genome.fa.s17.2.7.7.80.10.50.1000.1.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  1  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)
563--627	32	2.1	32	97	2	123	30	9	12	47	1.72
5225--5252	3	9.3	3	100	0	56	64	0	35	0	0.94
10372--10396	13	1.9	13	100	0	50	8	8	20	64	1.46
25659--25777	58	2.1	58	100	0	238	42	18	3	35	1.67
29320--29366	17	2.8	17	75	15	53	38	27	19	14	1.91
30161--30192	12	2.5	13	90	10	57	21	0	78	0	0.76
30163--30192	6	4.8	6	95	4	51	20	0	80	0	0.72
30926--30982	27	2.1	27	100	0	114	31	21	15	31	1.94
33090--33176	43	2.0	42	91	2	138	42	20	12	24	1.87
34800--34856	29	1.9	30	82	10	73	52	5	15	26	1.64
37549--37588	20	2.0	20	90	0	62	50	0	17	32	1.47
41651--41697	9	4.5	10	77	17	51	31	4	0	63	1.13
42203--42410	109	1.9	109	91	2	337	29	16	20	33	1.95
43770--43813	19	2.3	20	84	7	56	27	22	11	38	1.88
46440--46469	8	3.6	8	91	8	51	73	13	0	13	1.10
48620--49397	88	8.9	88	92	1	1065	29	22	23	25	1.99
49546--49651	44	2.4	44	78	7	126	29	24	24	21	1.99
51769--51976	109	1.9	109	91	2	337	29	16	20	33	1.95
55987--56017	15	2.0	16	93	6	55	3	19	0	77	0.90
57634--57702	31	2.2	31	92	0	111	47	13	7	31	1.69
66902--67034	70	1.9	72	84	7	182	25	4	16	53	1.62
73959--73984	2	13.0	2	100	0	52	0	0	50	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
98921--98967	21	2.2	22	92	3	78	21	38	19	21	1.94
102053--102093	15	2.8	16	79	20	54	36	0	4	58	1.20
107998--108034	9	4.1	9	92	0	65	29	10	13	45	1.77
111808--111832	8	3.1	8	100	0	50	64	12	24	0	1.27
117775--117816	19	2.3	18	91	4	66	45	0	0	54	0.99
119184--119280	49	2.0	49	100	0	194	28	17	24	28	1.97
123430--123471	21	2.0	21	95	0	75	30	42	16	9	1.80
128796--128843	19	2.5	20	86	6	64	50	4	8	37	1.52
128806--128844	20	2.0	20	95	5	71	51	2	5	41	1.38
129654--129700	24	2.0	24	84	16	62	34	0	14	51	1.43
129861--129998	40	3.5	40	78	8	149	28	16	24	30	1.97
135744--135799	19	2.9	19	86	7	69	28	3	7	60	1.40
136414--136462	25	2.0	25	83	0	62	40	2	0	57	1.10
144842--144889	21	2.2	22	92	7	89	43	16	12	27	1.84
144854--144898	21	2.2	20	84	11	56	44	13	17	24	1.85
145522--145565	21	2.0	21	82	4	52	34	22	13	29	1.93
173538--173595	21	2.8	19	80	15	53	58	0	0	41	0.98
173541--173591	18	2.9	18	77	13	52	56	0	0	43	0.99
182981--183019	12	3.2	12	85	0	51	43	0	23	33	1.54
184291--184342	25	2.1	25	100	0	104	46	13	7	32	1.72
196852--196932	40	2.0	40	85	0	108	37	17	17	28	1.92
208752--208796	11	3.5	13	82	14	58	68	4	0	26	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
211011--211122	59	1.9	59	83	0	143	51	15	11	21	1.74
222093--222126	17	2.0	17	88	0	50	41	14	8	35	1.77
222783--222823	11	3.8	11	93	3	66	29	0	4	65	1.13
234497--234536	11	3.5	11	81	18	55	62	0	0	37	0.95
237531--237586	28	2.0	28	82	6	69	25	5	5	64	1.36
242407--242446	21	2.0	20	85	5	53	42	2	5	50	1.37
248114--248245	28	4.7	28	70	3	113	29	12	20	37	1.89
248126--248233	56	1.9	56	92	0	180	29	14	19	36	1.92
248395--248447	26	2.0	26	100	0	106	33	22	11	32	1.90
251800--251859	28	2.2	28	82	8	70	46	1	0	51	1.10
251817--251875	28	2.1	28	81	12	68	49	5	0	45	1.24
259928--260047	58	2.1	58	98	0	231	20	9	19	50	1.74
260253--260307	25	2.2	25	96	0	101	12	20	16	50	1.77
263374--263400	12	2.2	12	100	0	54	0	7	0	92	0.38
268351--268402	24	2.2	24	89	0	77	55	9	1	32	1.43
286264--286312	23	2.1	23	85	7	64	57	2	0	40	1.10
295068--295261	44	4.5	41	77	10	165	31	15	22	30	1.95
295101--295262	85	1.9	87	82	7	204	31	15	22	30	1.95
302389--302509	54	2.2	54	83	0	152	28	18	13	39	1.88
302509--302620	54	2.1	54	98	1	217	40	20	0	39	1.53
311984--312107	28	4.4	28	84	2	142	32	11	24	32	1.90
311984--312110	56	2.3	56	84	2	166	33	11	24	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317876--318078	46	4.3	48	88	7	265	35	14	21	28	1.92
317810--318078	98	2.7	98	92	0	448	35	14	21	28	1.93
318042--318187	37	4.0	37	93	1	242	36	16	21	24	1.94
322288--322321	16	2.1	16	88	0	50	50	14	17	17	1.79
325114--325154	21	2.0	21	90	0	64	29	21	29	19	1.98
334362--334402	21	2.0	21	90	0	64	29	21	29	19	1.98
343444--343492	23	2.1	23	85	7	64	57	2	0	40	1.10
344392--344484	18	5.2	18	92	0	150	26	23	17	32	1.96
344392--344484	36	2.6	36	96	0	168	26	23	17	32	1.96
350708--350753	23	2.0	23	100	0	92	34	8	13	43	1.74
357562--357755	44	4.5	41	78	10	174	31	15	22	29	1.95
357595--357756	85	1.9	87	83	7	213	31	16	22	30	1.95
378594--378670	38	2.0	38	87	0	109	29	20	12	36	1.90
382568--382609	21	2.0	21	81	9	50	54	2	0	42	1.13
387905--387980	33	2.3	33	81	0	89	32	0	40	26	1.56
387958--388003	18	2.6	18	89	0	74	19	0	52	28	1.47
388012--388133	33	3.7	33	76	2	102	28	4	43	23	1.72
388769--388819	11	4.6	11	97	0	93	7	35	17	39	1.79
399876--399919	24	1.9	23	82	17	56	43	0	0	56	0.99
405384--405773	196	2.0	196	89	1	602	30	13	21	35	1.91
409155--409182	14	2.0	14	100	0	56	21	14	35	28	1.92
413646--413718	3	25.0	3	72	5	60	34	6	1	57	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415424--415482	20	2.9	19	74	18	57	40	10	10	38	1.73
415507--415550	22	1.9	24	90	9	74	40	11	2	45	1.53
418047--418131	31	2.9	29	80	7	91	52	8	3	35	1.48
421516--421566	16	3.1	17	80	11	52	70	1	0	27	0.98
421513--421554	13	3.1	14	78	21	54	71	0	0	28	0.86
439155--439215	32	1.9	32	82	0	77	57	8	8	26	1.56
459268--459342	22	3.4	22	78	10	73	44	1	0	54	1.08
459796--459824	13	2.1	14	93	6	51	34	0	0	65	0.93
460275--460317	22	2.1	19	83	12	50	44	0	0	55	0.99
462678--462714	17	2.3	17	86	9	51	24	2	0	72	0.97
464009--464441	215	2.0	216	84	0	562	33	13	17	35	1.89
465276--465312	17	2.1	19	85	10	51	70	5	0	24	1.08
465422--465458	19	1.9	19	94	0	65	18	16	13	51	1.76
465466--465513	16	2.9	16	75	3	51	37	4	0	58	1.18
465434--466013	152	3.9	151	86	5	754	31	10	6	51	1.61
466008--466503	152	3.3	150	89	6	761	51	7	10	30	1.65
466609--466651	18	2.3	19	80	12	52	20	0	4	74	1.00
469510--469554	21	2.1	21	100	0	90	35	22	13	28	1.92
470082--470120	18	2.2	18	100	0	78	28	25	5	41	1.77
471043--471104	29	2.1	30	82	17	76	38	19	9	32	1.84
471852--471876	12	2.1	12	100	0	50	24	8	36	32	1.84
473407--473457	10	5.3	9	76	19	50	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473766--473798	3	11.0	3	93	0	57	66	3	0	30	1.06
475586--475843	129	2.0	129	100	0	516	31	16	17	34	1.92
481698--481729	7	4.6	7	100	0	64	75	0	12	12	1.06
489174--489247	24	3.2	24	70	12	64	37	8	4	50	1.51
490179--490258	22	3.4	23	70	20	67	43	15	17	23	1.86
490788--491102	43	7.3	43	81	4	185	28	30	17	23	1.97
490826--491122	43	6.9	43	82	3	321	30	30	16	22	1.96
490784--491122	86	3.9	86	82	4	371	29	30	17	23	1.97
491468--491560	21	4.4	21	79	0	96	8	44	13	33	1.75
491590--491720	66	2.0	66	86	3	183	14	25	18	41	1.88

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