genome.fa.s25.2.7.7.80.10.50.1000.14.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  14  of  214  ( 25680 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)
3931661--3931785	46	2.7	46	77	11	139	33	24	16	25	1.95
3939694--3939752	29	2.0	30	80	9	68	44	6	0	49	1.29
3947282--3947316	18	1.9	18	94	0	61	71	5	0	22	1.07
3947312--3947341	15	1.9	16	93	6	53	73	0	0	26	0.84
3947357--3947403	20	2.3	20	89	7	69	63	4	6	25	1.36
3949490--3949515	2	13.0	2	100	0	52	50	0	50	0	1.00
3952199--3952230	16	2.0	16	100	0	64	50	18	0	31	1.48
3954909--3954964	25	2.2	25	90	0	85	28	5	17	48	1.69
3958819--3958857	17	2.3	17	86	8	53	30	0	20	48	1.50
3958996--3959102	21	5.2	21	81	4	110	17	21	15	44	1.86
3959054--3959121	19	3.5	19	82	7	91	20	22	14	42	1.88
3959046--3959121	40	1.9	40	91	0	125	21	22	14	42	1.89
3962405--3962453	21	2.4	20	86	6	71	40	8	28	22	1.82
3964686--3964749	21	3.0	22	72	9	69	35	25	18	20	1.95
3967518--3967553	18	2.1	18	89	5	56	33	25	0	41	1.55
3968303--3968340	14	2.4	17	87	12	55	52	0	0	47	1.00
3971439--3971716	90	3.0	88	81	11	349	25	1	15	57	1.46
3971617--3971844	112	2.0	111	89	2	350	27	0	12	58	1.40
3971751--3971930	91	2.0	87	88	4	261	27	0	14	57	1.41
3972464--3972519	21	2.7	21	94	0	94	28	33	8	28	1.87
3976831--3976981	54	2.9	54	71	16	143	57	9	1	31	1.40
3976831--3976990	51	3.1	51	72	13	137	58	10	1	30	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3977079--3977126	18	2.6	17	78	12	51	2	31	0	66	1.03
3977278--3977326	24	2.0	25	92	4	82	67	0	0	32	0.91
3980470--3980502	3	11.0	3	100	0	66	0	33	0	66	0.92
3986533--3986572	17	2.2	19	91	8	66	42	0	7	50	1.30
3993226--3993267	22	2.0	22	85	4	59	45	14	2	38	1.58
3993412--3993538	68	1.9	67	83	4	166	36	18	4	40	1.72
3995944--3996081	65	2.1	65	80	10	165	33	16	5	44	1.70
3996042--3996219	69	2.6	68	83	4	216	36	16	4	42	1.68
3999349--3999497	69	2.2	69	86	2	201	36	18	5	39	1.74
3999494--3999537	21	2.0	22	91	4	72	45	9	0	45	1.35
4009487--4009606	23	5.2	23	85	0	159	21	20	26	31	1.98
4009487--4009599	46	2.5	46	95	0	208	21	20	26	31	1.98
4012248--4012499	46	5.5	46	92	1	393	33	14	23	28	1.94
4024856--4024931	9	8.4	9	83	11	93	40	22	10	26	1.86
4024856--4024923	27	2.5	26	92	4	109	39	22	11	26	1.88
4025038--4025081	18	2.4	18	88	0	61	13	2	43	40	1.57
4027694--4027730	20	1.9	20	88	5	58	35	0	5	59	1.20
4027702--4027740	21	1.9	20	89	5	60	38	0	2	58	1.12
4028717--4028865	10	15.4	9	67	18	61	57	2	2	36	1.27
4029490--4029746	10	26.8	9	64	27	54	33	2	3	59	1.28
4029684--4029745	25	2.4	27	78	8	74	27	3	0	69	1.04
4029695--4029744	27	1.9	25	84	8	64	22	4	0	74	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4038932--4039423	243	2.0	243	95	0	885	33	18	23	24	1.97
4040693--4040759	31	2.2	31	91	0	107	40	14	11	32	1.83
4041188--4041227	21	1.9	21	84	0	53	32	5	12	50	1.62
4044057--4044114	25	2.2	25	78	6	62	58	6	3	31	1.41
4056376--4056409	12	2.7	13	90	4	52	70	11	0	17	1.16
4061214--4061247	12	2.9	11	91	8	50	0	14	17	67	1.23
4067987--4068025	20	1.9	20	89	5	60	20	20	23	35	1.96
4072565--4072594	13	2.3	13	100	0	60	46	10	6	36	1.64
4076672--4076704	15	2.1	16	88	5	50	15	12	27	45	1.81
4078338--4078588	18	14.2	18	68	14	103	46	9	12	30	1.75
4078338--4078588	35	7.1	35	71	10	190	46	9	12	30	1.75
4078388--4078588	53	3.8	53	75	10	162	47	10	13	28	1.76
4078385--4078599	18	12.2	18	72	12	153	46	10	13	30	1.76
4078581--4078613	15	2.1	16	94	5	59	45	6	18	30	1.73
4078453--4078617	18	9.5	19	73	16	53	44	9	14	30	1.77
4079350--4079385	18	1.9	19	94	5	65	5	19	13	61	1.52
4079496--4079553	8	7.0	8	82	7	62	3	13	0	82	0.79
4079486--4079553	10	6.7	10	76	8	66	2	14	0	82	0.79
4079493--4079556	25	2.6	25	85	7	78	3	15	0	81	0.82
4079486--4079561	21	3.5	21	80	15	84	2	17	0	80	0.83
4079818--4079862	23	2.0	23	82	8	56	4	11	17	66	1.38
4080126--4080280	30	5.2	29	78	10	129	38	5	24	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4080182--4080280	30	3.4	30	88	5	132	39	3	25	32	1.71
4080479--4081594	74	14.6	75	88	5	1109	36	20	15	27	1.93
4080479--4081619	227	4.9	227	84	8	1208	36	20	15	27	1.92
4080556--4081591	301	3.4	303	85	6	1267	36	20	15	27	1.93
4088094--4088334	18	13.6	18	70	11	131	45	10	13	30	1.77
4088130--4088328	35	5.6	34	72	12	125	45	11	14	28	1.79
4088133--4088344	53	4.0	54	75	7	175	46	11	14	27	1.79
4088130--4088345	18	12.2	18	70	11	142	45	11	14	28	1.79
4088327--4088359	15	2.1	16	94	5	59	45	6	18	30	1.73
4088189--4088363	18	9.9	19	69	17	53	45	10	15	29	1.79
4089105--4089144	20	2.0	21	90	5	64	2	17	15	65	1.39
4089242--4089333	10	8.7	10	73	14	69	2	17	0	80	0.81
4089277--4089336	4	15.5	4	77	19	65	0	21	0	78	0.75
4089242--4089329	13	6.5	14	80	15	80	2	17	0	80	0.81
4089248--4089342	33	2.9	33	77	15	90	2	18	0	78	0.84
4089242--4089343	23	4.6	23	85	10	133	1	19	0	78	0.85
4089243--4089342	29	3.6	27	70	16	62	2	19	0	79	0.84
4089599--4089642	22	2.0	22	86	8	63	4	9	20	65	1.38
4089974--4090061	30	2.9	30	88	3	115	40	1	22	35	1.62
4090237--4090991	77	9.7	78	84	7	647	35	20	16	27	1.94
4090252--4090991	158	4.8	151	81	8	590	35	20	15	27	1.93
4091929--4091968	20	2.0	21	90	5	64	2	17	15	65	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4092092--4092140	4	12.5	4	79	16	50	0	20	0	79	0.73
4092089--4092135	13	3.9	13	78	21	66	0	19	0	80	0.70
4092068--4092135	35	1.9	35	88	5	102	2	14	0	82	0.79
4092081--4092137	22	2.6	22	91	2	89	1	15	0	82	0.75
4092064--4092143	11	7.2	11	75	21	69	2	16	0	81	0.80
4092239--4092279	20	2.0	20	85	0	55	2	19	12	65	1.36
4092404--4092447	22	2.0	22	82	8	54	4	11	18	65	1.40
4092680--4092865	60	3.1	58	74	13	137	39	5	23	31	1.78
4092766--4092850	30	2.9	30	89	3	129	38	2	22	36	1.67
4092734--4092865	30	4.4	30	77	11	103	39	4	25	31	1.76
4093169--4093249	26	3.3	24	75	16	69	55	2	3	38	1.31
4093169--4093236	25	2.8	23	75	20	66	55	1	4	38	1.29
4095120--4095149	10	3.1	10	95	4	53	50	0	0	50	1.00
4095181--4095219	21	1.9	20	94	5	69	66	0	0	33	0.92
4095183--4095300	9	12.6	9	69	19	55	60	0	6	32	1.29
4095181--4095300	18	6.4	18	70	17	75	60	0	6	32	1.29
4108155--4108216	30	2.1	29	82	11	72	46	0	3	50	1.17
4109875--4109912	6	6.3	6	100	0	76	15	0	50	34	1.45
4110391--4110432	22	2.0	22	90	4	68	45	16	4	33	1.69
4111927--4111981	20	2.8	20	86	5	76	36	0	5	58	1.21
4111922--4111981	19	3.2	19	85	4	77	38	0	5	56	1.21
4113620--4113655	18	2.0	18	94	0	63	25	16	13	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4114404--4114454	20	2.6	20	81	3	59	31	15	1	50	1.55
4114912--4115223	43	7.3	43	83	5	357	29	29	17	23	1.97
4114912--4115179	127	2.1	129	87	4	382	28	30	17	22	1.97
4120100--4120144	7	6.4	7	84	0	54	33	44	0	22	1.53
4120190--4120240	7	7.4	7	80	12	52	37	45	0	17	1.49
4120442--4120478	14	2.6	14	91	0	65	45	29	0	24	1.53
4120845--4121126	41	6.9	41	90	1	424	30	30	21	17	1.96
4121162--4121295	40	3.4	39	84	6	164	21	18	21	38	1.94
4121188--4121313	40	3.2	40	80	10	136	21	22	21	34	1.96
4125296--4125356	30	2.0	30	90	6	97	26	24	16	32	1.96

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