genome.fa.s14.2.7.7.80.10.50.1000.18.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   211   212   213   

This is table  18  of  213  ( 25468 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)
4878137--4878199	21	3.2	21	62	25	55	23	25	6	44	1.77
4878136--4878212	38	2.0	38	100	0	154	24	25	5	44	1.75
4881568--4881616	21	2.2	22	85	7	64	30	0	8	61	1.25
4886678--4886714	18	2.1	18	89	0	56	35	16	16	32	1.91
4889129--4889236	40	2.8	37	74	18	110	38	6	3	50	1.46
4889770--4889806	18	2.1	18	100	0	74	35	10	16	37	1.83
4889790--4889851	32	1.9	32	100	0	124	33	19	9	37	1.84
4902452--4902496	23	2.0	23	82	8	56	51	2	2	44	1.26
4902749--4902797	22	2.3	21	83	13	64	42	0	4	53	1.20
4902783--4902830	20	2.3	21	79	13	55	50	2	2	45	1.25
4907468--4907516	15	2.9	18	71	22	52	26	0	4	69	1.06
4912027--4912094	16	4.2	16	90	7	102	27	0	33	38	1.57
4912027--4912094	32	2.1	32	94	0	118	27	0	33	38	1.57
4912224--4912533	157	2.0	157	92	1	523	44	3	4	47	1.41
4912287--4912536	76	3.1	81	63	24	186	46	4	3	45	1.39
4912287--4912591	157	1.9	155	80	6	342	46	4	3	44	1.43
4913413--4913442	13	2.3	13	100	0	60	60	13	6	20	1.55
4924058--4924111	27	2.0	27	92	0	90	24	29	24	22	1.99
4924137--4924263	33	3.6	33	75	19	130	32	27	19	20	1.97
4924088--4924345	80	3.3	80	82	6	357	32	27	18	22	1.97
4929535--4929593	13	4.6	13	72	17	52	57	3	0	38	1.15
4932897--4932943	20	2.3	21	82	14	62	59	8	0	31	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4936995--4937190	96	2.0	96	99	0	383	31	23	11	33	1.91
4943164--4943211	21	2.1	24	85	11	66	35	6	14	43	1.71
4946377--4946472	31	3.1	31	95	3	174	45	13	9	31	1.75
4952638--4952733	31	3.1	31	92	3	165	46	12	9	31	1.73
4971614--4971830	51	4.0	51	85	15	303	46	18	7	28	1.76
4971704--4971731	12	2.3	12	100	0	56	57	21	0	21	1.41
4971653--4971782	63	2.1	63	100	0	260	47	18	6	27	1.72
4971614--4971830	114	1.9	113	97	2	409	46	18	7	28	1.76
4971776--4971886	33	3.4	34	82	10	115	43	17	8	31	1.78
4974911--4975533	120	5.2	120	96	1	1142	43	2	5	48	1.39
4975241--4975275	18	2.0	17	88	5	52	45	0	0	54	0.99
4974911--4975533	241	2.6	240	96	1	1142	43	2	5	48	1.39
4975482--4975516	18	2.0	17	88	5	52	45	0	0	54	0.99
4975681--4975771	45	2.0	45	85	2	121	37	28	6	27	1.82
4975752--4975820	16	4.2	16	88	3	111	36	36	1	26	1.66
4975752--4975820	33	2.1	32	91	2	111	36	36	1	26	1.66
4985801--4985844	20	2.2	20	100	0	88	45	4	9	40	1.56
4986452--4986484	17	2.0	16	94	5	57	75	0	0	24	0.80
4987956--4988029	29	2.6	28	80	17	91	60	2	1	35	1.19
4991599--4991653	24	2.3	22	80	17	65	29	0	3	67	1.08
4994023--4994185	80	2.0	80	98	0	317	38	10	20	30	1.86
5008796--5008881	40	2.3	38	80	11	104	46	2	2	48	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5012493--5012523	15	2.0	16	93	6	55	45	22	0	32	1.53
5016121--5016154	17	2.0	17	88	0	50	76	8	2	11	1.12
5016581--5016626	24	1.9	24	82	8	58	54	6	4	34	1.46
5016613--5016644	11	3.1	11	91	8	50	68	0	0	31	0.90
5016613--5016648	14	2.6	13	87	12	54	69	0	0	30	0.89
5018483--5018644	87	1.9	87	84	2	218	25	24	20	29	1.99
5018444--5018911	214	2.2	214	89	3	697	26	22	20	30	1.98
5018495--5018907	44	9.5	44	72	12	257	27	22	20	30	1.98
5034348--5034412	26	2.6	25	73	26	66	30	6	9	53	1.57
5037159--5037199	19	2.2	19	100	0	82	26	34	17	21	1.95
5038468--5038563	31	3.1	31	95	3	174	45	13	9	31	1.75
5040922--5040970	21	2.3	22	85	3	64	26	6	8	59	1.50
5044418--5044454	17	2.2	17	90	0	56	21	2	24	51	1.61
5045096--5045149	26	2.1	26	82	6	65	68	7	0	24	1.15
5045107--5045154	6	7.7	6	88	9	60	68	10	0	20	1.18
5045107--5045154	20	2.5	19	86	6	62	68	10	0	20	1.18
5045194--5045269	9	8.4	9	91	0	125	23	11	23	40	1.88
5045430--5045454	12	2.1	12	100	0	50	16	24	36	24	1.94
5045820--5046050	46	5.0	45	86	2	291	38	8	23	29	1.84
5045822--5046050	92	2.5	92	89	0	341	38	8	23	29	1.84
5065160--5065184	3	8.3	3	100	0	50	64	0	0	36	0.94
5076298--5076384	33	2.6	33	87	0	129	41	3	35	19	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5076324--5076376	15	3.3	15	73	14	52	39	3	35	20	1.71
5081296--5081324	11	2.5	12	94	5	51	58	3	0	37	1.15
5081296--5081344	23	2.1	23	81	7	55	59	2	0	38	1.09
5083118--5083156	21	1.9	20	84	5	51	30	2	7	58	1.39
5083250--5083316	31	2.3	27	76	14	62	41	8	8	40	1.68
5084948--5084980	11	3.1	11	91	4	50	30	0	9	60	1.27
5088975--5089010	17	2.1	17	90	10	56	50	0	5	44	1.25
5092447--5092508	25	2.4	25	76	12	63	58	3	6	32	1.40
5094099--5094136	19	2.1	18	85	14	51	73	0	13	13	1.09
5096110--5096143	6	5.7	6	96	0	59	55	17	14	11	1.68
5096351--5096390	19	2.0	20	85	4	55	35	5	7	52	1.51
5100699--5100734	17	2.1	17	90	10	56	50	0	5	44	1.25
5103805--5103886	40	2.0	40	100	0	164	39	17	7	36	1.77
5104172--5104256	31	3.1	26	76	18	91	24	9	5	60	1.50
5108361--5108438	15	5.2	15	70	11	70	42	7	23	26	1.81
5108355--5108448	30	3.1	30	95	1	161	41	6	25	26	1.79
5113027--5113104	15	5.2	15	70	11	70	42	7	23	26	1.81
5113021--5113114	30	3.1	30	95	1	161	41	6	25	26	1.79
5120510--5120557	24	2.0	24	84	8	62	41	4	2	52	1.32
5122681--5122811	24	5.5	24	86	0	172	30	29	29	10	1.91
5133788--5133838	26	2.0	26	84	3	68	43	1	1	52	1.23
5133767--5133834	32	2.1	32	82	15	79	39	2	1	55	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5136695--5137041	159	2.2	159	95	1	624	20	16	27	34	1.95
5142562--5142608	21	2.2	22	96	3	87	17	25	10	46	1.79
5152040--5152119	24	3.3	24	83	0	97	26	35	17	21	1.95
5153499--5153563	25	2.6	25	74	13	62	43	3	3	50	1.33
5158321--5158365	22	2.0	22	91	0	72	48	13	28	8	1.72
5164908--5164940	16	2.0	17	88	5	50	39	24	6	30	1.79
5169647--5169725	40	2.0	40	100	0	158	25	20	12	41	1.87
5169920--5169951	15	2.1	16	94	5	57	59	0	9	31	1.29
5174118--5174159	21	2.0	22	81	13	52	61	0	4	33	1.17
5174400--5174436	8	4.3	9	86	10	51	27	0	0	72	0.84
5174400--5174436	17	2.2	17	90	0	56	27	0	0	72	0.84
5174693--5174733	22	1.9	22	85	5	57	31	4	4	58	1.40
5176964--5176992	13	2.1	14	93	6	51	58	6	0	34	1.25
5177805--5177834	15	2.0	15	100	0	60	26	20	26	26	1.99
5194831--5194881	26	1.9	27	84	4	68	52	5	17	23	1.66
5197854--5197914	30	1.9	33	87	9	92	59	4	1	34	1.29
5199389--5199545	58	2.7	57	77	10	138	42	12	3	40	1.61
5222954--5223012	16	3.8	16	71	13	59	35	10	22	32	1.87
5222936--5223019	31	2.6	31	79	3	96	39	8	20	32	1.82
5223193--5223286	47	2.1	45	84	9	120	37	1	5	56	1.29
5223223--5223290	35	2.0	35	85	8	95	41	0	5	52	1.25
5223228--5223305	19	4.3	18	75	15	72	37	0	6	56	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5223685--5223798	59	1.9	59	94	0	201	38	9	16	35	1.82
5228639--5228688	7	7.4	7	81	18	54	78	0	10	12	0.98
5228632--5228676	20	2.2	20	84	7	56	80	2	6	11	0.99
5228631--5228683	27	1.9	28	92	3	90	79	1	7	11	1.01
5229035--5229230	108	1.8	108	89	2	313	25	16	10	47	1.78
5229687--5230535	87	9.7	87	87	1	1038	28	23	23	24	1.99
5229718--5230117	44	9.2	44	64	10	167	29	25	21	23	1.99
5229673--5230535	175	4.9	175	86	1	1079	28	23	23	24	1.99
5229687--5230535	262	3.2	261	83	2	1049	28	23	23	24	1.99
5230184--5230336	44	3.5	43	66	11	103	25	22	24	26	2.00

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   211   212   213