genome.fa.s3.2.7.7.80.10.50.1000.12.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: 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  12  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)
4167339--4167371	14	2.3	15	89	5	50	39	0	9	51	1.34
4169262--4169310	16	3.1	16	80	8	55	51	0	0	48	1.00
4171809--4172131	157	2.0	162	87	5	471	30	3	11	55	1.51
4180216--4180243	3	9.3	3	100	0	56	35	0	32	32	1.58
4181392--4181420	3	10.0	3	92	7	51	65	0	0	34	0.93
4185978--4186019	22	1.9	22	85	9	59	45	4	7	42	1.52
4188399--4188438	19	2.1	19	90	0	62	30	20	0	50	1.49
4188626--4188807	45	4.1	45	82	2	197	40	20	18	20	1.91
4188626--4188777	45	3.4	45	85	1	207	42	20	17	20	1.90
4191411--4191435	11	2.3	11	100	0	50	64	8	0	28	1.22
4196833--4196863	16	1.9	16	93	0	53	48	0	6	45	1.28
4200892--4200929	20	1.9	20	88	0	58	42	0	2	55	1.14
4201545--4201618	25	2.9	26	81	4	87	62	10	5	21	1.48
4205118--4205166	23	2.0	24	88	7	73	51	0	2	46	1.12
4205132--4205179	23	2.0	23	88	4	69	50	0	0	50	1.00
4221417--4221441	2	12.5	2	100	0	50	52	0	48	0	1.00
4228984--4229039	25	2.2	25	84	6	78	17	17	19	44	1.87
4237171--4237199	14	2.1	14	100	0	58	34	6	44	13	1.71
4240439--4240479	13	2.9	14	85	14	57	56	2	0	41	1.13
4244479--4244549	33	2.1	34	97	2	135	49	0	8	42	1.33
4245227--4245263	7	5.4	7	93	6	58	64	0	13	21	1.27
4245155--4245290	75	1.9	71	95	4	222	53	5	16	24	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4247124--4247174	19	2.7	19	85	11	61	62	0	0	37	0.95
4247661--4247690	3	10.0	3	100	0	60	33	0	0	66	0.92
4259783--4259842	29	2.1	29	100	0	120	45	0	25	30	1.54
4259836--4259891	22	2.5	22	94	2	94	41	0	30	28	1.57
4259876--4259908	10	3.0	11	86	13	50	45	0	36	18	1.49
4260544--4260585	18	2.5	18	81	11	54	33	2	4	59	1.31
4261685--4261729	21	2.1	21	91	0	72	6	6	15	71	1.29
4270410--4270449	19	2.1	19	95	0	71	0	45	7	47	1.31
4270405--4270458	12	4.9	12	74	21	55	0	40	9	50	1.35
4271991--4272029	18	2.2	18	100	0	78	43	0	10	46	1.37
4271996--4272035	18	2.2	18	90	0	62	50	0	10	40	1.36
4272168--4272221	26	2.1	26	92	0	90	35	12	11	40	1.79
4284918--4285013	30	3.2	30	95	2	167	41	16	6	35	1.74
4285275--4285390	60	1.9	60	85	0	160	37	16	5	40	1.71
4290506--4290551	15	2.9	16	81	15	60	34	10	0	54	1.36
4290934--4290988	24	2.3	24	83	0	65	30	25	27	16	1.96
4291124--4291186	25	2.6	24	75	20	60	36	22	23	17	1.95
4294571--4294634	27	2.4	27	89	0	92	18	42	26	12	1.86
4294798--4295092	85	3.3	85	68	22	246	24	1	15	59	1.44
4294779--4295147	181	2.0	180	98	0	711	26	1	14	57	1.45
4297747--4297925	64	2.9	61	80	12	204	31	8	10	49	1.67
4299005--4299039	14	2.5	14	85	0	52	40	5	17	37	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4300542--4300595	27	2.0	27	85	7	74	33	27	5	33	1.80
4301707--4301758	8	6.6	8	78	10	54	1	36	0	61	1.07
4304714--4304761	24	2.0	24	91	0	78	20	2	43	33	1.64
4316776--4316804	2	14.5	2	100	0	58	51	0	0	48	1.00
4316804--4316828	2	12.5	2	100	0	50	52	0	48	0	1.00
4316875--4316899	2	12.5	2	100	0	50	52	0	48	0	1.00
4316787--4316930	71	2.0	71	94	0	252	46	8	20	24	1.78
4322528--4322560	6	5.5	6	92	0	57	27	36	33	3	1.72
4326561--4326603	17	2.8	16	80	20	56	55	2	0	41	1.12
4328001--4328212	102	2.1	102	99	0	379	41	10	5	43	1.61
4328866--4328922	28	2.1	28	84	12	75	52	0	3	43	1.18
4331496--4331528	15	2.2	15	100	0	66	12	21	24	42	1.86
4333319--4333414	25	3.8	25	90	0	147	39	16	21	21	1.92
4333309--4333413	50	2.1	50	90	0	165	40	18	20	20	1.92
4348928--4348968	8	5.0	8	88	5	64	58	0	0	41	0.98
4348928--4349008	28	3.0	27	74	13	71	53	6	1	39	1.34
4350695--4350850	25	6.3	26	70	16	98	39	19	23	17	1.93
4350689--4350755	24	2.7	26	77	9	86	40	20	23	14	1.90
4353605--4353634	1	30.0	1	100	0	60	0	0	0	100	0.00
4355042--4355079	20	1.9	20	89	10	60	18	15	15	50	1.79
4367853--4367878	3	8.7	3	100	0	52	34	0	30	34	1.58
4370081--4370185	52	2.0	52	100	0	210	48	17	20	13	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4370633--4370682	21	2.3	22	79	3	57	72	2	4	22	1.12
4371118--4371164	6	7.2	6	84	15	58	80	0	0	19	0.70
4372255--4372295	3	13.7	3	86	0	55	34	24	36	4	1.77
4372253--4372298	21	2.2	21	92	0	74	34	21	34	8	1.84
4372255--4372295	15	2.7	15	88	0	64	34	24	36	4	1.77
4379922--4379984	31	2.0	31	100	0	126	33	9	38	19	1.84
4382880--4383090	96	2.2	96	98	0	404	24	4	53	18	1.63
4387888--4387914	4	6.8	4	100	0	54	22	0	0	77	0.76
4389453--4389509	3	19.0	3	100	0	114	33	0	0	66	0.92
4395093--4395136	14	3.3	14	75	12	56	40	0	2	56	1.11
4397616--4397667	20	2.6	19	74	17	52	40	5	0	53	1.25
4427591--4427651	28	2.2	28	87	0	86	11	21	13	54	1.70
4429026--4429050	10	2.5	10	100	0	50	20	0	8	72	1.10
4430301--4430621	41	7.9	41	88	4	310	15	23	30	31	1.95
4430327--4430608	82	3.5	81	86	5	381	14	22	30	32	1.94
4430350--4430621	123	2.2	122	88	3	395	15	22	30	31	1.95
4431088--4431137	22	2.3	21	86	3	64	20	0	40	40	1.52
4431666--4431795	39	3.3	41	78	8	126	36	16	26	19	1.93
4436756--4437311	43	12.8	43	76	7	491	25	16	26	30	1.97
4436700--4437149	224	2.0	224	100	0	900	27	16	24	31	1.96
4436980--4437327	85	4.1	85	85	2	430	25	17	28	29	1.97
4436997--4437309	171	1.8	170	87	3	468	25	17	28	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4437004--4437353	171	2.0	171	84	3	463	26	17	26	29	1.97
4445365--4445421	14	4.5	13	77	16	57	24	1	1	71	1.04
4450576--4450743	76	2.2	76	84	2	221	30	25	18	26	1.98
4450962--4451045	17	4.8	17	67	11	53	25	13	29	32	1.93
4451170--4451249	14	5.6	14	83	2	97	33	25	25	16	1.95
4451781--4451838	27	2.1	28	81	9	66	5	17	3	74	1.15
4451879--4451922	22	2.0	21	86	4	61	25	29	11	34	1.91
4452587--4452612	13	2.0	13	100	0	52	15	0	30	53	1.42
4465365--4465435	28	2.5	28	90	0	106	28	28	21	22	1.99
4465587--4465658	26	2.8	26	84	0	99	40	23	18	18	1.91
4465803--4465998	27	7.3	27	74	10	161	17	18	20	42	1.90
4465802--4465997	53	3.7	53	75	14	197	17	18	20	42	1.90
4470342--4470383	19	2.2	19	91	0	66	38	4	0	57	1.20
4472883--4473096	76	2.8	76	74	8	200	28	25	18	28	1.98
4473865--4473902	19	2.0	19	85	10	51	21	42	0	36	1.53
4477162--4477194	16	2.1	16	94	5	59	33	6	6	54	1.50
4481560--4481585	12	2.2	12	100	0	52	7	15	30	46	1.74
4481574--4481702	40	3.2	40	77	10	113	34	19	22	23	1.96
4481592--4481707	40	2.9	40	79	6	121	34	20	20	24	1.97
4481764--4482088	41	8.0	41	85	0	463	19	22	28	29	1.98
4482264--4482393	14	9.1	14	70	10	66	22	0	28	48	1.56
4482327--4482445	7	16.7	7	70	10	53	20	1	35	42	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4482327--4482393	22	3.1	22	80	4	73	19	1	29	49	1.57
4483147--4483389	83	2.9	81	82	5	299	41	15	14	29	1.86
4483437--4483483	24	2.0	24	95	0	85	36	17	23	23	1.95
4488848--4489067	43	5.1	43	78	6	196	28	18	29	24	1.98
4488851--4489067	86	2.5	86	81	4	233	28	18	29	23	1.98
4493131--4493163	15	2.3	15	89	5	50	54	18	0	27	1.44
4507826--4507908	3	27.7	3	85	0	112	31	3	33	31	1.75
4508581--4508691	52	2.1	53	96	1	206	30	17	10	41	1.83
4516620--4516654	16	2.2	16	100	0	70	40	17	14	28	1.88
4518514--4518553	3	13.3	3	100	0	80	32	0	0	67	0.91

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