genome.fa.s16.2.7.7.80.10.50.1000.38.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  38  of  175  ( 20966 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)
10472395--10472419	6	4.2	6	100	0	50	16	0	52	32	1.44
10472594--10472636	3	14.3	3	85	0	59	0	4	30	65	1.13
10472646--10472677	3	10.7	3	100	0	64	0	31	34	34	1.58
10475702--10475939	50	4.7	50	77	3	199	21	26	21	29	1.99
10485904--10485937	16	2.1	16	88	0	50	29	11	23	35	1.90
10485973--10486024	25	2.0	26	88	3	79	42	9	5	42	1.61
10486145--10486182	16	2.4	16	100	0	76	50	5	5	39	1.48
10488954--10489074	63	1.9	62	83	6	154	29	6	29	33	1.83
10493195--10493223	12	2.5	12	94	5	51	62	0	6	31	1.22
10495640--10495785	75	1.9	75	85	0	202	28	19	25	27	1.99
10498740--10498808	31	2.2	31	94	0	120	33	11	11	43	1.77
10499032--10499371	43	8.0	43	80	4	309	29	22	19	28	1.98
10499074--10499376	85	3.6	85	80	5	317	29	21	20	29	1.98
10499074--10499384	43	7.3	43	80	4	317	29	21	20	28	1.98
10499660--10499705	21	2.2	21	88	0	65	4	43	17	34	1.69
10505119--10505285	47	3.6	47	95	0	298	34	0	20	44	1.52
10505066--10505346	9	31.0	9	69	15	152	35	1	19	44	1.58
10505068--10505352	56	5.4	56	76	18	256	35	1	20	43	1.59
10505119--10505352	103	2.3	102	84	12	322	35	0	20	44	1.52
10505157--10505352	103	1.9	106	91	6	328	35	0	20	44	1.52
10505119--10505321	47	4.1	47	84	13	273	36	0	19	43	1.51
10506980--10507041	29	2.3	26	75	8	61	22	16	12	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10515243--10515299	28	2.0	28	89	0	87	33	14	19	33	1.91
10519135--10519206	32	2.2	32	85	5	90	31	6	13	47	1.70
10519284--10519319	18	1.9	18	88	5	54	16	25	0	58	1.38
10520549--10520590	16	2.7	15	79	13	50	28	0	9	61	1.27
10523615--10523701	43	2.0	43	97	0	165	25	14	6	52	1.66
10525535--10525578	16	2.8	16	83	13	63	20	4	4	70	1.23
10528556--10528778	29	7.7	29	79	6	218	28	13	20	37	1.91
10535342--10535415	36	2.1	36	84	5	96	37	18	18	24	1.94
10535406--10535438	16	2.1	16	100	0	66	36	6	24	33	1.80
10542005--10542090	6	14.2	6	74	11	50	23	5	3	67	1.28
10561959--10561983	5	5.0	5	100	0	50	20	0	0	80	0.72
10565142--10565195	20	2.7	20	82	0	72	31	14	12	40	1.84
10567156--10567201	24	1.9	24	82	8	58	36	4	6	52	1.47
10567254--10567593	30	11.4	30	81	8	263	37	12	25	25	1.90
10567254--10567593	60	5.7	60	78	8	291	37	12	25	25	1.90
10567254--10567563	90	3.5	89	78	6	315	37	11	25	24	1.90
10567373--10567533	29	5.4	29	83	7	182	38	12	27	21	1.89
10575695--10575733	18	2.2	18	100	0	78	38	10	10	41	1.73
10577639--10577688	25	2.0	25	96	0	91	26	20	12	42	1.86
10583694--10583756	17	3.5	17	74	19	65	50	12	1	34	1.50
10583883--10583999	39	3.0	39	93	1	191	20	2	27	49	1.62
10583981--10584019	17	2.2	18	95	4	71	12	0	46	41	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10583999--10584032	13	2.7	13	90	4	52	11	2	47	38	1.55
10583980--10584043	30	2.1	31	88	8	96	17	1	42	39	1.59
10591838--10591871	17	1.9	18	94	5	61	50	5	5	38	1.51
10593691--10593956	67	4.0	68	87	2	378	27	15	18	38	1.91
10593692--10593954	134	2.0	134	90	1	420	28	15	17	38	1.91
10593894--10594015	58	2.1	58	86	6	167	28	13	14	42	1.84
10598665--10598834	45	3.8	45	82	1	180	43	11	20	24	1.84
10600285--10600417	70	1.9	67	86	4	185	34	12	9	43	1.75
10601216--10601304	33	2.7	33	86	10	128	26	11	33	28	1.91
10602703--10602744	19	2.2	18	87	8	57	33	0	0	66	0.92
10602712--10602756	19	2.4	19	88	7	65	26	0	2	71	0.98
10603211--10603273	19	3.3	19	75	6	65	52	1	0	46	1.10
10603198--10603237	16	2.6	16	80	4	55	50	0	0	50	1.00
10603204--10603278	37	2.0	37	84	5	98	49	1	0	49	1.09
10603211--10603271	18	3.2	20	75	13	65	54	1	0	44	1.10
10604719--10604792	29	2.6	28	85	6	94	17	0	32	50	1.47
10604745--10604799	29	1.9	28	85	3	74	14	1	34	49	1.54
10606487--10606560	29	2.6	28	87	6	103	17	0	31	51	1.46
10608358--10608426	21	3.3	21	68	8	59	15	18	17	47	1.82
10608372--10608445	21	3.5	21	75	0	67	13	18	20	47	1.82
10610720--10610892	73	2.4	72	90	0	265	26	24	27	21	2.00
10610793--10611214	114	3.7	113	88	2	607	25	22	26	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10611562--10611620	16	3.9	14	79	14	55	23	1	44	30	1.64
10611568--10611610	16	2.7	16	85	10	61	20	2	44	32	1.65
10611828--10611868	21	2.0	20	85	4	55	19	2	41	36	1.65
10611858--10611904	15	3.2	15	82	17	62	21	0	42	36	1.53
10611860--10611905	14	3.2	14	82	14	58	23	0	41	34	1.55
10612035--10612236	105	1.9	108	90	3	329	49	11	10	28	1.72
10612130--10612566	148	3.0	148	88	7	615	44	13	15	27	1.83
10612565--10612603	17	2.3	17	81	0	51	66	2	0	30	1.05
10616379--10616563	43	4.3	42	86	4	237	22	17	27	32	1.96
10616355--10616563	43	4.9	43	83	4	228	24	18	26	31	1.97
10616656--10616698	22	2.0	22	90	0	68	44	27	18	9	1.80
10617164--10617200	4	9.2	4	100	0	74	24	0	27	48	1.51
10623911--10623953	22	2.0	21	86	8	61	25	37	4	32	1.77
10628393--10628441	22	2.3	22	85	3	64	30	4	40	24	1.74
10628734--10628790	24	2.4	22	77	13	60	73	1	3	21	1.07
10631385--10631431	24	2.0	24	87	4	69	68	6	0	25	1.13
10631390--10631423	17	1.9	18	94	5	61	70	5	0	23	1.09
10631385--10631432	23	2.0	23	88	8	69	68	6	0	25	1.12
10634409--10634463	22	2.5	22	84	3	65	21	14	34	29	1.93
10634423--10634465	22	2.0	22	95	0	77	20	16	34	27	1.94
10634424--10634472	22	2.2	22	88	0	71	24	20	28	26	1.99
10638158--10638261	28	3.7	28	82	8	113	46	20	15	18	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10641073--10641114	16	2.9	14	83	13	57	30	38	7	23	1.82
10641093--10641155	26	2.3	27	78	8	74	39	36	11	12	1.79
10645662--10645759	17	5.4	17	64	13	52	32	4	14	48	1.62
10645677--10645768	17	5.0	18	67	15	62	34	4	15	45	1.66
10645657--10645768	37	3.0	37	92	0	179	33	4	15	46	1.66
10646206--10646451	127	2.0	122	80	10	277	45	6	8	39	1.62
10646897--10646956	30	2.0	31	90	3	95	20	38	0	41	1.52
10650887--10650982	46	2.1	45	86	3	138	37	1	16	44	1.55
10651896--10651937	21	2.0	21	85	0	57	35	0	26	38	1.57
10652313--10652440	64	2.0	64	79	0	139	25	19	21	33	1.97
10654301--10654415	42	2.7	41	77	5	113	19	22	16	41	1.90
10657172--10657251	25	3.1	25	83	7	90	7	20	1	71	1.17
10657255--10657303	26	1.9	25	87	4	71	36	4	0	59	1.17
10661543--10661628	4	20.8	4	76	10	75	20	4	4	69	1.25
10661539--10661616	36	2.2	37	79	11	90	20	5	5	69	1.28
10661746--10662167	108	4.0	107	88	4	543	28	14	19	36	1.92
10662643--10662681	18	2.2	18	100	0	78	25	17	20	35	1.95
10674425--10674486	31	2.0	31	100	0	124	32	9	16	41	1.80
10674788--10674819	3	10.7	3	100	0	64	31	0	0	68	0.90
10680627--10680688	31	2.0	31	100	0	124	32	9	16	41	1.80
10682010--10682034	13	1.9	13	100	0	50	56	20	0	24	1.43
10683410--10683467	5	11.8	5	96	3	109	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10692687--10692726	21	1.9	21	85	10	55	55	0	0	45	0.99
10707272--10707318	19	2.5	20	86	6	62	61	8	0	29	1.25
10714303--10714331	13	2.2	13	100	0	58	41	0	0	58	0.98
10714611--10714702	30	3.0	30	78	15	91	39	5	14	41	1.68
10714618--10714765	61	2.4	61	81	3	172	42	5	11	40	1.64
10717429--10717489	18	3.6	18	76	13	56	11	6	4	77	1.12
10718099--10718134	3	12.0	3	100	0	72	33	0	0	66	0.92
10718146--10718242	50	2.0	48	82	13	117	31	9	11	47	1.71
10718709--10718737	13	2.1	14	93	6	51	34	6	6	51	1.55
10718715--10718756	17	2.4	18	84	7	52	42	4	4	47	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