genome.fa.s26.2.7.7.80.10.50.1000.127.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  127  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)
39290479--39290523	16	2.8	17	75	18	51	0	37	0	62	0.96
39291452--39291644	98	2.0	98	94	0	341	37	25	10	26	1.88
39292968--39293080	19	5.8	19	85	4	163	34	15	10	38	1.83
39292968--39293079	40	2.8	40	93	2	183	34	15	10	39	1.82
39293294--39293798	44	11.6	43	73	12	324	27	23	20	28	1.99
39293294--39293766	84	5.4	86	71	13	292	26	23	20	28	1.99
39293288--39293766	217	2.2	217	93	0	798	27	23	20	29	1.99
39293746--39294339	132	4.5	132	93	0	990	25	24	19	30	1.98
39293722--39294327	44	13.8	44	62	15	151	25	24	19	30	1.98
39295547--39295591	6	7.2	6	82	9	54	2	22	0	75	0.91
39295548--39295603	20	2.9	19	84	7	69	1	19	0	78	0.84
39295555--39295602	12	3.8	12	84	13	53	0	20	0	79	0.74
39295555--39295603	13	3.8	13	82	15	57	0	20	0	79	0.73
39298657--39298684	13	2.2	13	100	0	56	64	7	7	21	1.43
39299200--39299312	19	5.8	19	87	4	172	35	15	10	38	1.81
39299200--39299311	40	2.8	40	94	2	192	35	14	10	39	1.81
39299193--39299312	59	2.1	56	87	6	170	35	15	10	39	1.80
39304593--39304628	18	2.0	18	100	0	72	44	5	11	38	1.63
39304595--39304634	18	2.3	18	91	4	64	47	5	10	37	1.59
39311384--39311417	16	2.2	16	89	5	52	26	8	14	50	1.72
39312659--39313034	187	2.0	187	90	1	583	33	19	16	30	1.94
39319559--39319606	17	2.9	17	87	3	71	47	12	18	20	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39322731--39323522	394	2.0	394	95	0	1413	31	21	15	31	1.95
39332455--39332542	37	2.4	38	88	3	135	9	11	36	43	1.72
39342620--39342685	26	2.6	26	78	2	80	33	21	25	19	1.97
39351013--39351564	31	18.0	31	73	10	267	42	18	7	30	1.78
39351032--39351573	92	5.9	92	87	1	714	43	18	7	31	1.77
39351032--39351560	61	8.6	62	74	12	312	42	18	7	31	1.77
39354301--39354482	15	12.3	15	65	24	93	43	1	1	53	1.17
39354305--39354449	25	5.2	25	76	22	146	43	0	1	54	1.13
39354369--39354476	32	3.6	32	79	16	149	46	1	1	50	1.23
39354305--39354497	57	3.4	57	91	4	284	43	1	1	53	1.19
39360689--39360719	15	2.1	15	100	0	62	25	19	19	35	1.95
39366513--39366571	26	2.3	26	80	11	61	62	11	0	25	1.29
39368199--39368376	66	2.7	66	83	5	209	28	26	15	29	1.96
39371595--39371665	34	2.2	32	84	5	88	38	0	7	54	1.27
39371594--39371664	33	2.2	31	82	9	88	38	0	7	54	1.27
39372746--39372789	22	2.0	23	90	4	72	65	0	2	31	1.05
39372741--39372807	31	2.3	29	85	14	93	65	0	2	31	1.07
39372768--39372815	18	2.7	18	81	12	62	70	0	2	27	0.98
39373333--39373427	49	1.9	49	82	0	118	26	14	29	29	1.95
39385540--39385584	9	5.1	9	79	15	58	44	0	28	26	1.55
39388618--39388660	17	2.4	18	88	3	61	39	0	2	58	1.11
39388618--39388665	17	2.8	17	87	3	60	37	0	4	58	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39394518--39394573	29	1.9	29	100	0	112	23	23	7	46	1.76
39406112--39406180	16	4.2	16	92	3	120	26	0	36	37	1.57
39406112--39406180	33	2.1	32	94	2	120	26	0	36	37	1.57
39406161--39406251	45	2.0	45	85	2	121	27	6	28	37	1.82
39406396--39406450	15	3.4	16	80	16	53	54	1	0	43	1.10
39406402--39406450	16	2.9	18	80	20	61	55	0	0	44	0.99
39406498--39406710	67	3.1	67	65	20	163	46	4	3	46	1.38
39406303--39406630	156	2.1	156	97	0	611	42	3	6	46	1.47
39406572--39406606	18	2.0	17	88	5	52	54	0	0	45	0.99
39406489--39406748	137	1.9	137	91	1	387	44	4	4	46	1.42
39406510--39406788	137	2.0	135	82	8	332	45	5	3	45	1.44
39410061--39410185	64	2.0	64	95	0	223	31	8	8	51	1.64
39414368--39414392	11	2.3	11	100	0	50	32	0	28	40	1.57
39436434--39436494	32	1.9	32	83	12	81	49	1	4	44	1.33
39436453--39436494	20	2.1	20	86	0	57	47	0	7	45	1.30
39442399--39442633	114	2.1	113	94	1	409	34	8	29	27	1.87
39448737--39448845	35	3.0	34	83	11	137	46	22	6	23	1.75
39448745--39448856	38	3.0	37	82	6	138	49	24	5	21	1.70
39449045--39449079	16	2.2	16	90	10	54	57	5	31	5	1.46
39449138--39449235	48	2.0	48	86	9	135	53	5	28	13	1.61
39449168--39449235	23	2.8	24	64	16	59	50	5	29	14	1.67
39464388--39464485	49	2.0	49	93	0	169	41	16	15	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39465240--39465286	22	2.1	22	84	0	58	29	25	10	34	1.90
39465549--39465579	15	2.1	15	93	0	53	35	25	6	32	1.82
39466794--39466841	25	1.9	25	100	0	96	39	18	12	29	1.88
39473401--39473450	19	2.6	19	78	15	57	28	10	0	62	1.27
39473493--39473521	15	1.9	15	100	0	58	24	0	6	68	1.13
39473517--39473555	18	2.3	17	86	8	53	30	0	5	64	1.15
39475934--39476025	46	2.0	46	100	0	184	28	10	23	36	1.89
39485872--39485944	36	2.0	36	97	0	137	34	17	8	39	1.80
39488947--39489037	40	2.3	40	86	0	119	25	27	23	24	2.00
39495048--39495189	40	3.5	40	78	10	112	24	27	23	24	2.00
39501758--39501784	12	2.2	12	100	0	54	70	0	7	22	1.12
39502823--39502857	18	1.9	18	94	0	61	45	11	14	28	1.79
39508073--39508270	50	3.8	50	79	6	157	22	26	21	29	1.99
39511082--39511251	50	3.4	49	82	4	191	22	27	20	29	1.99
39512915--39513012	27	3.5	28	90	2	135	26	13	28	31	1.94
39512943--39513025	27	3.0	27	87	5	96	30	12	25	32	1.92
39512915--39513026	28	4.0	27	83	6	98	28	12	25	33	1.92
39535976--39536006	15	2.1	15	100	0	62	35	12	25	25	1.92
39546201--39546247	14	3.3	14	82	5	58	46	2	2	48	1.25
39547555--39547599	20	2.3	20	88	3	65	28	2	11	57	1.45
39547760--39547816	29	2.1	26	84	15	71	36	3	3	56	1.34
39547760--39547816	26	2.1	29	81	15	68	36	3	3	56	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39556062--39556092	5	6.2	5	96	0	53	77	0	0	22	0.77
39556541--39556597	23	2.5	24	77	13	66	66	7	0	26	1.17
39556631--39556680	19	2.7	18	85	11	66	68	4	4	24	1.24
39558767--39558926	42	3.8	42	80	3	151	21	17	19	41	1.91
39559291--39559320	13	2.4	13	94	5	53	40	0	26	33	1.57
39560823--39560902	23	3.4	23	86	5	99	57	0	2	40	1.12
39561033--39561095	31	2.0	32	84	3	83	38	17	15	28	1.91
39569564--39569619	28	2.0	28	100	0	112	46	7	10	35	1.66
39570192--39570248	21	2.6	22	77	8	71	38	5	3	52	1.41
39576049--39576081	16	2.1	16	100	0	66	24	12	21	42	1.86
39578538--39578880	44	7.8	44	65	11	139	27	25	18	28	1.98
39578451--39578936	132	3.7	132	92	0	776	28	25	18	27	1.98
39579730--39579754	13	1.9	13	100	0	50	56	8	24	12	1.62
39581108--39581148	20	2.0	20	90	9	66	65	4	14	14	1.42
39583035--39583060	13	2.0	13	100	0	52	46	15	7	30	1.74
39585967--39585998	13	2.3	15	89	10	50	25	0	0	75	0.81
39587494--39587539	23	2.0	23	95	0	83	36	17	19	26	1.94
39588781--39588812	15	2.1	15	100	0	64	46	6	18	28	1.73
39598709--39598748	21	2.0	20	85	5	53	52	10	0	37	1.35
39615797--39615875	30	2.6	29	71	15	70	26	26	12	34	1.92
39617324--39617519	36	5.5	35	72	12	103	22	32	18	27	1.97
39617440--39617538	35	2.8	35	76	13	96	28	26	19	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39617542--39617634	36	2.6	36	73	0	87	22	29	18	30	1.97
39617545--39617743	107	1.9	106	78	6	222	23	27	18	30	1.97
39628299--39628326	13	2.2	13	100	0	56	57	7	7	28	1.52
39629780--39629853	27	2.8	27	71	15	64	47	0	1	51	1.09
39638224--39638261	20	1.9	20	89	10	60	34	0	5	60	1.19
39642297--39642331	16	2.1	17	89	5	54	11	51	0	37	1.38
39644260--39644294	5	6.8	5	93	6	61	0	20	0	80	0.72
39644266--39644301	16	2.2	16	90	0	54	2	19	0	77	0.88
39645341--39645378	20	1.9	20	89	10	60	31	34	7	26	1.85
39646054--39646096	22	2.0	22	85	0	59	27	4	13	53	1.60

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