genome.fa.s17.2.7.7.80.10.50.1000.183.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  183  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)
55856238--55856271	17	2.0	17	94	0	59	44	50	0	5	1.26
55856521--55856587	18	3.8	17	92	4	98	8	34	40	16	1.80
55863269--55863307	21	1.9	21	94	5	71	48	0	5	46	1.24
55863355--55863438	27	3.1	27	92	0	141	15	21	39	23	1.92
55863355--55863457	27	3.8	27	89	2	136	19	20	36	23	1.95
55863513--55863589	22	3.5	22	92	5	120	62	3	33	0	1.14
55867302--55867384	27	3.1	27	94	0	148	30	22	33	13	1.92
55867537--55867564	11	2.5	11	100	0	56	0	53	46	0	1.00
55867574--55867617	24	1.9	24	90	9	74	36	0	2	61	1.09
55867714--55867741	9	3.1	9	100	0	56	57	10	0	32	1.33
55867684--55867825	68	2.1	66	94	2	248	45	9	4	40	1.58
55867684--55867847	68	2.5	66	87	10	225	45	9	4	40	1.57
55867814--55867854	16	2.6	16	88	7	57	43	9	2	43	1.50
55868134--55868177	21	2.1	21	95	0	79	29	0	11	59	1.32
55868266--55868309	16	2.8	16	82	0	61	56	2	2	38	1.24
55868341--55868420	36	2.2	38	93	4	137	38	2	3	55	1.32
55868636--55868754	19	6.1	19	69	19	75	53	12	0	33	1.39
55868615--55868671	27	2.1	27	96	0	105	50	12	0	36	1.40
55868750--55868816	27	2.5	27	97	0	125	11	32	23	31	1.91
55868898--55868931	17	2.1	16	88	5	50	52	0	0	47	1.00
55868968--55869132	83	2.0	82	87	1	240	33	15	7	42	1.76
55887660--55887752	18	5.2	18	85	0	132	26	23	17	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55887664--55887752	36	2.5	36	94	0	151	26	23	16	32	1.96
55894099--55894156	30	2.0	29	83	6	73	60	3	10	25	1.45
55902370--55902527	73	2.2	73	100	0	316	34	20	12	31	1.90
55903149--55903223	37	2.0	37	92	0	123	26	12	33	28	1.92
55904641--55904846	72	2.9	72	90	1	306	43	12	11	33	1.77
55905639--55905692	18	3.0	18	88	0	81	7	40	40	11	1.69
55908063--55908107	23	2.0	23	100	0	90	17	22	22	37	1.94
55920611--55920764	75	2.1	75	92	1	256	29	20	15	35	1.93
55922255--55922462	19	11.1	19	69	17	89	55	2	3	37	1.31
55922255--55922460	9	21.8	10	68	19	63	55	2	3	37	1.31
55922267--55922360	29	3.2	28	76	16	77	61	1	4	32	1.22
55922253--55922382	58	2.2	57	80	12	138	56	1	4	36	1.29
55922390--55922438	26	1.9	26	88	12	75	57	0	2	40	1.10
55922363--55922412	17	2.9	17	75	3	55	50	8	2	40	1.43
55922398--55922432	17	2.1	16	89	5	52	60	0	0	40	0.97
55922528--55922566	19	2.1	19	85	9	53	48	0	0	51	1.00
55922894--55922920	14	1.9	14	100	0	54	40	7	0	51	1.30
55927663--55927694	15	2.1	15	100	0	64	12	0	28	59	1.34
55928388--55928886	66	7.5	67	76	17	433	50	12	9	27	1.71
55928370--55928929	131	4.3	125	80	12	449	49	12	9	28	1.72
55928370--55928929	67	8.6	63	74	16	403	49	12	9	28	1.72
55928715--55928910	64	3.1	61	73	20	193	51	11	9	27	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55934863--55934898	16	2.1	18	90	10	58	44	0	2	52	1.15
55935244--55935285	19	2.2	19	83	8	50	38	0	2	59	1.10
55936527--55936560	17	2.0	17	88	0	50	38	20	5	35	1.77
55943540--55943587	24	2.0	24	84	8	62	39	8	2	50	1.44
55946569--55946594	3	8.7	3	100	0	52	65	0	0	34	0.93
55947186--55947235	23	2.2	23	89	7	75	52	2	0	46	1.12
55952515--55952553	2	20.0	2	94	5	71	0	0	48	51	1.00
55953136--55953169	18	1.9	17	88	5	50	38	8	8	44	1.67
55953128--55953258	67	2.0	67	90	0	208	41	12	6	39	1.69
55954319--55954367	25	2.0	25	83	0	62	40	0	4	55	1.19
55954356--55954391	18	1.9	19	88	5	56	41	2	0	55	1.14
55954857--55954898	20	2.1	20	86	0	57	33	9	2	54	1.46
55960482--55960534	26	2.0	26	85	0	70	66	1	1	30	1.13
55960542--55960575	14	2.5	13	90	4	50	79	0	0	20	0.73
55987376--55987551	71	2.5	70	85	1	219	28	14	22	34	1.94
55987569--55987906	72	4.5	74	87	5	441	31	15	20	32	1.94
55988127--55988374	88	2.8	88	85	5	313	29	17	18	34	1.94
55988301--55988558	73	3.5	72	92	3	410	33	17	18	30	1.94
55999756--55999823	27	2.4	29	71	9	70	60	0	0	39	0.97
56000674--56000710	13	2.9	12	88	11	56	67	0	0	32	0.91
56004575--56004618	15	3.0	15	83	3	54	29	0	4	65	1.12
56011543--56011740	46	4.6	45	79	13	229	34	14	22	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56011579--56011651	36	2.0	36	91	0	119	38	12	20	28	1.89
56011545--56011697	82	1.9	82	95	0	279	35	12	22	29	1.91
56013511--56013605	29	3.2	29	65	8	75	35	9	15	38	1.80
56017880--56017910	16	1.9	16	93	0	53	45	35	3	16	1.63
56019861--56019889	12	2.4	12	100	0	58	24	6	6	62	1.45
56021737--56021798	24	2.5	24	82	7	63	12	8	12	66	1.45
56034131--56034186	29	1.9	29	88	0	85	41	12	8	37	1.74
56035812--56036206	171	2.3	170	82	6	458	40	18	11	29	1.85
56042243--56042271	2	14.5	2	100	0	58	0	48	0	51	1.00
56046180--56046246	28	2.4	30	75	14	79	29	0	4	65	1.12
56048048--56048119	31	2.3	31	95	0	126	34	9	9	45	1.70
56056208--56056275	33	2.1	33	97	0	127	32	7	17	42	1.77
56057681--56057782	22	4.5	22	70	22	75	46	0	5	48	1.26
56060788--56060851	29	2.2	30	80	5	76	34	9	17	39	1.82
56060797--56060872	29	2.6	29	82	4	89	38	13	18	30	1.89
56064573--56064632	28	2.0	28	81	9	66	36	11	6	45	1.67
56070146--56070216	9	7.5	10	85	4	78	69	0	4	26	1.07
56070177--56070214	3	12.7	3	100	0	76	68	0	0	31	0.90
56085803--56085851	3	16.3	3	100	0	98	67	0	32	0	0.91
56089482--56089566	40	2.2	40	95	2	154	40	16	17	25	1.90
56092269--56092536	132	2.0	131	90	5	425	47	13	10	28	1.76
56099503--56099569	31	2.2	31	83	0	80	29	10	11	47	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56101068--56101122	28	1.9	29	81	3	67	56	1	0	41	1.10
56101412--56101442	9	3.4	9	95	0	53	35	0	3	61	1.12
56101812--56101860	17	2.9	17	78	6	55	42	0	0	57	0.99
56102064--56102099	16	2.2	16	95	0	63	30	5	2	61	1.33
56104670--56104729	30	2.0	30	90	0	93	58	13	3	25	1.50
56104710--56104738	12	2.5	12	94	5	51	68	0	0	31	0.89
56106149--56106173	13	1.9	13	100	0	50	88	0	12	0	0.53
56107678--56107752	31	2.4	31	86	4	107	48	10	9	32	1.70
56110519--56110550	17	1.9	17	93	6	57	56	0	3	40	1.15
56111572--56111629	10	6.3	9	74	21	50	55	0	3	41	1.17
56111573--56111610	20	1.9	20	88	0	58	52	0	5	42	1.24
56111572--56111645	18	4.1	18	81	11	71	54	0	5	40	1.24
56114192--56114612	211	2.0	210	98	0	815	20	12	21	46	1.83
56116894--56116979	36	2.4	36	86	3	111	30	30	23	16	1.96
56118106--56118153	10	5.0	10	78	19	57	56	2	0	41	1.11
56118092--56118155	28	2.3	27	92	5	110	53	3	1	42	1.26
56125731--56125769	19	2.0	20	85	5	53	35	0	10	53	1.35
56126209--56126247	17	2.1	20	86	13	57	71	0	12	15	1.14
56126209--56126248	18	2.1	20	86	9	57	72	0	12	15	1.12
56126225--56126266	21	2.0	20	86	4	57	80	0	4	14	0.86
56134408--56134437	16	1.9	15	93	6	51	30	0	0	70	0.88
56134485--56134546	16	3.8	17	78	18	69	66	1	1	30	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56135010--56135048	20	2.0	20	85	10	53	46	2	10	41	1.51
56152002--56152062	32	1.9	31	83	3	77	40	24	11	22	1.87
56154571--56154616	23	2.0	23	95	0	83	32	17	15	34	1.91
56155342--56155373	15	2.3	15	89	10	50	40	18	0	40	1.51
56155860--56155902	6	6.8	6	81	7	50	41	16	20	20	1.90
56155886--56155981	39	2.4	39	89	1	147	41	19	16	21	1.90
56155927--56156014	46	1.9	46	86	2	124	39	18	19	22	1.92
56169701--56169745	17	2.5	19	82	13	60	37	2	0	60	1.09
56169701--56169753	17	3.1	17	76	10	54	35	1	0	62	1.06
56169724--56169782	25	2.3	26	85	11	77	35	3	0	61	1.13

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