genome.fa.s17.2.7.7.80.10.50.1000.129.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  129  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)
40281404--40281444	22	1.9	21	90	5	64	48	0	0	51	1.00
40281447--40281532	11	8.6	10	69	18	63	50	1	1	47	1.16
40281447--40281532	21	4.3	20	70	18	63	50	1	1	47	1.16
40281439--40281504	26	2.5	26	76	9	73	54	1	1	42	1.18
40281504--40281553	17	2.9	18	80	14	61	44	0	0	56	0.99
40281537--40281566	10	3.0	10	95	0	51	53	0	0	46	1.00
40281761--40281803	22	2.0	22	90	0	68	9	18	27	44	1.80
40281969--40282050	43	1.9	43	84	0	110	21	20	29	28	1.98
40282034--40282367	43	7.8	41	77	11	250	28	30	18	23	1.97
40282055--40282367	85	3.7	83	80	11	296	29	30	18	21	1.97
40282019--40282367	128	2.7	127	82	4	407	28	29	18	22	1.98
40282398--40282478	41	2.0	41	97	0	153	53	13	9	23	1.70
40282763--40282854	21	4.4	21	85	0	94	4	42	17	35	1.69
40282825--40282995	66	2.6	65	85	4	209	12	25	19	41	1.87
40285595--40285638	16	2.8	16	85	0	61	36	0	15	47	1.46
40285606--40285745	25	5.7	25	70	9	99	36	1	18	43	1.59
40285663--40285795	9	15.7	9	70	14	86	37	1	18	42	1.59
40285667--40285717	16	3.1	16	88	5	75	33	1	21	43	1.64
40285663--40285829	25	6.6	26	68	17	82	38	1	16	43	1.58
40285663--40285801	34	4.1	34	70	18	101	38	1	17	43	1.58
40285783--40286568	31	26.2	30	80	10	706	39	2	10	47	1.53
40285783--40286568	180	4.4	178	88	6	949	39	2	10	47	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40286089--40286133	22	2.0	22	95	0	81	42	0	11	46	1.39
40286300--40286344	22	2.0	22	95	0	81	42	0	11	46	1.39
40286220--40286566	56	6.0	56	86	7	426	39	2	10	46	1.52
40286412--40286519	22	5.1	21	72	17	66	38	1	12	47	1.52
40289404--40289472	35	2.0	36	86	11	99	37	0	7	55	1.28
40289645--40289675	16	1.9	16	93	0	53	29	51	0	19	1.47
40291140--40291177	15	2.5	15	83	8	51	36	39	0	23	1.55
40291692--40292051	41	8.8	41	82	2	303	34	25	25	15	1.95
40291752--40292051	123	2.4	121	83	2	357	35	25	24	14	1.94
40292108--40292206	40	2.5	40	80	6	112	20	29	21	29	1.98
40294709--40294762	19	2.8	19	94	0	99	37	9	16	37	1.81
40294698--40294769	38	2.0	36	84	10	94	37	9	16	36	1.82
40294709--40294785	38	1.9	40	87	10	113	36	7	16	38	1.78
40300325--40300389	5	13.2	5	81	15	55	33	0	6	60	1.22
40300350--40300389	15	2.7	15	84	0	62	30	0	10	60	1.30
40304405--40304474	5	14.2	5	82	14	83	42	0	0	57	0.99
40306954--40306986	14	2.3	15	89	5	50	27	12	33	27	1.92
40308313--40308500	88	2.1	88	92	0	304	27	25	24	22	2.00
40308361--40308499	44	3.2	44	63	4	109	26	23	25	24	2.00
40308519--40308880	88	4.2	88	82	7	416	26	27	23	23	2.00
40308866--40308989	44	2.8	44	83	6	144	28	18	24	29	1.98
40309353--40309780	44	9.9	43	70	10	237	29	20	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40309338--40309777	217	2.0	218	90	0	693	29	20	23	26	1.99
40309359--40309824	217	2.1	217	86	1	639	30	20	22	27	1.98
40310316--40310416	19	5.4	19	86	2	80	35	9	15	38	1.81
40310327--40310441	19	5.8	19	83	7	149	35	7	17	39	1.79
40310625--40310669	23	2.0	23	81	0	54	22	0	15	62	1.33
40315554--40315644	41	2.2	41	80	0	101	42	14	24	18	1.87
40315574--40315690	41	2.9	40	82	3	117	42	15	22	19	1.88
40318086--40318216	39	3.3	37	75	15	120	31	18	25	24	1.97
40318103--40318217	39	2.9	39	85	2	160	33	18	24	24	1.97
40318105--40318236	39	3.4	38	79	9	133	34	20	24	21	1.97
40318285--40318363	42	1.9	42	86	2	115	24	16	29	30	1.96
40318290--40318392	41	2.5	41	82	1	116	27	19	27	26	1.99
40318861--40318930	28	2.4	29	83	2	79	20	1	32	45	1.60
40318856--40318909	7	7.6	7	83	8	65	20	0	27	51	1.47
40319025--40319071	7	6.7	7	85	0	67	17	0	36	46	1.48
40319020--40319071	14	3.7	14	89	0	77	19	0	32	48	1.49
40319032--40319080	21	2.3	21	85	0	62	20	0	34	44	1.52
40323501--40323630	43	3.0	43	87	1	161	22	16	31	29	1.96
40323955--40324123	56	3.1	58	77	18	159	45	15	2	36	1.60
40324021--40324104	9	9.6	9	84	7	93	48	17	0	33	1.48
40323965--40324104	65	2.2	61	88	7	201	46	16	1	35	1.56
40324030--40324129	43	2.3	42	88	6	139	50	15	0	35	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40324091--40324155	25	2.7	25	83	6	73	55	7	3	33	1.44
40329664--40329792	66	2.0	65	83	6	161	42	17	26	13	1.86
40330091--40330187	43	2.3	43	83	3	115	28	21	23	25	1.99
40330154--40330297	43	3.4	42	70	11	103	22	14	29	34	1.93
40338603--40338640	16	2.2	18	86	9	53	28	21	0	50	1.49
40339878--40339939	20	3.1	20	95	0	106	41	14	8	35	1.75
40343308--40343346	19	2.1	19	85	9	53	35	12	10	41	1.77
40344284--40344324	22	1.9	21	85	14	57	63	7	19	9	1.48
40347247--40347288	20	2.1	20	100	0	84	54	19	14	11	1.70
40351284--40351326	21	2.0	21	100	0	86	34	23	23	18	1.96
40351192--40351408	113	1.9	113	84	5	287	35	25	15	22	1.94
40351305--40351574	92	2.9	91	78	4	285	35	24	13	25	1.93
40356395--40356453	16	3.6	16	73	20	50	8	11	1	77	1.05
40356386--40356428	21	2.0	21	82	8	52	9	11	0	79	0.95
40356389--40356453	6	10.8	6	82	9	62	7	12	1	78	1.02
40363691--40363996	92	3.3	91	84	1	405	33	26	14	25	1.94
40379675--40379726	23	2.3	20	78	18	50	59	3	3	32	1.33
40379684--40379730	21	2.1	23	85	14	64	63	2	4	29	1.25
40383987--40384026	17	2.4	17	95	0	71	17	37	22	22	1.94
40384486--40384536	25	2.0	25	84	3	66	13	27	35	23	1.93
40386827--40386875	20	2.5	19	80	9	53	51	2	8	38	1.43
40388644--40388787	25	5.9	25	74	5	116	31	22	26	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40388744--40388789	24	1.9	24	86	0	65	30	28	28	13	1.94
40388724--40388860	72	1.9	73	81	4	170	30	23	26	19	1.98
40389336--40389379	5	8.6	5	85	5	61	40	18	0	40	1.50
40397146--40397201	4	14.0	4	78	14	62	75	3	0	21	0.96
40397146--40397201	22	2.5	22	88	5	78	75	3	0	21	0.96
40397141--40397196	18	3.2	18	82	10	71	76	3	0	19	0.93
40397655--40397694	19	2.2	19	90	4	64	77	5	0	17	0.94
40397163--40398136	493	2.0	493	94	1	1709	37	19	12	30	1.89
40403308--40403362	24	2.3	24	81	6	67	34	9	20	36	1.84
40403356--40403428	24	3.0	24	86	7	96	28	5	15	50	1.66
40403504--40403566	27	2.4	27	85	15	87	19	25	22	33	1.97
40403522--40403574	27	2.0	27	81	7	63	24	24	20	30	1.99
40405223--40405289	27	2.5	27	90	0	107	37	19	19	23	1.94
40424490--40424520	16	1.9	16	93	0	53	3	22	6	67	1.28
40427870--40428049	39	4.6	39	85	0	216	30	3	21	44	1.68
40428770--40428864	42	2.3	42	90	0	154	30	15	18	34	1.93
40428797--40428865	20	3.3	20	69	15	59	28	14	18	37	1.91
40430993--40431139	73	2.0	73	93	2	251	37	23	13	25	1.92
40440986--40441010	11	2.3	11	100	0	50	72	0	0	28	0.86
40441149--40441186	18	2.1	19	85	14	53	36	2	23	36	1.69
40445432--40445470	15	2.6	15	83	0	51	51	0	2	46	1.14
40449386--40449422	18	2.1	18	94	0	65	45	2	10	40	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40451494--40451574	3	26.0	3	74	18	60	69	2	2	25	1.14
40451498--40451574	30	2.6	28	75	18	68	70	2	2	24	1.13
40451498--40451574	19	4.0	20	69	17	65	70	2	2	24	1.13
40474733--40474806	27	2.7	27	87	0	94	33	12	24	29	1.91
40477978--40478013	6	6.0	6	86	0	54	38	0	11	50	1.38
40477978--40478013	18	2.0	18	100	0	72	38	0	11	50	1.38
40478748--40478784	8	4.6	8	87	12	58	10	0	0	89	0.49
40478748--40478784	16	2.4	15	95	4	65	10	0	0	89	0.49
40479370--40479410	22	1.9	21	85	5	55	31	2	0	65	1.05
40491215--40491415	45	4.6	44	76	6	187	30	18	25	24	1.98

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