genome.fa.s25.2.7.7.80.10.50.1000.36.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: Scaffold25
Parameters: 2 7 7 80 10 50 1000
Length:  9553305

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  36  of  56  ( 6609 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)
6202382--6202479	34	2.9	33	80	10	117	39	11	28	20	1.87
6202312--6202503	95	2.1	92	85	3	249	35	12	30	21	1.90
6202491--6202735	30	7.8	31	85	9	320	31	13	30	24	1.94
6202491--6202735	65	3.9	63	83	10	315	31	13	30	24	1.94
6211051--6211113	33	1.9	33	87	6	92	42	15	12	28	1.84
6211908--6211934	13	2.1	13	100	0	54	22	25	29	22	1.99
6215919--6215964	3	15.3	3	100	0	92	67	0	0	32	0.91
6221424--6221472	25	1.9	26	87	4	73	44	2	10	42	1.49
6230452--6230520	35	2.0	34	83	11	86	39	2	1	56	1.23
6234701--6234725	2	12.5	2	100	0	50	52	0	0	48	1.00
6237714--6237739	11	2.4	11	100	0	52	46	26	15	11	1.80
6242676--6243346	167	4.0	166	77	9	514	51	6	9	31	1.61
6248146--6248188	2	21.5	2	100	0	86	48	0	0	51	1.00
6254294--6254346	24	2.2	25	83	10	65	3	22	0	73	0.99
6256744--6256788	23	1.9	24	86	4	65	42	0	0	57	0.98
6257684--6257717	6	5.7	6	92	0	50	0	55	0	44	0.99
6257682--6257715	9	3.8	9	88	0	50	0	52	0	47	1.00
6262704--6262735	2	16.0	2	100	0	64	50	50	0	0	1.00
6270223--6270255	5	6.6	5	96	0	57	15	0	3	81	0.80
6270802--6270844	19	2.3	19	80	8	52	30	0	2	67	1.03
6271765--6271893	68	1.9	67	91	1	213	39	17	5	37	1.72
6272612--6272647	18	2.0	18	94	0	63	52	0	2	44	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6275046--6275273	116	2.0	116	84	6	302	32	14	4	48	1.65
6275272--6275310	19	2.0	21	85	10	55	41	2	0	56	1.13
6275868--6275897	2	15.5	2	93	6	53	46	0	0	53	1.00
6276904--6276999	32	3.0	34	71	18	80	56	0	1	42	1.06
6278530--6278577	17	2.8	17	84	9	53	60	2	0	37	1.09
6278760--6278789	2	15.0	2	100	0	60	50	0	0	50	1.00
6279002--6279087	32	2.7	32	73	8	86	43	0	2	54	1.13
6279002--6279059	16	3.7	16	76	2	55	41	0	0	58	0.98
6279017--6279057	21	1.9	22	85	5	57	46	0	0	53	1.00
6279405--6279445	16	2.6	16	100	0	82	41	7	12	39	1.70
6279444--6279497	16	3.3	16	89	7	74	55	0	1	42	1.10
6287286--6287340	28	2.0	28	96	0	101	30	16	9	43	1.79
6293822--6293899	27	2.8	29	79	9	74	43	0	2	53	1.14
6296974--6297055	11	7.1	12	76	14	57	64	2	1	31	1.14
6297036--6297087	14	3.4	14	73	19	50	53	1	0	44	1.11
6297036--6297089	18	3.4	15	76	18	56	53	1	0	44	1.11
6298401--6298435	17	1.9	19	88	11	56	37	14	5	42	1.69
6299609--6299716	28	3.9	27	73	21	82	54	0	0	44	1.06
6299525--6299739	38	5.6	37	69	21	115	52	0	1	45	1.15
6300121--6300165	17	2.5	18	78	10	56	66	4	0	28	1.11
6300568--6300618	21	2.3	21	80	10	57	49	1	0	49	1.12
6300568--6300625	22	2.6	23	78	10	66	48	1	0	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6302034--6302081	20	2.5	19	83	12	62	64	0	2	33	1.05
6302020--6302083	33	1.9	34	84	9	87	67	0	1	31	1.00
6302051--6302083	15	2.4	14	90	10	50	66	0	3	30	1.06
6302117--6302170	26	2.0	26	82	3	63	42	1	0	55	1.10
6310370--6310394	4	6.2	4	100	0	50	24	0	0	76	0.80
6311196--6311249	22	2.5	21	82	11	65	57	1	0	40	1.09
6315277--6315301	13	1.9	13	100	0	50	36	16	16	32	1.90
6315257--6315322	32	2.0	33	94	2	116	34	12	16	36	1.86
6315363--6315387	13	1.9	13	100	0	50	32	16	16	36	1.90
6322634--6322689	11	4.9	11	82	8	76	87	10	1	0	0.62
6322635--6322689	24	2.3	23	87	6	83	89	9	1	0	0.57
6322634--6322700	35	1.9	35	90	0	107	83	10	5	0	0.80
6322635--6322689	1	55.0	1	77	0	56	89	9	1	0	0.57
6323629--6323808	31	5.9	31	74	6	161	26	27	17	28	1.97
6323631--6323809	61	2.9	60	83	8	227	26	26	17	29	1.97
6323787--6323831	23	2.0	23	90	0	72	28	31	22	17	1.97
6323809--6323905	31	3.1	31	88	5	124	19	32	14	32	1.92
6323809--6324039	35	6.7	35	83	8	215	20	32	13	33	1.92
6324036--6324234	33	6.1	33	86	4	255	29	33	18	18	1.95
6324239--6324534	52	5.9	52	80	9	337	22	26	18	32	1.97
6328049--6328074	11	2.4	11	100	0	52	53	7	7	30	1.57
6331597--6331636	20	1.9	21	85	10	55	7	12	35	45	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6331973--6332012	15	2.5	17	80	11	50	72	5	0	22	1.04
6331946--6331977	3	10.7	3	100	0	64	68	0	0	31	0.90
6335246--6335275	10	3.0	10	95	0	51	73	0	6	20	1.05
6338423--6338453	2	15.5	2	100	0	62	48	0	0	51	1.00
6338898--6338926	4	7.2	4	100	0	58	24	0	0	75	0.80
6339994--6340036	2	21.5	2	100	0	86	0	48	0	51	1.00
6340587--6340613	3	9.0	3	100	0	54	33	0	0	66	0.92
6341236--6341265	2	15.0	2	92	0	51	50	3	0	46	1.18
6346609--6346687	39	2.0	39	97	0	149	29	21	20	29	1.98
6348530--6348595	29	2.3	29	83	0	78	42	1	6	50	1.36
6349241--6349290	3	17.0	3	95	4	93	68	0	0	32	0.90
6349851--6349892	20	2.1	21	86	8	61	47	0	0	52	1.00
6351019--6351045	11	2.5	11	100	0	54	18	0	0	81	0.69
6353097--6353156	22	2.9	22	83	16	67	58	0	0	41	0.98
6353128--6353156	7	4.3	7	91	8	51	58	0	0	41	0.98
6353132--6353156	13	1.9	13	100	0	50	56	0	0	44	0.99
6354244--6354281	2	19.0	2	100	0	76	50	0	0	50	1.00
6354318--6354347	2	15.0	2	100	0	60	50	0	0	50	1.00
6354252--6354404	66	2.3	66	98	0	297	28	5	14	52	1.63
6355932--6355962	5	6.2	5	92	0	53	35	0	0	64	0.94
6356865--6356912	18	2.8	18	84	12	57	60	0	2	37	1.09
6357294--6357372	39	2.0	39	82	7	97	29	0	3	67	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6362878--6362912	16	2.2	16	94	0	61	25	5	0	68	1.11
6362878--6362913	15	2.3	16	90	4	56	27	5	0	66	1.13
6363105--6363148	23	2.0	22	90	4	70	40	2	0	56	1.11
6364197--6364516	74	4.4	72	81	3	324	54	11	3	31	1.52
6364193--6364533	145	2.3	145	81	7	422	54	11	2	31	1.51
6364193--6364534	72	4.7	73	80	5	354	54	11	2	31	1.51
6364727--6364761	14	2.5	14	86	13	54	48	0	0	51	1.00
6366598--6366712	39	3.0	40	79	9	125	46	0	3	49	1.25
6366600--6366710	38	2.9	38	71	11	102	45	0	3	50	1.25
6366743--6366882	40	3.6	38	72	11	120	32	5	12	48	1.65
6366722--6366920	79	2.5	79	78	5	188	35	6	11	46	1.65
6366821--6367150	78	4.2	78	73	6	231	36	9	8	45	1.67
6366889--6367068	79	2.3	79	80	4	186	36	8	8	46	1.65
6366821--6367089	39	6.9	39	67	13	142	37	8	8	44	1.67
6367996--6368023	2	14.0	2	100	0	56	50	0	0	50	1.00
6370614--6370673	26	2.3	27	77	11	70	55	0	1	43	1.10
6371060--6371165	36	2.9	35	80	17	126	44	0	0	54	1.06
6371147--6371196	14	3.5	14	79	15	57	38	2	4	56	1.30
6371694--6371736	15	2.6	16	85	10	52	34	0	0	65	0.93
6376715--6376772	20	2.9	20	86	0	71	31	10	10	48	1.71
6377725--6377801	34	2.2	37	81	11	108	44	0	0	55	0.99
6377695--6377837	63	2.4	59	82	11	159	40	0	0	58	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6377794--6377833	17	2.3	18	83	12	57	30	0	2	67	1.04
6377785--6377833	11	4.5	11	82	5	55	32	0	2	65	1.04
6380243--6380299	22	2.7	22	91	5	91	17	12	10	59	1.60
6382035--6382100	17	3.4	18	72	25	55	69	0	30	0	0.88
6382036--6382106	21	3.3	21	83	12	83	71	0	28	0	0.86
6382047--6382111	25	2.6	25	83	11	87	75	0	24	0	0.81
6382047--6382107	4	15.5	4	81	13	65	73	0	26	0	0.83
6382770--6383033	105	2.5	105	81	7	284	34	16	17	31	1.92
6391473--6391502	14	2.1	15	93	6	53	50	0	16	33	1.46
6392129--6392164	13	2.8	13	100	0	72	33	16	13	36	1.89

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56