genome.fa.s6.2.7.7.80.10.50.1000.21.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  21  of  109  ( 13028 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)
7147821--7147885	5	13.0	5	100	0	130	60	0	0	40	0.97
7147965--7148033	36	1.9	36	82	11	88	43	5	4	46	1.47
7152118--7152143	7	3.7	7	100	0	52	11	0	0	88	0.52
7155124--7155247	43	2.9	43	92	0	203	24	17	29	28	1.97
7157678--7157750	36	2.0	36	94	0	128	31	10	21	35	1.88
7159143--7159186	21	2.1	21	100	0	88	38	9	13	38	1.77
7159142--7159197	21	2.8	19	87	10	85	37	8	16	37	1.80
7159155--7159220	23	3.0	23	82	12	77	37	6	16	39	1.74
7159186--7159230	23	2.0	23	86	4	65	33	4	15	46	1.66
7168055--7168128	36	2.1	36	100	0	148	37	8	10	43	1.69
7171788--7171831	3	14.7	3	85	0	61	6	0	25	68	1.14
7171785--7171833	6	8.7	6	82	13	50	10	0	22	67	1.20
7176780--7176817	18	2.1	19	85	5	51	47	15	13	23	1.81
7181542--7181855	156	2.0	157	99	0	621	36	7	14	41	1.73
7182530--7182562	9	3.8	9	84	8	50	84	0	0	15	0.61
7182532--7182562	8	3.8	8	91	8	53	87	0	0	12	0.55
7182533--7182567	17	2.1	17	94	0	61	80	0	0	20	0.72
7182560--7182666	30	3.6	30	72	7	83	31	23	6	38	1.80
7183190--7183275	4	21.5	4	76	17	81	79	0	20	0	0.74
7183184--7183270	11	8.1	11	74	18	67	77	0	22	0	0.78
7183190--7183271	24	3.3	25	88	8	114	79	0	20	0	0.74
7183190--7183282	10	9.2	10	72	13	75	79	0	19	1	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7183588--7183627	19	2.2	19	90	4	64	80	0	20	0	0.72
7183590--7183630	14	3.0	14	79	17	50	73	0	26	0	0.84
7184159--7184263	16	6.2	16	77	10	102	28	11	11	48	1.74
7184158--7184265	18	6.4	17	75	12	96	29	11	11	48	1.73
7197298--7197322	2	12.5	2	100	0	50	0	48	0	52	1.00
7201351--7201376	2	13.0	2	100	0	52	50	0	0	50	1.00
7201495--7201692	41	4.8	40	80	5	227	33	25	25	15	1.95
7201495--7201692	82	2.4	82	94	0	342	33	25	25	15	1.95
7205215--7205262	22	2.1	23	81	11	55	62	10	6	20	1.49
7211492--7211563	36	2.0	36	97	0	135	37	16	19	26	1.93
7213252--7213294	21	2.0	21	82	8	52	34	25	27	11	1.91
7218646--7218711	31	2.1	31	85	0	87	19	15	19	45	1.85
7223891--7223930	20	2.0	20	85	0	53	32	12	2	52	1.52
7226858--7226923	31	2.1	31	91	0	105	21	10	19	48	1.79
7230434--7230473	20	2.0	20	85	0	53	32	12	2	52	1.52
7231206--7231277	31	2.3	31	80	0	90	20	13	18	47	1.82
7240749--7240794	22	2.0	22	84	12	58	63	2	2	32	1.19
7269524--7269573	19	2.5	22	81	18	65	62	26	0	12	1.30
7269629--7269666	19	2.1	18	85	14	51	65	10	0	23	1.23
7269647--7269699	22	2.3	22	74	6	52	54	15	3	26	1.57
7273848--7273903	15	3.6	16	76	11	53	64	0	16	19	1.29
7281273--7281314	21	2.0	23	86	13	63	26	19	19	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7282736--7282776	19	2.2	19	91	4	66	51	12	9	26	1.70
7284160--7284198	20	2.0	20	89	0	60	30	7	5	56	1.49
7284298--7284393	31	3.2	31	73	16	87	28	11	5	55	1.57
7287567--7287645	6	12.7	6	75	17	72	18	2	3	74	1.08
7287567--7287645	20	4.2	19	74	20	69	18	2	3	74	1.08
7294147--7294197	22	2.3	23	89	3	77	31	15	19	33	1.93
7299490--7299573	44	1.9	44	90	0	132	35	22	16	25	1.95
7299845--7300327	50	9.7	50	70	4	292	32	25	19	22	1.97
7299836--7300352	100	5.2	101	86	3	686	32	24	21	21	1.98
7301748--7301789	16	2.6	16	82	10	50	16	2	2	78	0.96
7301742--7301789	23	2.1	23	84	7	62	16	4	2	77	1.03
7301925--7302003	32	2.5	31	81	10	79	31	8	2	56	1.43
7302222--7302269	10	4.9	10	78	14	55	31	8	2	58	1.39
7302210--7302282	29	2.6	28	82	8	94	30	9	1	58	1.38
7303319--7303369	26	2.0	25	85	14	70	60	3	17	17	1.50
7307405--7307534	10	13.5	10	70	8	56	60	3	3	33	1.31
7307639--7307667	14	2.0	15	93	6	51	72	6	0	20	1.07
7316721--7316770	21	2.4	21	86	3	66	42	12	10	36	1.76
7318254--7318298	16	2.9	16	83	6	58	64	0	0	35	0.94
7327403--7327446	20	2.2	20	88	8	63	27	2	4	65	1.23
7327477--7327539	21	2.7	23	76	11	67	19	11	4	65	1.42
7339130--7339172	21	2.0	21	86	8	61	27	4	16	51	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7339880--7339920	21	2.0	21	85	0	55	31	12	19	36	1.89
7339887--7339929	21	2.0	21	82	8	52	30	13	23	32	1.93
7346218--7346246	15	1.9	15	100	0	58	62	6	6	24	1.45
7347208--7347253	23	2.0	24	95	4	85	30	19	0	50	1.48
7353274--7353474	62	3.2	60	73	17	167	50	3	4	41	1.39
7353370--7353473	37	2.8	35	75	15	93	52	1	3	41	1.30
7353402--7353477	11	6.8	11	72	26	54	55	1	2	40	1.22
7353383--7353455	39	1.9	37	86	10	103	52	1	5	41	1.33
7359089--7359223	51	2.6	51	82	2	155	24	16	26	32	1.96
7359173--7359452	140	2.0	140	92	2	465	27	12	25	34	1.92
7361654--7361688	18	1.9	19	88	11	56	11	25	5	57	1.56
7363852--7364266	148	2.8	148	100	0	830	38	9	12	40	1.76
7364529--7364575	23	2.0	23	87	0	67	2	10	25	61	1.39
7366777--7366821	13	3.5	13	78	3	56	42	6	20	31	1.77
7371419--7372230	406	2.0	406	97	0	1525	33	15	19	31	1.93
7381744--7381806	20	3.2	20	69	13	67	12	7	46	33	1.71
7384989--7385031	22	2.0	21	82	13	52	39	6	2	51	1.42
7388582--7388672	25	3.8	25	82	4	107	47	25	15	12	1.80
7388564--7388682	25	5.1	22	71	19	89	46	23	15	14	1.83
7390822--7390858	3	12.3	3	100	0	74	67	0	0	32	0.91
7391629--7391668	20	2.0	20	95	0	71	30	30	17	22	1.97
7398340--7398388	26	1.9	25	83	4	62	26	0	22	51	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7398812--7398982	28	6.2	27	79	5	155	33	18	19	27	1.96
7398812--7398972	56	2.9	56	79	7	177	32	19	20	27	1.97
7398819--7398975	82	1.9	82	88	2	235	33	18	20	28	1.96
7409787--7409829	20	2.2	20	91	0	68	18	16	18	46	1.84
7410739--7411015	27	10.3	27	80	6	287	20	16	18	43	1.88
7410739--7411015	81	3.4	80	86	4	355	20	16	18	43	1.88
7419008--7419289	43	6.7	43	75	6	254	22	18	25	33	1.97
7419008--7419330	85	3.8	85	86	2	391	21	18	26	33	1.97
7419008--7419322	43	7.5	41	75	9	240	21	17	26	33	1.96
7419008--7419330	170	1.9	169	84	3	434	21	18	26	33	1.97
7425404--7425451	24	2.0	24	84	8	62	52	2	2	43	1.24
7425478--7425518	19	2.2	19	86	8	57	65	7	19	7	1.41
7426270--7426353	21	4.0	21	82	4	98	16	21	25	36	1.94
7429135--7429240	55	1.9	55	94	0	185	71	4	16	6	1.25
7429166--7429211	23	2.0	23	83	4	58	76	4	15	4	1.11
7429460--7429487	9	3.1	9	100	0	56	57	0	0	42	0.99
7431718--7432031	43	7.4	42	82	5	267	31	26	16	25	1.97
7431718--7432020	85	3.6	84	83	5	333	31	26	16	26	1.96
7431718--7432031	128	2.4	129	82	3	384	31	26	16	25	1.97
7440434--7444068	114	31.9	114	99	0	7168	24	26	24	24	2.00
7447445--7447767	51	6.4	49	73	9	195	30	26	13	30	1.94
7447477--7447771	102	2.9	102	90	0	430	29	25	15	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7447478--7447767	153	1.9	151	83	4	377	30	25	14	29	1.95
7448240--7448298	30	1.9	31	89	3	93	28	20	6	44	1.77
7452693--7452986	50	5.7	50	88	2	390	25	23	29	21	1.99
7455375--7455447	37	1.9	37	84	13	96	31	21	2	43	1.67
7455522--7455615	45	2.1	45	89	0	143	30	24	19	25	1.98
7457624--7457714	20	4.6	20	76	4	85	51	13	18	16	1.76
7457696--7457769	37	1.9	40	86	8	109	52	6	16	24	1.67
7458151--7458285	21	6.7	20	72	16	91	54	9	16	19	1.68
7465833--7465878	24	2.0	23	86	4	65	52	17	0	30	1.45
7466450--7466511	2	30.5	2	86	3	88	46	1	1	50	1.20

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   98   99   100   101   102   103   104   105   106   107   108   109