genome.fa.s17.2.7.7.80.10.50.1000.68.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  68  of  185  ( 22116 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)
20180679--20180737	12	4.7	12	72	12	55	69	0	20	10	1.17
20184116--20184224	41	2.7	41	94	0	182	28	26	21	23	1.99
20185953--20185978	4	6.5	4	100	0	52	23	0	0	76	0.78
20190796--20190904	41	2.7	41	95	0	191	26	29	22	22	1.99
20195540--20195579	20	2.0	20	90	0	62	37	7	5	50	1.53
20205305--20205595	50	5.7	50	84	2	348	23	29	20	26	1.99
20211854--20211914	32	1.9	32	100	0	122	36	21	14	27	1.93
20219430--20219691	39	6.6	39	87	5	320	25	22	27	24	2.00
20239559--20239820	39	6.6	39	87	5	320	25	22	27	24	2.00
20247952--20248015	32	2.0	32	93	0	110	46	17	4	31	1.68
20250052--20250147	41	2.3	41	87	0	129	27	16	22	33	1.96
20259709--20259819	41	2.7	41	81	5	125	35	17	27	20	1.95
20262964--20262998	18	1.9	18	94	0	61	28	14	11	45	1.79
20265903--20265928	13	2.0	13	100	0	52	53	0	0	46	1.00
20275408--20275533	48	2.6	48	83	0	144	22	32	19	25	1.97
20278795--20278886	22	4.2	22	88	0	112	30	27	0	42	1.56
20278836--20278938	52	2.0	51	83	9	129	33	32	0	34	1.58
20278888--20278929	22	1.9	22	90	0	66	33	33	0	33	1.58
20278973--20279035	29	2.1	30	88	2	92	36	0	1	61	1.05
20279605--20279884	124	2.3	125	85	4	372	32	25	13	28	1.94
20281148--20281293	30	4.9	29	72	12	93	32	17	6	44	1.73
20281148--20281324	90	2.0	88	84	4	230	32	17	6	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20281880--20281953	23	3.7	19	78	16	78	79	4	14	1	0.94
20282042--20282129	4	21.5	4	72	23	51	71	1	27	0	0.93
20282045--20282104	17	3.5	17	81	2	57	70	1	28	0	0.97
20282917--20282973	19	3.1	19	85	10	82	43	8	10	36	1.70
20282917--20283001	17	4.8	17	81	11	73	34	9	12	43	1.75
20282925--20283062	18	7.7	18	75	14	108	30	13	12	44	1.80
20282917--20283045	35	3.7	34	83	6	134	32	12	11	43	1.78
20293720--20293759	8	4.9	8	84	3	53	85	10	2	2	0.80
20293720--20293766	24	2.0	25	91	8	80	85	8	4	2	0.81
20294636--20294913	77	3.6	77	91	2	443	29	16	20	34	1.94
20294918--20295309	81	5.0	81	88	4	586	28	17	20	34	1.95
20294918--20295309	158	2.5	157	90	2	606	28	17	20	34	1.95
20296429--20296467	14	2.7	14	92	4	60	74	7	15	2	1.15
20296443--20296492	20	2.3	22	86	10	68	78	4	16	2	1.00
20296584--20296636	4	12.2	4	81	15	61	73	0	26	0	0.83
20296584--20296651	18	3.9	18	78	14	72	72	0	27	0	0.85
20296589--20296681	32	2.9	32	80	13	104	73	0	26	0	0.84
20296584--20296650	22	3.0	22	81	16	77	73	0	26	0	0.84
20296587--20296681	7	12.4	7	73	15	55	73	0	26	0	0.83
20304407--20304450	23	1.9	23	86	9	63	36	13	9	40	1.76
20305199--20305230	3	10.7	3	93	0	55	68	3	0	28	1.04
20307460--20307547	44	2.0	44	100	0	176	38	27	11	22	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20308190--20308384	98	2.0	98	95	0	354	37	24	9	28	1.87
20309833--20309964	19	6.8	19	90	3	210	35	15	11	37	1.83
20309844--20309963	59	2.0	59	95	0	213	37	14	10	38	1.79
20310188--20310743	44	12.8	44	72	11	319	28	22	20	28	1.99
20310279--20310606	173	1.9	173	81	6	396	28	23	20	28	1.99
20310130--20310740	217	2.8	217	92	1	1008	27	22	20	28	1.99
20310820--20311005	44	4.2	44	65	10	119	24	25	21	27	1.99
20310728--20311116	132	2.9	132	95	0	688	24	25	21	29	1.99
20312379--20312427	12	4.0	12	89	5	71	2	0	12	85	0.68
20312379--20312426	7	7.4	7	82	15	59	2	0	10	87	0.62
20312379--20312426	19	2.5	19	87	9	71	2	0	10	87	0.62
20323980--20324420	40	11.1	40	93	1	715	24	26	19	29	1.98
20323980--20324860	120	7.5	120	87	6	1251	24	26	18	29	1.98
20324398--20324443	23	2.0	23	95	0	83	39	17	15	28	1.90
20324358--20324483	63	2.0	63	95	0	225	30	23	16	29	1.96
20324421--20324860	40	11.1	40	94	2	757	25	26	18	28	1.98
20324318--20324523	103	2.0	103	97	0	385	28	25	17	28	1.98
20324039--20324798	381	2.0	382	94	1	1346	25	26	18	29	1.98
20329794--20330018	40	5.7	40	81	5	197	26	27	20	25	1.99
20329950--20330027	40	1.9	41	82	10	97	26	28	20	24	1.99
20337743--20337872	40	3.3	39	86	3	163	26	27	20	25	1.99
20337857--20337934	40	1.9	41	82	10	97	26	28	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20340010--20340080	25	2.9	25	81	4	83	35	19	22	22	1.96
20349150--20349272	27	4.6	27	81	2	113	28	15	28	27	1.96
20349150--20349272	54	2.3	54	81	4	140	28	15	28	27	1.96
20365074--20365125	28	1.9	26	88	7	77	46	5	0	48	1.26
20383775--20383824	26	1.9	26	84	8	66	20	28	6	46	1.74
20385643--20385827	79	2.3	81	82	7	209	25	27	22	24	2.00
20385624--20385827	40	5.1	40	80	8	220	25	27	22	25	2.00
20399300--20399334	17	2.1	17	100	0	70	31	34	5	28	1.81
20399458--20399492	17	2.1	17	100	0	70	31	34	5	28	1.81
20399236--20399553	158	2.0	158	100	0	636	32	20	12	34	1.90
20404068--20404277	40	5.3	40	92	0	314	23	20	29	26	1.99
20411333--20411542	40	5.3	40	92	0	314	23	20	29	26	1.99
20415702--20415878	27	6.5	27	82	3	185	30	28	14	25	1.95
20417849--20417917	11	6.1	11	76	17	52	40	0	36	23	1.55
20433049--20433103	28	2.0	28	92	0	92	32	23	20	23	1.98
20433208--20433262	26	2.1	26	82	0	65	34	18	23	23	1.96
20433456--20433791	27	12.3	26	81	7	269	20	17	20	41	1.90
20433456--20433791	54	6.2	53	80	9	302	20	17	20	41	1.90
20433456--20433791	81	4.1	81	82	5	329	20	17	20	41	1.90
20433528--20433791	27	9.8	27	85	2	289	21	17	19	41	1.90
20436913--20437699	27	28.9	27	80	8	765	39	17	18	24	1.92
20437895--20437997	26	4.0	26	77	5	91	18	21	21	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20438102--20438180	30	2.6	30	91	0	131	20	25	24	30	1.98
20454267--20454786	27	19.3	27	82	3	487	42	19	18	19	1.89
20454267--20454786	81	6.4	81	81	3	564	42	19	18	19	1.89
20456323--20456352	13	2.3	13	100	0	60	26	0	23	50	1.50
20459504--20459557	27	2.0	27	100	0	108	22	14	14	48	1.81
20461055--20461244	50	3.7	50	77	7	166	25	26	20	27	1.99
20461570--20461604	17	2.1	17	100	0	70	45	14	5	34	1.68
20467795--20467928	50	2.7	50	86	0	151	21	32	21	24	1.98
20479160--20479337	27	6.6	27	84	3	205	29	28	15	26	1.96
20479181--20479336	82	1.9	81	88	3	233	29	28	15	26	1.96
20494978--20495021	22	2.0	22	95	0	79	25	36	4	34	1.76
20497374--20497598	79	2.8	78	81	10	258	25	26	21	26	2.00
20497374--20497598	119	1.9	120	81	9	282	25	26	21	26	2.00
20497374--20497598	40	5.7	39	83	8	235	25	26	21	26	2.00
20505300--20505523	40	5.6	39	87	4	263	25	26	21	26	2.00
20505300--20505523	79	2.8	79	82	11	260	25	26	21	26	2.00
20511300--20511399	50	2.0	50	80	3	112	30	19	14	37	1.90
20522477--20522509	11	3.0	11	100	0	66	18	18	9	54	1.69
20529940--20530045	40	2.7	40	81	0	140	16	30	16	35	1.92
20540277--20540477	41	4.9	41	76	0	186	26	28	13	31	1.94
20540392--20540460	21	3.3	21	70	11	70	23	33	14	28	1.94
20546408--20546445	5	7.8	5	94	2	60	0	2	13	84	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20549269--20549302	16	2.2	15	89	5	50	50	2	0	47	1.16
20564262--20564446	79	2.3	82	84	7	238	25	27	22	24	2.00
20564243--20564446	40	5.1	40	82	8	238	25	26	23	25	2.00
20572352--20572536	79	2.3	82	84	7	238	25	27	22	24	2.00
20572333--20572536	40	5.1	40	82	8	238	25	26	23	25	2.00
20587240--20587432	43	4.5	43	89	1	289	25	33	16	25	1.96
20587240--20587427	85	2.2	86	91	0	297	25	32	15	25	1.96
20592332--20592373	21	2.0	21	86	9	59	28	45	0	26	1.54
20592406--20592438	14	2.3	15	94	5	59	36	36	0	27	1.57
20592862--20593091	41	5.6	41	81	2	219	28	26	23	22	1.99

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