genome.fa.s3.2.7.7.80.10.50.1000.165.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:  70076365

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   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   

This is table  165  of  210  ( 25174 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)
55375989--55376064	35	2.2	35	90	4	118	52	2	1	43	1.23
55376733--55376775	12	3.7	11	82	11	50	30	2	11	55	1.48
55377868--55377901	16	2.1	16	94	0	59	50	5	2	41	1.42
55382177--55382243	30	2.2	30	83	0	80	37	5	14	41	1.71
55382186--55382246	30	2.0	30	90	0	95	39	4	11	44	1.62
55382554--55382610	19	2.9	19	80	10	69	28	1	1	68	1.09
55382564--55382629	29	2.2	30	86	2	98	30	3	4	62	1.30
55384270--55384301	16	2.0	16	93	0	55	46	0	18	34	1.49
55384568--55384632	14	4.4	15	67	29	50	63	1	0	35	1.04
55384577--55384631	23	2.4	24	84	6	78	61	1	0	36	1.06
55385808--55385843	16	2.2	16	100	0	72	63	19	0	16	1.30
55389067--55389122	13	4.3	13	79	6	51	44	1	3	50	1.29
55394189--55394473	29	9.8	29	77	5	164	23	28	13	35	1.92
55394277--55394444	87	1.9	87	81	4	205	23	29	12	35	1.91
55394194--55394473	116	2.4	116	87	1	391	22	28	13	35	1.92
55394284--55394495	29	7.3	28	82	5	180	24	27	12	35	1.92
55396681--55396713	15	2.2	15	94	0	57	45	21	30	3	1.67
55401682--55401860	45	4.0	45	100	0	358	37	8	24	29	1.85
55404551--55404663	44	2.6	44	82	2	138	24	12	23	38	1.90
55406804--55406835	16	2.0	16	100	0	64	37	0	18	43	1.51
55412626--55412659	6	5.8	6	96	3	61	0	14	0	85	0.60
55412628--55412671	22	2.0	23	86	4	63	0	15	2	81	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55418906--55418945	12	3.2	12	82	3	53	47	12	0	40	1.41
55419379--55419439	31	2.0	31	90	6	97	60	0	1	37	1.07
55419379--55419430	10	4.9	11	79	11	56	57	0	1	40	1.10
55420006--55420030	13	1.9	13	100	0	50	40	20	8	32	1.81
55421399--55421681	94	3.0	94	99	0	557	28	15	25	30	1.96
55421787--55421838	16	3.2	16	89	5	70	44	3	26	25	1.71
55422071--55422204	18	7.9	18	67	17	81	57	2	0	38	1.19
55427007--55427129	60	2.0	60	100	0	246	45	9	9	34	1.70
55435295--55435331	18	2.1	18	94	0	65	48	18	10	21	1.78
55435586--55435644	17	3.4	17	71	17	57	35	3	3	57	1.32
55435669--55435717	19	2.5	19	76	3	53	44	2	12	40	1.53
55435725--55435798	36	2.0	37	97	2	141	32	10	5	51	1.60
55437171--55437231	3	20.3	3	100	0	122	67	0	32	0	0.91
55438256--55438293	18	2.1	18	90	0	58	39	13	26	21	1.89
55442251--55442291	17	2.3	18	87	4	57	51	14	14	19	1.77
55454218--55454372	33	4.6	33	71	21	133	38	26	17	18	1.92
55454161--55454374	102	2.1	102	94	0	376	34	28	17	19	1.95
55455955--55455997	17	2.4	18	84	7	61	58	9	11	20	1.61
55458604--55458652	21	2.4	20	83	6	62	22	26	8	42	1.81
55458825--55458882	21	2.9	21	89	5	84	44	18	24	12	1.84
55459032--55459110	39	2.0	39	92	0	131	50	20	1	27	1.56
55460755--55460831	30	2.6	30	95	0	136	35	14	20	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55463920--55463953	14	2.4	15	85	14	54	26	5	23	44	1.76
55464333--55464393	3	20.3	3	93	0	104	68	29	0	1	0.99
55466446--55466512	34	1.9	35	84	3	91	64	7	1	26	1.29
55468924--55469005	13	5.6	14	72	21	69	20	2	12	64	1.38
55468927--55469008	30	2.7	30	92	0	137	21	2	13	62	1.43
55470990--55471112	45	2.7	45	84	0	165	26	13	26	33	1.94
55473774--55474821	543	1.9	543	99	0	2069	38	11	13	35	1.82
55475354--55475396	3	14.7	3	95	4	79	67	0	0	32	0.91
55475885--55475924	18	2.2	18	86	8	55	15	30	0	55	1.41
55476700--55476727	2	14.0	2	100	0	56	50	0	0	50	1.00
55477825--55477849	13	1.9	13	100	0	50	16	0	0	84	0.63
55479244--55479293	17	2.8	18	72	22	52	54	6	4	36	1.44
55479601--55479625	13	1.9	13	100	0	50	40	28	8	24	1.83
55482536--55482575	21	1.9	21	84	0	53	35	10	22	32	1.87
55486306--55486416	49	2.2	50	83	13	131	17	16	37	28	1.91
55488147--55488400	40	6.4	40	84	6	295	32	16	20	30	1.94
55488147--55488401	119	2.1	119	89	2	379	32	16	20	30	1.94
55489092--55489280	23	8.0	25	74	11	175	44	16	12	25	1.83
55489092--55489280	47	4.0	47	92	0	324	44	16	12	25	1.83
55489092--55489264	25	7.4	22	76	16	170	44	16	13	25	1.84
55490218--55490316	28	3.6	27	81	11	112	28	28	12	31	1.92
55512619--55512644	10	2.6	10	100	0	52	84	0	0	15	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55514283--55514336	23	2.3	23	87	0	81	38	18	20	22	1.93
55518873--55519088	107	2.0	108	99	0	425	39	13	18	27	1.89
55518902--55519068	55	3.1	55	60	17	132	39	14	17	28	1.89
55519191--55519215	5	5.0	5	100	0	50	40	20	0	40	1.52
55529654--55529700	23	2.0	23	95	0	85	34	21	0	44	1.52
55529917--55529947	9	3.4	9	90	0	53	25	12	22	38	1.90
55530000--55530036	9	4.1	9	92	0	65	45	13	10	29	1.77
55530871--55530897	5	5.4	5	100	0	54	18	18	18	44	1.87
55531011--55531044	18	1.9	17	88	5	50	47	2	0	50	1.16
55533233--55533287	25	2.2	25	86	0	74	30	23	16	29	1.96
55534977--55535015	20	2.0	20	94	0	69	10	20	23	46	1.81
55534984--55535070	20	4.3	20	78	5	77	12	24	20	42	1.87
55534984--55535070	40	2.2	40	80	0	102	12	24	20	42	1.87
55535225--55535279	24	2.3	24	93	0	92	41	9	14	34	1.77
55537080--55537114	17	2.1	17	100	0	70	45	22	0	31	1.53
55538888--55538932	21	2.1	21	87	4	63	13	15	4	66	1.39
55539413--55539482	19	3.7	18	79	5	77	58	0	5	35	1.22
55542159--55542189	9	3.4	9	90	0	53	25	12	22	38	1.90
55542243--55542279	9	4.1	9	92	0	65	45	13	10	29	1.77
55543131--55543156	5	5.2	5	100	0	52	19	19	19	42	1.90
55545972--55546028	19	2.8	19	81	10	51	19	5	1	73	1.11
55545994--55546043	9	5.1	9	79	15	55	12	6	2	80	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55545995--55546049	21	2.8	19	83	5	65	16	5	1	76	1.06
55549082--55549109	14	2.0	14	100	0	56	50	0	14	35	1.43
55558359--55558394	15	2.5	14	86	8	54	55	11	2	30	1.49
55569533--55569567	6	5.8	6	100	0	70	17	34	31	17	1.93
55578877--55578901	13	1.9	13	100	0	50	12	40	8	40	1.72
55583067--55583150	33	2.6	32	78	12	91	46	16	9	27	1.78
55583129--55583254	14	8.1	15	71	23	75	42	17	5	34	1.73
55583144--55583245	20	5.0	20	70	29	90	45	15	5	33	1.71
55583132--55583266	62	2.2	62	100	0	270	42	14	6	36	1.72
55583506--55583543	14	2.7	14	91	0	58	36	2	18	42	1.64
55583527--55583566	20	2.0	20	100	0	80	30	10	15	45	1.78
55583512--55583576	34	1.9	33	87	9	96	33	6	15	44	1.71
55583664--55583702	20	2.0	20	94	0	69	48	2	0	48	1.15
55584834--55584939	32	3.5	32	77	15	107	52	18	1	26	1.56
55588743--55588909	51	3.3	51	93	1	264	35	15	20	27	1.93
55590996--55591113	59	2.0	59	90	3	184	40	7	15	36	1.76
55593100--55593136	17	2.2	17	95	0	65	51	10	0	37	1.37
55593275--55593312	16	2.4	16	90	0	58	73	2	2	21	1.07
55593173--55593372	94	2.1	95	98	1	384	49	10	5	35	1.60
55593945--55594008	30	2.1	30	100	0	128	39	12	17	31	1.87
55603341--55603410	33	2.1	33	100	0	140	34	14	8	42	1.76
55606744--55606828	20	4.2	20	73	11	66	35	21	34	9	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55606744--55606828	40	2.1	40	80	8	93	35	21	34	9	1.85
55606744--55606894	61	2.5	60	82	1	185	36	19	31	11	1.89
55613820--55613936	59	1.9	59	84	5	153	44	0	4	50	1.27
55613871--55613908	12	3.2	12	82	17	53	50	0	0	50	1.00
55615796--55615838	21	2.0	22	90	4	70	67	6	0	25	1.15
55617428--55617462	18	2.0	17	88	5	52	25	0	17	57	1.40
55619884--55619919	16	2.2	16	100	0	72	25	0	36	38	1.56
55620155--55620189	18	2.0	17	88	5	52	54	0	0	45	0.99
55620042--55620337	157	1.9	157	98	0	574	43	3	5	48	1.41
55627104--55627130	7	3.9	7	100	0	54	44	0	44	11	1.39

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   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210