genome.fa.s13.2.7.7.80.10.50.1000.8.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: Chr11
Parameters: 2 7 7 80 10 50 1000
Length:  47972186

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   

This is table  8  of  145  ( 17310 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)
3497775--3497823	22	2.1	24	82	14	59	55	2	8	34	1.41
3498907--3498946	21	2.0	21	90	5	64	77	0	12	10	0.99
3499692--3499750	31	1.9	31	85	0	82	35	10	8	45	1.68
3503245--3503312	25	2.8	24	70	12	59	54	1	7	36	1.37
3503373--3503412	21	1.9	21	89	0	62	65	5	7	22	1.38
3503461--3503496	12	3.0	12	91	0	63	55	0	11	33	1.35
3518858--3518908	4	12.8	4	95	0	93	49	25	0	25	1.51
3527412--3527447	17	2.2	16	90	5	54	52	5	8	33	1.55
3532003--3532046	14	3.1	14	81	15	54	72	2	0	25	0.96
3537632--3537680	26	1.9	25	84	12	64	16	18	4	61	1.50
3537568--3537736	84	2.0	85	88	4	252	24	18	3	53	1.60
3539074--3539299	42	5.3	42	84	1	281	29	29	17	23	1.97
3539107--3539299	85	2.3	85	87	3	264	30	29	18	22	1.97
3548852--3548980	9	14.6	9	66	11	61	34	1	16	47	1.56
3548852--3548980	36	3.1	42	79	17	162	34	1	16	47	1.56
3552408--3553670	631	2.0	631	100	0	2526	41	15	14	28	1.86
3557518--3557868	178	2.0	173	94	2	612	25	19	16	38	1.92
3566368--3566425	28	2.1	28	96	0	107	29	17	12	41	1.85
3568459--3568488	13	2.3	13	94	0	51	53	26	13	6	1.64
3569041--3569076	19	1.9	18	88	5	54	63	2	13	19	1.41
3569378--3569421	11	4.1	11	85	2	54	61	13	13	11	1.57
3569376--3569417	22	1.9	22	90	0	66	59	14	16	9	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3572861--3572889	12	2.5	12	94	5	51	37	6	0	55	1.27
3581431--3581470	20	2.0	20	85	9	55	55	10	2	32	1.47
3582959--3583016	29	2.1	26	84	9	71	43	18	13	24	1.87
3588448--3588485	18	2.2	18	85	4	51	36	10	23	28	1.88
3588568--3588604	18	2.1	18	94	0	65	29	10	13	45	1.77
3589958--3590001	13	3.4	13	78	12	54	31	6	20	40	1.79
3589948--3590019	26	2.8	26	75	10	76	37	6	15	40	1.74
3593684--3593723	3	13.3	3	100	0	80	67	0	0	32	0.91
3594886--3594914	10	2.9	10	100	0	58	0	41	6	51	1.28
3597012--3597040	7	4.1	7	100	0	58	17	13	27	41	1.87
3605639--3605673	2	17.5	2	100	0	70	51	0	0	48	1.00
3605694--3605786	45	2.0	46	97	2	179	38	18	15	27	1.90
3613765--3614034	131	2.1	132	97	0	515	42	8	10	39	1.69
3613826--3614034	65	3.1	68	64	23	181	43	7	9	40	1.65
3617611--3617638	2	14.0	2	100	0	56	50	0	0	50	1.00
3617931--3617987	27	2.4	24	83	16	66	40	15	8	35	1.79
3625441--3625516	25	3.0	25	84	7	109	30	19	17	32	1.95
3627413--3627446	15	2.3	15	89	0	50	44	11	11	32	1.77
3627686--3627732	15	2.9	16	84	12	60	40	19	14	25	1.90
3634188--3634244	24	2.4	24	78	0	69	61	7	1	29	1.32
3634183--3634258	35	2.1	37	85	7	102	61	6	2	28	1.34
3636422--3636486	28	2.3	29	86	2	87	49	4	9	36	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3638073--3638126	28	1.9	28	85	7	74	5	25	1	66	1.23
3645459--3645494	17	2.1	18	94	5	65	55	0	13	30	1.39
3653479--3653518	20	2.0	20	95	0	71	32	15	22	30	1.94
3657184--3657219	17	2.1	18	94	5	65	55	0	13	30	1.39
3657945--3657976	16	2.0	16	93	0	55	12	56	28	3	1.51
3673209--3673274	30	2.2	31	88	2	98	46	9	1	42	1.44
3674660--3674708	17	2.9	17	81	0	62	63	2	2	32	1.17
3674668--3674708	19	2.2	19	86	0	55	60	0	2	36	1.10
3674725--3674768	3	14.7	3	81	9	54	65	4	0	29	1.12
3674725--3674771	18	2.6	19	86	6	62	65	4	0	29	1.11
3675184--3675213	14	2.2	14	94	5	53	86	0	6	6	0.70
3676304--3676421	44	2.6	45	82	7	168	25	26	17	30	1.97
3676561--3676783	100	2.3	98	84	1	266	23	26	23	26	2.00
3676600--3676786	98	1.9	100	88	2	288	24	24	24	27	2.00
3684645--3684684	20	2.0	20	95	0	71	30	12	25	32	1.92
3688410--3688453	3	14.7	3	81	9	54	65	4	0	29	1.12
3688410--3688456	18	2.6	19	86	6	62	65	4	0	29	1.11
3688873--3688897	13	1.9	13	100	0	50	88	0	0	12	0.53
3690196--3690407	30	7.1	30	100	0	424	19	6	36	36	1.78
3692808--3692858	22	2.3	23	83	9	63	52	1	5	39	1.37
3697035--3697091	29	2.0	29	92	0	96	52	14	7	26	1.66
3700361--3700411	6	8.7	6	97	2	95	52	0	47	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3716264--3716292	2	14.5	2	100	0	58	51	0	48	0	1.00
3723122--3723155	17	2.0	17	88	11	52	55	8	0	35	1.31
3723393--3723501	37	2.9	36	75	14	85	72	4	6	16	1.22
3724018--3724316	89	3.4	89	90	0	445	29	19	15	35	1.92
3724018--3724318	44	6.8	44	81	1	341	29	19	14	35	1.92
3726480--3726716	44	5.4	44	99	0	465	32	17	21	28	1.96
3727409--3727506	45	2.2	45	84	0	124	29	18	18	33	1.95
3729831--3729875	24	2.0	22	86	8	63	4	17	17	60	1.53
3741047--3741077	16	1.9	16	100	0	62	19	19	6	54	1.65
3742234--3742283	25	1.9	27	88	8	77	62	0	4	34	1.14
3742234--3742283	26	1.9	26	88	8	75	62	0	4	34	1.14
3742955--3743014	29	2.1	28	90	6	95	48	5	8	38	1.55
3743442--3743494	23	2.4	21	82	14	63	13	16	0	69	1.18
3743968--3744072	1	105.0	1	67	0	57	0	10	4	83	0.83
3743968--3744072	9	11.6	9	78	14	83	0	10	4	83	0.83
3743978--3744072	13	7.1	13	77	10	75	1	10	4	84	0.81
3744011--3744072	5	13.4	5	82	14	80	0	14	0	85	0.60
3743968--3744063	28	3.5	26	81	16	97	1	10	5	83	0.85
3744006--3744072	23	2.9	23	88	0	98	0	13	1	85	0.68
3743998--3744072	28	2.7	28	89	6	109	0	13	2	84	0.74
3749698--3749944	44	5.7	44	69	17	135	30	19	18	31	1.96
3749796--3749985	85	2.2	85	85	2	240	30	18	20	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3750064--3750654	50	11.8	50	67	4	233	27	23	19	29	1.98
3750044--3750651	100	6.1	100	88	0	838	27	22	19	30	1.98
3750849--3751191	88	3.9	88	86	1	463	27	25	18	27	1.98
3754209--3754251	22	1.9	23	86	13	63	60	2	6	30	1.35
3754389--3754425	11	3.2	12	81	11	51	24	5	2	67	1.25
3756063--3756147	44	1.9	44	83	4	109	27	23	27	22	1.99
3756639--3756678	20	2.0	20	90	0	62	32	0	5	62	1.17
3756683--3756729	19	2.5	19	82	0	58	38	0	6	55	1.26
3768785--3768864	37	2.1	38	82	11	94	35	8	2	53	1.45
3769810--3769863	21	2.5	20	82	11	63	59	3	5	31	1.38
3790117--3790214	27	3.7	26	83	6	115	64	0	1	34	1.01
3790823--3790861	11	3.5	11	83	10	53	23	30	2	43	1.67
3793206--3793279	21	3.6	21	90	3	123	43	32	0	24	1.55
3793256--3793315	15	4.2	15	74	20	65	45	25	1	28	1.63
3793229--3793303	21	3.0	26	72	22	70	40	30	1	28	1.65
3793206--3793286	41	2.0	40	85	9	110	41	30	1	25	1.63
3793369--3793591	104	2.2	103	84	5	299	44	9	7	38	1.65
3796538--3796854	125	2.5	125	91	0	517	28	21	17	32	1.96
3797457--3797570	55	2.1	55	98	1	221	31	13	10	44	1.77
3799467--3799531	3	21.3	3	73	14	53	30	1	6	61	1.29
3799480--3799530	14	3.5	14	84	13	59	31	1	3	62	1.24
3806690--3806880	95	2.0	95	100	0	382	35	14	9	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3809771--3810010	41	5.9	41	82	4	270	18	25	21	34	1.96
3809772--3810010	123	1.9	123	86	1	336	17	25	21	34	1.96
3815779--3815811	13	2.4	14	90	5	50	18	0	12	69	1.18
3816250--3816298	21	2.3	21	89	0	71	36	18	42	2	1.62
3816402--3816439	19	2.0	19	100	0	76	31	10	0	57	1.32
3816616--3816842	43	5.3	43	84	2	276	26	16	29	26	1.97
3816633--3816842	86	2.4	86	88	1	305	27	17	30	24	1.97
3819896--3819931	2	18.0	2	94	0	63	52	0	0	47	1.00
3830658--3830833	88	2.0	88	95	0	316	39	20	19	20	1.92
3833270--3833299	13	2.3	13	94	0	51	0	3	6	90	0.56

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145