genome.fa.s18.2.7.7.80.10.50.1000.85.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: D05
Parameters: 2 7 7 80 10 50 1000
Length:  64368997

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   205   206   207   208   

This is table  85  of  208  ( 24943 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)
29730933--29730972	21	1.9	21	84	0	53	47	35	0	17	1.48
29731067--29731118	25	2.0	26	85	10	72	50	23	1	25	1.60
29734936--29734963	14	2.0	14	100	0	56	57	0	7	35	1.26
29734948--29735025	31	2.6	30	80	8	95	48	2	11	37	1.53
29743151--29743189	17	2.3	17	90	0	60	30	33	17	17	1.94
29743185--29743214	12	2.5	12	100	0	60	26	50	16	6	1.70
29747227--29747275	16	2.8	17	76	17	55	40	0	32	26	1.56
29747635--29747671	9	4.1	9	92	0	65	29	10	13	45	1.77
29756736--29756777	21	2.0	21	86	13	61	30	9	7	52	1.61
29768409--29768576	51	3.3	51	82	0	183	32	16	25	25	1.96
29768409--29768605	51	3.9	50	80	2	178	32	17	23	25	1.97
29768613--29768720	51	2.1	51	89	0	162	35	14	22	27	1.93
29768748--29768855	51	2.1	51	85	0	144	34	18	20	26	1.96
29768761--29768895	51	2.6	51	88	2	191	34	17	23	25	1.96
29768312--29768888	312	1.8	312	83	0	769	34	16	22	26	1.95
29768980--29769404	44	9.8	44	75	9	266	32	18	19	28	1.96
29769113--29769404	87	3.4	86	74	5	302	31	18	21	28	1.97
29769070--29769436	172	2.1	172	90	0	572	30	19	20	29	1.97
29769114--29769360	128	1.9	127	81	4	300	29	19	22	27	1.98
29772240--29772280	3	13.7	3	84	0	55	29	4	2	63	1.28
29772241--29772280	15	2.7	15	92	0	62	27	5	2	65	1.27
29772259--29772286	12	2.3	12	100	0	56	25	14	0	60	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29777488--29777532	22	2.0	22	83	8	56	37	55	2	4	1.32
29777631--29777706	27	2.8	28	80	6	93	36	23	23	15	1.94
29777815--29778121	27	11.4	27	81	2	341	26	16	17	40	1.90
29779957--29780098	73	2.0	71	84	5	187	30	12	11	45	1.78
29786434--29786484	22	2.3	22	89	0	75	31	11	7	49	1.68
29786443--29786486	22	2.0	22	100	0	88	36	9	4	50	1.55
29789040--29789072	15	2.3	15	89	5	50	24	0	6	69	1.10
29799360--29799455	19	4.7	21	79	10	74	40	15	6	37	1.73
29799360--29799417	22	2.6	22	81	7	64	41	17	5	36	1.72
29799396--29799468	19	3.8	19	92	0	128	36	15	9	38	1.80
29799793--29800553	132	5.8	132	92	1	1224	29	24	18	27	1.98
29799831--29800553	394	1.8	395	92	0	1232	29	24	18	28	1.98
29807314--29807390	19	3.7	21	76	13	68	41	15	5	37	1.70
29807314--29807371	22	2.6	22	81	7	64	41	17	5	36	1.72
29807350--29807422	19	3.8	19	88	0	119	36	15	8	39	1.77
29812696--29812830	38	3.6	38	89	1	191	31	16	17	34	1.92
29832039--29832450	217	1.9	216	82	4	508	34	19	20	25	1.96
29847888--29847920	13	2.5	13	95	0	57	81	0	12	6	0.85
29852017--29853625	402	4.0	402	96	0	2862	32	27	17	23	1.97
29856032--29856060	14	2.1	14	93	6	51	0	10	0	89	0.48
29860192--29860281	42	2.1	43	93	2	155	22	22	3	52	1.62
29860201--29860272	24	3.2	24	62	22	66	25	23	1	50	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29869518--29869567	9	5.6	9	82	0	55	36	0	4	60	1.16
29869518--29869559	12	3.5	12	86	0	57	38	0	4	57	1.20
29870190--29870331	73	2.0	71	91	2	230	27	21	19	31	1.97
29879696--29879729	14	2.5	13	90	4	50	79	0	0	20	0.73
29902390--29902427	19	2.0	20	94	5	69	36	15	18	28	1.92
29905751--29905797	25	1.9	24	82	4	58	53	2	0	44	1.12
29909824--29909857	15	2.3	15	89	0	50	58	0	5	35	1.22
29921770--29922006	41	5.8	41	87	3	316	21	20	28	29	1.98
29922366--29922449	42	2.0	43	83	2	107	22	1	35	40	1.62
29925687--29925895	43	4.9	41	74	9	150	24	19	21	34	1.96
29948567--29948600	18	1.9	18	88	5	52	29	0	5	64	1.17
29948686--29948738	23	2.2	23	80	6	61	62	3	0	33	1.13
29948730--29948771	5	8.4	5	84	10	50	64	0	0	35	0.94
29949488--29949545	9	6.4	9	88	7	73	25	6	22	44	1.77
29949677--29949701	12	2.1	12	100	0	50	16	24	36	24	1.94
29951189--29951220	15	2.0	17	88	11	50	34	9	0	56	1.32
29952048--29952108	28	2.2	28	87	0	86	49	16	4	29	1.66
29952070--29952110	14	2.9	14	81	0	55	51	9	2	36	1.48
29952064--29952121	28	2.1	28	90	0	89	53	12	3	31	1.54
29952361--29952416	29	1.9	29	85	7	78	23	14	19	42	1.88
29953355--29953410	29	1.9	29	85	7	78	41	17	16	25	1.89
29959458--29959502	22	2.0	22	100	0	90	22	13	4	60	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29971174--29971218	23	2.0	23	82	8	56	53	4	11	31	1.56
29977821--29977852	14	2.3	14	100	0	64	50	6	6	37	1.53
29979301--29979352	24	2.2	24	92	0	86	57	5	0	36	1.23
29979583--29979639	23	2.3	23	88	8	78	50	1	1	45	1.22
29979620--29979659	16	2.5	16	91	0	62	47	2	7	42	1.45
29979648--29979925	68	4.1	68	97	0	515	39	4	8	46	1.56
29979732--29979759	9	3.1	9	100	0	56	32	0	10	57	1.33
29979800--29979827	9	3.1	9	100	0	56	32	0	10	57	1.33
29979868--29979895	9	3.1	9	100	0	56	32	0	10	57	1.33
29979992--29980066	24	3.0	24	92	7	116	60	2	0	37	1.11
29985057--29985093	18	2.1	18	89	0	56	62	0	18	18	1.34
29986876--29987100	41	5.5	41	93	2	375	28	19	27	24	1.99
29994184--29994268	44	1.9	44	95	0	152	35	8	20	36	1.82
29994624--29994889	41	6.5	41	90	1	412	29	18	26	25	1.98
29998805--29998856	19	2.9	18	86	8	70	23	5	0	71	1.07
29998945--29999026	41	2.0	41	100	0	164	31	21	19	26	1.97
30003543--30003746	93	2.3	91	83	8	247	34	20	10	34	1.86
30003861--30003910	9	5.6	8	86	13	55	68	0	4	28	1.08
30003861--30003910	19	2.7	19	82	11	61	68	0	4	28	1.08
30004117--30004199	36	2.2	38	85	6	107	37	1	2	59	1.19
30004250--30004456	89	2.3	88	79	5	213	35	8	16	39	1.79
30004676--30004705	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30005231--30005282	23	2.3	23	90	6	79	61	0	1	36	1.07
30005933--30006017	31	2.7	31	85	0	116	56	10	10	22	1.63
30010292--30010360	30	2.4	29	73	20	72	43	7	4	44	1.51
30011141--30011193	21	2.5	21	85	14	74	33	7	28	30	1.85
30018063--30018122	15	4.1	15	77	16	54	56	0	1	41	1.09
30018064--30018103	15	2.6	16	88	4	55	57	0	0	42	0.98
30022499--30022552	27	2.0	27	100	0	108	11	18	22	48	1.79
30027726--30027787	32	2.0	32	87	3	90	58	0	1	40	1.08
30027726--30027913	10	18.2	11	68	22	81	60	0	2	37	1.11
30027726--30027912	41	4.5	42	90	7	294	59	0	2	37	1.11
30027763--30027829	33	2.1	31	86	10	91	64	0	1	34	1.03
30027806--30027872	33	2.2	31	76	15	59	64	0	1	34	1.03
30030386--30030412	13	2.1	13	100	0	54	48	22	0	29	1.51
30034279--30034355	14	5.0	15	71	20	52	42	14	9	33	1.77
30034295--30034334	20	2.0	20	90	0	62	50	12	10	27	1.72
30034283--30034349	34	1.9	35	90	3	109	46	13	8	31	1.74
30041781--30041842	30	2.1	30	93	0	106	29	3	9	58	1.46
30045036--30045915	156	5.7	154	84	7	1112	51	7	10	31	1.63
30051156--30051202	23	2.0	23	84	8	60	59	14	2	23	1.46
30053040--30053727	340	2.0	340	96	0	1279	26	31	18	24	1.97
30061528--30061738	21	10.1	21	70	3	122	45	18	21	15	1.86
30061545--30061743	42	4.7	42	83	1	220	45	17	21	16	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30062271--30062329	30	1.9	31	82	6	75	37	15	1	45	1.56
30062196--30062534	169	2.0	169	94	0	597	43	19	4	32	1.71
30062602--30062667	33	2.0	33	96	0	123	56	19	0	24	1.43
30067645--30067669	6	4.2	6	100	0	50	52	48	0	0	1.00
30072266--30072341	39	1.9	39	86	5	109	13	36	23	26	1.91
30075402--30075447	20	2.3	20	88	0	65	73	2	2	21	1.04
30075385--30075466	10	8.0	10	73	9	58	64	1	2	31	1.14
30075453--30075497	21	2.1	21	84	8	56	60	4	8	26	1.46
30075723--30075785	30	2.2	30	86	11	87	38	0	1	60	1.07
30075722--30075755	16	2.1	17	88	5	52	35	0	0	64	0.94

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   205   206   207   208