genome.fa.s26.2.7.7.80.10.50.1000.164.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_D13
Parameters: 2 7 7 80 10 50 1000
Length:  60343961

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   

This is table  164  of  204  ( 24404 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)
49502183--49502275	19	4.9	18	72	13	80	64	3	3	29	1.25
49502976--49503002	2	13.5	2	100	0	54	51	0	0	48	1.00
49509294--49509330	3	12.3	3	100	0	74	32	32	0	35	1.58
49510292--49510325	17	2.0	17	88	0	50	67	5	14	11	1.39
49512865--49512955	30	3.0	30	95	0	164	28	8	20	41	1.82
49513664--49513700	2	18.5	2	100	0	74	51	0	48	0	1.00
49516008--49516287	140	2.0	139	90	2	445	31	19	13	35	1.91
49519904--49519935	15	2.1	16	88	11	50	65	0	3	31	1.08
49520489--49520526	17	2.2	17	86	9	51	65	0	0	34	0.93
49520961--49521067	3	36.0	3	93	1	144	59	0	40	0	0.97
49521175--49521391	109	2.0	109	99	0	425	25	16	22	35	1.95
49522223--49522277	21	2.6	21	82	0	65	16	9	43	30	1.79
49524857--49524928	31	2.3	31	76	9	76	34	6	0	58	1.25
49530029--49530074	6	7.8	6	83	11	60	36	30	15	17	1.91
49530300--49530330	16	1.9	16	93	0	53	61	22	0	16	1.34
49538786--49538850	21	3.1	21	71	2	60	13	18	18	49	1.80
49538722--49538878	42	3.7	42	77	9	151	15	20	17	46	1.84
49541566--49541605	11	3.6	11	93	0	71	50	0	35	15	1.44
49548345--49548374	13	2.2	14	94	5	53	73	6	0	20	1.05
49554030--49554081	13	4.0	13	80	9	61	3	19	0	76	0.93
49554682--49554736	23	2.4	23	76	11	58	9	27	25	38	1.86
49556045--49556131	41	2.2	40	83	8	113	32	16	25	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49556055--49556163	41	2.7	41	85	5	148	30	15	25	28	1.96
49563339--49563499	35	4.7	34	69	10	105	28	16	26	28	1.97
49563372--49563666	33	8.8	32	71	7	140	29	15	25	28	1.96
49563408--49563669	134	2.0	134	92	0	443	30	16	24	29	1.96
49563306--49563550	101	2.4	101	94	0	427	31	16	24	27	1.97
49563671--49563716	24	1.9	24	100	0	92	43	4	30	21	1.72
49563671--49563727	24	2.4	24	90	0	87	50	3	24	21	1.64
49563685--49563746	24	2.6	24	78	0	61	51	4	20	22	1.66
49565762--49565919	43	3.7	43	81	1	147	25	17	24	32	1.97
49567909--49568159	50	4.9	50	86	5	326	22	29	21	26	1.99
49581819--49581859	17	2.4	17	92	8	66	34	26	14	24	1.94
49595492--49595563	4	17.2	4	78	16	67	23	1	0	75	0.89
49595472--49595571	30	3.4	30	82	14	120	22	2	1	75	0.97
49595475--49595564	25	3.4	25	78	20	87	22	1	1	75	0.93
49597482--49597516	15	2.4	15	90	4	54	48	0	8	42	1.33
49599703--49599730	6	4.7	6	100	0	56	82	0	0	17	0.68
49608360--49608386	6	4.5	6	100	0	54	0	0	51	48	1.00
49616481--49616563	30	2.7	31	88	5	123	37	2	6	54	1.38
49616881--49616923	18	2.6	16	85	10	59	27	2	0	69	1.00
49616895--49616947	22	2.6	21	85	8	65	35	5	0	58	1.22
49616888--49616947	10	6.1	10	78	20	56	35	5	0	60	1.19
49616905--49616952	24	2.2	20	82	14	51	39	4	0	56	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49617188--49617277	29	3.1	28	75	12	85	25	3	1	70	1.10
49617208--49617242	16	2.1	18	84	15	56	17	0	2	80	0.84
49617209--49617242	17	2.1	17	94	5	61	17	0	2	79	0.86
49617188--49617278	11	9.6	10	69	21	54	26	3	1	69	1.11
49617236--49617288	18	2.8	18	75	18	54	33	5	0	60	1.20
49617193--49617277	19	4.3	21	71	15	58	27	3	1	68	1.13
49619778--49619818	19	2.2	19	86	8	57	41	0	0	58	0.98
49620421--49620469	24	2.0	24	84	7	64	57	2	4	36	1.30
49620637--49620677	17	2.4	18	80	12	50	58	0	0	41	0.98
49624921--49625060	71	2.0	71	87	2	201	35	17	17	29	1.93
49631456--49631762	169	1.9	162	88	4	470	30	18	14	36	1.91
49632952--49633034	27	3.1	27	82	0	94	26	26	20	26	1.99
49637099--49637133	12	2.9	12	91	0	52	17	2	0	80	0.84
49637845--49637870	9	2.9	9	100	0	52	34	7	0	57	1.27
49638742--49638804	21	3.2	21	71	17	62	14	7	12	65	1.47
49646042--49646084	12	3.6	12	83	0	50	65	11	0	23	1.25
49648921--49648961	9	4.2	10	76	17	50	36	0	2	60	1.10
49648913--49648995	18	4.6	19	68	15	59	40	3	2	53	1.32
49649614--49649824	105	2.0	105	100	0	422	26	16	17	40	1.90
49655297--49655322	11	2.4	11	100	0	52	38	7	0	53	1.30
49655319--49655384	10	6.4	10	72	26	50	28	1	0	69	0.97
49655289--49655434	43	3.4	41	87	6	211	34	2	0	62	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49655364--49655397	17	2.0	17	88	0	50	35	0	0	64	0.94
49655351--49655415	31	2.1	31	86	8	89	33	3	0	63	1.10
49659013--49659459	44	10.1	44	72	7	278	25	22	18	32	1.97
49659013--49659374	88	4.1	87	83	4	406	25	23	17	32	1.97
49659087--49659391	132	2.3	131	85	2	405	25	22	18	32	1.97
49658913--49659359	177	2.5	178	78	6	478	28	23	17	30	1.97
49659010--49659452	220	2.0	220	84	3	570	26	23	18	31	1.97
49674189--49674285	48	2.0	48	100	0	194	26	14	12	46	1.80
49677257--49677348	34	2.7	34	91	0	139	27	5	30	36	1.79
49678549--49678610	31	2.0	31	100	0	124	12	16	12	58	1.64
49697569--49697615	19	2.4	20	83	13	62	85	6	8	0	0.75
49697569--49697621	15	3.6	14	80	14	54	84	5	9	0	0.76
49697571--49697621	26	2.0	26	84	7	68	84	5	9	0	0.78
49698470--49699172	75	9.2	74	80	6	633	28	16	19	36	1.93
49698467--49699206	311	2.4	296	79	6	766	28	16	19	36	1.93
49700013--49700051	13	3.1	13	82	17	55	69	0	30	0	0.89
49700019--49700059	8	5.4	8	85	8	59	65	0	34	0	0.93
49700015--49700059	15	3.0	15	83	6	56	68	0	31	0	0.89
49700117--49700176	15	3.8	16	78	8	61	68	0	31	0	0.90
49700122--49700176	7	8.1	7	82	15	55	70	0	29	0	0.87
49700127--49700207	36	2.1	36	82	13	92	75	0	22	2	0.92
49700133--49700216	28	3.0	28	74	20	77	76	0	20	3	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49700152--49700202	15	3.3	15	79	12	59	78	0	17	3	0.90
49700858--49700894	16	2.2	18	90	9	60	18	0	2	78	0.87
49701043--49701311	35	7.6	35	76	15	132	30	12	11	45	1.77
49701056--49701342	17	16.3	17	71	16	183	31	11	11	45	1.75
49701073--49701258	71	2.6	71	80	12	222	31	12	11	44	1.78
49701138--49701341	90	2.3	87	87	4	273	30	11	10	47	1.73
49701230--49701345	38	3.1	38	83	9	125	33	7	11	47	1.68
49713074--49713144	36	2.0	35	88	2	106	35	9	25	29	1.88
49718185--49718256	36	2.0	35	83	2	90	37	9	23	29	1.87
49718696--49718737	20	2.1	20	95	0	75	26	9	26	38	1.87
49735759--49735793	17	2.1	17	100	0	70	48	17	5	28	1.69
49736606--49736690	43	2.0	42	88	6	127	23	24	1	50	1.56
49738755--49738789	11	2.9	12	91	8	54	82	0	0	17	0.66
49739663--49739759	21	4.7	21	87	5	144	38	12	8	41	1.73
49740070--49741048	44	22.5	44	70	14	410	27	23	20	28	1.99
49740240--49740530	133	2.2	133	99	0	573	26	25	20	27	1.99
49740373--49741057	217	3.2	216	93	0	1129	28	23	20	27	1.99
49742290--49742335	22	2.2	20	84	7	56	4	17	0	78	0.91
49746701--49746734	12	2.8	12	86	4	50	79	2	0	17	0.86
49747615--49747711	21	4.7	21	89	5	153	38	12	9	40	1.75
49747766--49747803	2	19.5	2	94	5	69	50	0	0	50	1.00
49748854--49748945	9	10.4	9	87	4	134	34	21	8	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49748853--49748945	26	3.5	26	91	1	150	35	21	8	34	1.84
49748854--49748945	35	2.6	36	87	5	143	34	21	8	34	1.84
49748962--49748991	7	4.3	7	100	0	60	60	13	13	13	1.60
49752395--49752463	35	2.0	35	88	0	102	43	28	4	23	1.73
49755642--49755739	11	9.4	11	71	23	61	58	0	4	37	1.17
49755634--49755728	30	3.1	30	85	7	122	61	0	3	35	1.12
49755669--49755748	41	2.0	41	89	0	124	60	0	3	36	1.15
49763423--49763473	2	26.0	2	76	4	50	45	3	3	47	1.40
49769628--49769653	10	2.6	10	100	0	52	76	0	23	0	0.78
49769649--49769710	6	10.0	6	77	16	56	77	0	20	1	0.85

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