genome.fa.s20.2.7.7.80.10.50.1000.170.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   

This is table  170  of  199  ( 23844 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)
49678368--49678405	20	1.9	20	94	0	67	15	23	5	55	1.61
49680785--49680831	15	3.2	15	79	11	53	63	6	0	29	1.19
49701011--49701047	20	2.0	20	84	10	51	5	18	8	67	1.36
49702899--49702944	3	15.3	3	100	0	92	67	0	0	32	0.91
49703851--49703985	40	3.4	39	79	7	157	26	18	24	30	1.98
49707099--49707129	11	2.8	11	95	0	53	61	16	0	22	1.34
49708398--49708429	15	2.1	15	94	0	55	15	6	9	68	1.36
49709987--49710078	37	2.4	37	80	8	89	40	3	5	51	1.41
49713701--49713799	3	33.0	3	95	0	180	67	0	31	1	0.97
49716560--49716607	3	16.0	3	86	0	69	0	64	0	35	0.94
49716623--49716689	3	22.7	3	87	3	100	0	31	1	67	1.00
49730967--49731012	23	2.0	23	100	0	92	56	8	4	30	1.49
49737883--49737926	22	2.0	23	82	13	56	65	4	15	13	1.41
49738943--49739067	62	2.1	59	86	4	169	30	13	2	53	1.53
49739928--49740119	106	1.8	106	85	2	269	29	14	18	37	1.90
49750522--49750555	17	1.9	18	88	5	52	35	17	0	47	1.48
49752643--49752669	3	9.0	3	100	0	54	33	0	0	66	0.92
49759984--49760122	67	2.0	71	91	6	232	33	15	7	44	1.73
49762808--49763114	151	2.0	151	94	3	535	35	16	17	30	1.92
49764273--49764313	16	2.4	17	80	19	50	0	26	0	73	0.84
49764257--49764314	17	3.5	16	75	13	55	0	22	1	75	0.89
49764442--49764489	24	2.0	25	83	4	62	62	6	0	31	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49765082--49765173	21	4.1	24	85	12	115	15	13	54	17	1.71
49765082--49765173	45	2.0	45	91	0	148	15	13	54	17	1.71
49765094--49765185	24	4.0	23	83	13	100	13	16	53	17	1.73
49765094--49765185	45	2.0	45	85	4	123	13	16	53	17	1.73
49765922--49765956	18	2.0	18	88	5	54	28	0	0	71	0.86
49770095--49770128	16	2.1	16	89	10	52	29	0	2	67	1.05
49771483--49771577	5	19.0	5	100	0	190	40	0	0	60	0.97
49771798--49771827	12	2.4	12	94	5	51	70	3	26	0	1.03
49777576--49777654	41	2.0	40	87	7	115	37	2	2	56	1.26
49777643--49777694	23	2.3	22	81	15	61	42	3	0	53	1.19
49786935--49787064	50	2.6	50	93	0	224	20	31	23	23	1.98
49788485--49788612	18	7.3	18	68	15	70	33	0	15	50	1.50
49788485--49788612	53	2.4	52	89	1	184	33	0	15	50	1.50
49788458--49788612	9	17.6	9	69	10	61	34	0	15	49	1.49
49788458--49788634	96	1.8	96	87	3	266	33	1	14	50	1.52
49789252--49789298	13	3.5	13	75	13	51	51	12	17	19	1.77
49792437--49792467	12	2.6	12	94	0	53	19	41	3	35	1.67
49793984--49794027	22	2.0	22	82	8	54	59	11	2	27	1.44
49794833--49794881	25	1.9	26	95	4	91	59	0	8	32	1.27
49798874--49798926	27	2.0	27	96	0	97	18	11	56	13	1.66
49800044--49800112	29	2.3	29	85	2	84	30	8	7	53	1.59
49800819--49800883	32	2.0	32	85	5	87	46	9	4	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49801131--49801191	27	2.3	27	85	0	77	31	24	29	14	1.95
49802179--49802218	16	2.6	16	88	4	55	12	7	0	80	0.91
49802183--49802217	10	3.4	10	92	4	52	11	5	0	82	0.82
49802935--49802978	16	2.7	16	78	3	52	31	6	0	61	1.22
49804785--49804826	19	2.2	19	83	8	50	28	21	9	40	1.84
49807622--49807670	21	2.3	21	83	13	57	67	2	16	14	1.33
49808813--49809590	132	5.9	132	92	0	1252	30	18	23	27	1.98
49811120--49811165	18	2.6	18	77	16	51	28	4	2	65	1.23
49811237--49811280	16	2.7	16	78	3	52	31	6	0	61	1.22
49812140--49812196	18	3.1	19	76	5	71	35	12	1	50	1.50
49812125--49812383	124	2.0	129	88	8	395	43	6	6	44	1.55
49812272--49812322	18	2.7	19	81	3	68	37	11	0	50	1.39
49812264--49812322	19	3.2	19	78	4	75	37	11	0	50	1.39
49812355--49812484	37	3.5	37	98	0	251	48	0	13	37	1.43
49812355--49812484	18	7.0	19	77	5	149	48	0	13	37	1.43
49813039--49813107	27	2.6	27	95	0	120	14	31	23	30	1.94
49813188--49813254	27	2.5	27	95	0	116	19	28	23	28	1.98
49812964--49813401	147	3.0	147	94	0	786	27	22	17	32	1.96
49813338--49813420	27	3.1	27	87	0	103	16	30	22	30	1.96
49813454--49813508	28	2.0	28	89	3	85	36	0	7	56	1.27
49819992--49820041	21	2.4	21	89	0	73	26	0	40	34	1.56
49824357--49824399	19	2.3	19	88	4	61	48	13	11	25	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49827809--49827870	27	2.2	28	88	2	99	51	4	1	41	1.33
49827800--49827875	27	2.8	26	75	15	75	50	5	3	40	1.44
49834932--49835090	54	3.1	53	72	17	154	45	1	3	49	1.25
49834932--49834992	28	2.2	28	85	5	81	45	0	3	50	1.17
49834894--49835092	101	2.0	96	80	14	215	46	2	3	48	1.29
49835034--49835068	18	2.0	17	88	5	52	45	0	0	54	0.99
49835021--49835215	54	3.4	54	70	18	167	42	1	4	51	1.30
49835071--49835260	66	3.1	65	67	22	181	41	3	6	48	1.46
49835033--49835281	120	2.1	120	95	0	444	41	2	6	50	1.40
49835163--49835213	15	3.5	15	81	7	52	45	0	1	52	1.12
49835283--49835373	45	2.0	45	87	6	132	36	27	3	32	1.73
49835352--49835404	16	3.3	16	94	0	88	28	35	1	33	1.68
49835352--49835411	16	3.8	16	93	0	84	28	35	3	33	1.74
49852712--49853010	28	10.5	29	73	11	199	31	26	18	24	1.97
49852740--49852983	29	8.6	29	73	12	175	32	26	16	24	1.96
49852712--49853010	114	2.6	114	93	1	494	31	26	18	24	1.97
49852712--49853014	57	5.3	57	84	1	385	31	26	17	24	1.97
49853020--49853173	39	4.0	39	86	5	188	29	28	20	22	1.98
49860992--49861042	8	6.2	8	97	2	93	49	0	0	50	1.00
49861916--49861963	22	2.0	24	84	11	64	43	14	0	41	1.45
49869590--49870208	47	13.1	47	93	1	995	32	8	30	28	1.88
49869590--49870208	190	3.3	190	94	0	1037	32	8	30	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49870327--49870405	37	2.1	37	86	4	106	25	17	30	26	1.97
49877258--49877282	12	2.1	12	100	0	50	60	16	8	16	1.58
49894355--49894525	93	1.8	93	96	0	315	28	27	21	22	1.99
49894350--49894522	46	3.7	46	76	13	192	28	26	21	23	1.99
49902474--49902533	30	2.0	30	86	0	84	33	23	5	38	1.76
49926296--49926355	31	1.9	32	86	10	88	25	11	10	53	1.68
49926580--49926615	18	2.0	18	94	0	63	36	0	0	63	0.94
49927775--49927845	29	2.7	26	75	12	72	57	0	4	38	1.18
49927802--49927858	27	2.1	28	83	3	71	54	1	8	35	1.42
49933885--49933962	34	2.4	33	81	10	88	21	21	24	32	1.98
49934228--49934299	27	2.7	27	82	2	92	34	16	16	31	1.92
49935954--49936001	23	2.1	23	96	0	87	22	25	18	33	1.97
49940859--49941371	257	2.0	257	97	0	972	34	19	18	27	1.95
49943692--49943752	29	2.1	28	84	3	77	24	14	18	42	1.88
49944009--49944038	7	4.3	7	91	0	51	16	0	40	43	1.48
49944712--49944776	29	2.2	29	81	5	78	41	15	15	27	1.87
49945950--49945974	11	2.3	11	100	0	50	20	0	72	8	1.10
49946009--49946034	12	2.2	12	100	0	52	61	0	0	38	0.96
49948307--49948331	2	12.5	2	100	0	50	52	0	48	0	1.00
49952306--49952389	6	13.8	6	83	6	107	55	0	27	16	1.41
49956709--49956787	22	3.6	22	80	0	86	16	22	16	44	1.86
49960449--49960527	29	2.8	29	78	5	81	55	2	8	32	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49962312--49962558	50	4.9	50	75	7	196	25	19	22	32	1.97
49962306--49962556	100	2.5	100	86	1	324	24	19	23	32	1.97
49962548--49962839	44	6.7	44	68	11	177	28	22	18	29	1.98
49962551--49962947	219	1.8	219	92	1	679	29	23	17	29	1.97
49962956--49963639	128	5.3	127	91	2	1064	25	22	19	32	1.97
49965832--49965924	6	15.7	6	87	6	118	13	5	11	68	1.36
49965823--49965918	47	2.0	48	91	2	158	12	8	10	68	1.39
49970159--49970237	29	2.7	30	77	11	85	54	2	10	32	1.47
49982184--49982246	30	2.1	30	93	0	108	28	3	11	57	1.49
49992351--49992766	40	10.4	40	86	2	523	45	28	13	11	1.79

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199