genome.fa.s20.2.7.7.80.10.50.1000.28.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  28  of  199  ( 23844 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)
9130761--9131019	101	2.7	100	83	10	317	30	1	13	55	1.45
9130914--9131040	27	5.0	26	78	16	151	31	0	12	55	1.43
9130914--9131036	49	2.5	50	90	1	203	30	0	13	55	1.44
9130778--9131019	19	12.5	19	70	20	146	30	1	12	55	1.44
9131081--9131202	60	2.0	60	84	3	156	31	0	13	53	1.46
9131242--9131317	37	2.1	37	100	0	152	55	2	2	39	1.28
9135092--9135134	22	1.9	23	90	4	70	0	27	2	69	1.00
9135093--9135145	20	2.7	19	85	5	61	1	26	1	69	1.09
9135087--9135145	22	2.6	23	81	13	68	3	27	1	67	1.16
9139764--9139793	7	4.4	7	95	4	53	16	10	0	73	1.09
9139755--9139793	14	3.1	13	89	10	55	15	10	0	74	1.07
9141574--9141608	6	5.8	6	86	0	52	17	0	5	77	0.96
9141575--9141620	18	2.7	17	83	6	58	15	0	8	76	1.02
9147586--9147613	12	2.3	12	100	0	56	7	21	28	42	1.79
9160778--9160823	21	2.2	21	84	3	58	39	2	21	36	1.66
9160789--9160836	20	2.3	21	89	3	71	27	2	22	47	1.62
9165316--9165361	3	15.3	3	81	0	56	32	8	0	58	1.28
9166669--9166716	25	1.9	25	83	8	62	39	0	0	60	0.97
9167508--9167547	3	13.0	3	84	5	53	0	32	2	65	1.06
9175755--9175784	13	2.3	13	100	0	60	33	33	10	23	1.88
9177709--9177764	25	2.2	25	83	0	76	39	17	23	19	1.92
9177709--9177814	50	2.1	49	79	5	115	35	17	26	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9177725--9177829	25	4.2	24	78	7	95	34	17	27	20	1.95
9177760--9177838	24	3.2	24	80	3	77	32	16	27	22	1.96
9178982--9179156	13	13.2	13	69	10	77	38	20	2	39	1.65
9178971--9179120	40	3.8	40	78	3	158	38	19	2	40	1.63
9179085--9179134	14	3.6	14	74	15	50	30	18	4	48	1.66
9178982--9179155	27	6.5	27	68	9	81	37	20	2	39	1.65
9179312--9179458	13	11.1	13	68	9	82	37	18	2	42	1.62
9179294--9179458	40	4.1	40	82	1	188	37	18	2	41	1.64
9179285--9179406	27	4.5	28	69	7	74	37	22	1	38	1.64
9179285--9179444	80	2.0	80	86	0	221	37	20	3	39	1.68
9181878--9181909	12	2.6	13	85	14	50	56	0	31	12	1.37
9184315--9184373	20	3.1	18	74	13	55	38	6	0	54	1.27
9186055--9186097	19	2.3	18	92	4	68	74	6	6	11	1.21
9187238--9187270	12	2.8	12	86	13	50	27	0	0	72	0.85
9203002--9203036	18	1.9	18	100	0	70	11	28	0	60	1.32
9206327--9206610	59	4.7	58	67	18	150	43	2	4	49	1.36
9206320--9206610	120	2.4	122	89	4	462	43	2	4	49	1.35
9206554--9206590	19	2.0	19	85	15	51	45	0	0	54	1.00
9206826--9206861	16	2.2	16	95	0	63	38	33	0	27	1.57
9209526--9209582	21	2.5	24	72	18	68	36	10	0	52	1.36
9209553--9209594	15	2.8	15	85	7	50	40	9	2	47	1.49
9209523--9209582	17	4.1	15	70	20	54	36	11	0	51	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9213833--9213869	6	6.2	6	90	9	58	13	0	0	86	0.57
9213835--9213869	13	2.8	13	95	4	63	11	0	0	88	0.51
9213833--9213869	19	2.0	18	94	5	65	13	0	0	86	0.57
9214310--9214360	6	8.2	6	79	16	50	74	0	3	21	0.98
9219703--9219806	44	2.3	44	79	6	120	36	1	5	55	1.35
9219728--9219780	17	3.2	16	82	12	54	43	0	1	54	1.11
9226286--9226384	47	2.1	47	88	7	146	23	22	22	32	1.98
9231929--9232412	45	10.8	45	80	0	538	30	18	25	26	1.98
9231929--9232412	90	5.4	90	89	2	670	30	18	25	26	1.98
9231929--9232412	135	3.6	135	83	0	637	30	18	25	26	1.98
9232436--9232543	44	2.5	44	89	0	171	32	18	22	26	1.97
9234366--9234431	27	2.4	27	80	9	82	40	10	0	48	1.38
9234387--9234452	21	3.3	19	79	8	60	40	10	1	46	1.47
9236241--9236424	63	2.9	62	79	4	190	35	31	8	25	1.85
9245736--9245762	8	3.4	8	100	0	54	33	0	11	55	1.35
9245923--9245974	26	2.0	26	88	0	77	44	1	3	50	1.31
9245951--9245995	21	2.1	21	83	0	54	44	4	4	46	1.43
9247578--9247708	9	13.6	10	68	17	64	66	3	3	27	1.21
9247578--9247611	17	1.9	17	88	5	50	76	2	0	20	0.92
9247634--9247708	20	3.7	21	82	10	77	68	1	4	26	1.16
9247644--9247689	11	4.3	11	78	10	51	69	0	6	23	1.11
9247675--9247719	19	2.3	19	85	11	56	64	6	4	24	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9247824--9247854	16	2.0	16	93	6	55	70	9	0	19	1.14
9252519--9252612	37	2.5	35	79	14	91	30	23	2	43	1.65
9253650--9253692	22	2.0	22	95	0	77	9	20	27	41	1.83
9253880--9254108	43	5.3	43	76	9	207	27	29	18	24	1.98
9253840--9254108	86	3.1	86	85	4	337	26	29	18	24	1.98
9254445--9254536	21	4.4	21	88	0	103	5	42	17	34	1.72
9254507--9254653	66	2.2	66	85	4	190	12	28	18	40	1.88
9254507--9254676	66	2.6	66	83	3	182	12	27	18	40	1.88
9260105--9260221	16	7.8	16	66	25	67	33	2	18	45	1.63
9260116--9260188	25	2.7	25	81	10	74	34	2	16	46	1.61
9260173--9260888	9	81.7	9	67	21	83	39	2	12	45	1.55
9260244--9260324	34	2.4	34	100	0	162	45	2	13	38	1.57
9260310--9260355	16	2.9	16	96	0	83	32	0	21	45	1.52
9260527--9260737	22	10.1	22	69	22	107	39	2	10	47	1.51
9260494--9261076	65	9.2	64	78	15	470	40	2	10	46	1.51
9260699--9260752	22	2.3	22	87	9	72	40	1	11	46	1.50
9260676--9261057	56	6.7	56	81	15	446	40	2	10	47	1.49
9260335--9261192	221	3.9	216	82	12	976	40	1	11	46	1.51
9260748--9261023	22	13.1	22	66	26	82	40	2	10	46	1.52
9260929--9261114	9	19.6	9	69	23	73	38	0	10	50	1.40
9260873--9261085	103	2.1	100	95	3	363	40	0	9	48	1.43
9260873--9261142	103	2.6	101	86	8	359	41	0	10	47	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9266014--9266333	41	7.8	41	78	8	269	34	25	23	16	1.95
9266014--9266333	82	3.9	82	80	7	303	34	25	23	16	1.95
9266013--9266333	123	2.6	119	81	9	335	34	25	23	17	1.96
9266741--9266771	15	2.1	14	94	5	53	61	0	0	38	0.96
9269210--9269247	18	2.3	16	86	13	51	36	13	21	28	1.91
9269214--9269250	18	2.1	18	100	0	74	32	10	21	35	1.88
9279415--9279462	24	2.0	25	87	4	71	52	0	10	37	1.36
9279569--9279602	15	2.3	15	89	0	50	50	0	2	47	1.16
9285312--9285356	23	2.0	22	82	4	54	44	2	2	51	1.26
9286248--9286303	29	1.9	29	88	0	85	25	16	39	19	1.91
9291057--9291288	125	1.9	125	88	1	358	49	21	4	23	1.68
9292034--9292086	25	2.2	24	83	10	63	69	3	18	7	1.28
9292232--9292272	19	2.2	19	86	8	57	41	2	0	56	1.13
9304953--9304992	20	2.0	20	90	0	62	27	10	12	50	1.72
9304938--9305004	34	1.9	35	90	3	109	31	8	13	46	1.74
9304932--9305008	14	5.0	15	71	20	52	33	9	14	42	1.77
9319808--9319865	6	9.7	6	98	0	107	36	13	0	50	1.42
9334144--9334186	15	2.8	15	78	3	50	72	2	18	6	1.19
9334972--9335191	88	2.5	86	78	11	223	30	26	14	28	1.95
9334956--9335187	44	5.3	44	74	8	186	29	26	14	29	1.95
9335202--9335517	110	3.0	106	83	8	389	30	13	14	40	1.85
9342247--9342321	29	2.7	29	76	21	79	26	13	10	49	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9357244--9357310	7	8.7	7	72	18	53	34	1	1	62	1.13
9357244--9357307	24	2.7	22	79	13	74	35	1	1	60	1.15
9363249--9363307	21	2.8	20	80	14	57	54	3	1	40	1.27
9363289--9363356	11	6.4	11	74	17	54	61	0	2	35	1.11
9363280--9363374	41	2.3	40	92	3	163	66	0	2	31	1.04
9365690--9365741	3	17.3	3	76	7	52	36	3	1	57	1.28
9365690--9365741	24	2.2	24	86	6	70	36	3	1	57	1.28
9367779--9367820	19	2.2	19	83	8	50	28	21	9	40	1.84
9370649--9370711	7	8.7	7	81	11	74	68	0	19	12	1.21
9370659--9370718	28	2.1	28	87	6	86	68	0	18	13	1.21

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