genome.fa.s20.2.7.7.80.10.50.1000.39.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: Gbar_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  39  of  189  ( 22580 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)
11783488--11783567	36	2.2	36	80	8	92	36	8	2	52	1.46
11786051--11786100	3	16.7	3	79	8	57	30	6	2	62	1.31
11786227--11786306	36	2.2	36	80	8	92	36	8	2	52	1.46
11788790--11788842	3	17.7	3	80	7	63	30	5	1	62	1.29
11788874--11788922	22	2.3	20	78	18	55	36	10	2	51	1.48
11788969--11789048	36	2.2	36	80	8	92	36	8	2	52	1.46
11827701--11827754	23	2.5	22	87	6	74	59	7	1	31	1.36
11827704--11827773	3	23.3	3	74	11	63	61	5	1	31	1.28
11828743--11828767	8	3.1	8	100	0	50	24	12	52	12	1.72
11834415--11834579	57	2.9	57	98	0	312	35	24	13	26	1.93
11835321--11835351	2	15.5	2	100	0	62	51	0	0	48	1.00
11837258--11837317	29	2.1	29	84	6	77	55	3	1	40	1.27
11840349--11840400	27	1.9	27	88	7	79	44	15	1	38	1.58
11840349--11840408	27	2.3	26	83	13	70	45	15	1	38	1.56
11840969--11841001	16	2.1	16	88	5	50	45	9	12	33	1.73
11842538--11842577	21	1.9	21	85	10	55	72	0	25	2	0.97
11849940--11849987	25	2.0	24	84	8	62	41	6	0	52	1.27
11852584--11852631	15	3.1	15	74	14	53	54	8	8	29	1.60
11855345--11855415	29	2.5	28	76	13	74	46	4	2	46	1.37
11857287--11857433	75	2.0	75	97	0	276	25	19	12	41	1.87
11860892--11860938	22	2.1	22	85	14	62	65	4	6	23	1.33
11862676--11863178	94	5.3	94	83	2	472	31	19	18	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11862870--11863027	50	3.3	49	71	15	148	34	22	17	25	1.96
11863134--11863225	44	2.1	44	81	4	105	25	17	19	38	1.93
11868250--11868809	280	2.0	280	99	0	1102	29	22	20	27	1.99
11870365--11870397	12	2.8	12	90	4	50	18	9	3	69	1.28
11871065--11871128	3	21.3	3	75	0	56	32	9	1	56	1.41
11871065--11871128	12	5.3	12	78	0	65	32	9	1	56	1.41
11871504--11871559	27	2.2	25	83	6	67	32	5	0	62	1.18
11871678--11871709	15	2.1	16	94	5	57	18	0	9	71	1.12
11874043--11874467	109	3.9	109	94	0	685	28	16	19	34	1.94
11875016--11875063	3	16.0	3	86	0	69	62	2	0	35	1.07
11877067--11877104	19	2.0	19	85	10	51	7	10	5	76	1.15
11878775--11879054	132	2.1	132	98	1	542	39	10	26	23	1.86
11882285--11882361	29	2.6	29	79	4	82	45	15	12	25	1.82
11882611--11882663	23	2.3	23	83	9	63	45	7	0	47	1.31
11882611--11882673	23	2.7	23	78	9	58	49	6	0	44	1.28
11882769--11882820	26	2.0	26	100	0	104	61	11	0	26	1.30
11882778--11882849	26	2.8	25	82	14	76	62	8	0	29	1.24
11888178--11888204	11	2.5	11	100	0	54	44	0	0	55	0.99
11898020--11898284	102	2.6	103	90	3	417	19	20	29	29	1.97
11905492--11905757	103	2.6	104	90	3	419	19	20	29	29	1.97
11907323--11907366	22	2.0	22	100	0	88	54	13	13	18	1.71
11908613--11908946	45	7.5	41	71	14	182	34	17	19	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11908422--11908726	137	2.2	137	81	8	361	31	18	20	29	1.96
11908652--11908946	45	6.5	45	71	12	192	34	17	19	28	1.95
11908483--11909016	181	2.9	181	88	0	780	34	17	19	28	1.95
11909072--11909244	51	3.6	50	71	15	157	35	18	17	28	1.94
11909075--11909298	92	2.4	92	87	1	324	37	16	18	28	1.92
11915354--11915381	13	2.2	13	100	0	56	39	21	0	39	1.54
11919455--11919496	23	1.9	22	85	9	59	30	4	4	59	1.39
11923726--11926121	800	3.0	800	99	0	4720	30	19	17	32	1.95
11937267--11937616	125	2.8	124	93	0	594	29	16	21	32	1.95
11938144--11938232	27	3.3	26	84	6	115	22	21	34	21	1.97
11938297--11938340	22	2.0	21	91	4	70	63	2	34	0	1.07
11938293--11938339	18	2.5	20	79	10	62	63	2	34	0	1.06
11941337--11941420	40	2.2	38	93	4	141	38	2	3	55	1.30
11941568--11941964	49	8.5	46	77	15	236	53	13	0	32	1.46
11941617--11942091	115	4.2	115	76	17	433	54	12	0	32	1.43
11941617--11941955	27	14.1	27	72	24	269	53	12	0	33	1.45
11941569--11941955	96	4.0	97	84	10	385	52	13	0	32	1.46
11941898--11942089	41	4.7	40	73	17	160	55	11	0	33	1.36
11942003--11942089	20	4.2	21	82	11	99	57	11	0	31	1.34
11942253--11942283	14	2.3	13	94	5	53	0	32	0	67	0.91
11942258--11942295	14	2.7	14	88	8	51	0	36	0	63	0.95
11942251--11942295	17	2.6	17	80	13	56	0	35	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11945318--11945342	10	2.5	10	100	0	50	48	0	8	44	1.32
11945391--11945544	29	5.3	29	96	1	281	29	0	25	44	1.54
11945590--11945704	36	3.2	36	65	11	92	46	15	4	33	1.66
11945622--11945732	25	4.6	25	68	20	83	45	14	2	37	1.59
11945550--11945734	71	2.6	71	95	0	334	44	14	3	37	1.62
11946135--11946169	18	1.9	18	88	0	52	31	8	34	25	1.86
11946590--11946620	15	2.1	15	100	0	62	35	38	6	19	1.77
11946836--11946860	7	3.6	7	100	0	50	60	12	0	28	1.32
11947871--11947910	21	1.9	21	84	0	53	62	0	0	37	0.95
11947863--11947927	31	2.2	30	94	5	114	63	0	0	36	0.95
11947951--11948034	29	3.1	29	62	22	74	41	0	28	29	1.56
11947928--11948042	51	2.3	51	96	0	212	41	0	30	27	1.56
11950002--11950049	23	2.1	23	84	7	62	60	0	2	37	1.09
11950281--11950380	19	5.2	20	70	21	70	35	1	2	62	1.14
11950289--11950380	20	4.8	19	72	11	80	36	1	1	60	1.11
11950280--11950370	29	3.2	28	75	10	87	32	1	2	63	1.13
11950280--11950362	10	8.7	10	72	7	57	33	1	2	62	1.16
11950343--11950388	20	2.3	21	81	11	60	41	0	0	58	0.98
11957725--11957793	31	2.2	31	84	0	84	39	13	8	39	1.75
11965025--11965053	12	2.4	12	100	0	58	34	6	0	58	1.25
11967088--11967134	19	2.5	19	86	6	60	27	19	8	44	1.79
11968673--11968774	40	2.5	41	87	4	136	39	2	0	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11968723--11968774	10	4.9	11	86	13	74	46	1	0	51	1.12
11968714--11968774	31	2.0	31	90	6	97	44	1	0	54	1.10
11969813--11969875	6	10.8	6	72	13	51	76	0	23	0	0.79
11969815--11969876	5	12.0	5	83	10	63	75	0	24	0	0.80
11969820--11969847	14	2.0	14	100	0	56	78	0	21	0	0.75
11969779--11969870	36	2.6	36	78	11	91	76	1	18	4	1.02
11972090--11972431	132	2.6	132	93	0	567	30	20	24	24	1.99
11974388--11974416	12	2.4	12	100	0	58	34	6	0	58	1.25
11979164--11979193	15	2.0	15	93	0	51	43	0	0	56	0.99
11989027--11989062	18	2.0	18	100	0	72	44	5	16	33	1.71
12006261--12006300	20	2.0	20	85	9	55	30	0	2	67	1.04
12006291--12006328	20	1.9	20	84	10	51	50	0	2	47	1.15
12008302--12008352	2	25.5	2	77	15	52	41	3	3	50	1.39
12008306--12008348	22	2.0	22	95	0	77	39	4	4	51	1.44
12008839--12008887	13	3.8	13	80	0	62	34	24	8	32	1.85
12025177--12025221	20	2.3	20	96	3	83	37	0	0	62	0.96
12025583--12025631	24	2.2	22	82	10	55	51	4	14	30	1.61
12031006--12031209	99	2.0	102	80	8	231	31	16	24	26	1.96
12031108--12031765	115	5.8	114	77	4	614	29	18	24	27	1.98
12032578--12032639	15	4.1	15	74	13	56	19	3	35	41	1.67
12033104--12033386	148	1.9	148	84	1	379	24	17	22	36	1.95
12033104--12033441	148	2.3	148	79	7	350	23	16	23	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12034882--12034919	3	12.7	3	88	0	58	28	2	2	65	1.19
12046379--12046408	1	30.0	1	93	0	51	96	0	3	0	0.21
12047647--12048020	44	8.6	44	74	7	305	30	21	22	25	1.99
12047612--12047948	131	2.6	131	78	9	330	31	21	22	24	1.98
12047647--12047982	87	3.9	88	74	11	278	30	22	22	24	1.99
12047601--12048072	218	2.2	218	95	0	838	30	21	22	25	1.99
12047871--12048032	87	1.9	87	84	2	218	29	20	24	25	1.99
12049459--12049496	3	12.7	3	88	0	58	28	2	2	65	1.19
12051082--12051136	14	3.9	14	72	9	58	32	12	20	34	1.90
12051051--12051141	16	5.9	16	71	17	68	31	12	18	37	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   186   187   188   189