genome.fa.s17.2.7.7.80.10.50.1000.58.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  58  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)
16665681--16665764	23	3.8	23	79	7	102	38	22	21	17	1.94
16666753--16666791	9	4.3	9	84	12	53	23	7	0	69	1.14
16671145--16671269	62	2.1	57	83	7	160	40	3	4	52	1.39
16677197--16677261	29	2.2	29	97	0	121	26	23	26	24	2.00
16682301--16682367	4	16.8	4	96	0	116	47	0	26	25	1.52
16684768--16684866	50	2.0	50	92	4	164	25	19	11	44	1.83
16685900--16685930	5	6.2	5	92	0	53	41	3	0	54	1.16
16685977--16686012	17	2.2	17	90	5	56	77	5	16	0	0.94
16686889--16686946	25	2.3	25	84	0	71	17	24	22	36	1.95
16694990--16695074	42	2.0	42	90	0	134	48	17	5	28	1.70
16697544--16697614	35	2.0	35	100	0	142	39	8	9	42	1.69
16699104--16699279	88	2.0	88	100	0	352	31	14	34	19	1.92
16707411--16707459	26	1.9	25	84	12	64	14	14	10	61	1.57
16707818--16707940	45	3.1	38	77	16	104	28	17	26	28	1.97
16707881--16708834	44	21.5	44	78	4	787	30	15	25	29	1.96
16707813--16708736	132	7.0	133	84	4	921	29	15	25	29	1.96
16717246--16717332	42	2.1	42	86	0	120	27	10	13	48	1.75
16722658--16722775	39	3.0	39	74	0	119	41	22	5	29	1.78
16724355--16724406	21	2.4	22	78	21	56	50	11	7	30	1.67
16731205--16731248	19	2.3	19	88	7	63	27	4	2	65	1.23
16738423--16738466	22	2.0	22	95	0	79	43	15	13	27	1.85
16741849--16741880	16	2.0	16	93	0	55	18	3	6	71	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16746893--16746927	16	2.3	15	90	9	54	85	2	0	11	0.69
16750474--16750522	20	2.4	20	83	10	55	65	6	6	22	1.38
16754824--16754852	10	3.0	10	95	5	51	68	0	0	31	0.89
16755266--16755297	5	6.2	5	96	3	55	56	0	0	43	0.99
16755266--16755356	39	2.3	41	76	14	102	46	3	2	48	1.31
16755572--16755619	25	1.9	25	83	8	62	41	10	8	39	1.69
16755953--16756061	43	2.5	43	86	2	148	35	22	21	20	1.96
16757816--16757855	4	9.8	4	84	15	55	25	2	0	72	0.97
16757816--16757844	15	1.9	15	100	0	58	24	0	0	75	0.80
16761745--16761852	51	2.1	51	84	0	135	48	4	16	30	1.67
16762958--16762998	20	2.0	20	85	0	55	43	14	0	41	1.45
16764630--16764708	39	2.0	39	95	0	140	53	21	8	16	1.70
16768698--16768727	8	3.8	8	95	0	51	33	0	0	66	0.92
16768945--16768995	26	1.9	27	84	11	70	23	13	7	54	1.65
16769162--16769190	13	2.1	14	93	6	51	6	17	3	72	1.21
16769264--16769317	27	2.0	27	85	7	74	29	14	29	25	1.95
16769243--16769429	94	2.0	94	88	0	275	34	18	23	24	1.96
16769248--16769453	94	2.2	94	83	0	259	35	17	22	23	1.95
16769271--16769481	94	2.2	94	82	0	251	34	17	24	23	1.96
16776564--16777666	74	15.0	74	89	2	1645	37	27	8	26	1.85
16779265--16779301	16	2.2	18	85	9	51	59	5	29	5	1.42
16787951--16787980	14	2.1	14	100	0	60	23	0	13	63	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16788934--16789057	43	2.9	42	82	4	142	29	14	26	29	1.95
16789700--16789982	22	12.5	22	67	14	137	28	13	20	37	1.91
16789692--16789959	69	3.9	69	84	1	322	29	13	19	36	1.91
16798185--16798243	31	1.9	31	89	0	91	42	13	8	35	1.75
16798583--16798619	18	2.0	19	89	5	58	75	0	0	24	0.80
16798583--16798621	20	2.1	18	85	9	51	74	0	0	25	0.82
16799558--16799939	53	7.2	53	72	18	260	42	11	1	43	1.51
16799550--16799939	107	3.7	105	84	3	487	42	11	1	43	1.51
16799831--16799902	21	3.2	20	70	24	54	43	12	0	44	1.42
16800220--16800280	19	3.1	19	68	15	52	9	29	9	50	1.67
16805394--16805433	14	2.9	14	84	0	53	42	17	7	32	1.77
16805359--16805425	34	1.9	35	87	3	100	44	13	10	31	1.77
16807449--16807523	22	3.3	22	75	3	78	21	18	32	28	1.97
16808608--16808683	9	8.4	9	79	5	91	42	22	7	27	1.81
16808608--16808683	18	4.2	18	86	0	107	42	22	7	27	1.81
16808608--16808683	36	2.1	36	90	4	118	42	22	7	27	1.81
16808723--16808747	6	4.2	6	100	0	50	16	0	16	68	1.22
16808792--16808816	13	1.9	13	100	0	50	12	0	48	40	1.40
16809906--16809972	26	2.5	26	97	2	125	61	11	10	16	1.57
16815215--16815267	20	2.7	19	78	16	54	43	15	15	26	1.85
16816811--16816957	31	4.8	31	82	1	179	43	4	21	31	1.71
16816827--16816942	17	7.4	17	66	18	81	41	5	21	31	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16816811--16816957	61	2.4	61	89	4	215	43	4	21	31	1.71
16818858--16819187	40	8.3	40	94	0	536	24	20	27	26	1.99
16818805--16819187	80	4.8	80	89	2	513	24	20	27	27	1.99
16818805--16819187	120	3.2	120	90	1	547	24	20	27	27	1.99
16821054--16821089	18	1.9	19	88	5	56	33	5	22	38	1.77
16823023--16823050	5	5.6	5	100	0	56	39	0	17	42	1.50
16827032--16827079	22	2.2	23	85	7	64	45	0	0	54	0.99
16835608--16835638	15	2.1	15	100	0	62	19	12	6	61	1.53
16848852--16848908	21	2.7	21	80	2	69	36	7	33	22	1.81
16849368--16849400	17	1.9	17	93	0	57	21	12	9	57	1.62
16853778--16853811	3	12.0	3	93	6	54	0	0	29	70	0.87
16857614--16857651	16	2.4	16	86	4	51	26	2	5	65	1.27
16857615--16857657	3	14.0	3	80	4	50	27	2	4	65	1.25
16857621--16857676	22	2.7	20	83	10	69	25	3	3	67	1.22
16857711--16857771	23	2.6	25	77	15	76	27	0	6	65	1.17
16859446--16859477	3	11.3	3	93	6	50	0	0	28	71	0.86
16869289--16869466	27	6.6	26	80	10	162	26	15	29	28	1.96
16869290--16869440	55	2.8	54	85	7	198	26	15	29	27	1.96
16869290--16869445	82	1.9	81	85	6	217	26	15	30	28	1.96
16869290--16869466	54	3.3	54	83	4	207	25	15	29	28	1.96
16869286--16869466	82	2.2	81	81	4	213	26	15	29	28	1.96
16872914--16872963	20	2.4	22	83	6	68	52	2	0	46	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16875295--16875329	3	12.3	3	93	6	56	0	0	28	71	0.86
16876567--16876644	38	2.1	38	85	0	102	26	5	15	52	1.63
16894991--16895232	41	5.9	41	82	3	247	21	18	31	28	1.97
16896246--16896356	14	7.9	14	73	6	71	18	0	39	42	1.50
16896250--16896288	21	1.9	20	89	5	60	15	0	46	38	1.46
16896270--16896382	7	16.1	7	75	12	72	18	0	41	39	1.51
16900870--16900998	43	3.0	43	86	2	188	21	17	29	31	1.96
16903492--16903532	14	2.9	14	92	0	73	36	24	26	12	1.91
16904091--16904122	2	16.0	2	100	0	64	50	0	0	50	1.00
16907226--16915147	703	11.3	703	82	3	8653	34	13	21	30	1.92
16915953--16915990	17	2.2	17	86	9	51	39	5	15	39	1.70
16917648--16917678	16	1.9	16	93	0	53	51	3	0	45	1.17
16924045--16924240	50	3.8	50	82	4	221	23	30	20	26	1.99
16924750--16924788	17	2.3	17	100	0	78	28	17	10	43	1.82
16931251--16931298	16	2.9	16	77	17	53	22	12	0	64	1.27
16932248--16932280	17	1.9	17	93	0	57	39	0	9	51	1.34
16936207--16936242	17	2.2	17	95	5	65	41	25	13	19	1.88
16938540--16938717	27	6.6	27	84	3	205	29	28	15	26	1.96
16938561--16938716	82	1.9	81	88	3	233	29	28	15	26	1.96
16939201--16939227	12	2.2	12	100	0	54	40	0	7	51	1.30
16944120--16944380	40	6.5	40	75	3	193	35	16	29	18	1.93
16952620--16953137	27	19.3	26	83	4	473	18	15	20	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16952620--16953137	54	9.6	53	81	4	581	18	15	20	44	1.87
16952620--16953137	81	6.4	80	81	4	560	18	15	20	44	1.87
16956458--16956549	39	2.4	39	88	0	139	18	32	17	31	1.94
16956458--16956570	39	2.9	38	81	7	129	18	32	16	31	1.94
16960430--16960720	29	10.0	29	75	5	264	22	28	13	35	1.92
16960445--16960756	59	5.3	59	78	5	330	23	27	13	35	1.92
16960431--16960719	88	3.3	88	89	0	454	22	28	13	35	1.92
17003672--17003718	24	2.0	24	95	0	85	29	4	23	42	1.73
17006825--17007002	27	6.6	27	83	3	205	26	15	28	29	1.96
17006826--17006981	82	1.9	81	88	3	233	26	15	28	29	1.96

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