genome.fa.s20.2.7.7.80.10.50.1000.12.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: Gbar_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  12  of  189  ( 22580 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)
3968533--3968680	44	3.2	44	78	12	170	29	19	16	33	1.94
3968474--3968681	51	4.2	51	81	9	270	28	22	16	33	1.95
3968474--3968681	95	2.1	96	85	7	267	28	22	16	33	1.95
3968574--3968681	44	2.5	44	90	3	173	28	20	16	34	1.94
3971304--3971352	25	2.0	25	88	8	73	51	0	2	46	1.12
3971526--3971595	33	2.1	33	100	0	140	31	11	5	51	1.61
3979469--3979516	17	2.9	17	81	3	53	35	2	0	62	1.07
3982453--3982479	2	13.5	2	100	0	54	48	0	0	51	1.00
3983106--3983153	21	2.3	21	100	0	96	54	4	0	41	1.20
3986759--3986794	18	1.9	19	88	5	56	33	5	16	44	1.71
3990547--3990580	17	2.0	17	94	0	59	44	50	0	5	1.26
3995185--3995218	17	2.0	17	94	0	59	44	50	0	5	1.26
3997426--3997474	22	2.3	22	86	10	66	12	22	2	63	1.39
4006703--4006909	47	4.3	47	80	6	184	29	28	16	25	1.97
4009599--4009674	28	3.0	24	72	22	75	31	3	0	64	1.12
4009588--4009657	28	2.4	29	83	4	88	32	1	0	65	1.01
4009611--4009660	12	4.1	12	80	14	57	32	0	0	68	0.90
4009630--4009660	11	2.7	11	95	5	53	38	0	0	61	0.96
4009642--4009703	30	2.1	29	90	3	97	37	3	0	59	1.13
4009672--4009696	11	2.3	11	100	0	50	40	0	0	60	0.97
4009596--4009715	41	2.9	40	76	16	129	33	2	0	64	1.07
4009680--4009741	32	1.9	32	87	6	90	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4009699--4009747	25	1.9	25	83	4	62	42	0	0	57	0.99
4010134--4010345	90	2.4	90	95	0	379	26	15	23	34	1.95
4010093--4010382	135	2.1	134	80	8	320	27	14	24	34	1.94
4010100--4010345	45	5.5	45	81	9	286	27	15	22	34	1.94
4014392--4014453	29	2.1	29	100	0	124	56	12	6	24	1.60
4016679--4016715	3	12.3	3	100	0	74	0	32	0	67	0.91
4022971--4023079	38	3.1	37	69	24	101	33	1	0	65	1.04
4022983--4023045	27	2.3	28	94	2	110	28	1	0	69	0.97
4022983--4023045	28	2.3	27	91	2	99	28	1	0	69	0.97
4024582--4024610	15	1.9	15	100	0	58	58	6	6	27	1.50
4024712--4024744	16	2.1	16	94	0	57	36	3	36	24	1.71
4024724--4024832	45	2.6	43	80	10	118	34	5	28	31	1.80
4024955--4024998	16	2.8	16	82	10	54	50	2	0	47	1.13
4024992--4025299	61	5.1	61	69	14	253	49	6	1	42	1.37
4025076--4025247	15	11.6	15	65	23	62	51	4	0	43	1.26
4024960--4025372	120	3.4	120	96	0	736	50	5	1	43	1.34
4025413--4025473	28	2.2	28	85	5	81	50	3	0	45	1.17
4025379--4025595	91	2.4	89	85	6	290	46	4	3	46	1.38
4025413--4025555	44	3.2	43	70	20	121	48	2	2	46	1.28
4032094--4032124	6	5.2	6	100	0	62	64	0	0	35	0.94
4032954--4033040	44	2.0	44	93	0	147	50	10	9	29	1.67
4032958--4033051	44	2.1	44	88	0	134	53	9	9	27	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4045240--4045332	39	2.5	37	80	7	98	27	29	22	20	1.98
4045688--4045732	3	15.0	3	80	0	54	57	6	0	35	1.25
4045688--4045734	18	2.6	18	93	0	76	55	8	0	36	1.31
4045692--4045732	12	3.4	12	93	0	64	56	7	0	36	1.27
4046777--4046819	21	2.0	21	81	0	50	58	6	0	34	1.25
4048669--4048695	13	2.1	13	100	0	54	55	0	0	44	0.99
4055079--4055120	15	2.9	15	82	10	52	47	0	0	52	1.00
4055254--4055363	45	2.6	43	79	11	120	32	29	5	32	1.80
4055344--4055411	16	4.2	16	92	0	109	35	35	0	29	1.58
4055344--4055411	32	2.1	32	97	0	127	35	35	0	29	1.58
4084944--4085048	52	2.0	53	94	1	185	31	9	1	57	1.42
4085152--4085203	10	4.9	10	75	11	50	36	5	1	55	1.35
4095050--4095154	53	2.0	53	96	0	192	32	31	7	28	1.85
4106248--4106288	19	2.2	19	86	0	55	39	2	2	56	1.26
4107651--4107688	17	2.2	17	90	0	58	50	10	7	31	1.66
4108409--4108435	13	2.1	13	100	0	54	44	0	0	55	0.99
4115775--4115806	3	10.7	3	100	0	64	34	0	0	65	0.93
4132771--4132808	16	2.4	16	83	12	51	52	0	0	47	1.00
4132778--4132811	17	2.1	17	94	5	61	47	0	0	52	1.00
4133050--4133111	31	2.0	31	81	6	72	46	3	6	43	1.45
4134250--4134312	30	2.1	30	96	0	117	23	3	15	57	1.53
4137353--4137382	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4138771--4138816	3	15.3	3	100	0	92	32	0	0	67	0.91
4139571--4139615	17	2.6	17	76	13	56	28	8	22	40	1.84
4140272--4140311	15	2.7	15	96	0	71	30	22	32	15	1.94
4143155--4143205	19	2.6	19	87	9	68	5	9	9	74	1.21
4158518--4158559	16	2.4	18	80	7	52	47	14	16	21	1.82
4158583--4158673	45	2.0	44	82	2	110	30	4	28	36	1.77
4158838--4158872	18	2.0	17	88	5	52	54	0	0	45	0.99
4158725--4159041	157	2.0	157	96	0	580	44	3	4	47	1.40
4158975--4159016	15	2.7	16	82	14	52	52	2	0	45	1.13
4158984--4159025	15	2.9	15	82	10	52	52	0	0	47	1.00
4158795--4159044	76	3.1	82	64	24	215	47	3	3	46	1.34
4158978--4159218	120	2.0	121	97	0	457	48	5	2	43	1.40
4159114--4159295	78	2.4	78	95	1	323	47	6	3	42	1.48
4158994--4159406	198	2.1	197	97	0	772	48	6	2	42	1.42
4159191--4159466	120	2.3	117	88	6	396	48	5	3	42	1.43
4159292--4159343	15	3.6	15	80	12	56	53	1	0	44	1.11
4159507--4159554	26	1.9	25	84	16	64	52	2	0	45	1.12
4159482--4159690	92	2.3	91	85	6	262	46	3	3	45	1.39
4170006--4170038	17	2.0	17	94	5	59	42	6	0	51	1.26
4170008--4170050	17	2.5	17	81	11	52	44	11	0	44	1.40
4171153--4171180	11	2.5	11	100	0	56	42	0	10	46	1.38
4171399--4171621	111	2.0	111	92	0	374	34	12	10	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4176711--4176748	9	4.0	10	86	10	53	84	2	0	13	0.73
4176830--4176867	11	3.4	11	88	3	58	0	47	0	52	1.00
4177328--4177398	3	23.3	3	71	8	54	29	1	7	61	1.30
4177340--4177401	23	2.8	22	85	4	72	30	1	9	58	1.40
4177335--4177409	23	3.1	23	77	12	62	30	2	10	56	1.48
4177428--4177471	22	2.0	22	82	8	54	27	4	2	65	1.23
4184843--4184867	12	2.1	12	100	0	50	40	12	0	48	1.40
4186854--4187092	50	4.6	50	83	4	264	21	29	23	25	1.99
4186853--4187102	100	2.4	104	86	6	339	22	29	22	26	1.99
4187197--4187228	13	2.5	13	94	0	55	56	12	0	31	1.37
4187440--4187497	30	1.9	30	89	0	89	31	24	3	41	1.71
4188059--4188103	5	8.4	5	87	7	54	60	0	0	40	0.97
4194247--4194419	69	2.5	68	82	6	190	27	16	22	33	1.95
4194438--4194606	69	2.5	68	88	6	243	26	16	24	32	1.96
4194247--4195165	190	4.7	194	76	15	870	27	16	21	34	1.95
4194628--4194886	71	3.5	74	86	7	361	30	16	20	32	1.95
4194773--4195133	129	2.8	129	79	13	370	27	15	22	34	1.94
4195106--4195344	82	2.8	84	85	6	286	28	17	19	34	1.95
4195267--4195531	72	3.6	72	91	4	397	33	16	18	31	1.93
4196701--4196734	8	4.1	8	96	3	59	85	0	0	14	0.60
4196833--4196870	18	2.1	18	90	0	58	0	50	0	50	1.00
4196837--4196869	11	2.9	12	91	8	52	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4197326--4197396	3	23.3	3	71	8	54	29	1	7	61	1.30
4197338--4197399	23	2.8	22	85	4	72	30	1	9	58	1.40
4197333--4197407	23	3.1	23	77	12	62	30	2	10	56	1.48
4197426--4197469	22	2.0	22	82	8	54	27	4	2	65	1.23
4216268--4216626	120	3.0	120	97	0	666	25	12	18	43	1.85
4218486--4218523	20	2.0	20	89	5	60	21	7	0	71	1.11
4218495--4218537	10	4.4	9	85	11	50	18	6	2	72	1.19
4236453--4236501	24	2.0	24	84	0	62	63	6	2	28	1.30
4236451--4236501	13	4.1	13	75	10	52	60	7	1	29	1.36
4236504--4236558	20	2.8	19	81	13	58	61	1	1	34	1.17

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