genome.fa.s350.2.7.7.80.10.50.1000.3.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: Scaffold350
Parameters: 2 7 7 80 10 50 1000
Length:  1036165

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 841 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)
244481--244521	20	2.0	20	85	0	55	43	12	7	36	1.70
245298--245364	33	2.0	33	88	0	98	34	11	13	40	1.81
245318--245342	13	1.9	13	100	0	50	36	16	16	32	1.90
245406--245430	13	1.9	13	100	0	50	32	16	16	36	1.90
245439--245568	52	2.5	52	91	3	201	33	19	16	31	1.94
249779--249803	11	2.3	11	100	0	50	72	0	28	0	0.86
262349--262398	7	7.3	7	84	4	66	22	0	28	50	1.49
263266--263302	14	2.7	14	88	12	51	21	21	8	48	1.76
264320--264348	15	1.9	15	100	0	58	41	6	17	34	1.76
264382--264635	131	1.9	131	87	1	366	32	15	24	27	1.95
267018--267087	30	2.3	30	100	0	140	30	18	20	31	1.96
267048--267159	50	2.2	50	90	0	170	37	16	17	27	1.92
267631--267710	34	2.4	34	82	0	97	41	15	23	20	1.89
267698--267800	42	2.5	41	81	10	104	47	11	22	18	1.80
267824--268405	61	9.6	60	79	4	463	29	17	26	26	1.98
267818--268406	120	4.9	120	81	3	653	29	17	26	26	1.98
267816--268406	241	2.4	240	86	2	763	28	17	26	27	1.98
268428--268655	43	5.4	42	78	4	235	41	13	21	23	1.88
268425--268564	41	3.3	41	70	4	109	42	14	17	25	1.87
268428--268655	84	2.7	84	85	2	305	41	13	21	23	1.88
268638--269486	61	13.9	60	78	9	697	28	18	26	26	1.98
268638--269486	126	6.9	122	82	7	832	28	18	26	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
268942--269043	53	1.9	53	88	4	152	23	22	24	29	1.99
269002--269491	63	7.8	62	80	5	461	30	18	26	24	1.98
269493--269809	61	5.2	60	83	8	352	34	19	23	22	1.96
269320--269657	166	2.0	170	84	4	443	36	18	22	22	1.95
269525--269809	125	2.3	122	84	4	367	35	19	23	22	1.96
277925--277956	16	2.0	16	93	0	55	25	6	28	40	1.79
283634--283891	76	3.3	75	80	10	263	37	12	21	28	1.90
283663--283893	79	3.0	78	83	10	296	38	11	21	28	1.88
286489--286542	20	2.6	21	94	2	92	29	18	12	38	1.88
289859--289929	28	2.5	28	84	4	90	25	30	16	26	1.97
290035--290092	27	2.0	28	87	12	82	31	25	12	31	1.92
289965--290100	68	2.0	68	81	8	161	27	25	14	32	1.95
302205--302272	1	68.0	1	74	0	55	86	7	2	2	0.75
302209--302271	29	2.1	29	85	2	81	85	7	3	3	0.80
302206--302272	15	4.8	13	78	21	64	86	7	2	2	0.76
302205--302272	30	2.3	30	84	5	84	86	7	2	2	0.75
302205--302287	12	7.0	11	71	18	51	84	6	7	2	0.85
302205--302284	13	6.2	13	74	8	65	85	6	6	2	0.83
302205--302272	19	3.9	18	76	16	72	86	7	2	2	0.75
302805--302838	17	2.0	17	100	0	68	82	0	5	11	0.83
302845--302901	21	2.7	21	97	0	105	33	10	19	36	1.86
302957--303024	19	3.9	19	78	21	85	35	11	14	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302978--303002	13	1.9	13	100	0	50	36	16	16	32	1.90
302959--303021	32	2.0	32	96	0	117	34	12	15	36	1.86
303064--303089	13	2.0	13	100	0	52	30	15	15	38	1.88
303044--303110	33	2.0	33	88	0	98	25	14	16	43	1.86
305566--305638	27	2.7	27	87	6	94	23	34	21	20	1.97
305621--305791	51	3.3	51	77	4	180	29	25	12	32	1.92
305774--305855	28	2.9	28	82	7	96	24	31	17	26	1.97
318230--318286	28	2.0	29	82	3	71	82	7	10	0	0.84
319254--319766	55	9.3	55	90	5	788	28	30	20	20	1.98
320359--320390	16	2.0	16	100	0	64	81	0	6	12	0.87
320403--320459	21	2.7	21	97	0	105	33	10	19	36	1.86
320515--320582	19	3.9	19	78	21	85	35	11	14	38	1.83
320536--320560	13	1.9	13	100	0	50	36	16	16	32	1.90
320517--320579	32	2.0	32	96	0	117	34	12	15	36	1.86
320622--320647	13	2.0	13	100	0	52	30	15	15	38	1.88
320602--320668	33	2.0	33	88	0	98	25	14	16	43	1.86
323127--323199	27	2.7	27	87	6	94	23	34	21	20	1.97
323182--323352	51	3.3	51	79	4	198	29	26	11	32	1.92
323335--323416	28	2.9	28	82	7	96	24	31	17	26	1.97
325001--325203	93	2.1	94	85	8	277	22	30	17	29	1.96
325138--326055	61	15.1	60	87	3	1237	25	27	19	28	1.98
325138--326055	121	7.5	120	87	3	1241	25	27	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
326727--326839	20	5.6	20	81	10	131	29	13	16	40	1.87
329117--329524	79	5.3	78	77	8	359	28	24	13	33	1.93
332638--332689	22	2.4	21	83	3	59	34	3	7	53	1.48
333726--333797	21	3.5	21	81	11	69	34	11	20	33	1.88
333835--333969	55	2.6	53	83	8	179	28	15	14	40	1.87
334085--334112	7	4.0	7	100	0	56	42	14	0	42	1.45
337322--337389	20	3.4	20	76	15	68	41	11	11	35	1.78
337352--337682	168	2.0	165	82	2	394	30	16	12	39	1.87
338223--338279	20	2.8	20	86	2	69	36	14	14	35	1.86
338265--338293	13	2.2	13	100	0	58	31	17	13	37	1.89
338281--338331	20	2.5	21	87	3	68	39	13	17	29	1.88
338384--338409	13	2.0	13	100	0	52	30	15	15	38	1.88
343605--343630	13	2.0	13	100	0	52	30	15	15	38	1.88
343689--343744	20	2.8	20	86	5	69	32	16	14	37	1.88
346172--346210	13	3.0	13	96	0	69	35	15	17	30	1.91
346196--346274	20	3.7	20	78	15	77	44	15	15	25	1.85
350124--350168	21	2.1	21	84	8	56	22	20	4	53	1.63
352382--352407	13	2.0	13	100	0	52	30	15	15	38	1.88
352446--352521	21	3.7	21	82	3	109	28	18	11	40	1.86
352466--352539	20	3.7	20	81	3	103	31	20	13	35	1.91
352446--352539	41	2.3	41	100	0	188	29	19	12	38	1.89
354710--354761	21	2.4	21	87	6	68	25	50	21	3	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356679--356735	20	2.8	20	86	2	69	36	14	14	35	1.86
356682--356744	20	3.3	18	75	16	56	31	12	15	39	1.85
357536--357588	20	2.7	20	84	0	70	32	11	15	41	1.82
357659--357683	13	1.9	13	100	0	50	32	16	16	36	1.90
357639--357706	33	2.1	33	88	2	102	35	14	14	35	1.87
363863--363924	20	3.5	20	71	28	75	29	22	14	33	1.94
363880--363950	13	4.9	13	73	21	61	30	18	15	35	1.92
363863--363938	33	2.3	33	97	0	143	30	21	14	34	1.93
366426--366493	33	2.1	32	88	2	100	36	16	14	32	1.89
369757--369795	20	2.1	18	85	9	51	17	5	10	66	1.39
371055--371112	23	2.5	23	88	0	80	58	5	1	34	1.30
371231--371295	23	3.0	22	80	10	71	63	1	0	35	1.04
371229--371315	34	2.7	32	77	13	88	60	2	0	36	1.09
371743--371883	21	6.8	19	69	23	65	46	2	0	51	1.12
371755--371818	25	2.6	25	78	7	76	46	3	0	50	1.17
371750--371860	19	5.3	20	73	15	82	49	2	0	47	1.15
371797--371880	39	2.1	42	84	10	113	46	2	0	51	1.14
372289--372331	14	3.0	14	86	3	59	34	0	2	62	1.08
372575--372628	20	2.7	20	79	0	72	31	16	14	37	1.89
372731--372768	17	2.2	17	100	0	76	42	5	15	36	1.70
386632--386679	18	2.7	18	87	6	71	85	12	0	2	0.69
387925--388457	28	18.1	28	79	11	478	29	31	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387925--388453	89	6.0	86	80	9	518	29	31	17	22	1.96
388552--388686	49	2.8	49	93	0	216	20	27	19	33	1.96
389063--389120	20	2.9	20	82	10	82	32	15	13	37	1.87
390593--390618	13	2.0	13	100	0	52	30	15	15	38	1.88
390708--390733	13	2.0	13	100	0	52	30	15	15	38	1.88
390690--390753	33	1.9	33	90	6	103	34	15	18	31	1.93
393257--393412	78	2.0	78	100	0	312	30	23	17	28	1.97
398046--398265	50	4.4	50	92	1	361	29	20	20	29	1.98
402691--402910	50	4.4	50	90	1	341	31	20	19	29	1.96
411786--412833	524	2.0	524	91	1	1715	26	20	24	28	1.99

Tables:   1   2   3   4   5   6   7   8