genome.fa.s3.2.7.7.80.10.50.1000.11.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  11  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)
3766226--3766273	25	1.9	25	83	8	62	45	0	22	31	1.53
3766605--3766708	37	2.7	37	74	11	102	22	21	26	29	1.99
3767234--3767267	17	1.9	18	88	5	52	32	2	20	44	1.67
3767652--3767685	2	17.0	2	100	0	68	50	0	0	50	1.00
3767685--3767818	66	2.0	67	98	1	261	29	11	26	32	1.91
3767867--3767908	17	2.6	16	88	7	66	26	0	21	52	1.47
3769155--3769386	46	5.0	46	92	1	374	36	8	26	28	1.85
3769155--3769388	93	2.5	92	92	0	378	36	8	26	29	1.85
3777949--3777991	21	2.0	21	95	0	77	9	4	2	83	0.87
3800352--3800533	51	3.6	51	92	0	301	34	13	23	29	1.92
3815024--3815119	25	3.8	25	90	0	147	39	16	21	21	1.92
3815014--3815118	50	2.1	50	90	0	165	40	18	20	20	1.92
3815682--3815815	47	2.8	48	81	4	137	32	31	14	21	1.94
3828131--3828168	4	9.5	4	94	0	67	47	26	2	23	1.65
3837703--3837739	15	2.4	16	86	8	51	43	21	16	18	1.88
3837948--3837974	4	6.8	4	100	0	54	25	25	0	48	1.52
3842000--3842025	3	8.7	3	100	0	52	69	0	30	0	0.89
3844985--3845029	23	2.0	23	91	4	74	37	4	17	40	1.70
3844995--3845039	23	2.0	23	86	4	65	33	4	15	46	1.66
3845200--3845238	19	2.0	21	85	10	55	15	10	5	69	1.34
3845458--3845497	3	13.3	3	84	10	55	32	0	0	67	0.91
3845442--3845496	15	3.7	15	74	16	53	30	0	1	67	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3845444--3845495	12	4.1	12	80	14	52	28	0	1	69	0.99
3845765--3845864	52	1.9	51	82	9	123	30	7	8	55	1.56
3848275--3849333	530	2.0	530	99	0	2093	33	25	15	26	1.95
3854198--3854416	105	2.1	106	86	5	300	37	17	21	23	1.93
3854267--3854593	105	3.3	101	77	14	329	36	17	19	25	1.94
3854397--3854566	90	1.9	91	96	1	315	42	14	13	29	1.83
3854998--3855022	13	1.9	13	100	0	50	76	0	0	24	0.80
3857073--3857200	63	2.0	64	98	1	249	40	4	3	51	1.38
3857084--3857187	32	3.3	32	72	12	115	41	4	2	50	1.38
3863051--3863115	2	33.0	2	89	3	96	49	3	0	47	1.17
3863995--3864024	16	1.9	16	93	6	53	70	0	10	20	1.16
3867593--3867624	4	8.0	4	92	0	55	25	0	28	46	1.53
3869112--3869150	16	2.4	16	86	0	51	69	7	5	17	1.32
3883444--3883501	26	2.3	25	80	11	64	48	6	0	44	1.29
3888889--3889092	2	102.0	2	99	0	399	49	0	50	0	1.00
3889551--3889685	72	1.9	73	88	1	209	34	11	19	34	1.88
3896218--3896251	11	3.1	11	91	0	59	17	32	2	47	1.63
3896214--3896267	22	2.5	22	83	16	69	22	29	1	46	1.62
3896231--3896328	51	1.9	51	89	4	153	25	25	2	46	1.63
3897953--3898171	39	5.2	39	71	15	143	55	9	2	32	1.45
3897901--3898161	130	2.0	131	99	0	515	55	11	2	31	1.48
3900249--3900337	39	2.2	41	86	4	119	55	7	2	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3901388--3901614	113	2.0	114	99	0	447	39	7	9	44	1.65
3910712--3910736	2	12.5	2	100	0	50	48	0	0	52	1.00
3912273--3912310	20	1.9	20	89	10	60	44	0	0	55	0.99
3924586--3924813	76	3.0	76	100	0	456	42	21	15	21	1.89
3931314--3931350	9	4.2	9	86	6	58	37	29	10	21	1.88
3931315--3931349	17	2.1	17	94	0	61	34	31	11	22	1.90
3933574--3933624	25	2.1	23	79	10	57	27	7	5	58	1.49
3935663--3935701	19	2.0	21	85	10	55	30	2	0	66	1.05
3936782--3936850	29	2.3	30	80	12	79	52	14	13	20	1.74
3945047--3945094	23	2.2	22	85	7	62	50	6	2	41	1.39
3961583--3961615	14	2.4	14	94	0	57	36	6	15	42	1.71
3961940--3961998	2	29.5	2	100	0	118	50	0	0	49	1.00
3967039--3967116	39	2.0	39	100	0	156	43	15	23	17	1.87
3972290--3972389	31	3.2	31	81	5	96	39	11	13	37	1.79
3973235--3973275	20	2.0	20	86	9	57	36	7	17	39	1.77
3974064--3974328	87	2.9	87	85	9	343	30	20	15	33	1.93
3974047--3974348	46	6.6	46	84	9	368	29	21	14	34	1.93
3974244--3974276	17	1.9	17	93	0	57	39	12	21	27	1.88
3975898--3975929	12	2.6	13	85	14	50	56	6	0	37	1.25
3978001--3978041	22	1.9	22	95	5	75	63	2	4	29	1.28
3978741--3978798	11	5.3	11	76	0	53	15	3	13	67	1.36
3984470--3984500	14	2.2	14	100	0	62	19	29	6	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3990071--3990133	17	3.5	17	73	23	65	28	3	15	52	1.58
3990069--3990146	38	2.1	38	100	0	156	29	2	12	55	1.51
3992153--3992320	23	7.3	23	81	5	214	22	19	25	32	1.97
3992153--3992320	46	3.7	46	89	0	264	22	19	25	32	1.97
3997397--3997547	83	1.9	81	87	6	225	28	15	13	42	1.85
4001593--4001633	19	2.1	19	86	4	55	56	0	2	41	1.13
4003133--4003215	16	5.0	16	73	12	53	38	2	0	59	1.11
4003138--4003205	24	2.8	24	82	10	77	39	1	0	58	1.07
4007681--4007710	15	2.1	14	93	6	51	23	0	0	76	0.78
4007777--4007862	9	9.8	8	78	12	55	38	1	1	59	1.13
4007825--4007860	3	12.0	3	100	0	72	33	0	0	66	0.92
4010593--4010736	59	2.4	59	80	6	175	32	18	8	40	1.80
4016087--4016155	29	2.4	30	79	16	74	27	4	8	59	1.46
4017528--4017579	21	2.5	21	80	0	59	32	3	26	36	1.75
4017590--4017626	18	2.1	18	94	0	65	27	5	29	37	1.79
4029254--4029283	7	4.3	7	95	0	51	36	13	16	33	1.88
4034651--4034676	3	8.7	3	100	0	52	0	69	0	30	0.89
4043653--4044465	114	6.8	117	87	6	1127	21	28	12	37	1.90
4043987--4044013	3	9.0	3	100	0	54	0	33	0	66	0.92
4043649--4044465	234	3.4	234	89	4	1219	21	28	12	37	1.90
4046652--4046680	13	2.3	13	94	5	51	51	6	6	34	1.55
4046905--4046955	25	2.0	25	85	7	68	39	5	0	54	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4047969--4047995	12	2.2	12	100	0	54	59	11	0	29	1.32
4048260--4048322	27	2.3	27	94	0	108	22	28	38	11	1.88
4049129--4049197	27	2.6	27	88	0	102	14	36	27	21	1.93
4055108--4055171	31	2.0	32	87	3	94	29	10	14	45	1.78
4055253--4055307	27	2.0	27	96	0	101	25	12	7	54	1.63
4059865--4059931	34	1.9	35	90	3	109	44	13	8	32	1.75
4060615--4060649	19	1.9	17	88	11	52	74	2	0	22	0.95
4070980--4071008	6	4.8	6	100	0	58	0	0	48	51	1.00
4072616--4072677	22	2.7	22	87	5	79	48	3	1	46	1.28
4072654--4072691	16	2.4	16	90	0	58	47	5	5	42	1.48
4074347--4074405	21	2.7	22	79	10	59	52	3	1	42	1.28
4074373--4074440	9	7.2	9	73	18	50	61	0	1	36	1.05
4074372--4074413	11	3.9	11	79	14	52	54	0	2	42	1.13
4074491--4074530	15	2.7	15	88	3	55	5	60	32	2	1.32
4074553--4074609	30	1.9	30	85	3	80	66	0	3	29	1.08
4074331--4074681	186	1.9	182	81	11	428	39	18	16	25	1.91
4076337--4076364	5	5.6	5	100	0	56	64	0	0	35	0.94
4077343--4077388	17	2.7	17	78	18	51	36	0	2	60	1.09
4080761--4081066	152	2.0	153	99	0	605	47	15	12	24	1.80
4090432--4090500	13	4.8	14	71	16	52	31	4	1	62	1.24
4098144--4098189	20	2.3	20	85	7	58	69	10	0	19	1.17
4098227--4098287	24	2.5	24	79	17	63	63	1	1	32	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4105846--4105877	12	2.7	12	95	0	55	31	3	15	50	1.60
4122222--4122297	38	2.0	38	100	0	152	44	7	18	28	1.78
4130983--4131009	2	13.5	2	100	0	54	48	0	0	51	1.00
4140460--4140535	29	2.6	29	95	0	134	42	26	7	23	1.81
4148419--4148625	103	2.0	104	99	0	407	46	7	10	34	1.67
4148612--4148670	29	2.1	27	84	9	75	27	13	15	44	1.84
4153212--4153610	125	3.2	124	88	4	574	32	23	15	29	1.95
4156471--4156606	46	3.0	45	88	4	200	35	8	27	27	1.87
4166560--4166609	22	2.2	23	82	10	59	66	16	6	12	1.43
4167275--4167321	22	2.1	22	84	0	58	29	0	2	68	1.02

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