genome.fa.s29.2.7.7.80.10.50.1000.32.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   

This is table  32  of  34  ( 4030 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)
5083200--5083267	33	2.1	32	88	2	100	36	20	11	30	1.89
5089535--5089575	22	2.0	21	86	13	59	31	21	4	41	1.74
5091799--5091855	20	2.8	20	83	0	69	38	14	15	31	1.87
5091841--5091882	13	3.2	13	100	0	84	30	16	14	38	1.89
5091870--5091922	20	2.6	21	87	3	81	41	13	16	28	1.86
5091974--5091998	13	1.9	13	100	0	50	32	16	16	36	1.90
5091954--5092021	33	2.1	32	88	2	100	36	19	11	32	1.88
5097757--5097885	52	2.5	52	92	0	204	31	14	17	36	1.91
5097757--5097905	52	2.9	51	85	4	199	32	14	18	34	1.91
5097894--5097918	13	1.9	13	100	0	50	36	16	16	32	1.90
5097959--5098025	33	2.0	33	88	0	98	40	14	11	32	1.83
5097981--5098005	13	1.9	13	100	0	50	32	16	16	36	1.90
5103410--5103435	13	2.0	13	100	0	52	30	15	15	38	1.88
5103495--5103567	20	3.6	20	81	3	101	31	17	13	36	1.89
5103474--5103550	21	3.7	21	77	6	86	28	16	11	42	1.84
5103474--5103567	41	2.3	41	94	3	163	29	18	12	39	1.88
5108079--5108109	15	2.1	15	93	0	53	12	22	16	48	1.80
5112171--5112196	13	2.0	13	100	0	52	30	15	15	38	1.88
5112256--5112328	20	3.6	20	81	3	101	31	17	13	36	1.89
5112235--5112311	21	3.7	21	77	6	86	28	16	11	42	1.84
5112235--5112328	41	2.3	41	94	3	163	29	18	12	39	1.88
5115496--5115520	13	1.9	13	100	0	50	32	8	16	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5116328--5116743	81	5.2	81	84	2	489	30	27	11	30	1.91
5119203--5119258	12	4.3	13	72	14	53	33	0	3	62	1.12
5119278--5119319	19	2.2	19	95	0	75	54	2	4	38	1.34
5119366--5119425	28	2.1	28	81	6	68	38	3	6	51	1.45
5119393--5119583	38	5.4	38	73	20	123	38	6	4	50	1.48
5119438--5119535	30	3.2	30	76	9	99	38	9	5	46	1.58
5119399--5119582	99	1.9	98	86	4	262	38	7	4	50	1.49
5119498--5119582	37	2.2	38	91	4	136	37	7	2	52	1.41
5119889--5119959	20	3.7	20	74	14	76	61	2	0	35	1.10
5119892--5119959	29	2.4	28	78	7	73	61	2	0	35	1.11
5119892--5119941	26	1.9	26	88	8	75	60	4	0	36	1.16
5120160--5120220	28	2.1	28	81	6	68	44	0	1	54	1.10
5124003--5124093	10	9.3	10	74	17	84	48	0	0	51	1.00
5124002--5124091	9	10.3	9	73	20	59	47	0	0	52	1.00
5124000--5124091	19	4.7	20	70	20	70	47	0	0	52	1.00
5126560--5126613	27	2.0	28	85	7	76	51	0	0	48	1.00
5126561--5126632	12	5.8	12	75	14	58	56	0	0	43	0.99
5126600--5126636	13	3.0	13	84	7	51	64	0	0	35	0.94
5130104--5130158	21	2.6	21	85	8	67	36	5	14	43	1.69
5130290--5130343	20	2.7	20	88	5	74	35	16	14	33	1.90
5131614--5131640	13	2.1	13	100	0	54	29	14	14	40	1.86
5131625--5131680	20	2.8	20	84	7	71	37	16	12	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5131725--5131755	13	2.4	13	94	0	53	35	16	9	38	1.81
5131709--5131777	33	2.1	33	91	0	111	33	13	15	37	1.86
5131736--5131775	20	2.0	20	95	0	71	37	12	15	35	1.85
5133325--5133358	9	3.8	9	88	11	52	44	0	26	29	1.55
5137861--5137928	27	2.5	27	90	0	118	42	19	14	23	1.88
5140488--5140539	20	2.6	20	100	0	104	34	15	19	30	1.93
5140584--5140682	13	8.5	13	74	24	105	31	14	18	36	1.90
5140568--5140647	33	2.4	33	97	0	151	30	13	17	38	1.88
5140597--5140680	20	3.9	20	76	19	80	32	14	17	35	1.90
5140584--5140682	46	2.2	46	92	3	164	31	14	18	36	1.90
5140718--5140772	20	2.8	20	91	2	94	38	10	10	40	1.76
5141914--5141944	13	2.4	13	94	0	53	35	6	16	41	1.74
5141894--5141960	33	2.0	33	82	5	82	34	13	13	38	1.84
5141989--5142038	20	2.5	20	80	3	57	36	18	16	30	1.92
5142816--5142841	13	2.0	13	100	0	52	38	15	15	30	1.88
5145060--5145104	21	2.1	21	84	8	56	53	4	20	22	1.63
5146908--5146938	15	2.1	15	93	0	53	48	16	22	12	1.80
5149018--5149056	13	3.0	13	100	0	78	30	15	15	38	1.88
5151612--5151637	13	2.0	13	100	0	52	38	15	15	30	1.88
5160680--5160733	21	2.7	20	80	11	65	31	18	12	37	1.89
5160763--5160812	20	2.5	20	90	3	75	34	18	16	32	1.92
5166421--5166460	15	2.6	16	80	8	55	40	5	20	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5166562--5166601	13	3.1	13	85	0	62	32	12	15	40	1.84
5168105--5168130	13	2.0	13	100	0	52	30	15	15	38	1.88
5168169--5168244	21	3.7	21	80	3	100	28	17	11	42	1.84
5168190--5168262	20	3.6	20	81	3	101	31	19	13	35	1.91
5168169--5168262	41	2.3	41	98	0	179	29	18	12	39	1.88
5168814--5168909	48	2.0	48	97	0	183	25	28	8	38	1.84
5170734--5170772	13	3.0	13	96	0	69	35	15	17	30	1.91
5172851--5172881	15	2.1	15	93	0	53	12	22	16	48	1.80
5174685--5174729	21	2.1	21	84	8	56	22	20	4	53	1.63
5176361--5176386	13	2.0	13	100	0	52	30	15	15	38	1.88
5176425--5176500	21	3.7	21	80	3	100	28	17	11	42	1.84
5176446--5176518	20	3.6	20	81	3	101	31	19	13	35	1.91
5176425--5176518	41	2.3	41	98	0	179	29	18	12	39	1.88
5178640--5178664	13	1.9	13	100	0	50	36	16	16	32	1.90
5182150--5182241	32	2.8	33	71	11	80	26	33	14	26	1.94
5191256--5191448	42	4.6	41	69	6	118	18	25	14	40	1.89
5191224--5191454	126	1.8	125	82	4	295	18	26	13	41	1.87
5191375--5191524	42	3.6	42	77	0	147	14	23	18	44	1.85
5191521--5191774	83	3.1	83	73	7	203	13	22	18	45	1.85
5191523--5191731	41	5.1	40	73	9	161	13	21	18	45	1.84
5191533--5191806	124	2.2	126	84	2	356	14	23	18	43	1.87
5191834--5191950	42	2.8	42	76	7	121	15	27	17	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5192512--5192548	13	2.8	14	84	12	51	70	2	0	27	1.01
5192508--5192555	13	3.6	14	74	23	50	68	2	0	29	1.01
5192971--5193045	27	2.7	27	85	8	89	52	12	20	16	1.75
5203017--5203137	51	2.4	53	81	5	133	42	11	18	28	1.85
5203176--5203249	20	3.6	20	85	7	87	33	17	9	39	1.82
5218383--5218437	20	2.8	20	88	0	83	45	14	14	25	1.83
5223338--5223466	52	2.5	52	93	0	222	29	18	16	35	1.93
5223551--5223613	19	3.7	18	72	24	55	34	15	14	34	1.88
5223538--5223636	32	3.1	32	91	1	135	34	16	15	34	1.90
5223570--5223594	13	1.9	13	100	0	50	32	16	16	36	1.90
5227676--5227701	13	2.0	13	100	0	52	38	15	15	30	1.88
5227726--5227783	20	2.8	21	84	5	73	41	13	8	36	1.76
5240314--5240365	19	2.7	20	90	6	88	44	15	11	28	1.81
5242566--5242615	21	2.3	21	80	10	57	56	4	18	22	1.58
5246504--5246541	13	2.9	13	96	0	67	34	18	15	31	1.92
5246662--5246707	21	2.2	20	81	11	58	32	19	4	43	1.71
5249068--5249131	20	3.7	18	74	25	66	43	15	12	28	1.83
5249086--5249111	13	2.0	13	100	0	52	38	15	15	30	1.88
5249068--5249131	32	2.0	33	93	3	112	43	15	12	28	1.83
5252362--5252408	9	5.0	9	85	15	60	85	12	2	0	0.70
5252363--5252419	10	5.6	10	80	16	64	84	10	3	1	0.82
5252364--5252407	18	2.4	18	92	3	70	86	11	2	0	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5253639--5254169	85	6.2	85	86	5	714	29	30	17	22	1.97
5253637--5254169	57	9.3	57	88	3	743	29	31	17	22	1.96
5254710--5254786	20	3.8	20	84	6	111	32	16	11	38	1.85
5254710--5254857	40	3.4	40	73	18	152	31	16	12	39	1.86
5254802--5254857	20	2.8	20	78	10	69	30	12	14	42	1.82
5254749--5254905	71	2.2	71	85	4	210	29	17	12	40	1.86
5257154--5257203	27	1.9	26	92	8	84	24	38	16	22	1.93
5260662--5260733	20	3.7	20	79	3	74	37	15	16	30	1.90
5260681--5260733	19	2.7	19	85	2	70	37	15	18	28	1.91
5260720--5260914	91	2.1	91	99	0	381	26	17	18	37	1.93

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