genome.fa.s16.2.7.7.80.10.50.1000.14.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  14  of  175  ( 20966 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)
4010345--4010394	3	16.7	3	100	0	100	66	0	0	34	0.92
4013420--4013455	4	8.8	4	87	6	54	0	22	2	75	0.94
4013419--4013454	13	2.8	13	91	4	56	0	22	2	75	0.94
4028550--4028582	16	2.1	16	100	0	66	27	30	18	24	1.98
4029436--4029545	55	2.0	55	81	8	127	19	27	25	28	1.98
4030320--4030360	18	2.4	17	87	4	55	53	17	9	19	1.70
4038681--4038830	41	3.7	41	89	0	228	24	27	18	29	1.98
4046458--4046556	41	2.4	41	88	1	137	25	23	11	40	1.87
4053518--4053788	36	7.2	36	67	8	137	22	19	23	33	1.97
4053522--4053861	76	4.5	75	82	4	341	22	19	23	33	1.97
4053558--4053768	36	5.5	40	68	12	138	22	19	23	34	1.96
4053923--4053980	24	2.4	24	91	2	89	50	3	27	18	1.63
4056419--4056461	11	4.0	11	84	6	61	20	46	4	27	1.71
4056418--4056460	21	2.0	21	90	4	68	20	46	2	30	1.63
4056993--4057084	36	2.6	36	94	0	157	28	20	16	34	1.94
4056993--4057085	18	5.2	18	89	0	141	27	21	16	34	1.95
4061133--4061175	11	4.0	11	84	6	61	20	46	4	27	1.71
4061132--4061174	21	2.0	21	90	4	68	20	46	2	30	1.63
4066548--4066581	15	2.3	15	89	0	50	5	11	11	70	1.32
4067735--4067777	11	4.0	11	84	3	61	30	2	46	20	1.63
4067735--4067777	21	2.0	21	90	4	68	30	2	46	20	1.63
4071824--4071916	18	5.2	18	86	0	132	35	16	20	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4080829--4080938	51	2.1	51	98	1	211	35	30	8	25	1.85
4089876--4089920	18	2.4	19	81	11	56	6	11	2	80	0.99
4090005--4090056	24	2.1	23	86	10	68	21	9	5	63	1.45
4091546--4091646	6	17.0	6	89	6	152	15	1	1	80	0.90
4095886--4095910	12	2.1	12	100	0	50	56	0	8	36	1.29
4100253--4100495	121	2.0	121	93	0	414	37	13	27	22	1.91
4101360--4101427	4	16.5	4	78	19	70	23	2	0	73	0.97
4101359--4101435	26	3.1	25	85	14	99	23	3	0	72	1.01
4104662--4104688	6	4.5	6	100	0	54	14	14	0	70	1.17
4105290--4105324	11	3.2	11	100	0	70	25	0	8	65	1.21
4105940--4105986	23	2.0	23	84	8	60	6	23	2	68	1.24
4107082--4107387	118	2.5	118	87	8	407	30	19	22	28	1.98
4108358--4108419	21	2.9	22	90	4	99	25	0	27	46	1.53
4108359--4108431	22	3.4	21	88	5	110	24	0	30	45	1.54
4108400--4108638	107	2.2	108	87	6	345	32	1	19	47	1.57
4108574--4108603	12	2.5	12	94	0	51	53	0	0	46	1.00
4108577--4108620	19	2.3	19	85	14	56	50	0	0	50	1.00
4109092--4109134	18	2.4	19	84	7	54	39	9	30	20	1.84
4110979--4111044	11	5.9	11	80	3	69	46	3	25	24	1.66
4111338--4111402	29	2.3	29	72	2	69	43	18	18	20	1.89
4111581--4111623	18	2.4	18	88	0	59	25	9	25	39	1.85
4112241--4112321	31	2.7	29	74	14	85	51	14	13	19	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4113355--4113395	16	2.4	17	84	8	57	53	4	0	41	1.22
4118586--4118621	18	1.9	19	88	5	56	55	19	0	25	1.43
4121087--4121467	190	2.0	190	88	1	566	35	21	13	30	1.91
4126833--4126926	3	31.3	3	71	16	61	29	7	0	62	1.22
4126847--4126926	39	2.1	38	82	15	96	32	6	0	61	1.21
4127100--4127152	5	10.6	5	80	8	54	18	3	3	73	1.14
4127373--4127412	12	3.2	12	82	3	53	42	0	0	57	0.98
4127373--4127415	11	3.7	11	84	9	50	39	0	0	60	0.97
4127446--4127484	2	19.5	2	84	10	53	43	5	0	51	1.24
4127745--4128174	108	3.9	108	86	4	578	28	17	19	34	1.94
4127739--4128149	216	1.9	221	89	3	652	29	16	19	34	1.94
4129610--4129646	3	12.3	3	88	11	58	64	0	0	35	0.94
4129613--4129662	21	2.6	21	84	12	63	66	2	0	32	1.03
4129918--4130022	52	2.0	54	92	3	178	11	20	3	64	1.41
4129990--4130022	14	2.4	14	85	14	50	3	9	0	87	0.63
4130130--4130242	21	5.4	20	86	6	120	38	13	9	38	1.77
4130153--4130242	21	4.4	21	91	2	139	36	12	11	40	1.78
4131004--4131549	48	11.1	48	75	11	337	33	20	23	23	1.97
4131069--4131549	48	9.8	48	76	11	356	32	19	23	23	1.98
4131069--4131549	96	4.9	99	78	6	430	32	19	23	23	1.98
4131034--4131541	149	3.5	146	79	6	395	31	19	24	24	1.98
4135792--4135859	31	2.2	31	82	12	86	26	7	2	63	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4136810--4136924	50	2.2	51	83	7	135	32	26	14	26	1.95
4136880--4137539	50	12.9	50	76	6	507	34	23	18	23	1.96
4136890--4137030	49	2.9	49	85	1	183	36	24	18	20	1.95
4136841--4137132	154	1.9	147	79	6	314	33	24	18	23	1.97
4136891--4137539	153	4.2	153	77	7	548	34	24	18	23	1.96
4140235--4140285	20	2.5	20	90	0	75	31	17	13	37	1.89
4140336--4140363	12	2.3	12	100	0	56	25	17	32	25	1.97
4140385--4140453	27	2.4	29	83	7	88	60	2	2	33	1.26
4140431--4140486	29	1.9	29	85	0	76	62	3	3	30	1.29
4140442--4140522	10	8.3	10	71	13	62	64	1	3	30	1.19
4140367--4140531	67	2.5	67	78	13	171	61	1	3	32	1.24
4140451--4140552	29	3.5	29	79	12	111	61	1	4	31	1.28
4147936--4147977	11	4.0	11	81	9	52	28	0	0	71	0.86
4148379--4148433	20	2.7	19	78	10	56	43	0	1	54	1.10
4148533--4148598	22	2.8	24	77	11	66	48	0	1	50	1.10
4157380--4157415	16	2.2	16	100	0	72	25	0	36	38	1.56
4157643--4157707	17	4.0	17	74	18	59	46	0	3	50	1.17
4157681--4157729	24	2.1	22	85	14	64	55	0	2	42	1.11
4157700--4157765	15	4.7	15	73	17	61	56	0	0	43	0.99
4157710--4157759	26	2.0	26	92	4	84	56	0	0	44	0.99
4173021--4173045	4	6.2	4	100	0	50	76	0	0	24	0.80
4173846--4173910	25	2.5	26	74	18	73	36	0	1	61	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4174005--4174033	2	14.5	2	100	0	58	48	0	0	51	1.00
4175670--4175754	38	2.3	37	83	2	98	54	7	3	35	1.45
4177242--4177327	9	9.4	9	73	20	63	39	0	0	60	0.97
4177273--4177314	20	2.0	21	90	4	68	47	0	0	52	1.00
4177255--4177332	38	2.0	39	85	7	106	46	0	0	53	1.00
4182002--4182064	31	2.0	31	100	0	126	57	23	3	15	1.53
4185020--4185063	22	2.0	22	100	0	88	31	9	13	45	1.75
4185284--4185331	24	2.0	24	92	4	80	64	14	4	16	1.43
4186509--4186547	18	2.2	17	86	13	53	33	0	20	46	1.51
4186774--4186840	22	3.0	23	97	2	127	17	23	26	31	1.97
4189319--4189382	30	2.1	30	97	0	119	43	6	18	31	1.75
4191512--4191802	43	6.8	43	86	3	340	26	31	17	24	1.97
4196233--4196257	13	1.9	13	100	0	50	56	0	44	0	0.99
4196876--4196938	21	3.0	22	77	9	60	36	38	0	25	1.56
4196949--4196998	20	2.4	21	80	3	57	32	50	4	14	1.61
4197582--4197695	41	2.8	41	89	0	183	28	31	20	20	1.97
4199512--4199578	9	7.4	9	91	0	107	44	22	7	25	1.78
4199674--4199725	18	2.8	18	82	2	59	21	1	36	40	1.64
4200132--4200171	21	2.0	21	95	5	73	62	10	0	27	1.27
4203949--4203983	18	1.9	18	88	11	54	62	0	5	31	1.18
4205690--4205720	13	2.4	13	100	0	62	6	35	6	51	1.53
4207821--4207859	20	2.0	20	85	10	53	58	2	0	38	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4209147--4210248	120	9.2	120	98	0	2080	43	1	6	47	1.39
4209957--4209991	18	2.0	17	88	5	52	45	0	0	54	0.99
4210197--4210231	18	2.0	17	88	5	52	45	0	0	54	0.99
4210396--4210481	44	1.9	45	85	2	120	36	29	6	27	1.83
4210467--4210535	16	4.2	16	88	3	111	36	36	1	26	1.66
4210467--4210535	33	2.1	32	91	2	111	36	36	1	26	1.66
4215447--4215513	28	2.5	27	83	9	75	47	0	1	50	1.10
4215466--4215576	19	5.7	19	67	15	66	37	0	5	56	1.22
4215469--4215586	59	2.0	59	100	0	236	37	0	8	54	1.31
4215459--4215557	20	5.0	20	68	7	76	40	0	6	53	1.26

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