genome.fa.s25.2.7.7.80.10.50.1000.168.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  168  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)
49507180--49507214	18	2.1	17	89	10	54	42	11	2	42	1.55
49509059--49509099	8	5.0	8	82	5	55	80	0	0	19	0.71
49511598--49511644	19	2.5	19	86	6	60	27	19	8	44	1.79
49514474--49514515	7	6.0	7	81	18	52	69	0	16	14	1.20
49514474--49514515	21	2.0	21	86	9	59	69	0	16	14	1.20
49515791--49516601	44	18.4	44	81	6	811	30	14	23	31	1.94
49525408--49525731	106	3.1	104	84	8	410	26	0	14	58	1.40
49525551--49525716	53	3.1	53	65	16	135	24	0	16	59	1.37
49525977--49526029	21	2.5	22	78	3	54	32	5	7	54	1.52
49528193--49528296	48	2.2	47	87	3	145	48	8	11	31	1.70
49528951--49529002	26	2.0	26	96	0	95	46	9	19	25	1.80
49533346--49533475	42	3.1	42	78	4	136	45	18	18	17	1.86
49534839--49534874	11	3.4	11	92	3	56	69	2	0	27	1.02
49534909--49534947	17	2.2	18	86	4	53	61	15	0	23	1.33
49534896--49534944	19	2.5	20	78	18	59	63	18	0	18	1.32
49534837--49535041	113	1.8	114	88	3	315	60	12	0	25	1.39
49534837--49535094	113	2.3	108	82	8	299	60	12	1	25	1.38
49541682--49542014	27	12.4	27	78	3	307	20	19	19	40	1.91
49545511--49545567	19	3.3	19	68	27	63	50	14	10	24	1.73
49545508--49545572	32	2.0	32	100	0	130	46	15	12	26	1.81
49545877--49546015	72	1.9	72	94	0	242	33	25	10	30	1.89
49547142--49547234	38	2.5	38	79	10	93	75	4	15	5	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49547160--49547234	39	1.9	39	83	2	98	76	2	17	4	1.06
49554806--49554898	12	7.8	12	69	25	65	70	3	21	4	1.18
49563353--49563406	25	2.3	25	75	18	62	53	7	3	35	1.47
49568426--49568460	18	1.9	18	88	0	52	31	22	20	25	1.98
49568763--49568827	34	1.9	34	84	6	87	32	13	13	40	1.85
49569357--49569384	8	3.5	8	100	0	56	25	0	0	75	0.81
49575907--49575944	19	2.0	19	94	0	67	21	7	15	55	1.66
49578407--49578440	17	1.9	18	88	5	52	11	5	23	58	1.55
49587850--49587887	19	1.9	21	89	10	62	39	0	5	55	1.23
49587850--49587895	19	2.5	19	83	16	53	34	0	4	60	1.16
49587969--49588013	21	2.1	21	84	15	58	46	0	4	48	1.22
49588943--49589048	47	2.3	47	88	0	167	27	23	11	37	1.89
49597583--49598135	47	11.7	47	92	3	880	33	8	28	29	1.87
49597583--49598135	234	2.3	236	90	3	864	33	8	28	29	1.87
49604209--49604322	43	2.7	43	94	0	192	28	15	23	32	1.95
49606284--49606352	31	2.3	31	87	12	108	39	8	13	39	1.75
49606287--49606359	29	2.5	28	84	8	76	39	9	10	39	1.73
49609308--49609334	12	2.2	12	100	0	54	62	0	7	29	1.22
49609355--49609426	29	2.4	29	86	6	92	27	5	0	66	1.13
49609394--49609487	19	4.8	19	72	12	73	37	4	0	58	1.18
49609402--49609448	22	2.2	20	82	14	51	38	2	0	59	1.09
49609433--49609488	18	2.9	20	82	12	64	35	3	0	60	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49612407--49612437	11	2.8	11	90	0	53	16	12	0	70	1.16
49613514--49613571	30	1.9	30	96	0	107	29	34	0	36	1.58
49613543--49613593	22	2.3	22	93	6	86	29	35	0	35	1.58
49613628--49613693	32	2.1	31	97	2	123	33	0	0	66	0.92
49614895--49614969	25	3.2	25	78	18	106	45	16	8	30	1.75
49614912--49614980	18	3.3	18	70	30	57	44	14	5	34	1.69
49614916--49614984	20	3.2	20	77	18	84	43	14	5	36	1.70
49614895--49614984	45	2.0	45	100	0	180	44	15	6	33	1.73
49615334--49615437	41	2.5	41	90	0	154	28	24	21	25	1.99
49617648--49617680	7	4.7	7	100	0	66	27	0	12	60	1.32
49618891--49619188	30	9.7	30	76	15	295	45	26	0	27	1.56
49618912--49618956	24	1.9	23	86	4	63	46	24	0	28	1.53
49618892--49619188	59	4.8	60	79	16	329	45	25	0	27	1.56
49618936--49619021	41	2.1	42	93	2	147	43	31	0	25	1.55
49618906--49619051	71	2.1	70	89	7	224	44	28	0	26	1.55
49618891--49619170	100	2.9	98	85	12	393	45	26	0	27	1.57
49619078--49619131	23	2.3	23	96	0	99	46	24	1	27	1.63
49620227--49620505	123	2.3	124	96	1	517	32	20	16	31	1.94
49626140--49626166	13	2.1	13	100	0	54	48	0	22	29	1.51
49626513--49626587	18	4.1	18	73	20	50	61	2	1	34	1.18
49627729--49627770	22	2.0	21	85	4	57	42	2	0	54	1.13
49632078--49632133	21	2.7	21	85	0	85	25	8	35	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49632301--49632452	29	5.2	29	86	4	216	36	11	1	50	1.50
49632302--49632452	59	2.6	58	88	4	214	37	11	1	49	1.50
49634513--49634547	11	3.1	12	88	12	56	48	0	51	0	1.00
49635628--49636135	88	5.8	90	77	5	464	28	25	16	28	1.97
49635623--49636135	132	3.9	132	95	0	873	29	25	16	28	1.97
49636145--49637212	134	8.0	134	92	1	1687	29	23	20	27	1.99
49636999--49637360	44	8.1	46	70	8	169	29	25	17	27	1.97
49638824--49638894	11	6.5	10	71	15	52	5	9	5	78	1.07
49638840--49638906	11	5.7	11	75	10	53	4	11	4	79	1.03
49638830--49638908	23	3.4	23	78	11	74	5	11	7	75	1.16
49638842--49638893	22	2.3	22	86	3	68	5	11	3	78	1.05
49638840--49638907	24	2.9	24	80	10	79	4	11	5	77	1.08
49638873--49638907	12	2.9	12	91	0	61	0	14	8	77	0.99
49640192--49640308	62	1.9	62	90	0	189	29	7	24	37	1.83
49643269--49643303	11	3.1	12	88	12	56	48	0	51	0	1.00
49643913--49643950	6	6.2	6	93	6	67	15	47	0	36	1.46
49645272--49645320	23	2.1	23	85	14	66	51	8	0	40	1.32
49655471--49655515	20	2.3	20	80	3	56	46	17	2	33	1.61
49664571--49664611	21	2.0	21	90	0	64	14	21	19	43	1.87
49668689--49668890	46	4.3	46	82	7	251	36	13	20	29	1.92
49668669--49668874	98	2.1	98	99	0	403	33	14	21	29	1.93
49668787--49668965	37	4.3	44	82	12	156	36	14	21	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49668855--49668963	37	3.0	37	91	2	177	36	16	22	24	1.94
49670215--49670382	58	3.0	58	87	10	237	22	13	30	33	1.92
49670234--49670324	28	3.2	28	66	22	80	25	15	31	27	1.95
49670275--49670417	49	2.9	49	93	0	232	23	13	30	32	1.94
49673560--49673761	46	4.3	46	82	7	251	36	13	20	29	1.92
49673540--49673745	98	2.1	98	99	0	403	33	14	21	29	1.93
49673658--49673836	37	4.3	44	82	12	156	36	14	21	27	1.92
49673726--49673834	37	3.0	37	91	2	177	36	16	22	24	1.94
49683433--49683466	4	8.5	4	100	0	68	26	0	23	50	1.50
49687979--49688023	19	2.3	21	81	14	60	51	0	2	46	1.13
49688730--49688929	86	2.3	86	79	5	235	37	20	10	32	1.85
49688932--49688983	9	5.5	10	77	8	56	71	0	1	26	0.97
49689189--49689280	29	3.2	30	77	11	104	36	2	2	58	1.22
49689255--49689305	17	3.0	17	73	18	52	39	1	0	58	1.09
49689326--49689547	88	2.5	89	81	5	263	29	9	22	38	1.85
49692487--49692514	2	14.0	2	100	0	56	0	50	0	50	1.00
49694024--49694206	60	3.1	60	76	7	185	40	20	15	22	1.90
49696415--49696456	17	2.5	17	100	0	84	28	26	23	21	1.99
49696415--49696465	17	3.1	16	91	5	68	27	23	25	23	2.00
49703261--49703313	19	2.8	19	81	13	56	58	0	0	41	0.98
49710767--49710796	15	2.1	15	93	6	53	46	0	6	46	1.29
49712151--49712178	14	2.0	14	100	0	56	7	14	42	35	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49717272--49717303	14	2.3	14	100	0	64	6	15	46	31	1.71
49718236--49718497	93	2.8	91	78	2	272	45	14	11	29	1.79
49721063--49721102	21	1.9	21	85	10	55	67	5	5	22	1.30
49721259--49721285	6	4.5	6	100	0	54	18	62	0	18	1.32
49725344--49726471	374	3.0	374	98	0	2202	31	19	15	34	1.93
49729627--49729688	6	9.7	6	74	19	54	27	1	3	67	1.15
49729632--49729688	20	2.8	20	72	15	55	28	1	3	66	1.18
49729626--49729688	27	2.4	26	76	10	67	26	1	3	68	1.14
49729627--49729689	26	2.4	27	76	10	69	26	1	3	68	1.14
49732512--49732544	14	2.5	13	90	9	57	84	0	0	15	0.61

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