genome.fa.s8.2.7.7.80.10.50.1000.9.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: chr8
Parameters: 2 7 7 80 10 50 1000
Length:  19593398

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   

This is table  9  of  50  ( 5896 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)
5083473--5083516	22	2.0	22	86	0	61	34	4	9	52	1.54
5088437--5088547	29	3.9	29	80	2	127	42	10	27	18	1.84
5088449--5088563	58	2.0	58	82	0	140	42	12	26	18	1.85
5088441--5088559	29	4.1	29	81	1	123	42	10	27	18	1.84
5093952--5093986	2	17.5	2	100	0	70	48	0	0	51	1.00
5094056--5094092	2	18.5	2	100	0	74	48	0	0	51	1.00
5093951--5094150	102	2.0	103	97	2	377	40	9	6	44	1.61
5095248--5095338	42	2.0	47	83	12	120	19	5	3	71	1.20
5095440--5095514	29	2.6	29	81	8	73	25	2	2	69	1.15
5095853--5095887	3	11.7	3	87	0	52	28	2	0	68	1.04
5095792--5095889	12	7.7	12	67	28	51	25	3	3	68	1.19
5096162--5096194	16	2.0	17	88	5	50	27	9	0	63	1.24
5103630--5103734	2	52.0	2	82	5	122	43	0	5	48	1.33
5103750--5103774	3	8.3	3	100	0	50	68	0	32	0	0.90
5111787--5111946	80	2.0	80	98	0	311	36	13	11	38	1.81
5114076--5114100	3	8.3	3	100	0	50	32	0	0	68	0.90
5132050--5132087	18	2.1	18	85	9	51	36	0	2	60	1.11
5135341--5135389	16	3.1	16	94	2	82	51	0	0	48	1.00
5135614--5135646	17	1.9	17	88	11	50	12	9	0	78	0.95
5135610--5135650	12	3.2	13	83	13	50	14	9	0	75	1.04
5137125--5137155	16	1.9	16	100	0	62	45	0	0	54	0.99
5137170--5137198	14	2.0	15	93	6	51	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)
5137301--5137397	27	3.3	28	72	19	90	52	3	0	44	1.16
5141154--5141191	19	2.0	19	94	0	67	42	28	0	28	1.56
5141908--5142348	26	16.8	26	70	11	204	34	13	9	42	1.77
5141928--5142127	79	2.6	78	79	7	199	34	10	8	47	1.67
5141908--5142326	130	3.2	129	79	7	393	34	13	9	42	1.77
5141908--5142359	27	17.2	26	70	14	159	34	13	9	42	1.77
5141912--5142359	53	8.5	52	73	10	198	34	13	9	42	1.77
5145074--5145112	21	1.9	20	84	5	51	48	5	0	46	1.24
5145938--5146009	30	2.4	31	77	13	78	43	4	0	52	1.20
5146168--5146313	75	1.9	76	90	1	231	44	10	6	37	1.66
5146291--5146340	21	2.3	22	89	3	75	64	4	4	28	1.30
5146216--5146415	97	2.1	97	92	1	330	49	8	5	36	1.57
5151015--5151041	10	2.7	10	100	0	54	44	0	0	55	0.99
5151164--5151198	14	2.5	14	90	9	54	0	25	0	74	0.82
5151436--5151472	16	2.2	17	90	4	58	35	2	0	62	1.10
5154451--5154501	13	3.4	15	80	15	61	49	0	3	47	1.20
5154450--5154501	16	3.4	15	80	19	54	48	0	3	48	1.20
5154577--5154651	24	3.1	24	76	14	82	38	13	14	33	1.85
5154581--5154659	24	3.2	24	77	13	81	43	11	13	31	1.80
5154634--5154699	31	2.2	30	83	2	78	42	9	7	40	1.65
5166528--5166570	21	2.0	21	90	0	68	32	20	16	30	1.95
5178055--5178091	2	18.5	2	100	0	74	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)
5193000--5193029	3	10.0	3	100	0	60	33	0	0	66	0.92
5194061--5194141	43	1.9	42	84	2	108	24	9	25	39	1.86
5194114--5194198	45	1.9	44	80	7	100	32	9	21	36	1.85
5194237--5194418	30	5.9	30	75	13	113	58	2	15	23	1.49
5196605--5196657	16	2.8	19	71	28	51	41	0	7	50	1.30
5197690--5197773	35	2.4	35	78	4	89	30	15	28	25	1.96
5202417--5202441	7	3.6	7	100	0	50	12	24	0	64	1.27
5208714--5208773	24	2.6	23	79	12	68	75	8	1	15	1.12
5208714--5208767	23	2.3	23	80	3	63	75	7	1	14	1.09
5223216--5223254	18	2.1	18	85	4	51	5	20	0	74	1.01
5223679--5223754	30	2.5	30	75	10	82	38	0	2	59	1.12
5223778--5223834	30	1.9	30	89	3	89	54	1	0	43	1.10
5223815--5223934	26	4.9	24	81	10	136	50	0	0	50	1.00
5223837--5223927	15	6.4	15	70	17	61	49	0	0	50	1.00
5223817--5223934	47	2.4	51	81	12	147	50	0	0	50	1.00
5224121--5224164	10	4.2	10	85	8	61	18	2	0	79	0.83
5224121--5224164	21	2.1	21	95	0	79	18	2	0	79	0.83
5224118--5224164	15	3.0	15	76	17	51	19	2	0	78	0.85
5238148--5238280	45	2.9	45	92	3	203	32	29	10	27	1.90
5246412--5246460	6	7.7	6	82	8	53	22	0	0	77	0.77
5246412--5246460	13	3.8	13	75	8	55	22	0	0	77	0.77
5246416--5246483	15	3.7	19	72	22	65	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5246407--5246481	33	2.3	33	88	9	125	29	0	0	70	0.87
5247668--5247697	16	1.9	15	93	6	51	36	0	0	63	0.95
5254075--5254155	24	3.4	24	83	5	76	24	13	13	48	1.79
5254096--5254158	23	2.7	24	87	2	83	23	11	12	52	1.71
5256569--5256604	8	4.5	8	100	0	72	36	0	0	63	0.94
5256553--5256604	24	2.2	25	82	10	72	38	0	1	59	1.08
5256569--5256615	24	2.0	24	83	8	60	40	2	0	57	1.11
5259905--5259935	2	15.5	2	100	0	62	51	0	0	48	1.00
5262178--5262219	21	2.0	21	90	0	66	21	21	14	42	1.88
5264055--5264177	8	14.8	9	77	20	103	44	0	0	52	1.12
5264086--5264177	2	46.5	2	91	6	152	46	0	0	52	1.00
5272203--5272243	21	2.0	21	90	9	66	46	0	0	53	1.00
5282400--5282425	2	13.0	2	100	0	52	50	0	0	50	1.00
5287678--5287716	16	2.4	16	86	0	60	0	20	0	79	0.73
5288125--5288182	26	2.2	25	85	11	73	36	3	15	44	1.63
5288326--5288397	20	3.8	20	71	17	80	55	2	1	40	1.23
5289150--5289194	24	1.9	23	86	4	63	17	6	4	71	1.25
5298398--5298433	2	18.0	2	94	0	63	0	47	0	52	1.00
5310383--5310494	2	55.5	2	89	1	170	47	0	2	48	1.22
5314982--5315032	3	17.0	3	95	0	93	31	0	1	66	1.03
5319014--5319046	7	4.7	7	96	0	57	30	27	3	39	1.72
5325096--5325135	18	2.2	19	86	4	55	45	0	7	47	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5330943--5330976	10	3.4	10	87	0	50	20	0	0	79	0.73
5331583--5331644	32	2.0	29	82	14	72	62	0	32	4	1.16
5347229--5347299	19	3.8	19	74	20	78	29	26	16	26	1.97
5347235--5347308	36	2.1	36	97	0	139	31	22	17	28	1.97
5364835--5364872	14	2.8	14	84	4	51	81	10	2	5	0.94
5372704--5372745	19	2.2	20	87	8	61	23	0	0	76	0.79
5373335--5373388	2	27.0	2	96	0	99	48	0	1	50	1.11
5375210--5375246	12	3.2	12	85	7	51	37	0	0	62	0.96
5379082--5379148	28	2.4	30	80	12	79	59	0	4	35	1.18
5396266--5396328	2	31.5	2	96	0	117	49	0	1	49	1.10
5399436--5399481	23	2.0	23	100	0	92	21	21	30	26	1.99
5439169--5439207	13	2.9	13	82	17	53	76	0	2	20	0.90
5439169--5439214	14	3.4	14	81	6	58	73	0	2	23	0.94
5454431--5454470	13	2.8	15	85	14	66	47	25	0	27	1.52
5457149--5457191	15	2.9	15	96	0	77	53	0	41	4	1.21
5457178--5457225	18	2.7	18	90	0	69	41	0	50	8	1.33
5457178--5457225	6	8.0	6	97	0	60	41	0	50	8	1.33
5458887--5458913	4	6.8	4	100	0	54	22	0	0	77	0.76
5463101--5463321	81	2.7	81	79	0	253	42	6	7	42	1.60
5468378--5468416	16	2.4	17	87	12	55	53	0	0	46	1.00
5478183--5478211	8	3.6	8	100	0	58	0	0	34	65	0.93
5479045--5479089	23	2.0	23	90	0	72	13	26	4	55	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5479444--5479716	24	11.9	24	65	19	93	22	20	21	35	1.96
5479451--5479802	45	7.8	45	76	9	227	22	20	22	34	1.97
5479559--5479763	69	3.0	69	92	0	329	21	21	23	33	1.97
5479593--5479763	24	7.4	24	71	16	128	21	21	24	33	1.97
5479438--5479802	114	3.2	112	74	10	353	22	20	22	34	1.96
5481258--5481291	16	2.2	15	94	5	59	47	0	0	52	1.00
5481460--5481495	2	18.5	2	88	5	56	50	0	0	50	1.00
5485329--5485382	26	2.1	26	89	0	81	46	7	22	24	1.77
5488506--5488574	35	1.9	37	85	5	97	66	0	4	28	1.10
5488513--5488635	51	2.3	52	82	14	139	68	0	3	28	1.05

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