genome.fa.s24.2.7.7.80.10.50.1000.11.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: Gbar_D11
Parameters: 2 7 7 80 10 50 1000
Length:  68311261

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   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  11  of  226  ( 27070 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)
3899830--3899871	21	2.0	21	100	0	84	57	14	0	28	1.38
3900755--3900846	21	4.4	21	70	19	59	52	4	1	42	1.28
3902047--3902075	9	3.2	9	100	0	58	10	68	0	20	1.18
3906003--3906028	13	2.0	13	100	0	52	46	23	7	23	1.78
3928781--3928822	21	2.0	21	90	0	66	30	11	50	7	1.66
3928787--3928827	21	2.0	21	95	0	73	26	12	56	4	1.56
3945870--3946001	60	2.2	60	91	0	219	31	0	12	56	1.36
3946390--3946444	20	2.6	22	72	18	62	40	0	1	58	1.09
3947165--3947293	36	3.4	38	70	16	106	41	12	10	36	1.77
3947254--3947389	35	3.9	35	79	6	150	47	11	12	28	1.77
3947254--3947404	17	8.5	17	76	12	117	47	10	12	29	1.75
3947577--3947623	20	2.5	19	77	16	53	44	8	17	29	1.78
3947983--3948078	8	12.0	8	76	12	99	0	19	0	80	0.72
3947980--3948076	15	6.5	15	81	5	108	0	19	0	80	0.71
3947980--3948078	23	4.5	22	77	13	96	0	20	0	79	0.73
3948204--3948269	30	2.2	31	83	8	82	1	3	22	72	1.06
3948230--3948272	19	2.4	19	88	7	63	2	0	20	76	0.89
3948216--3948272	15	3.5	15	73	17	51	1	0	19	78	0.83
3948375--3948424	10	5.1	10	92	2	75	0	24	0	76	0.80
3948490--3948539	10	5.2	10	80	7	59	0	30	0	70	0.88
3948494--3948536	19	2.3	19	88	11	63	0	30	0	69	0.88
3948803--3948904	30	3.4	30	82	2	125	45	3	21	29	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3948900--3948934	14	2.4	15	90	4	54	28	0	2	68	1.04
3956632--3956670	17	2.2	17	86	13	53	56	0	0	43	0.99
3956641--3956677	17	2.1	19	85	10	51	56	0	0	43	0.99
3960041--3960092	24	2.2	24	89	0	77	55	9	1	32	1.43
3962011--3962062	24	2.2	24	89	0	77	55	9	1	32	1.43
3967128--3967204	38	2.0	38	100	0	154	58	10	10	20	1.60
3972062--3972147	33	2.5	35	77	11	106	61	6	4	26	1.41
3972133--3972168	11	3.3	11	84	0	54	66	8	0	25	1.19
3973769--3973830	27	2.3	27	88	2	90	62	3	0	33	1.11
3974834--3974879	11	4.2	11	80	0	56	19	0	8	71	1.11
3974826--3974873	22	2.3	21	82	10	64	16	0	12	70	1.16
3974861--3974890	14	2.1	14	93	0	51	23	3	6	66	1.30
3982791--3982879	45	2.0	45	81	16	105	34	2	5	57	1.35
3983502--3983558	26	2.1	27	87	3	80	26	0	5	68	1.11
3989948--3989992	19	2.4	19	92	3	74	28	13	11	46	1.77
3993513--3993554	20	2.0	20	86	9	57	57	4	11	26	1.54
3996205--3996231	7	3.9	7	100	0	54	59	29	0	11	1.32
4001528--4001556	12	2.5	12	94	5	51	0	13	10	75	1.04
4003784--4003826	16	2.5	17	81	11	61	48	4	6	39	1.51
4005537--4005694	44	3.6	44	81	6	169	29	25	18	25	1.98
4005581--4005791	44	4.8	43	74	8	165	26	24	19	29	1.99
4005912--4005961	25	2.0	25	88	0	73	28	18	20	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4005824--4006311	125	3.9	125	95	0	807	24	18	22	34	1.96
4006186--4006363	50	3.6	49	74	7	169	24	19	22	33	1.97
4006203--4006523	100	3.2	100	82	2	376	26	20	20	33	1.97
4006604--4006835	50	4.6	50	78	3	261	26	20	19	33	1.96
4006604--4006835	100	2.3	100	93	0	401	26	20	19	33	1.96
4006759--4006909	74	2.0	74	94	0	266	23	19	19	37	1.95
4006833--4006962	50	2.6	50	80	9	158	25	20	20	34	1.96
4009211--4009314	6	17.8	6	77	13	56	13	7	7	71	1.31
4009203--4009398	76	2.6	74	91	4	311	11	9	6	72	1.26
4014096--4014138	16	2.5	17	81	11	61	48	4	6	39	1.51
4014098--4014166	14	4.8	14	75	10	59	53	2	4	39	1.36
4014116--4014164	12	3.9	12	81	7	53	53	2	6	38	1.38
4019863--4019903	14	2.6	16	77	14	50	34	34	26	4	1.78
4024288--4024330	22	2.0	22	90	4	70	60	2	0	37	1.10
4024732--4024796	10	7.0	9	75	16	53	32	3	0	64	1.09
4025730--4025766	2	19.0	2	84	15	51	45	0	2	51	1.15
4025730--4025767	10	4.0	9	87	12	58	44	0	2	52	1.14
4025978--4026029	22	2.4	22	83	0	68	55	15	0	28	1.40
4026940--4027035	48	2.0	48	100	0	192	25	29	10	35	1.89
4030732--4030810	32	2.6	30	82	7	104	22	5	1	70	1.14
4030732--4030794	32	1.9	32	93	6	108	25	6	0	68	1.13
4030762--4030832	29	2.5	29	83	2	81	25	2	4	67	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4033308--4033365	29	2.0	29	93	0	98	51	17	12	18	1.75
4047172--4047227	25	2.2	25	96	0	103	57	0	7	35	1.26
4048098--4048153	25	2.2	25	96	0	103	35	7	0	57	1.26
4050054--4050097	19	2.2	19	88	8	61	59	4	0	36	1.18
4050053--4050101	20	2.4	21	83	13	66	59	4	0	36	1.17
4070905--4071083	23	7.7	23	82	5	171	44	18	10	26	1.82
4070905--4071083	48	3.8	46	85	3	216	44	18	10	26	1.82
4072028--4072145	42	2.8	43	84	3	150	31	23	17	27	1.97
4076023--4076283	51	5.3	51	88	8	403	29	22	14	32	1.94
4079621--4079731	41	2.7	41	92	0	186	20	27	20	30	1.98
4079627--4079759	41	3.2	40	87	2	158	23	26	19	30	1.98
4081514--4081538	13	1.9	13	100	0	50	40	24	4	32	1.73
4084923--4084960	19	2.0	19	94	0	67	36	39	7	15	1.77
4087831--4087882	21	2.5	20	81	12	61	44	0	5	50	1.26
4093113--4093174	31	2.0	32	87	3	90	50	0	4	45	1.23
4096372--4096412	21	2.0	21	90	0	64	29	21	29	19	1.98
4110855--4110889	8	4.4	8	88	0	52	37	20	2	40	1.67
4111674--4111716	9	5.0	8	81	10	50	2	23	0	74	0.93
4111674--4111716	13	3.3	14	87	6	56	2	23	0	74	0.93
4111674--4111716	4	10.0	4	80	14	50	2	23	0	74	0.93
4118198--4118234	16	2.3	17	86	13	60	56	0	0	43	0.99
4119836--4119886	19	2.6	19	79	14	59	58	0	1	39	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4119872--4119963	19	4.8	19	70	13	73	54	0	3	42	1.16
4120127--4120237	58	1.9	58	83	7	145	27	8	4	59	1.46
4120195--4120267	19	3.8	19	73	10	69	30	5	2	61	1.32
4124775--4124857	42	1.9	43	85	11	116	57	2	3	36	1.29
4135867--4135919	23	2.4	22	76	20	56	9	18	1	69	1.25
4140097--4140141	23	2.0	23	82	4	56	26	0	4	68	1.08
4140590--4140632	23	1.9	23	85	4	61	58	0	2	39	1.11
4140868--4140911	17	2.4	18	85	11	54	40	2	2	54	1.25
4141738--4141801	13	4.9	13	78	0	74	34	6	21	37	1.79
4141740--4141801	26	2.4	26	83	0	88	33	6	22	37	1.80
4141967--4141996	15	2.1	14	93	6	51	46	0	0	53	1.00
4144847--4144880	17	1.9	18	88	5	52	41	20	11	26	1.87
4159256--4159285	2	15.0	2	100	0	60	50	0	50	0	1.00
4162464--4162503	16	2.5	16	87	0	53	50	2	5	42	1.37
4162506--4162536	16	2.0	15	93	6	53	32	0	9	58	1.31
4162506--4162653	59	2.5	59	96	1	271	39	4	8	47	1.53
4162635--4162662	9	3.1	9	100	0	56	32	0	10	57	1.33
4179051--4179101	26	2.0	26	84	7	68	41	7	3	47	1.51
4179104--4179162	26	2.2	27	85	8	77	44	1	5	49	1.34
4184296--4184331	16	2.2	16	90	0	54	41	2	0	55	1.14
4184339--4184381	16	2.7	15	82	10	50	76	2	9	11	1.10
4185082--4185107	3	8.7	3	100	0	52	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4185258--4185317	27	2.4	25	83	10	70	41	0	26	31	1.56
4188083--4188116	13	2.5	13	90	4	50	47	14	0	38	1.45
4195238--4195269	16	2.0	16	93	0	55	37	0	9	53	1.34
4203668--4203722	19	2.9	18	78	7	56	61	0	1	36	1.06
4204001--4204086	45	1.9	44	85	2	118	36	3	2	58	1.28
4204064--4204131	27	2.4	29	78	16	79	35	0	2	61	1.11
4206760--4206802	18	2.4	18	88	0	59	72	6	11	9	1.29
4211916--4212012	33	2.8	35	72	20	89	50	1	3	45	1.24
4214603--4214645	21	2.0	22	86	9	61	37	0	2	60	1.10
4214602--4214657	21	2.7	20	77	20	53	33	0	1	64	1.04

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   214   215   216   217   218   219   220   221   222   223   224   
          225   226