genome.fa.s64.2.7.7.80.10.50.1000.26.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   

This is table  26  of  45  ( 5312 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)
4650740--4650834	48	2.0	48	87	0	136	23	12	20	44	1.85
4653107--4653133	2	13.5	2	100	0	54	51	48	0	0	1.00
4662476--4662634	52	3.1	52	92	0	248	40	8	10	40	1.71
4663683--4663722	1	40.0	1	89	0	62	95	2	2	0	0.34
4665057--4665086	15	1.9	16	93	6	53	60	3	3	33	1.30
4667318--4667372	2	29.5	2	75	14	55	49	1	3	45	1.30
4667318--4667372	17	3.5	17	80	14	73	49	1	3	45	1.30
4667329--4667372	13	3.5	13	81	6	56	50	2	2	45	1.27
4668886--4668982	51	1.9	51	85	8	135	29	2	14	53	1.52
4669629--4669666	13	3.0	13	80	3	51	50	0	0	50	1.00
4671758--4671791	8	4.4	8	88	3	52	26	26	38	8	1.85
4671842--4671873	2	16.0	2	100	0	64	50	0	0	50	1.00
4674786--4674821	14	2.6	14	86	0	54	47	0	0	52	1.00
4674973--4675016	22	1.9	23	90	9	72	40	0	4	54	1.21
4675019--4675052	16	2.1	16	88	0	50	55	0	0	44	0.99
4675401--4675457	24	2.4	24	85	2	71	36	1	1	59	1.18
4675452--4675506	22	2.5	22	100	0	110	61	0	0	38	0.96
4676031--4676059	14	2.0	15	93	6	51	65	0	0	34	0.93
4677256--4677288	2	16.0	2	93	6	57	0	3	48	48	1.17
4680420--4680458	19	2.1	19	90	0	60	48	0	0	51	1.00
4680413--4680501	41	2.1	43	78	21	100	47	3	0	49	1.18
4682603--4682683	25	3.2	26	80	14	73	53	1	3	41	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4682609--4682685	12	6.2	12	71	15	59	53	1	2	42	1.23
4682986--4683031	23	2.0	23	84	12	60	39	8	2	50	1.46
4683026--4683074	26	1.9	25	83	4	62	36	2	2	59	1.21
4683631--4683688	27	2.1	28	90	6	91	53	0	0	46	1.00
4684111--4684168	14	4.0	14	76	14	55	41	0	1	56	1.09
4684111--4684170	30	2.0	29	84	9	77	41	0	1	56	1.09
4684288--4684346	17	3.7	16	79	4	57	57	0	3	38	1.15
4684396--4684472	38	2.0	38	85	9	104	64	2	0	32	1.07
4684489--4684552	15	4.2	15	76	6	58	48	0	0	51	1.00
4684633--4684665	4	8.0	4	93	6	57	75	0	0	24	0.80
4694389--4694437	15	3.2	15	79	2	62	28	0	18	53	1.45
4695028--4695069	15	2.8	15	85	0	57	26	2	16	54	1.54
4696172--4696224	22	2.3	23	81	9	65	50	0	0	49	1.00
4696171--4696224	14	3.6	15	76	18	51	51	0	0	48	1.00
4697104--4697141	7	5.6	7	93	3	60	44	0	7	47	1.32
4697139--4697183	22	2.1	21	83	4	54	24	0	15	60	1.36
4697722--4697750	13	2.1	14	93	6	51	0	13	3	82	0.79
4697806--4697844	5	7.8	5	91	0	51	2	10	2	84	0.81
4704258--4704287	9	3.3	9	90	0	51	0	20	0	80	0.72
4704439--4704480	2	21.0	2	95	0	75	52	0	47	0	1.00
4708490--4708524	15	2.3	15	90	9	54	45	0	0	54	0.99
4708501--4708558	30	2.0	29	83	6	73	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4709882--4709907	2	13.0	2	100	0	52	50	0	0	50	1.00
4714727--4714760	2	17.0	2	100	0	68	50	0	0	50	1.00
4715387--4715441	23	2.3	24	81	3	58	65	0	0	34	0.93
4715724--4715790	8	8.1	8	70	23	50	40	1	0	58	1.07
4715724--4715795	19	4.2	19	73	22	70	40	1	0	58	1.07
4715734--4715781	24	2.0	24	84	4	62	39	2	0	58	1.10
4715719--4715831	39	3.1	38	70	14	94	42	0	0	56	1.05
4716280--4716324	16	2.7	17	79	6	56	44	4	8	42	1.56
4722269--4722316	17	2.9	16	76	11	53	58	0	2	39	1.10
4722686--4722751	18	3.5	18	66	11	51	43	0	0	56	0.99
4722667--4722729	17	3.6	16	73	14	54	38	1	0	60	1.07
4722668--4722754	39	2.3	36	82	13	104	41	2	0	56	1.12
4722703--4722749	22	2.2	21	84	3	58	40	0	0	59	0.97
4723296--4723340	17	2.6	18	76	16	51	40	0	2	57	1.11
4723327--4723378	25	2.0	24	85	14	68	28	0	1	69	0.99
4724314--4724340	3	9.0	3	100	0	54	66	0	0	33	0.92
4725224--4725283	29	2.1	29	84	6	77	43	0	0	56	0.99
4725198--4725272	14	5.4	13	69	19	53	45	0	0	54	0.99
4725195--4725273	15	5.6	14	70	8	61	45	0	0	54	0.99
4725568--4725613	20	2.2	21	88	3	67	32	4	2	60	1.28
4726034--4726103	30	2.5	28	80	13	81	41	1	0	57	1.08
4726079--4726110	14	2.2	15	94	5	57	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4726151--4726192	20	2.1	20	86	8	59	40	0	0	59	0.97
4727659--4727826	38	4.4	38	74	8	126	32	25	9	32	1.88
4733288--4733351	30	2.1	30	86	11	87	42	0	0	57	0.98
4733361--4733390	13	2.3	13	94	0	51	53	0	0	46	1.00
4737042--4737089	2	24.0	2	91	0	78	45	0	0	54	0.99
4737041--4737089	14	3.5	14	94	0	89	44	0	0	55	0.99
4738989--4739574	195	3.0	195	96	0	1073	36	13	17	32	1.90
4740393--4740429	2	19.0	2	88	5	58	51	2	0	45	1.15
4740532--4740609	34	2.6	29	78	20	95	53	8	12	24	1.67
4740549--4740617	34	2.0	34	100	0	138	55	8	11	24	1.64
4740754--4740801	19	2.5	20	77	19	57	10	2	10	77	1.09
4741964--4742288	167	1.9	167	98	0	632	25	20	12	41	1.88
4745077--4745108	2	16.0	2	100	0	64	50	0	0	50	1.00
4748581--4748637	25	2.2	27	87	9	84	49	0	0	50	1.00
4748704--4748755	5	11.2	5	76	15	58	63	0	0	36	0.95
4748700--4748749	18	2.8	18	81	3	66	66	0	0	34	0.92
4748701--4748761	23	2.7	23	75	12	72	63	0	0	36	0.94
4748748--4748799	25	2.0	28	85	11	74	50	0	1	48	1.12
4749482--4749520	10	3.8	10	90	6	60	38	2	0	58	1.12
4749830--4749890	23	2.5	25	82	12	74	49	0	1	49	1.10
4749839--4749920	42	2.0	42	81	11	98	48	0	1	50	1.08
4750601--4750628	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4750871--4750948	26	3.0	24	80	14	77	48	3	0	47	1.20
4751346--4751392	24	2.0	23	87	4	67	38	0	0	61	0.96
4751918--4751945	2	14.0	2	100	0	56	0	50	0	50	1.00
4755542--4755629	43	2.0	43	91	0	140	31	14	10	43	1.79
4760492--4760538	16	2.9	16	80	0	58	61	0	0	38	0.96
4760707--4760792	37	2.4	36	77	14	88	52	0	1	46	1.08
4762156--4762199	19	2.5	16	77	22	52	61	4	0	34	1.16
4763588--4763630	16	2.6	16	77	3	50	34	0	0	65	0.93
4763716--4763783	25	2.8	25	74	14	79	55	0	1	42	1.08
4763910--4763940	15	2.1	14	94	5	53	61	0	0	38	0.96
4764430--4764467	15	2.5	15	87	8	51	55	0	0	44	0.99
4765769--4765839	32	2.2	32	80	9	83	43	1	1	53	1.18
4765790--4765831	19	2.2	20	87	8	61	42	0	2	54	1.13
4765917--4765943	5	5.4	5	100	0	54	77	0	0	22	0.76
4766519--4766593	19	3.9	19	81	10	75	40	1	0	58	1.06
4766834--4766872	15	2.4	16	79	12	53	64	0	0	35	0.94
4766841--4766872	15	2.2	14	94	5	55	62	0	0	37	0.95
4766785--4766863	36	2.2	34	80	8	86	55	1	0	43	1.07
4766785--4766865	35	2.3	33	78	14	81	54	1	0	44	1.08
4767122--4767169	22	2.1	24	88	7	73	60	0	0	39	0.97
4767133--4767181	22	2.1	23	81	11	55	61	2	0	36	1.08
4774096--4774124	14	2.0	15	93	6	51	89	0	10	0	0.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4777794--4777831	13	2.7	15	80	16	53	52	0	2	44	1.14
4778420--4778659	109	2.2	111	91	3	394	40	4	3	51	1.39
4780347--4780377	3	10.3	3	100	0	62	32	0	0	67	0.91
4782397--4782462	21	3.3	21	78	19	63	56	0	0	43	0.99
4782387--4782446	21	2.8	21	83	16	63	60	0	0	40	0.97
4782384--4782445	26	2.2	27	83	13	72	59	0	0	40	0.97
4785821--4785854	14	2.6	13	90	9	52	70	0	2	26	1.01
4785872--4785900	14	2.0	15	93	6	51	55	0	0	44	0.99
4786881--4786953	17	4.4	17	81	11	80	34	0	0	65	0.93
4787719--4787746	14	2.0	14	100	0	56	35	0	0	64	0.94

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