genome.fa.s17.2.7.7.80.10.50.1000.86.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  86  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)
26802631--26802670	21	1.9	21	84	0	53	30	12	20	37	1.89
26804303--26804337	18	1.9	18	88	0	52	68	0	22	8	1.16
26820880--26820914	17	2.1	17	89	10	54	60	0	0	40	0.97
26821737--26821797	31	1.9	32	87	9	90	29	14	9	45	1.77
26822089--26822119	7	4.4	7	100	0	62	61	0	0	38	0.96
26822078--26822258	9	20.4	9	76	13	78	63	1	0	34	1.06
26822133--26822213	19	4.4	17	79	16	74	58	2	1	38	1.20
26822143--26822304	27	5.9	27	71	22	95	62	1	1	35	1.11
26822109--26822303	65	3.1	63	78	13	154	62	1	1	34	1.14
26822154--26822279	18	6.8	19	74	9	91	64	0	0	35	0.94
26822219--26822267	9	5.3	9	88	11	73	77	0	0	22	0.77
26822154--26822279	37	3.4	38	74	9	109	64	0	0	35	0.94
26822850--26822897	26	1.9	26	87	8	73	27	2	2	68	1.11
26822858--26822987	26	4.8	28	68	15	69	30	1	3	64	1.20
26822944--26822991	19	2.5	19	75	0	51	29	0	4	66	1.10
26826703--26826746	22	2.0	22	95	0	79	40	22	20	15	1.90
26836628--26836682	20	2.7	20	80	11	58	74	3	7	14	1.17
26846750--26851516	516	9.5	486	85	7	6142	35	19	8	36	1.83
26850243--26851516	517	2.5	516	93	1	2167	34	20	8	36	1.84
26852877--26852955	37	2.1	37	88	0	113	25	30	18	25	1.98
26853073--26853391	47	6.7	47	97	1	557	30	29	8	31	1.87
26853273--26853353	22	3.5	23	66	11	67	30	28	9	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26853251--26853378	25	5.4	24	62	11	75	32	27	6	33	1.82
26856898--26857134	40	5.9	40	88	0	312	25	27	22	25	2.00
26856913--26857213	80	3.8	80	83	2	320	24	27	22	25	2.00
26856885--26857213	120	2.7	120	81	3	322	25	27	22	24	2.00
26856913--26857213	40	7.5	40	84	3	267	24	27	22	25	2.00
26857521--26857599	29	2.7	29	86	5	106	27	32	15	24	1.95
26857581--26857683	43	2.4	43	100	0	206	26	35	15	22	1.94
26859548--26859626	37	2.1	37	90	0	122	25	31	18	24	1.98
26859744--26860060	47	6.7	47	94	2	521	29	30	8	30	1.87
26861992--26871099	516	17.7	516	92	1	14831	35	19	9	35	1.84
26873153--26873541	40	9.7	40	93	1	627	28	19	28	23	1.98
26874893--26893747	507	37.0	511	86	9	24735	35	20	8	36	1.82
26882574--26882618	16	2.9	15	83	9	54	84	0	0	15	0.62
26882592--26882618	13	2.1	13	100	0	54	92	0	0	7	0.38
26907370--26907547	27	6.6	27	81	3	169	29	28	15	26	1.96
26915491--26915668	27	6.6	27	82	3	178	29	28	15	26	1.96
26917454--26917540	40	2.2	40	89	4	131	22	19	27	29	1.98
26921812--26921996	50	3.7	50	78	10	182	25	17	28	29	1.97
26930099--26930146	24	2.0	24	91	0	78	31	25	12	31	1.92
26931765--26931952	45	4.2	45	81	9	215	22	16	25	35	1.95
26942950--26943057	42	2.6	42	87	0	162	21	23	35	20	1.96
26949168--26949508	172	2.0	173	96	0	630	29	22	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26950101--26950140	21	1.9	21	89	0	62	42	0	5	52	1.23
26951620--26951666	15	2.9	17	84	12	55	51	8	4	36	1.52
26954158--26954326	28	6.0	28	78	12	141	56	6	17	19	1.62
26954158--26954324	56	3.0	55	77	9	169	56	6	16	19	1.62
26954234--26954308	27	2.8	27	89	6	107	56	6	18	18	1.63
26962135--26962211	28	2.8	28	86	4	93	58	7	10	23	1.57
26980487--26980538	16	3.2	16	94	0	86	28	0	36	34	1.58
26980519--26980628	45	2.6	43	80	9	129	33	5	29	31	1.80
26980754--26980795	15	2.7	16	82	14	52	52	2	0	45	1.13
26980763--26980804	15	2.9	15	82	10	52	52	0	0	47	1.00
26980996--26981134	47	3.0	47	68	16	128	49	3	2	44	1.31
26980936--26981153	92	2.4	92	85	3	296	45	4	3	46	1.38
26986166--26986621	223	2.0	223	98	0	885	29	10	21	38	1.87
26987071--26987432	164	2.2	164	98	0	699	45	16	18	19	1.86
26989481--26989834	126	2.8	126	92	0	591	29	16	21	31	1.96
26992896--26993084	61	3.2	61	63	14	160	43	10	7	38	1.68
26992848--26993086	116	2.1	115	95	0	424	44	9	7	38	1.66
26993091--26993580	23	20.8	22	71	22	228	28	0	24	46	1.56
26993091--26993198	45	2.4	45	90	4	164	29	0	25	44	1.60
26993166--26993256	21	4.2	21	76	18	87	28	0	23	48	1.51
26993185--26993560	52	7.8	45	75	21	220	28	0	24	46	1.55
26993251--26993635	29	13.1	29	69	19	194	28	0	25	46	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26993251--26993628	199	1.9	201	92	4	638	28	0	24	46	1.57
26993521--26993576	21	2.6	22	88	5	96	26	0	25	48	1.52
26993596--26993655	23	2.6	23	81	0	84	25	0	30	45	1.54
26993651--26993788	25	5.7	25	77	14	155	44	13	1	41	1.52
26993674--26993841	50	3.7	44	78	13	196	47	12	1	39	1.49
26994950--26994974	7	3.6	7	100	0	50	60	12	0	28	1.32
26996114--26996229	51	2.3	51	93	0	196	44	2	25	26	1.67
26996201--26996251	22	2.3	22	93	0	84	35	0	33	31	1.58
26996199--26996274	11	6.8	12	69	23	58	39	0	32	27	1.57
27001510--27001592	42	2.0	42	85	0	112	22	21	16	38	1.93
27007419--27007464	20	2.3	20	96	3	85	54	8	21	15	1.68
27009959--27010017	25	2.4	25	100	0	118	27	16	25	30	1.97
27009940--27010029	25	3.6	25	86	1	101	31	17	24	26	1.97
27012456--27012516	30	2.0	30	90	0	95	40	24	9	24	1.85
27015226--27015254	14	2.1	14	100	0	58	20	20	20	37	1.94
27016401--27016843	70	6.3	70	79	2	451	27	17	21	33	1.96
27022205--27022234	15	2.0	15	93	0	51	66	10	10	13	1.44
27021901--27022534	332	1.9	332	98	0	1223	34	18	21	25	1.96
27028514--27028804	46	6.3	46	91	0	465	40	18	14	26	1.89
27029494--27029590	41	2.4	41	87	3	142	31	27	15	24	1.95
27046643--27046682	20	2.0	20	85	0	53	30	20	35	15	1.93
27050763--27050792	5	5.8	5	92	7	51	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27052711--27052743	16	2.1	16	88	11	50	21	3	9	66	1.33
27066100--27067016	44	21.2	44	69	14	312	29	19	22	28	1.98
27066012--27067015	217	4.6	217	91	0	1638	28	19	22	28	1.98
27066670--27066826	84	1.9	85	82	9	205	27	21	23	28	1.99
27067738--27067770	16	2.1	16	88	11	50	21	3	9	66	1.33
27075116--27075143	12	2.3	12	100	0	56	42	0	0	57	0.99
27075506--27075539	18	1.9	18	88	5	52	41	11	14	32	1.82
27075637--27075936	149	2.0	148	99	0	591	41	10	15	33	1.81
27077298--27077371	30	2.5	30	84	4	89	31	12	18	37	1.88
27077715--27077769	21	2.6	21	88	0	83	27	9	34	29	1.87
27079222--27079903	338	2.0	334	94	4	1172	56	4	6	32	1.44
27085478--27085518	21	1.9	21	85	5	55	29	2	2	65	1.18
27090252--27090288	17	2.2	17	100	0	74	43	21	10	24	1.84
27097583--27098127	44	12.4	45	78	5	513	28	17	24	29	1.97
27097581--27098125	133	4.1	133	93	0	916	28	17	25	29	1.97
27097583--27098125	265	2.1	264	93	1	926	28	17	25	29	1.97
27098110--27098340	88	2.6	88	86	0	327	29	27	22	20	1.98
27098647--27098804	44	3.7	42	77	4	140	24	22	23	29	1.99
27105194--27105237	22	2.0	22	86	0	61	38	27	2	31	1.69
27107178--27107210	16	2.0	17	88	5	50	48	12	9	30	1.71
27115263--27115411	50	3.0	50	83	0	154	20	28	24	26	1.99
27115386--27115435	24	2.1	24	96	0	91	16	36	20	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27125065--27125120	23	2.3	25	82	17	82	44	8	25	21	1.81
27125079--27125124	23	2.0	23	100	0	92	39	8	26	26	1.85
27126782--27126811	6	5.0	6	91	0	51	30	33	36	0	1.58
27127348--27127439	38	2.4	39	85	5	116	35	8	9	45	1.68
27129975--27130017	15	2.9	15	100	0	86	62	0	11	25	1.29
27130430--27130461	6	5.3	6	96	0	55	3	53	0	43	1.16
27131711--27131745	5	6.8	5	87	6	52	74	0	2	22	0.95
27131711--27131745	16	2.3	15	90	5	52	74	0	2	22	0.95
27132756--27132781	6	4.3	6	100	0	52	0	15	34	50	1.45
27145100--27152932	977	8.0	977	99	0	15284	36	15	12	35	1.85

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