genome.fa.s25.2.7.7.80.10.50.1000.135.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_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  135  of  196  ( 23409 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)
40184131--40184156	7	3.7	7	100	0	52	0	0	11	88	0.52
40184539--40184593	18	2.9	18	81	13	58	40	0	0	60	0.97
40184554--40184609	22	2.7	20	86	10	69	48	0	0	51	1.00
40184584--40184617	14	2.3	15	90	5	52	52	0	0	47	1.00
40189395--40189476	37	2.2	37	91	0	128	40	15	8	35	1.78
40189511--40189586	33	2.3	33	97	0	143	43	15	5	35	1.70
40192604--40193585	119	8.2	119	97	1	1709	43	3	5	47	1.43
40192869--40193539	64	11.1	62	64	21	247	43	3	5	46	1.45
40193534--40193568	18	2.0	17	88	5	52	45	0	0	54	0.99
40193733--40193823	45	2.0	45	85	2	121	37	28	6	27	1.82
40193804--40193856	16	3.2	16	94	5	97	37	37	0	24	1.56
40198217--40198259	21	2.0	21	91	8	70	53	11	11	23	1.69
40198570--40198608	16	2.4	17	87	8	55	64	0	5	30	1.15
40199721--40199770	26	1.9	26	84	8	66	4	14	10	72	1.26
40211347--40211395	24	2.0	25	84	11	66	16	12	2	69	1.28
40228698--40228729	6	5.3	6	100	0	64	15	0	46	37	1.46
40228751--40229089	94	3.6	94	81	5	330	43	2	15	38	1.59
40228846--40229161	94	3.4	91	82	8	361	41	2	17	38	1.62
40229198--40229620	126	3.4	126	91	1	672	32	20	21	25	1.97
40233142--40233184	18	2.4	18	88	0	59	44	11	25	18	1.84
40239722--40239765	23	1.9	23	95	0	79	18	25	47	9	1.77
40239944--40239979	12	3.0	12	92	8	56	22	0	0	77	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40239941--40239974	15	2.3	15	95	5	61	23	0	0	76	0.79
40241596--40241660	20	3.3	20	66	20	55	24	29	9	36	1.86
40241596--40241674	39	2.0	39	97	0	149	24	31	8	35	1.86
40245066--40245165	41	2.4	41	88	3	139	27	21	24	28	1.99
40247589--40247622	12	2.8	12	86	0	50	29	5	5	58	1.45
40250167--40250505	72	4.7	72	82	4	380	24	16	23	35	1.95
40250167--40250505	142	2.4	144	83	4	416	24	16	23	35	1.95
40258679--40258738	30	2.0	31	83	3	77	41	0	36	21	1.54
40259145--40259179	18	1.9	18	94	0	61	37	17	8	37	1.80
40261395--40261427	17	2.0	16	94	5	57	57	0	0	42	0.98
40268435--40268497	30	2.1	30	93	0	108	28	3	11	57	1.49
40269618--40269692	30	2.6	29	73	14	73	41	5	6	46	1.53
40270863--40270906	15	2.8	17	80	19	60	63	0	0	36	0.95
40270863--40270909	17	2.9	16	79	20	62	61	0	0	38	0.96
40273766--40273836	24	3.0	24	80	0	88	45	0	32	22	1.53
40278860--40278911	24	2.2	24	82	6	61	53	0	28	17	1.44
40288563--40288587	3	8.3	3	100	0	50	36	0	32	32	1.58
40292030--40292093	31	2.1	31	82	5	76	45	14	7	32	1.73
40298915--40298981	34	1.9	35	84	3	91	44	13	8	32	1.75
40302420--40302473	27	2.0	27	96	0	99	40	27	18	12	1.87
40303652--40303676	13	1.9	13	100	0	50	32	12	8	48	1.69
40303776--40304024	50	4.8	50	86	5	302	26	22	29	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40303776--40304025	100	2.4	103	86	5	344	26	22	29	21	1.99
40316566--40316601	13	2.8	13	91	0	63	36	38	8	16	1.79
40321645--40321797	35	4.3	35	90	7	238	18	12	28	40	1.87
40323520--40323586	28	2.4	28	84	0	89	34	22	16	26	1.95
40326218--40326526	109	2.9	108	90	3	464	30	16	18	34	1.93
40330556--40330621	21	3.2	21	81	8	64	80	4	6	9	1.02
40331506--40331564	6	9.7	6	72	17	50	71	0	16	11	1.15
40331521--40331567	7	7.0	7	85	9	71	70	0	17	12	1.17
40331505--40331561	13	4.6	13	82	12	75	70	0	17	12	1.17
40331505--40331567	20	3.0	20	86	11	74	69	0	17	12	1.18
40332854--40333137	85	3.3	85	74	8	320	29	19	22	27	1.98
40332805--40333441	44	14.6	45	70	13	304	30	21	21	26	1.98
40332854--40333237	87	4.4	88	75	8	329	30	19	22	26	1.98
40332850--40333228	175	2.2	175	90	0	607	30	20	22	27	1.98
40332898--40333446	87	6.4	83	71	12	254	30	21	22	26	1.99
40333199--40333474	39	6.6	39	72	14	139	29	21	22	26	1.99
40332979--40333441	213	2.1	217	85	4	607	30	20	22	26	1.98
40333198--40333525	170	1.9	170	88	3	500	29	20	23	26	1.99
40334228--40334253	12	2.2	12	100	0	52	0	7	0	92	0.39
40334834--40334871	3	12.7	3	88	0	58	39	0	0	60	0.97
40335381--40335689	109	2.9	109	92	2	491	31	16	18	33	1.94
40344199--40344248	20	2.6	19	87	6	73	60	2	0	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40344664--40344695	2	16.5	2	93	6	57	53	0	0	46	1.00
40346631--40346683	20	2.7	19	82	5	52	73	5	1	18	1.12
40368499--40368532	10	3.6	9	85	14	50	0	14	0	85	0.60
40373255--40374050	127	6.3	127	96	0	1441	28	21	22	27	1.99
40375355--40375405	3	16.7	3	76	11	50	39	0	1	58	1.09
40375348--40375382	15	2.3	15	90	9	54	34	0	5	60	1.21
40375549--40375592	9	5.4	8	84	13	54	31	0	2	65	1.05
40383279--40383306	7	4.0	7	100	0	56	42	0	28	28	1.56
40385815--40386248	191	2.2	193	81	11	493	38	9	9	42	1.69
40388451--40388574	40	3.2	40	74	16	141	32	3	0	64	1.09
40388566--40388616	26	2.0	26	85	11	70	37	0	0	62	0.95
40390647--40390672	3	8.7	3	100	0	52	0	0	30	69	0.89
40390959--40391004	20	2.2	21	84	7	58	19	2	10	67	1.31
40391655--40391698	20	2.1	21	91	4	72	18	2	43	36	1.63
40392234--40392331	23	4.5	23	81	10	116	43	3	1	52	1.23
40392259--40392333	21	3.7	19	84	10	62	45	2	1	50	1.24
40392963--40392998	6	6.0	6	100	0	72	83	16	0	0	0.65
40393911--40394034	35	3.5	35	86	2	169	19	10	29	41	1.84
40396355--40396410	22	2.6	22	88	2	78	16	30	39	14	1.88
40398051--40398102	10	5.2	10	78	13	54	63	0	1	34	1.06
40398206--40398259	19	2.8	19	80	2	63	42	0	1	55	1.10
40398921--40399044	37	3.3	39	80	6	139	41	29	12	16	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40400769--40400806	20	1.9	20	94	0	67	55	15	0	28	1.41
40405148--40405200	27	2.0	27	82	14	65	28	3	3	64	1.28
40408866--40408980	30	3.8	29	73	6	86	26	53	13	6	1.65
40408895--40408986	6	15.3	6	76	0	76	27	54	13	5	1.60
40408884--40408983	30	3.3	30	82	0	119	26	56	12	6	1.58
40408974--40409024	24	2.1	24	81	0	57	23	60	3	11	1.47
40409026--40409094	24	2.9	23	80	4	66	20	49	13	17	1.79
40409160--40409253	30	3.1	28	73	8	80	23	57	4	14	1.55
40409180--40409254	36	2.1	36	84	0	96	24	57	4	14	1.55
40409208--40409274	15	4.5	15	72	7	64	22	61	2	13	1.46
40409190--40409403	18	11.7	18	67	14	64	25	57	3	13	1.52
40409232--40409402	30	5.8	30	70	12	95	26	57	2	12	1.49
40409150--40409274	60	2.1	60	82	5	146	21	58	4	16	1.54
40409232--40409755	33	16.2	33	66	13	105	25	57	4	12	1.53
40409331--40409478	24	6.2	24	65	24	64	26	57	5	10	1.54
40409058--40409601	96	5.6	96	77	5	402	25	57	4	13	1.55
40409361--40409481	18	6.4	18	69	17	75	26	57	4	10	1.52
40409389--40409580	54	3.6	54	72	5	129	26	57	4	11	1.53
40409487--40409626	57	2.4	60	78	8	137	23	60	2	12	1.46
40409567--40409988	24	17.5	23	62	20	98	23	58	5	13	1.55
40409567--40409625	6	9.8	6	83	7	75	20	66	1	11	1.33
40409469--40409607	30	4.5	30	68	15	52	23	59	3	12	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40409469--40409994	123	4.1	123	79	9	586	23	58	4	13	1.55
40409729--40409907	30	5.8	30	67	14	78	22	58	5	13	1.56
40409443--40409751	141	2.2	141	91	1	512	24	57	4	12	1.54
40409443--40409786	141	2.4	141	87	0	447	24	57	4	12	1.54
40409799--40409856	12	5.1	12	75	8	50	18	60	6	13	1.55
40409954--40410006	6	8.8	6	77	8	54	20	64	1	13	1.38
40409953--40410006	18	2.9	19	81	5	67	22	62	1	12	1.39
40409850--40410117	135	2.0	135	93	0	464	23	57	5	13	1.57
40409647--40410129	123	3.8	120	83	10	533	24	57	5	13	1.56
40409997--40410043	18	2.6	18	79	0	58	27	59	4	8	1.45

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