genome.fa.s1.2.7.7.80.10.50.1000.12.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: Chr13
Parameters: 2 7 7 80 10 50 1000
Length:  46006518

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   

This is table  12  of  141  ( 16825 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)
3884797--3885202	44	9.3	45	72	14	210	26	22	21	29	1.99
3884874--3885158	84	3.3	84	74	10	281	28	23	20	27	1.99
3884839--3885202	173	2.1	174	84	5	495	27	23	20	28	1.99
3886504--3886595	19	4.8	19	87	0	130	36	17	8	36	1.81
3886504--3886595	38	2.4	38	92	0	148	36	17	8	36	1.81
3889559--3889624	26	2.5	26	85	0	87	31	27	15	25	1.95
3894429--3894495	20	3.2	20	71	22	64	25	23	10	40	1.86
3898071--3898118	17	2.9	16	81	9	60	47	27	10	14	1.76
3903109--3903231	58	2.1	59	96	3	232	44	3	6	45	1.45
3903949--3904105	56	2.8	55	87	3	215	43	15	7	33	1.73
3904309--3904369	1	61.0	1	76	0	59	0	11	0	88	0.51
3904309--3904369	6	10.7	6	84	8	67	0	11	0	88	0.51
3904309--3904369	22	2.8	22	82	9	72	0	11	0	88	0.51
3904309--3904369	14	4.4	14	83	6	79	0	11	0	88	0.51
3907522--3907571	26	1.9	26	100	0	100	20	12	22	46	1.83
3910023--3910063	20	2.0	20	85	4	55	51	4	9	34	1.56
3922896--3922946	20	2.5	20	80	3	57	64	1	0	33	1.05
3923371--3923433	32	2.0	31	84	3	81	55	9	14	20	1.67
3924493--3924523	16	1.9	16	93	0	53	48	0	0	51	1.00
3924610--3924635	13	2.0	13	100	0	52	46	15	0	38	1.46
3934339--3934373	17	2.0	18	88	5	54	31	0	2	65	1.07
3939673--3939722	13	3.8	13	84	10	66	46	2	10	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3939674--3939731	26	2.2	26	81	6	64	50	1	10	37	1.47
3939970--3940028	13	4.5	13	85	8	75	47	1	10	40	1.47
3939970--3940039	26	2.8	27	79	12	78	47	1	10	41	1.46
3939474--3940096	297	2.1	297	99	0	1219	47	2	8	40	1.49
3940417--3940452	16	2.2	16	95	0	63	52	8	11	27	1.65
3940497--3940531	10	3.5	10	96	0	61	57	0	0	42	0.99
3942765--3942843	7	11.3	7	84	4	88	41	53	0	5	1.23
3943225--3943375	81	1.9	81	83	5	198	45	23	2	28	1.66
3943889--3944299	114	3.6	111	75	8	303	27	24	16	30	1.96
3943777--3944335	113	4.9	113	76	6	461	26	24	18	30	1.98
3943889--3944314	229	1.9	228	79	6	495	27	24	17	30	1.97
3961424--3961465	20	2.1	20	82	8	50	57	14	11	16	1.66
3974170--3974196	1	27.0	1	100	0	54	0	0	0	100	0.00
3975552--3975584	13	2.4	14	90	5	50	33	6	24	36	1.80
3975519--3975588	7	10.1	7	81	3	61	25	10	31	32	1.89
3976054--3976089	17	2.1	18	89	5	56	61	0	2	36	1.11
3977205--3977249	10	4.3	10	83	16	56	62	0	0	37	0.96
3977206--3977286	20	3.8	20	75	16	74	59	2	2	35	1.24
3979299--3979356	26	2.2	26	90	0	89	44	13	15	25	1.83
3983091--3983167	31	2.3	34	80	12	81	37	5	5	51	1.46
3983169--3983193	12	2.1	12	100	0	50	52	0	0	48	1.00
3985487--3985531	23	1.9	24	86	13	67	20	22	2	55	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3985854--3985913	30	2.1	28	84	6	75	1	28	5	65	1.23
3985890--3985938	22	2.2	21	80	16	55	2	16	8	73	1.16
3986023--3986096	5	15.2	5	76	10	55	58	4	0	37	1.17
3986044--3986078	17	2.1	17	88	0	52	54	0	0	45	0.99
3991787--3991856	28	2.5	28	90	0	104	31	14	22	31	1.94
3995723--3995803	28	2.9	28	96	0	144	59	9	8	22	1.56
3995870--3995929	17	3.5	17	80	8	68	36	0	16	46	1.47
3995873--3995956	34	2.3	36	88	8	118	34	0	16	48	1.47
3995873--3995929	9	6.8	8	80	7	60	33	0	17	49	1.47
3995873--3995958	17	4.8	17	73	16	66	34	0	16	48	1.46
3995925--3996195	53	5.6	53	68	19	230	34	1	17	46	1.56
3995905--3996195	33	9.4	30	66	19	109	34	1	17	46	1.55
3995978--3996142	41	3.7	41	70	17	132	33	0	18	47	1.53
3995914--3996199	94	3.0	94	100	0	572	33	1	18	46	1.56
3998547--3998645	47	2.1	48	86	1	137	43	1	10	45	1.44
3998651--3998717	20	3.0	21	80	18	73	32	4	0	62	1.15
3998675--3998715	9	4.7	9	90	6	66	34	7	0	58	1.26
3998669--3998720	9	6.5	8	81	12	54	36	5	0	57	1.23
3998650--3998720	17	4.6	16	80	15	69	32	4	0	63	1.14
3998709--3998763	21	2.7	20	71	23	51	41	9	0	49	1.34
3998960--3999188	96	2.5	97	83	6	278	44	25	1	28	1.62
3999268--3999300	14	2.3	15	94	5	59	36	33	0	30	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4001093--4001532	114	3.9	114	91	1	675	27	25	22	24	2.00
4001093--4001532	229	1.9	228	89	1	675	27	25	22	24	2.00
4001451--4001624	73	2.4	73	90	0	258	28	24	22	24	2.00
4001222--4001833	302	2.0	301	91	0	983	27	24	23	24	2.00
4001339--4001719	187	2.0	188	92	0	629	27	24	23	24	2.00
4001524--4002053	114	4.6	114	92	2	830	27	24	23	25	2.00
4001108--4001948	416	2.0	416	88	1	1240	27	24	22	25	2.00
4001524--4002053	229	2.3	227	90	2	839	27	24	23	25	2.00
4003667--4003819	73	2.1	73	95	0	270	26	24	25	23	2.00
4003667--4003840	73	2.4	73	91	1	251	27	26	23	22	1.99
4003740--4004035	115	2.6	115	90	1	425	27	25	22	24	2.00
4004585--4004628	23	1.9	23	86	9	63	20	18	2	59	1.49
4010679--4010744	18	3.6	17	73	26	55	66	0	1	31	1.01
4021863--4022168	158	1.9	158	100	0	612	44	15	12	28	1.82
4022661--4022770	54	2.0	54	100	0	220	35	7	16	40	1.76
4033239--4033276	18	2.1	18	90	9	60	26	10	2	60	1.43
4039262--4039296	5	7.0	5	100	0	70	80	0	0	20	0.72
4055282--4055325	24	1.9	22	86	9	61	18	11	11	59	1.61
4056781--4056856	31	2.5	31	95	0	134	28	18	10	42	1.83
4057484--4057512	2	14.5	2	100	0	58	48	0	0	51	1.00
4059261--4059319	3	19.7	3	100	0	118	66	0	33	0	0.92
4073254--4073310	17	3.3	17	77	17	64	63	0	1	35	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4073254--4073310	8	6.6	8	75	20	53	63	0	1	35	1.05
4073401--4073461	29	2.1	28	85	8	79	65	4	0	29	1.13
4073586--4073629	20	2.2	21	84	8	56	25	4	6	63	1.38
4073593--4073637	21	2.2	20	88	4	63	20	4	6	68	1.29
4073573--4073665	47	1.9	49	85	8	129	27	5	3	63	1.32
4073627--4073678	15	3.3	15	75	15	50	28	5	1	63	1.28
4073576--4073689	17	6.9	16	66	22	58	27	5	3	64	1.32
4081347--4081391	23	2.0	23	86	0	63	48	4	8	37	1.55
4082389--4082431	19	2.3	19	84	8	52	16	30	48	4	1.66
4082922--4083397	50	9.5	50	66	7	266	21	20	24	32	1.97
4082939--4083413	100	4.8	100	83	0	610	21	21	24	32	1.98
4082939--4083410	200	2.4	200	89	0	737	21	21	24	32	1.98
4084639--4084670	14	2.2	14	94	5	55	15	12	0	71	1.14
4085607--4085646	12	3.3	12	96	0	71	10	0	15	75	1.05
4085606--4085646	18	2.2	19	91	4	66	9	0	14	75	1.04
4085607--4085652	12	3.8	12	94	0	65	13	0	13	73	1.09
4085613--4085652	18	2.2	18	90	0	62	15	0	12	72	1.12
4092816--4092899	38	2.2	39	84	2	107	33	9	13	44	1.76
4092882--4092961	38	2.0	40	90	4	128	31	8	15	45	1.76
4095540--4095601	26	2.4	26	80	0	79	24	22	30	22	1.99
4095833--4095857	11	2.3	11	100	0	50	60	0	12	28	1.32
4100015--4100052	17	2.2	17	95	0	67	26	21	10	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4103496--4103527	9	3.6	9	100	0	64	31	0	21	46	1.52
4103469--4103527	18	3.3	18	76	7	66	33	0	18	47	1.49
4103469--4103527	27	2.2	27	81	6	66	33	0	18	47	1.49
4104242--4104335	25	3.8	25	83	5	109	31	26	18	23	1.97
4106209--4106348	50	2.8	51	88	5	212	24	15	29	30	1.96
4124277--4125101	44	17.6	44	67	18	339	32	18	20	28	1.96
4124306--4125101	142	5.6	142	94	0	1288	32	18	20	28	1.96
4124350--4125095	98	7.8	97	66	20	272	32	18	20	28	1.96
4125242--4125618	50	7.5	50	74	1	333	33	22	21	22	1.97
4125121--4125620	100	5.1	99	81	6	531	31	24	21	22	1.98

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