genome.fa.s20.2.7.7.80.10.50.1000.134.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  134  of  199  ( 23844 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)
39029847--39029916	24	3.0	23	81	6	68	62	7	4	25	1.39
39029841--39029919	23	3.5	22	76	10	79	64	6	3	25	1.34
39036157--39036376	104	2.1	104	87	5	313	35	12	22	29	1.91
39039577--39039628	20	2.8	18	73	21	54	53	3	1	40	1.30
39044873--39044916	23	1.9	23	90	9	72	34	0	20	45	1.51
39047574--39048080	47	10.7	47	95	2	849	32	8	29	28	1.87
39047574--39048080	186	2.7	188	94	2	849	32	8	29	28	1.87
39048199--39048277	37	2.1	37	88	0	113	25	17	31	25	1.97
39049910--39049979	33	2.1	33	91	0	113	12	12	34	40	1.82
39049927--39049998	33	2.2	33	82	0	81	15	15	33	36	1.89
39057110--39057955	421	2.0	426	83	4	1084	37	16	18	27	1.92
39062608--39062655	15	3.2	15	96	0	87	72	0	0	27	0.84
39062789--39062837	25	2.0	25	100	0	98	40	10	8	40	1.69
39064308--39064353	23	1.9	24	86	8	67	23	4	4	67	1.27
39066354--39066429	23	3.3	23	85	3	109	31	23	21	23	1.98
39067801--39067934	59	2.2	60	82	5	155	53	1	2	42	1.22
39067853--39067893	15	2.7	15	88	3	55	43	0	0	56	0.99
39067830--39067942	60	1.9	61	89	5	178	53	0	0	45	1.06
39067954--39068001	21	2.3	21	85	3	62	37	0	4	58	1.18
39074623--39074666	19	2.3	18	82	17	54	47	0	34	18	1.49
39085847--39085905	21	2.9	21	74	2	57	20	10	15	54	1.70
39088818--39088888	29	2.4	29	80	4	79	46	12	15	25	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39090425--39090540	35	3.3	35	88	0	169	18	13	32	35	1.90
39090757--39090878	60	2.0	60	96	0	226	36	8	12	43	1.72
39094491--39094528	20	1.9	20	88	0	58	47	0	7	44	1.32
39096243--39096267	6	4.2	6	100	0	50	16	68	0	16	1.22
39098657--39098780	57	2.2	57	84	7	153	45	5	19	29	1.73
39119432--39119466	17	2.0	18	94	5	63	80	0	0	20	0.72
39125860--39126089	27	8.6	27	89	0	327	44	20	16	17	1.86
39141401--39141453	6	8.8	6	93	0	70	60	0	22	16	1.36
39141401--39141453	18	2.9	18	88	0	79	60	0	22	16	1.36
39147809--39148299	252	1.9	252	88	2	745	34	15	21	28	1.94
39153483--39153593	28	4.0	26	88	3	105	35	25	11	27	1.91
39153496--39153618	28	4.4	28	88	2	167	34	27	12	26	1.92
39164886--39164977	25	3.7	25	73	11	73	29	23	22	23	1.99
39167929--39168212	51	5.6	51	77	7	265	28	14	27	29	1.95
39167925--39168206	102	2.8	102	91	0	431	28	14	27	29	1.95
39167932--39168251	102	3.1	102	86	3	288	29	13	27	29	1.94
39168409--39168481	37	1.9	38	86	2	103	42	2	23	31	1.68
39186389--39186421	17	1.9	17	93	0	57	42	0	6	51	1.26
39193933--39193962	15	1.9	16	93	6	53	43	0	0	56	0.99
39193898--39194140	130	1.9	130	78	10	273	39	5	5	49	1.48
39207802--39207935	45	3.0	45	83	6	173	25	20	14	40	1.90
39209418--39209466	24	2.0	24	100	0	98	20	8	14	57	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39213143--39213177	13	2.7	13	90	0	52	40	28	8	22	1.84
39214835--39214865	5	6.2	5	100	0	62	61	0	0	38	0.96
39215530--39215580	5	10.2	5	100	0	102	39	19	19	21	1.93
39216351--39216411	30	2.0	31	87	3	88	34	0	44	21	1.53
39216461--39216497	9	4.1	9	92	0	65	32	8	10	48	1.67
39225917--39226094	61	2.9	59	70	10	155	42	1	3	51	1.30
39226009--39226067	26	2.3	25	85	8	82	40	0	1	57	1.09
39226022--39226077	15	4.0	15	73	17	57	44	0	0	55	0.99
39225932--39226117	41	4.6	40	68	23	122	41	2	3	52	1.31
39226070--39226113	17	2.6	17	83	16	56	40	4	2	52	1.34
39226275--39226379	44	2.5	40	76	15	113	31	29	4	34	1.78
39226273--39226382	45	2.6	44	81	8	131	31	29	5	33	1.80
39226361--39226430	16	4.4	16	92	0	95	32	34	0	32	1.58
39241871--39242080	40	5.3	40	92	0	314	23	20	29	26	1.99
39249817--39250026	40	5.3	40	92	0	314	23	20	29	26	1.99
39255726--39255769	19	2.3	19	84	7	54	40	4	18	36	1.71
39256309--39256387	27	2.9	27	98	0	149	37	22	21	17	1.94
39256557--39256608	26	2.0	26	92	0	86	23	19	21	36	1.95
39262991--39263032	19	2.2	19	91	4	66	38	2	21	38	1.67
39263315--39263387	33	2.2	34	78	14	80	31	20	21	26	1.98
39263517--39263566	26	1.9	26	87	0	73	34	18	24	24	1.96
39267429--39267484	28	2.0	28	96	0	103	33	10	16	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39267880--39267952	25	2.9	25	85	0	83	34	23	20	21	1.97
39267908--39267964	25	2.3	25	87	0	87	38	17	22	21	1.93
39273633--39273853	40	5.6	40	85	3	232	24	21	28	25	1.99
39273708--39273890	79	2.3	80	81	3	210	25	20	27	25	1.99
39281502--39281722	40	5.6	40	85	3	232	24	21	28	25	1.99
39281577--39281759	79	2.3	80	81	3	210	25	20	27	25	1.99
39288318--39288371	28	2.0	28	92	7	94	37	22	18	22	1.95
39288314--39288383	26	2.4	29	77	22	83	35	21	18	24	1.95
39289927--39289962	16	2.2	17	90	5	56	47	19	16	16	1.83
39302431--39302600	40	4.3	40	89	0	207	24	21	27	26	1.99
39302378--39302600	80	2.8	79	82	3	241	25	21	27	26	1.99
39302455--39302635	79	2.3	80	79	3	188	27	20	27	24	1.99
39310247--39310470	40	5.6	39	85	4	234	24	20	28	26	1.99
39317078--39317152	28	2.5	30	75	18	75	36	22	17	24	1.95
39317085--39317140	28	2.0	28	100	0	112	35	25	17	21	1.95
39317248--39317298	26	2.0	26	92	0	84	35	27	21	15	1.94
39318715--39318751	17	2.2	17	90	9	58	48	18	16	16	1.81
39324943--39324977	17	2.1	17	88	0	52	40	0	14	45	1.45
39335198--39335234	17	2.2	17	90	9	58	10	10	0	78	0.97
39341439--39341481	6	7.5	6	82	10	54	79	0	20	0	0.74
39341549--39341872	143	2.3	143	85	1	434	31	20	21	26	1.98
39342566--39342591	12	2.2	12	100	0	52	15	0	0	84	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39342566--39342613	17	3.0	16	84	6	53	14	6	0	79	0.92
39345392--39345450	19	3.1	19	92	2	91	42	3	5	49	1.41
39349836--39349866	13	2.4	13	94	0	53	19	19	12	48	1.81
39350434--39350466	11	3.1	11	86	4	50	48	9	21	21	1.77
39352731--39352908	27	6.6	27	83	5	198	27	15	27	29	1.96
39352733--39352887	82	1.9	81	88	4	231	27	15	27	29	1.96
39377081--39377121	17	2.4	18	80	8	50	14	24	4	56	1.58
39377052--39377105	24	2.2	25	78	15	60	11	22	3	62	1.43
39379360--39379386	14	1.9	14	100	0	54	14	7	7	70	1.32
39379360--39379440	12	6.1	14	73	18	57	13	11	4	70	1.31
39379391--39379445	28	2.0	28	88	0	83	16	10	5	67	1.39
39381496--39381530	18	1.9	18	88	11	54	22	20	0	57	1.41
39385282--39385321	18	2.2	18	86	4	53	12	27	0	60	1.33
39386375--39386426	13	3.9	14	90	10	90	23	13	0	63	1.29
39386467--39386510	12	3.7	12	93	0	70	11	2	9	77	1.08
39386582--39386713	66	2.0	66	98	0	255	21	12	26	39	1.89
39390233--39390284	11	4.8	11	88	4	79	9	7	7	75	1.21
39390234--39390282	10	4.7	10	87	7	71	10	6	8	75	1.18
39395333--39395384	23	2.3	22	75	21	54	9	23	1	65	1.32
39401029--39401156	13	9.2	13	66	20	55	71	3	10	13	1.26
39401094--39401136	16	2.7	16	75	13	52	72	6	13	6	1.27
39402066--39402097	15	2.1	16	94	5	57	71	0	21	6	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39402180--39402213	18	1.9	18	88	5	52	52	2	35	8	1.47
39404894--39404983	12	6.8	12	73	19	56	74	5	7	12	1.21
39404895--39404984	42	2.2	39	88	7	126	75	4	7	12	1.16
39404950--39404999	15	3.6	14	79	12	50	74	4	16	6	1.17
39405933--39405964	15	2.1	16	94	5	57	71	0	21	6	1.07
39406047--39406080	18	1.9	18	88	5	52	52	2	35	8	1.47
39409532--39409632	52	1.9	52	93	0	175	27	18	20	32	1.96
39415232--39415265	18	1.9	18	88	5	52	8	35	2	52	1.47
39416289--39416324	10	3.8	9	89	10	54	2	8	2	86	0.77
39416280--39416344	22	3.0	21	82	6	69	4	13	3	78	1.03

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