genome.fa.s17.2.7.7.80.10.50.1000.100.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  100  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)
31566991--31567038	21	2.3	21	85	7	62	31	31	20	16	1.95
31567006--31567206	84	2.4	84	86	1	278	29	29	16	24	1.96
31566902--31567246	189	1.8	189	92	1	593	29	29	18	23	1.97
31567174--31567227	21	2.6	21	85	5	65	29	25	20	24	1.99
31567157--31567426	90	3.0	90	91	1	425	30	27	18	24	1.98
31567270--31567314	21	2.1	21	92	8	74	33	24	22	20	1.97
31572688--31572839	41	3.7	41	73	14	107	17	17	30	35	1.92
31573461--31573509	7	7.0	7	79	6	55	22	0	36	40	1.54
31573461--31573509	21	2.3	21	96	0	89	22	0	36	40	1.54
31573772--31573802	14	2.3	14	94	5	55	12	0	38	48	1.42
31574213--31575320	336	3.3	334	81	5	1184	31	17	17	33	1.94
31576100--31576124	10	2.5	10	100	0	50	44	8	12	36	1.71
31576615--31576678	13	4.8	13	76	17	60	45	14	1	39	1.54
31576593--31576636	18	2.5	17	78	7	52	43	15	2	38	1.60
31576578--31576636	31	1.9	31	86	6	84	42	15	1	40	1.57
31576577--31576724	40	3.9	38	78	8	140	43	13	2	41	1.55
31576710--31576761	18	2.9	18	82	5	61	46	9	1	42	1.47
31576577--31576783	114	1.8	112	85	8	292	44	11	2	41	1.54
31576941--31577746	44	18.5	44	70	18	415	48	17	2	31	1.61
31576942--31577283	25	14.9	25	65	20	160	49	17	2	30	1.58
31577055--31577137	16	5.7	15	69	23	61	44	21	1	32	1.60
31577029--31577106	32	2.4	32	81	12	88	48	21	1	28	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31577262--31577336	16	4.6	15	71	12	51	46	20	4	29	1.68
31576941--31577226	21	12.5	25	66	18	71	49	17	1	31	1.57
31577073--31577746	266	2.5	266	96	0	1240	47	17	2	31	1.62
31577236--31577390	9	18.6	9	64	18	59	46	20	2	30	1.64
31577389--31577475	21	4.0	21	76	5	84	50	12	2	34	1.53
31577528--31577570	16	2.7	16	82	7	52	46	23	2	27	1.64
31577586--31577676	41	2.2	41	84	0	110	42	18	3	35	1.67
31577641--31577713	21	3.2	23	73	11	69	46	19	1	32	1.58
31577655--31577727	21	3.4	21	75	7	83	50	15	1	32	1.52
31580492--31580532	21	2.0	21	85	0	55	31	7	46	14	1.72
31580896--31581317	85	5.0	83	82	5	366	31	19	24	24	1.98
31580885--31581315	127	3.4	126	83	3	452	31	19	24	24	1.98
31580885--31581315	42	10.2	42	83	3	423	31	19	24	24	1.98
31585590--31585629	16	2.6	15	76	7	53	65	5	5	25	1.34
31586143--31586182	20	2.0	20	95	0	71	25	27	15	32	1.95
31593237--31593279	11	3.8	11	87	6	59	67	4	6	20	1.33
31593315--31593343	15	1.9	15	100	0	58	62	0	13	24	1.32
31597286--31597336	21	2.5	21	80	3	59	7	23	1	66	1.28
31599348--31599402	29	2.0	27	82	13	67	60	10	14	14	1.60
31629035--31629065	15	2.1	15	100	0	62	51	6	19	22	1.69
31637471--31637501	15	2.1	15	93	0	53	41	22	12	22	1.88
31639068--31639176	45	2.6	40	77	17	114	3	16	4	75	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31639076--31639172	6	16.0	6	71	21	60	3	17	4	75	1.09
31639095--31639150	19	2.8	19	84	10	69	3	17	5	73	1.17
31641590--31641628	16	2.4	16	95	0	69	12	10	5	71	1.28
31643690--31643751	25	2.5	25	89	0	88	41	17	24	16	1.89
31652183--31652358	46	3.8	46	76	14	191	21	21	28	28	1.99
31652180--31652351	93	1.8	93	93	2	301	22	22	28	27	1.99
31655270--31655313	15	2.9	15	80	12	54	11	15	15	56	1.66
31657249--31657424	46	3.8	46	75	14	182	21	21	28	28	1.98
31657246--31657417	93	1.8	93	92	2	292	22	21	28	27	1.99
31660721--31660853	50	2.6	52	74	8	130	36	12	14	36	1.84
31665691--31665743	27	2.0	27	85	7	72	26	9	13	50	1.71
31672711--31672747	18	2.1	18	90	5	58	40	0	10	48	1.38
31675079--31675120	22	2.0	21	90	4	66	54	11	0	33	1.37
31676933--31676979	20	2.3	20	85	7	60	34	19	19	27	1.96
31678831--31678909	6	13.3	6	85	6	108	13	17	1	67	1.30
31679753--31679790	16	2.4	16	86	8	51	18	13	5	63	1.48
31679751--31679790	17	2.4	16	84	15	55	20	12	5	62	1.48
31685928--31685968	17	2.7	14	88	11	55	24	14	4	56	1.58
31686983--31687029	23	2.1	23	84	7	62	51	12	4	31	1.59
31692294--31692330	15	2.5	15	95	4	67	16	8	5	70	1.30
31692373--31692400	11	2.5	11	100	0	56	7	7	7	78	1.09
31694663--31694709	20	2.3	20	85	7	60	34	19	19	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31703191--31703263	30	2.4	30	97	0	137	39	13	10	35	1.80
31707492--31707569	29	2.7	28	84	11	104	25	15	30	28	1.96
31707522--31707849	174	1.9	174	96	0	611	29	14	24	30	1.95
31717031--31717100	27	2.6	26	95	2	95	31	28	12	27	1.93
31717031--31717128	28	3.5	28	90	2	135	31	28	13	26	1.94
31717573--31717598	12	2.2	12	100	0	52	42	0	7	50	1.31
31720336--31720370	14	2.5	14	95	0	61	11	8	5	74	1.22
31721848--31721876	11	2.7	11	94	5	51	34	10	24	31	1.89
31722387--31722452	21	2.9	23	68	21	57	31	16	9	42	1.80
31722400--31722470	21	3.2	20	73	21	54	29	19	9	40	1.84
31722797--31722835	19	2.1	19	100	0	78	48	10	10	30	1.70
31724209--31724249	20	2.0	20	85	0	55	34	7	9	48	1.64
31725945--31725985	10	4.1	10	87	0	55	65	2	4	26	1.25
31725945--31725993	11	4.6	11	82	14	59	61	2	8	28	1.36
31725950--31725988	20	2.0	20	94	0	69	69	2	2	25	1.14
31727163--31727205	17	2.6	17	96	3	79	79	0	16	4	0.90
31727240--31727286	18	2.5	20	80	13	64	68	0	23	8	1.17
31727243--31727283	19	2.2	19	86	8	57	68	0	21	9	1.18
31729637--31729688	27	1.9	27	92	0	86	42	15	21	21	1.89
31730942--31731034	46	2.0	46	95	0	168	25	18	21	34	1.96
31735326--31735950	40	15.6	40	95	0	1090	27	19	27	24	1.99
31741032--31741105	33	2.2	34	83	7	89	10	27	5	56	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31741099--31741159	6	10.7	6	82	10	65	11	16	0	72	1.13
31743991--31744038	10	4.7	11	80	14	59	25	16	29	29	1.97
31743993--31744038	20	2.3	20	92	0	74	23	17	30	28	1.97
31751869--31751899	15	2.1	15	93	0	53	83	0	16	0	0.64
31757506--31757532	14	1.9	14	100	0	54	22	22	11	44	1.84
31762419--31762458	20	2.0	21	95	5	73	35	15	25	25	1.94
31764667--31764721	12	4.4	12	78	17	51	3	21	1	72	1.09
31764652--31764716	26	2.5	26	80	14	80	4	21	3	70	1.19
31766966--31767159	40	4.8	40	94	0	325	24	21	30	23	1.99
31773991--31774264	40	6.8	40	93	0	449	25	21	28	24	1.99
31777708--31777808	52	1.9	52	93	0	175	24	18	22	33	1.97
31781980--31782012	18	1.9	18	88	11	52	30	15	12	42	1.83
31784342--31784442	52	1.9	52	95	0	184	26	18	21	32	1.97
31788925--31789009	20	4.3	20	90	1	127	28	17	28	25	1.98
31788925--31789021	40	2.5	40	87	1	142	29	15	28	25	1.96
31788933--31789008	10	7.6	10	78	11	84	27	15	28	27	1.96
31788925--31789021	20	4.9	19	86	6	122	29	15	28	25	1.96
31792524--31792565	17	2.4	18	88	4	59	14	28	2	54	1.52
31794465--31794509	22	2.0	23	82	4	56	40	28	4	26	1.75
31798458--31798504	13	3.6	13	80	8	51	70	0	25	4	1.05
31798525--31798561	18	2.1	18	94	0	65	62	0	29	8	1.24
31804167--31804210	22	2.0	22	95	0	79	25	36	4	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31804986--31805028	14	2.9	14	83	12	59	60	2	13	23	1.45
31804991--31805030	16	2.5	16	95	0	71	70	2	10	17	1.27
31821058--31821124	12	5.1	14	72	22	56	73	1	17	7	1.14
31821114--31821162	18	2.7	18	77	0	62	67	0	18	14	1.23
31821074--31821143	26	2.8	25	79	12	72	71	1	17	10	1.20
31821147--31821201	27	2.1	27	82	3	67	67	1	23	7	1.26
31829870--31829919	21	2.5	20	87	9	68	72	2	22	4	1.12
31841379--31841411	16	2.1	16	94	0	57	66	6	3	24	1.28
31854223--31854266	18	2.4	18	88	11	63	72	2	20	4	1.13
31857429--31857496	29	2.3	29	82	5	84	27	29	13	29	1.94

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