383009	21	2.5	21	81	0	61	33	16	13	35	1.88
385409--385605	97	2.0	97	87	3	281	27	20	12	39	1.88
385421--385627	97	2.1	98	83	5	251	28	22	12	37	1.90
389968--390065	30	3.3	30	87	2	137	29	13	25	31	1.93
390062--390097	19	1.9	19	94	5	65	52	16	13	16	1.74
390101--390691	28	20.7	28	79	6	526	24	16	29	28	1.97
390101--390679	114	5.1	113	87	3	698	24	16	29	29	1.97
390148--390714	86	6.7	86	78	8	473	24	16	29	29	1.97
390686--390896	30	6.9	30	74	11	144	35	10	26	27	1.90
390749--390924	62	2.9	61	80	9	189	32	11	28	26	1.91
390757--390924	30	5.4	32	73	16	133	33	10	28	27	1.89
398164--398254	45	2.0	45	89	0	137	32	20	19	26	1.97
399640--399769	52	2.5	50	79	7	136	40	11	16	30	1.84
399838--399880	20	2.1	20	91	4	68	37	18	2	41	1.63
403542--403703	70	2.4	67	86	6	231	44	11	14	29	1.80
403648--403727	24	3.5	24	69	19	80	42	8	18	30	1.81
403542--403747	20	9.4	20	70	21	128	44	10	15	29	1.80
403629--403748	44	2.7	44	98	0	231	42	9	17	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404410--404493	44	1.9	44	85	4	116	39	14	25	21	1.91
404680--404798	32	3.7	32	79	11	118	26	18	27	26	1.98
404688--405048	28	12.4	28	74	12	234	21	19	30	27	1.98
404807--405029	56	3.9	56	85	3	261	19	20	32	27	1.97
410776--410820	15	3.0	15	80	0	54	17	0	40	42	1.50
419421--419582	50	3.4	49	74	17	171	27	16	14	42	1.86
419481--419557	20	3.8	20	85	0	109	31	12	12	42	1.81
423271--423346	21	3.7	21	80	7	93	42	14	17	26	1.87
426919--427048	52	2.5	51	85	2	163	30	18	10	40	1.83
432045--432085	21	2.0	21	90	0	64	21	19	0	58	1.39
437595--437722	52	2.5	52	94	3	224	30	17	17	33	1.94
437731--437755	13	1.9	13	100	0	50	36	16	16	32	1.90
437796--437862	33	2.0	33	88	0	98	40	13	11	34	1.81
437818--437842	13	1.9	13	100	0	50	32	16	16	36	1.90
441711--441768	24	2.5	23	78	13	57	51	1	6	39	1.39
441733--441784	22	2.4	22	80	6	61	51	3	7	36	1.49
446114--446361	125	2.0	126	93	2	428	40	13	15	30	1.86
451696--451729	17	2.1	16	89	10	52	44	0	0	55	0.99
452619--452674	20	2.8	21	78	10	64	58	1	0	39	1.08
453445--453493	2	24.5	2	95	0	89	46	0	0	53	1.00
454252--454295	23	2.0	23	86	4	63	20	6	11	61	1.52
454613--454656	21	2.0	21	83	12	54	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455826--455898	29	2.5	30	78	10	89	30	0	4	65	1.11
456034--456059	3	8.7	3	100	0	52	34	0	30	34	1.58
456058--456083	3	8.7	3	100	0	52	34	0	0	65	0.93
457891--457963	20	3.7	19	90	3	110	28	15	13	42	1.85
457952--457997	13	3.7	13	74	11	51	32	13	17	36	1.88
460332--460543	51	4.2	50	84	3	246	27	26	11	34	1.90
460342--460562	102	2.2	102	83	5	279	27	27	12	32	1.93
460497--460841	79	4.5	79	82	6	395	27	23	14	34	1.94
462666--462717	15	3.5	15	89	5	79	23	0	1	75	0.91
462667--462712	7	6.7	7	88	11	69	23	0	0	76	0.79
462666--462717	22	2.3	23	83	9	72	23	0	1	75	0.91
464377--464433	30	2.0	29	86	10	82	45	0	0	54	0.99
464396--464426	16	1.9	16	100	0	62	48	0	0	51	1.00
464375--464437	27	2.3	26	82	12	74	46	0	0	53	1.00
466059--466144	34	2.6	32	78	14	93	41	2	0	55	1.12
466590--466621	17	1.9	16	93	6	55	87	0	12	0	0.54
466761--466799	20	1.9	21	94	5	71	48	0	2	48	1.15
466833--466868	14	2.5	15	86	9	56	38	0	0	61	0.96
467220--467283	23	2.9	21	76	15	65	20	6	1	71	1.15
467356--467415	2	30.0	2	100	0	120	50	0	0	50	1.00
467627--467665	21	1.9	19	85	10	51	56	0	0	43	0.99
468490--468560	29	2.4	29	75	9	72	36	1	4	57	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468604--468655	16	3.1	16	75	8	50	40	1	0	57	1.10
472296--472333	20	1.9	19	89	5	58	55	0	0	44	0.99
473461--473531	30	2.6	27	77	16	83	43	0	0	56	0.99
473994--474039	2	23.0	2	95	0	83	47	0	2	50	1.13
477278--477324	2	23.5	2	100	0	94	0	51	0	48	1.00
478201--478230	15	1.9	16	93	6	53	43	0	0	56	0.99
478717--478753	13	2.9	13	85	14	51	72	0	0	27	0.84
478735--478788	26	2.1	25	82	3	63	46	5	3	44	1.44
479366--479399	12	2.7	13	86	9	52	61	0	0	38	0.96
479835--479906	11	6.9	11	74	17	57	69	4	0	26	1.06
479835--479910	31	2.5	31	83	14	95	71	3	0	25	1.03
479856--479913	9	5.8	10	78	13	66	68	1	0	29	0.99
479857--479918	10	6.2	9	78	14	52	70	1	0	27	0.96
479955--479994	19	2.0	20	85	4	55	47	0	7	45	1.31
479955--479996	20	2.1	20	82	8	50	47	0	7	45	1.30
480115--480143	14	2.1	14	93	6	51	34	0	0	65	0.93
480584--480627	19	2.5	17	85	10	54	68	0	0	31	0.90
480589--480636	16	2.9	16	85	11	62	66	0	2	31	1.03
495514--495858	79	4.4	79	83	2	370	31	14	27	26	1.94
495528--495823	158	1.9	158	85	0	412	30	15	28	25	1.96
495795--495912	51	2.3	51	88	2	184	34	12	23	28	1.92
495716--496124	130	3.1	129	91	2	651	34	13	24	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495846--495991	79	1.8	79	89	2	231	33	13	24	28	1.93
495923--496042	51	2.4	51	94	2	206	33	12	25	29	1.92
495974--496162	79	2.4	78	90	2	281	31	13	25	28	1.94
497396--497474	41	1.9	41	97	0	149	15	20	11	53	1.72
497626--497654	12	2.3	13	94	5	51	27	0	3	68	1.05
498757--498811	20	2.8	20	82	0	65	43	14	9	32	1.77
499623--499669	15	2.9	17	84	9	71	80	0	17	2	0.80
499618--499671	16	3.4	17	80	10	69	81	0	16	1	0.78
500556--500586	8	4.0	8	91	8	55	87	0	12	0	0.55
500556--500586	15	2.1	15	100	0	62	87	0	12	0	0.55

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