genome.fa.s9.2.7.7.80.10.50.1000.74.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   

This is table  74  of  97  ( 11551 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)
29502699--29502778	36	2.3	34	80	8	81	33	12	5	48	1.63
29514440--29514505	30	2.1	33	83	8	84	62	1	3	33	1.20
29516869--29516934	24	2.8	24	85	0	87	7	43	6	42	1.57
29565176--29565285	35	3.1	35	76	5	114	26	16	12	44	1.83
29565175--29565311	70	2.0	70	84	5	179	26	16	13	43	1.86
29565200--29565317	35	3.4	35	77	9	116	27	16	12	43	1.85
29567021--29567138	29	4.1	29	81	9	143	46	12	27	12	1.78
29567337--29567446	35	3.1	35	81	6	107	20	14	19	46	1.84
29569447--29569733	102	2.8	102	79	4	330	42	11	19	26	1.84
29571709--29571804	29	3.3	29	77	1	86	43	5	29	21	1.74
29573353--29573413	13	5.0	12	75	16	54	50	1	0	47	1.10
29573432--29573462	12	2.6	12	94	0	53	80	0	0	19	0.71
29576741--29576775	2	17.5	2	100	0	70	51	0	0	48	1.00
29578663--29578716	22	2.4	22	81	6	63	42	1	50	5	1.36
29578678--29578715	16	2.4	16	82	8	51	42	0	55	2	1.14
29585401--29585457	28	2.0	28	82	0	69	33	15	10	40	1.82
29588540--29588653	60	1.9	60	85	0	156	24	9	18	47	1.78
29597442--29597466	12	2.1	12	100	0	50	32	28	8	32	1.86
29601739--29601783	21	2.1	21	83	0	54	48	4	4	42	1.43
29601903--29601999	48	2.0	48	82	9	119	42	2	6	49	1.39
29602526--29602571	23	1.9	24	82	8	58	45	0	8	45	1.34
29602786--29602814	12	2.4	12	100	0	58	44	10	20	24	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29603059--29603104	14	3.4	14	87	6	76	50	13	13	23	1.76
29606577--29606628	21	2.5	21	71	6	52	40	3	1	53	1.30
29608034--29608098	24	2.8	24	88	6	91	75	1	20	3	1.02
29622000--29622074	26	2.9	27	76	9	75	28	6	0	65	1.18
29622021--29622067	12	3.5	13	83	13	60	23	2	0	74	0.93
29622910--29622939	14	2.2	14	94	5	53	10	26	0	63	1.26
29623336--29623374	13	3.2	12	86	13	53	7	2	0	89	0.56
29623336--29623382	22	2.2	22	88	3	69	8	2	4	85	0.81
29623331--29623374	10	4.1	10	80	13	52	11	2	0	86	0.66
29624379--29624512	68	2.0	67	91	1	214	49	7	9	33	1.64
29626835--29626864	2	15.0	2	100	0	60	50	0	0	50	1.00
29627168--29627299	68	1.9	69	92	1	221	36	11	9	43	1.72
29627535--29627597	24	2.6	24	89	0	90	47	12	12	26	1.78
29637364--29637414	25	2.0	25	92	0	84	23	29	13	33	1.93
29638421--29638461	21	2.1	19	86	9	55	26	0	12	60	1.31
29658906--29658958	25	2.2	24	89	3	79	30	11	13	45	1.78
29658830--29659277	123	3.6	123	83	5	483	29	14	13	41	1.85
29659140--29659209	27	2.5	28	79	2	79	28	17	12	41	1.86
29669171--29669249	38	2.2	37	84	13	110	37	0	0	60	0.97
29669260--29669289	8	3.6	8	91	8	51	63	0	0	36	0.95
29669286--29669360	15	5.6	14	72	20	63	42	0	0	57	0.98
29669276--29669356	27	3.1	27	77	13	87	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29669324--29669389	23	3.2	20	70	10	51	39	0	1	59	1.07
29669328--29669382	23	2.4	24	78	9	69	43	0	1	54	1.10
29669407--29669438	14	2.3	14	100	0	64	68	0	0	31	0.90
29669440--29669516	8	8.6	9	75	21	56	45	1	1	51	1.17
29669460--29669506	20	2.3	20	85	7	60	46	2	0	51	1.13
29681052--29681167	59	2.0	58	86	3	153	24	12	17	44	1.83
29689487--29689534	23	2.1	23	84	0	60	22	14	14	47	1.81
29705884--29705954	31	2.3	31	92	0	115	54	14	1	29	1.48
29706277--29706399	30	4.1	31	80	14	114	52	7	8	32	1.59
29710334--29710382	23	2.1	23	96	0	89	30	12	20	36	1.89
29721649--29721681	16	2.1	16	88	5	50	45	3	18	33	1.65
29728737--29729018	146	1.9	146	89	1	440	36	17	16	29	1.92
29730125--29730241	50	2.3	50	92	0	189	51	12	15	20	1.76
29735013--29735053	19	2.1	20	86	13	59	43	4	0	51	1.23
29736920--29736965	21	2.2	21	100	0	92	43	30	4	21	1.72
29739040--29739080	21	2.0	21	85	0	55	58	0	0	41	0.98
29739037--29739074	18	2.1	19	85	5	51	60	0	0	39	0.97
29748352--29748404	28	1.9	27	92	3	88	49	1	1	47	1.23
29767213--29767303	33	2.8	33	84	3	121	35	5	19	39	1.75
29768903--29768969	35	1.9	35	96	0	125	29	19	14	35	1.92
29771556--29771605	14	3.4	14	81	10	64	80	2	0	18	0.82
29771547--29771606	23	2.6	22	85	12	77	80	1	0	18	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29771557--29771582	7	3.7	7	100	0	52	76	0	0	23	0.78
29772593--29773298	120	5.8	120	88	3	979	43	14	10	31	1.79
29773274--29773324	16	3.1	16	78	15	52	68	3	1	25	1.17
29773279--29773330	28	2.0	25	85	11	68	61	3	3	30	1.32
29777167--29777205	2	19.5	2	100	0	78	48	0	0	51	1.00
29789782--29789819	3	12.7	3	100	0	76	34	0	0	65	0.93
29791395--29791661	60	4.4	60	85	2	349	34	20	13	31	1.92
29791395--29791661	59	4.5	59	85	4	347	34	20	13	31	1.92
29792565--29792605	21	1.9	21	85	5	55	14	0	2	82	0.76
29792565--29792607	13	3.3	12	81	12	50	13	0	2	83	0.74
29792565--29792605	22	1.9	22	90	5	66	14	0	2	82	0.76
29804306--29804829	264	2.0	263	98	0	1014	36	19	12	31	1.89
29806837--29806939	32	3.1	33	70	10	93	37	26	13	22	1.91
29809763--29809797	11	3.3	10	88	11	52	85	2	11	0	0.69
29811692--29813043	31	43.9	31	68	13	659	33	18	18	29	1.95
29811693--29813020	62	21.6	61	83	3	1283	33	17	19	29	1.95
29811693--29813024	492	2.7	492	88	1	1904	33	18	18	29	1.95
29813119--29813201	21	3.9	21	78	10	89	30	26	12	31	1.92
29813122--29813216	42	2.2	43	84	3	138	31	26	10	31	1.90
29813207--29813383	80	2.2	80	89	0	264	32	18	13	36	1.89
29813666--29813694	8	3.8	8	95	4	51	79	0	0	20	0.74
29813664--29813707	14	3.2	14	81	15	56	77	0	0	22	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29814708--29814745	20	1.9	20	84	10	51	63	2	7	26	1.35
29822173--29822254	23	3.6	22	75	14	85	39	23	7	30	1.82
29822171--29822314	46	3.2	46	87	4	202	37	22	8	31	1.84
29822171--29822314	22	6.3	21	70	19	85	37	22	8	31	1.84
29822184--29822347	46	3.6	45	80	6	163	35	18	11	34	1.87
29822353--29822544	66	2.9	65	85	1	249	32	19	15	32	1.93
29826607--29826685	32	2.4	32	78	12	81	49	5	2	43	1.38
29826673--29826756	38	2.2	38	87	4	116	50	4	4	40	1.45
29828952--29828990	2	19.5	2	89	10	62	51	2	0	46	1.14
29828952--29829145	106	1.8	105	97	2	361	36	2	12	48	1.55
29829054--29829096	2	22.0	2	95	4	79	48	0	0	51	1.00
29829700--29829735	16	2.3	16	90	4	56	13	5	5	75	1.17
29833746--29833789	14	3.1	14	86	3	61	70	0	9	20	1.14
29833755--29833802	14	3.4	14	85	8	53	66	0	12	20	1.24
29834388--29834435	18	2.5	20	86	6	73	47	2	0	50	1.12
29834390--29834458	10	6.9	10	72	18	54	49	1	0	49	1.09
29834405--29834510	45	2.3	46	81	3	133	48	1	4	45	1.34
29835528--29835569	11	3.7	11	79	17	50	76	0	4	19	0.96
29835551--29835575	12	2.1	12	100	0	50	68	0	8	24	1.16
29835354--29835763	203	2.0	204	83	4	515	47	6	12	32	1.68
29836311--29836344	14	2.3	15	90	5	52	64	0	2	32	1.08
29838180--29838228	17	2.8	18	93	6	91	16	12	16	55	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29839968--29840595	156	4.0	156	92	1	1064	34	13	9	42	1.77
29840714--29840760	3	15.3	3	91	4	76	31	2	0	65	1.04
29840758--29840802	2	22.5	2	90	0	72	46	2	2	48	1.26
29840860--29840910	24	2.2	23	86	10	68	58	1	5	33	1.33
29842810--29842848	20	2.0	20	85	10	53	43	0	12	43	1.42
29842836--29842860	13	1.9	13	100	0	50	44	0	8	48	1.32
29844065--29844105	15	2.7	16	88	7	59	26	2	19	51	1.59
29844061--29844106	15	3.1	15	81	9	58	23	2	17	56	1.52
29848770--29848794	13	1.9	13	100	0	50	44	0	8	48	1.32
29895998--29896026	1	29.0	1	100	0	58	0	0	100	0	0.00

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   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97