genome.fa.s409.2.7.7.80.10.50.1000.3.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: Scaffold409
Parameters: 2 7 7 80 10 50 1000
Length:  3905031

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  3  of  25  ( 2882 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)
298628--299134	55	9.2	55	77	7	393	32	14	28	25	1.94
300469--300518	22	2.3	21	76	10	55	10	12	6	72	1.28
303985--304443	82	5.6	81	86	1	630	29	14	32	23	1.94
303998--304455	109	4.2	109	88	1	589	29	14	32	23	1.94
303985--304455	27	17.3	27	85	2	566	29	14	32	23	1.94
305775--305829	19	2.9	18	76	12	56	5	12	9	72	1.26
307201--307242	14	2.8	16	78	14	52	47	4	19	28	1.69
309808--309847	21	2.0	21	90	5	64	55	12	12	20	1.69
310746--310787	22	2.0	22	85	4	59	42	9	11	35	1.74
310950--311050	52	1.9	52	95	0	184	29	16	15	37	1.90
311974--312029	20	2.7	20	77	5	58	44	14	12	28	1.81
314591--314640	13	4.1	13	82	15	70	44	12	26	18	1.84
319314--319669	31	11.1	31	67	11	162	19	22	28	29	1.98
319211--319410	98	2.0	98	82	4	242	18	26	28	28	1.98
319314--319540	62	3.6	62	75	9	197	18	23	29	29	1.98
319352--319555	99	2.1	99	82	5	243	19	23	28	28	1.98
319413--319634	99	2.2	99	83	1	266	18	20	29	31	1.97
319755--319815	31	2.0	31	86	0	86	26	27	21	24	1.99
320277--320371	34	2.7	35	81	4	111	37	15	26	20	1.92
320343--320606	42	6.5	42	76	9	201	39	15	24	20	1.91
320467--320606	41	3.6	37	78	14	131	38	17	22	21	1.93
320546--320645	42	2.4	41	81	8	105	41	19	19	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324819--324954	51	2.7	51	84	2	175	41	11	15	31	1.83
324920--324974	20	2.8	20	88	0	83	40	12	12	34	1.82
324870--325006	71	1.9	72	90	1	222	43	11	16	29	1.83
325906--326003	32	3.3	30	78	7	92	27	16	28	27	1.97
325958--326398	28	15.5	28	80	4	443	21	17	30	30	1.96
325960--326398	113	3.8	113	81	3	436	21	17	30	30	1.96
325926--326294	201	1.8	206	84	4	507	21	17	30	30	1.96
325991--326398	169	2.4	172	83	2	482	21	17	29	31	1.96
340759--341021	58	4.5	60	81	7	256	27	13	14	45	1.81
340843--340938	29	3.3	29	67	29	78	28	12	14	44	1.81
340795--341119	58	5.6	56	75	15	202	28	12	13	45	1.80
341091--341147	29	1.9	31	82	10	75	33	15	10	40	1.82
341151--341349	75	2.6	76	80	3	242	35	15	16	33	1.90
342531--342617	36	2.4	36	81	5	97	43	14	8	33	1.75
342667--342869	111	1.8	111	80	12	247	32	15	12	40	1.84
344863--344887	13	1.9	13	100	0	50	32	16	16	36	1.90
344842--344905	33	2.0	33	90	3	103	28	15	17	39	1.90
344979--345016	20	1.9	20	94	0	67	31	10	23	34	1.89
351100--351140	13	3.2	13	89	0	64	31	9	14	43	1.78
353107--353170	32	2.0	32	90	6	103	35	1	26	35	1.66
353583--353625	21	2.1	20	82	4	50	62	16	0	20	1.32
353676--353720	20	2.1	23	88	12	69	48	11	8	31	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354742--354779	2	19.0	2	100	0	76	50	0	0	50	1.00
357432--357560	52	2.5	52	92	0	231	35	19	17	27	1.94
359667--359720	27	2.1	27	86	10	78	22	38	18	20	1.93
361308--361333	13	2.0	13	100	0	52	38	15	15	30	1.88
363036--363091	24	2.2	25	82	17	64	39	12	7	41	1.70
367546--367588	22	2.0	22	90	0	68	51	2	13	32	1.54
367984--368016	2	16.5	2	100	0	66	51	0	0	48	1.00
369153--369182	5	6.0	5	92	0	51	0	43	0	56	0.99
372666--372772	53	2.0	53	90	0	169	33	14	10	42	1.79
373406--373463	31	1.9	31	85	3	82	43	3	1	51	1.28
373759--373797	17	2.3	17	90	0	60	53	0	0	46	1.00
374728--374770	22	2.0	20	86	8	59	69	0	0	30	0.88
375070--375111	6	7.0	6	94	0	66	61	0	0	38	0.96
376259--376295	13	2.9	14	84	15	53	56	0	0	43	0.99
379604--379665	33	1.9	32	87	9	90	30	14	14	40	1.86
379715--379743	13	2.2	13	100	0	58	41	17	13	27	1.87
379699--379763	33	2.0	33	87	6	96	36	15	18	29	1.91
384244--384297	26	2.1	26	86	6	74	37	14	12	35	1.85
398916--398982	1	67.0	1	77	0	62	88	8	2	0	0.62
398916--398983	22	2.8	24	86	13	104	86	8	4	0	0.69
398926--398982	13	4.2	13	84	4	69	87	8	3	0	0.64
398917--398982	34	2.0	34	85	8	91	87	9	3	0	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399955--400325	61	6.3	60	86	7	487	25	25	21	26	1.99
399955--400325	121	3.2	117	83	9	497	25	25	21	26	1.99
400367--400602	61	3.9	61	85	3	318	25	27	20	26	1.99
400128--400539	215	1.9	217	85	8	579	24	27	20	27	1.99
400073--400601	276	1.9	276	87	3	789	25	26	20	27	1.99
401487--401538	19	2.6	21	84	6	72	40	13	13	32	1.83
401570--401595	13	2.0	13	100	0	52	30	15	15	38	1.88
403936--404122	51	3.6	51	79	7	207	30	26	10	32	1.90
404133--404280	80	1.9	79	88	7	228	27	25	15	31	1.96
404129--404297	79	2.1	79	85	5	234	27	26	16	30	1.97
404240--404399	51	3.1	51	88	0	230	31	22	12	33	1.91
404390--404463	28	2.6	28	81	6	78	24	29	20	25	1.99
403950--404635	288	2.4	288	80	4	686	28	24	12	33	1.93
413601--413668	24	2.8	24	78	13	75	58	4	0	36	1.18
413626--413686	21	2.7	23	77	7	63	57	3	0	39	1.15
420826--420851	13	2.0	13	100	0	52	30	15	15	38	1.88
420806--420869	32	2.0	33	90	9	105	29	15	15	39	1.89
423269--423306	13	2.9	13	96	0	67	31	15	18	34	1.92
428331--428355	13	1.9	13	100	0	50	32	16	16	36	1.90
428311--428374	32	2.0	33	90	9	105	29	17	15	37	1.91
437667--437700	15	2.3	15	94	0	59	26	14	0	58	1.36
446630--446656	2	13.5	2	100	0	54	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)
447028--447073	11	3.8	12	81	16	51	58	0	39	2	1.10
447148--447172	6	4.2	6	100	0	50	84	0	16	0	0.63
449620--449667	16	3.0	16	75	19	55	50	0	0	50	1.00
449990--450117	11	10.8	12	68	10	66	60	3	2	34	1.25
449973--450139	83	2.0	84	96	1	309	56	5	2	35	1.35
450108--450184	39	2.0	39	82	10	95	57	5	1	36	1.30
450348--450395	22	2.2	20	76	16	51	31	22	18	27	1.97
452345--452405	27	2.2	28	94	2	106	36	16	18	29	1.92
454109--454245	68	2.0	68	92	0	229	40	10	16	32	1.83
461825--461876	26	2.0	26	85	11	70	57	0	0	42	0.98
461840--461882	22	2.0	21	86	13	61	55	0	0	44	0.99
461877--461935	17	3.3	18	70	27	54	42	0	0	57	0.98
461871--461935	19	3.6	18	76	15	55	44	0	0	55	0.99
462221--462250	10	3.0	10	100	0	60	40	10	20	30	1.85
462953--462985	14	2.3	15	89	5	50	0	24	0	75	0.80
467946--467971	13	2.0	13	100	0	52	38	15	15	30	1.88
470186--470230	21	2.1	21	84	8	56	53	4	20	22	1.63
473995--474072	20	3.6	21	74	15	70	26	14	15	43	1.85
474061--474098	13	2.9	13	96	0	67	34	18	15	31	1.92
476650--476675	13	2.0	13	100	0	52	38	15	15	30	1.88
480850--481000	41	3.7	41	84	0	185	41	22	12	23	1.88
482481--482512	11	2.8	12	90	9	57	0	18	0	81	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482535--482571	18	2.0	20	84	10	51	8	16	8	67	1.40
483485--484198	28	26.0	27	69	12	262	23	16	27	32	1.96
483636--483956	54	5.9	54	76	9	208	23	16	28	31	1.96
483610--484166	82	6.8	82	76	5	432	22	16	28	32	1.96
483496--484088	302	2.0	303	83	4	766	23	16	27	32	1.96
484129--484248	56	2.2	54	80	8	136	19	15	29	36	1.92
484175--484249	28	2.6	28	77	6	71	20	17	26	36	1.94
485253--485324	20	3.5	21	78	16	80	37	13	16	31	1.88
489314--489668	178	2.0	177	93	0	611	38	13	19	28	1.89
490174--490217	21	2.0	21	82	4	52	31	13	11	43	1.80

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25