genome.fa.s25.2.7.7.80.10.50.1000.191.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   

This is table  191  of  214  ( 25680 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)
55939848--55940133	18	15.6	18	75	10	242	44	11	13	30	1.79
55939779--55940108	54	6.0	54	78	7	303	43	10	13	31	1.79
55939839--55940183	36	9.4	37	73	11	178	42	10	14	32	1.79
55939849--55940146	74	4.1	73	71	12	202	43	10	13	32	1.79
55940855--55940904	24	2.0	25	85	11	68	10	24	38	28	1.87
55941033--55941100	7	9.7	7	70	17	52	2	19	0	77	0.89
55941072--55941115	19	2.2	20	88	4	63	0	31	0	68	0.90
55941455--55941611	30	5.2	29	87	3	206	36	2	24	36	1.69
55941455--55941611	60	2.6	60	90	2	244	36	2	24	36	1.69
55941607--55941642	9	4.1	9	92	7	65	13	0	0	86	0.58
55941609--55941640	8	3.9	8	92	8	55	9	0	0	90	0.45
55941607--55941640	17	2.0	17	100	0	68	11	0	0	88	0.52
55941775--55943805	78	26.3	77	85	6	2162	36	19	17	26	1.94
55941775--55943804	155	13.1	155	83	8	2197	36	19	17	26	1.94
55950778--55950870	35	2.6	36	86	3	134	45	11	15	27	1.81
55950704--55950945	37	6.7	35	73	14	131	42	11	13	33	1.79
55950923--55950967	22	2.0	22	83	8	56	37	11	8	42	1.72
55950651--55950972	18	17.6	18	73	13	185	43	10	13	32	1.78
55950963--55951004	20	2.0	22	86	9	61	38	2	16	42	1.61
55950868--55951023	76	2.1	75	80	9	174	40	8	12	37	1.75
55951684--55951744	24	2.5	25	84	10	81	9	24	37	27	1.87
55951859--55951886	8	3.5	8	100	0	56	10	10	0	78	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55951885--55951952	3	22.7	3	96	0	127	0	30	0	69	0.89
55952040--55952075	19	1.9	19	88	5	56	0	33	0	66	0.92
55952299--55952424	30	4.2	30	91	1	209	36	3	25	34	1.72
55952279--55952424	60	2.5	60	89	1	213	36	4	25	33	1.75
55952420--55952451	8	3.9	8	92	8	55	12	0	9	78	0.97
55955633--55955690	19	2.7	22	84	10	68	36	8	17	37	1.80
55959455--55959501	22	2.2	21	84	3	58	46	21	14	17	1.83
55959467--55959528	29	2.1	29	93	0	106	43	22	19	14	1.87
55959499--55959562	22	2.9	22	73	0	65	42	17	25	15	1.88
55964758--55964782	12	2.1	12	100	0	50	60	16	8	16	1.58
55968270--55968318	25	1.9	25	84	12	64	55	10	2	32	1.45
55972911--55972960	25	2.0	25	100	0	100	28	32	20	20	1.97
55975134--55975198	3	21.7	3	96	0	121	32	0	1	66	1.01
55977719--55977791	36	2.0	36	94	0	128	28	20	13	36	1.91
55977674--55977756	45	1.9	42	85	7	112	30	21	14	33	1.93
55977676--55977825	82	1.9	79	88	4	228	28	22	12	36	1.91
55984588--55984631	23	1.9	22	82	17	54	38	22	0	38	1.55
55984730--55984805	23	3.3	23	96	0	143	31	26	21	21	1.98
55988235--55988389	36	4.0	36	78	15	166	29	20	13	36	1.91
55988271--55988425	46	3.6	46	77	16	195	29	21	12	36	1.90
55988192--55988425	82	2.9	82	94	1	393	29	21	12	35	1.91
55992212--55992252	18	2.3	17	84	12	55	0	14	2	82	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55992213--55992242	6	5.0	6	100	0	60	0	16	0	83	0.65
55993063--55993111	24	2.0	24	96	0	89	46	0	2	51	1.12
55993648--55993685	17	2.3	16	95	4	67	65	18	0	15	1.27
56005928--56006004	29	2.6	29	83	4	91	46	14	14	24	1.81
56013107--56013131	7	3.6	7	100	0	50	28	28	28	16	1.97
56017041--56017083	9	4.8	9	100	0	86	23	9	32	34	1.87
56017244--56017268	12	2.1	12	100	0	50	16	24	36	24	1.94
56019419--56019464	20	2.3	20	92	0	74	28	4	15	52	1.61
56023996--56024041	20	2.3	20	92	0	74	28	4	15	52	1.61
56030341--56030388	12	4.0	12	80	0	60	27	31	27	14	1.95
56032867--56032904	14	2.8	13	84	7	58	7	26	15	50	1.72
56032877--56032926	22	2.3	22	89	0	73	8	24	14	54	1.66
56032910--56033001	36	2.4	36	84	12	114	23	14	19	42	1.88
56032917--56033001	39	2.3	36	89	6	125	25	14	20	40	1.90
56033176--56033202	7	3.9	7	100	0	54	40	44	0	14	1.46
56034212--56034333	60	2.0	60	100	0	244	29	20	13	36	1.90
56036084--56036112	13	2.2	13	100	0	58	13	20	0	65	1.26
56036964--56037050	44	2.0	45	83	2	113	26	17	27	28	1.97
56037028--56037172	45	3.2	45	67	16	129	28	22	26	22	1.99
56037136--56037205	31	2.3	31	94	0	122	30	25	20	24	1.99
56037392--56037606	88	2.4	88	85	3	227	26	19	25	27	1.99
56037437--56037581	44	3.3	43	66	9	112	24	20	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56037438--56037640	88	2.3	88	87	2	300	26	20	25	28	1.99
56041478--56041510	12	2.8	12	90	0	57	30	3	0	66	1.06
56043418--56043454	13	2.7	14	91	4	58	48	5	8	37	1.56
56044364--56044427	25	2.5	27	71	19	66	28	28	12	31	1.93
56044781--56044828	24	2.0	24	100	0	96	33	8	8	50	1.63
56047107--56047312	114	1.8	114	92	0	349	37	22	13	26	1.91
56048963--56049003	5	8.2	5	94	0	73	36	0	2	60	1.10
56051280--56051320	5	8.2	5	94	0	73	60	2	0	36	1.10
56052614--56052667	27	2.0	26	82	3	63	37	1	3	57	1.27
56053596--56053644	18	2.7	18	81	12	55	63	0	2	34	1.06
56054658--56054715	10	6.0	10	76	13	59	58	3	1	36	1.25
56054659--56054715	19	3.1	18	76	14	62	59	3	1	35	1.25
56054959--56055001	21	2.1	20	82	4	50	62	4	2	30	1.28
56054776--56055347	222	2.7	222	82	6	680	44	11	9	34	1.73
56055181--56055225	20	2.2	21	84	4	56	64	2	4	28	1.25
56055775--56055821	17	2.6	18	83	16	53	34	2	2	61	1.20
56055776--56055833	21	3.1	18	81	18	57	36	1	1	60	1.17
56055781--56055839	29	2.2	25	79	11	64	30	3	3	62	1.28
56056747--56056796	23	2.2	23	96	0	91	30	0	0	70	0.88
56056760--56056813	23	2.3	23	84	6	65	35	0	1	62	1.06
56057241--56057270	11	2.7	11	89	0	51	20	30	3	46	1.66
56057248--56057347	51	2.0	51	84	11	134	24	26	2	48	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56060115--56060556	237	1.9	237	88	0	677	33	17	19	29	1.95
56065929--56066005	29	2.6	29	83	4	91	46	14	14	24	1.81
56067264--56067289	5	5.2	5	100	0	52	19	0	38	42	1.51
56073107--56073206	38	2.6	37	84	9	103	54	1	4	41	1.26
56073180--56073205	11	2.4	11	100	0	52	53	0	7	38	1.30
56081734--56081762	3	9.7	3	100	0	58	68	0	0	31	0.89
56087830--56087986	30	5.3	30	77	13	103	23	24	12	39	1.89
56095723--56095750	3	9.3	3	100	0	56	32	0	0	67	0.91
56112636--56112677	3	14.0	3	100	0	84	66	0	0	33	0.92
56114606--56114648	19	2.2	19	83	8	50	25	13	20	39	1.90
56117562--56117602	20	1.9	23	85	14	61	51	12	12	24	1.73
56124088--56124122	15	2.4	15	90	4	54	48	0	5	45	1.26
56125285--56125316	10	3.3	10	95	4	57	71	0	0	28	0.86
56131292--56131338	20	2.3	20	100	0	94	42	4	21	31	1.72
56132475--56132509	14	2.6	14	90	4	54	65	0	2	31	1.07
56134080--56134791	154	4.7	152	88	3	998	51	7	9	31	1.61
56134080--56134791	305	2.4	298	89	3	1054	51	7	9	31	1.61
56134478--56134843	144	2.6	143	84	6	474	52	6	9	31	1.59
56155121--56155150	4	7.5	4	100	0	60	26	0	23	50	1.50
56158278--56158330	18	2.9	18	80	2	52	69	5	0	24	1.09
56158381--56158424	22	2.0	22	81	0	52	68	0	2	29	1.02
56158881--56159092	9	22.9	9	67	20	73	30	1	3	63	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56158881--56158979	19	5.3	17	72	20	74	34	3	2	60	1.23
56158892--56159010	19	6.3	20	66	18	60	31	1	3	63	1.20
56158862--56159047	10	19.8	10	67	18	62	31	3	3	61	1.29
56159032--56159103	9	7.7	9	74	21	51	23	1	2	72	1.06
56159036--56159103	19	3.5	19	76	15	68	25	1	2	70	1.09
56160052--56160151	52	1.9	52	91	0	164	47	7	22	24	1.76
56162394--56162425	15	2.1	16	88	11	50	46	0	0	53	1.00
56162788--56162842	27	2.0	27	86	6	76	58	0	12	29	1.35
56169630--56169677	17	2.7	18	81	15	55	43	4	6	45	1.48
56176702--56176839	69	2.0	69	83	5	172	41	18	15	24	1.89

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214