genome.fa.s174.2.7.7.80.10.50.1000.4.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: Scaffold174
Parameters: 2 7 7 80 10 50 1000
Length:  2085601

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

This is table  4  of  15  ( 1687 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)
411255--411308	26	2.1	26	82	0	63	31	5	11	51	1.60
412240--412264	13	1.9	13	100	0	50	48	0	4	48	1.20
412490--412556	25	3.0	21	71	24	57	47	0	0	52	1.00
412489--412549	26	2.3	26	83	16	81	49	0	0	50	1.00
412513--412579	19	3.6	17	79	16	64	55	0	0	44	0.99
412663--412703	22	2.0	21	85	9	57	51	7	2	39	1.43
412668--412715	21	2.2	22	81	3	62	50	6	2	41	1.39
413488--413518	13	2.4	13	94	0	53	54	0	0	45	0.99
413900--413952	21	2.6	21	82	11	67	41	0	0	58	0.98
420328--420364	6	6.7	6	87	12	53	27	0	0	72	0.84
420555--420631	24	3.1	24	73	17	68	32	1	0	66	1.00
420559--420630	22	3.1	23	81	11	85	31	1	0	66	1.00
420547--420630	35	2.3	35	79	16	93	33	2	0	64	1.07
420559--420626	25	2.9	24	81	14	63	32	1	0	66	1.01
420642--420673	2	16.0	2	93	0	55	50	0	3	46	1.17
420821--420888	34	2.0	33	83	8	84	52	0	0	47	1.00
421321--421366	14	3.1	15	84	15	60	41	0	0	58	0.98
421321--421381	7	7.9	7	79	16	50	39	0	1	59	1.08
421632--421656	13	1.9	13	100	0	50	48	0	0	52	1.00
422144--422190	20	2.3	20	78	7	51	59	2	2	36	1.21
423949--424025	40	1.9	40	82	10	95	50	0	0	49	1.00
424328--424361	16	2.1	17	88	5	52	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)
425132--425168	16	2.3	16	90	0	56	37	2	0	59	1.12
430003--430212	105	2.0	105	98	0	402	43	14	15	26	1.86
434026--434115	17	5.5	16	69	13	67	40	0	0	60	0.97
433977--434067	44	2.0	46	85	6	123	40	1	1	57	1.13
434031--434078	18	2.6	18	80	3	51	41	0	0	58	0.98
434027--434116	32	2.7	33	80	14	105	41	0	0	58	0.98
434076--434116	12	3.6	12	80	6	50	39	0	0	60	0.96
434026--434116	34	2.8	33	76	15	91	40	0	0	59	0.97
434173--434233	25	2.6	23	84	7	70	34	1	0	63	1.04
434189--434234	22	2.1	22	84	8	58	32	0	0	67	0.91
435310--435660	174	2.0	177	91	3	568	47	3	3	45	1.38
435880--435933	28	1.9	27	85	7	72	51	5	7	35	1.53
442693--442769	28	2.7	27	77	16	84	38	0	1	59	1.06
442815--442871	11	5.1	11	83	8	62	28	0	0	71	0.86
442963--443006	16	2.8	16	75	3	54	56	0	0	43	0.99
443279--443364	28	3.1	27	80	14	79	47	0	3	48	1.18
443293--443336	18	2.6	18	80	20	58	47	0	0	52	1.00
447487--447538	24	2.1	26	82	13	65	55	0	1	42	1.10
447502--447546	23	1.9	24	86	4	65	51	0	0	48	1.00
450623--450648	2	13.0	2	100	0	52	0	0	50	50	1.00
450652--450687	2	18.0	2	100	0	72	50	0	0	50	1.00
450929--451012	40	2.2	39	81	12	93	53	0	2	44	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451355--451398	20	2.1	21	84	12	56	40	4	0	54	1.21
452126--452153	2	14.0	2	100	0	56	50	0	0	50	1.00
453200--453232	2	16.5	2	100	0	66	51	0	0	48	1.00
457086--457141	22	2.5	23	97	2	105	62	8	10	17	1.52
458052--458126	20	3.8	20	78	3	71	40	10	13	36	1.79
458049--458126	40	2.0	39	84	2	102	39	11	12	35	1.80
459670--459700	3	10.3	3	100	0	62	67	0	0	32	0.91
460195--460276	34	2.4	34	81	0	101	25	2	24	47	1.64
460578--460631	19	2.8	19	80	5	65	25	18	18	37	1.94
465272--465312	6	6.7	6	97	2	73	82	0	2	14	0.76
466160--466199	3	13.3	3	100	0	80	67	0	0	32	0.91
467360--467405	2	23.0	2	90	0	74	45	0	0	54	0.99
474455--474500	8	5.0	9	80	17	51	63	2	0	34	1.07
474455--474588	29	4.6	28	70	18	76	59	0	0	39	1.03
474512--474578	18	3.6	18	76	7	62	59	0	0	40	0.97
474484--474578	20	4.8	20	74	16	76	57	0	0	42	0.98
480702--480737	15	2.4	15	90	0	54	55	0	0	44	0.99
480973--481042	29	2.4	30	81	11	74	58	4	2	34	1.32
481004--481043	19	2.2	18	90	4	62	62	0	2	35	1.09
481755--481808	20	2.7	20	82	8	65	46	0	9	44	1.35
482776--482822	24	2.0	24	91	8	78	48	0	0	51	1.00
483989--484035	17	2.9	16	75	9	51	63	4	2	29	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484063--484109	2	23.5	2	100	0	94	48	0	0	51	1.00
485066--485104	2	20.5	2	89	10	64	53	0	0	46	1.00
487511--487548	13	2.9	13	81	14	51	50	0	5	44	1.24
488255--488280	3	8.7	3	100	0	52	65	0	0	34	0.93
488561--488648	30	3.0	28	73	23	74	60	3	0	36	1.14
488556--488596	20	2.0	20	85	4	55	63	0	0	36	0.95
488949--488989	16	2.6	16	88	0	55	56	4	0	39	1.21
489022--489073	13	4.2	13	76	23	58	50	1	0	48	1.12
489049--489126	16	4.8	16	85	7	86	53	3	0	42	1.19
489090--489150	26	2.4	28	78	15	78	55	0	0	44	0.99
489723--489762	20	2.1	19	86	9	55	47	10	7	35	1.65
489823--489859	18	2.0	19	89	5	58	37	5	0	56	1.22
490222--490246	3	8.3	3	100	0	50	32	0	0	68	0.90
497221--497284	29	2.3	29	81	5	69	34	6	1	57	1.33
497396--497433	19	2.1	18	90	5	58	44	2	0	52	1.14
497921--497971	21	2.4	22	80	3	59	50	1	0	47	1.12
498854--498884	2	15.5	2	100	0	62	48	0	0	51	1.00
498961--499024	24	2.7	24	68	18	60	48	6	3	42	1.44
501028--501052	12	2.1	12	100	0	50	8	16	0	76	1.02
501315--501343	3	9.7	3	100	0	58	31	0	0	68	0.89
501498--501576	30	2.7	28	77	14	70	36	7	3	51	1.48
501824--501852	15	1.9	15	100	0	58	27	0	3	68	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503145--503178	11	3.2	11	91	4	52	67	0	0	32	0.91
503136--503217	34	2.5	33	80	5	96	68	0	0	31	0.90
503137--503194	17	3.4	17	76	9	64	67	0	0	32	0.91
503145--503218	21	3.4	22	76	10	64	68	0	0	31	0.89
503528--503588	16	3.8	16	76	8	54	59	0	0	40	0.98
503612--503637	2	13.0	2	100	0	52	50	0	50	0	1.00
503911--503952	16	2.7	16	85	3	50	42	2	4	50	1.36
504240--504276	19	1.9	19	88	0	56	59	8	0	32	1.27
505353--505393	21	2.0	22	85	9	59	53	0	2	43	1.13
506602--506632	16	1.9	16	100	0	62	61	0	0	38	0.96
507440--507477	13	2.9	14	84	7	53	42	0	7	50	1.31
509776--509829	12	4.4	12	79	4	63	46	0	0	53	1.00
509776--509833	25	2.4	24	91	2	89	46	0	0	53	1.00
520091--520138	18	2.7	17	78	9	51	45	0	2	52	1.12
520213--520275	18	3.0	21	73	20	60	66	0	0	33	0.92
520212--520293	41	2.0	43	81	13	100	60	1	2	35	1.17
520469--520511	18	2.5	16	82	14	50	76	0	18	4	0.95
528375--528413	18	2.2	18	85	0	51	33	0	2	64	1.08
530918--530956	16	2.4	16	82	4	51	48	0	5	46	1.24
531453--531507	22	2.5	21	74	8	56	41	3	1	52	1.29
531843--531881	21	2.0	21	85	10	55	33	2	0	64	1.08
533492--533559	34	2.0	33	86	13	95	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)
538077--538120	21	2.2	20	83	4	52	20	4	11	63	1.44
538205--538273	18	3.5	18	70	25	59	33	1	0	65	1.02
543169--543614	218	2.0	221	94	3	790	23	17	19	39	1.92
545568--545609	21	2.0	20	86	4	57	45	4	0	50	1.23
546077--546102	3	8.7	3	100	0	52	69	0	0	30	0.89
546760--546797	2	19.0	2	94	0	67	52	0	0	47	1.00
547040--547083	24	1.9	23	86	9	63	54	0	2	43	1.12
547056--547107	19	2.7	20	82	8	63	53	0	1	44	1.11
547034--547124	22	4.1	22	63	18	53	52	0	1	46	1.07
548647--548717	11	6.3	11	80	13	74	66	1	2	29	1.15

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