genome.fa.s25.2.7.7.80.10.50.1000.43.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   
          209   210   211   212   213   214   

This is table  43  of  214  ( 25680 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)
11844256--11844318	29	2.2	29	91	5	101	20	1	6	71	1.16
11846242--11846272	16	1.9	16	93	0	53	41	22	12	22	1.88
11848164--11848210	3	15.3	3	78	12	51	63	2	4	29	1.25
11848164--11848210	15	3.3	13	85	11	58	63	2	4	29	1.25
11849389--11849440	22	2.5	21	90	9	81	71	0	5	23	1.07
11849526--11849584	11	5.5	11	74	11	50	69	0	6	23	1.12
11849600--11849646	15	3.0	16	81	6	51	51	8	0	40	1.33
11849621--11849646	8	3.2	8	100	0	52	53	11	0	34	1.37
11851249--11851303	29	1.9	27	85	10	74	27	27	20	25	1.99
11852923--11852992	25	2.8	25	77	10	72	14	24	21	40	1.90
11852987--11853053	25	2.7	25	83	4	82	17	20	22	38	1.93
11853046--11853207	24	6.6	25	76	9	104	18	22	21	37	1.95
11853035--11853176	48	2.9	50	74	12	127	16	22	21	38	1.93
11866030--11866163	27	5.0	27	80	6	119	23	23	35	17	1.96
11866029--11866196	54	3.1	54	77	2	149	25	22	33	19	1.97
11869029--11869079	26	2.0	26	88	0	75	23	25	13	37	1.92
11875530--11875562	17	1.9	17	88	11	50	66	30	3	0	1.06
11877946--11878021	9	8.4	9	85	0	98	39	22	11	26	1.88
11878113--11878158	5	8.6	5	86	13	65	4	0	54	41	1.20
11878112--11878156	23	2.0	23	100	0	90	6	0	53	40	1.27
11878113--11878191	28	2.8	28	84	5	70	12	1	45	40	1.50
11884845--11884871	2	13.5	2	100	0	54	0	0	48	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11889424--11889489	33	2.0	33	100	0	132	42	15	15	27	1.86
11895021--11895045	13	1.9	13	100	0	50	48	16	28	8	1.74
11896197--11896226	15	1.9	16	93	6	53	43	0	6	50	1.28
11896218--11896252	18	2.0	17	88	5	52	45	0	0	54	0.99
11896231--11896416	59	3.1	59	68	11	180	44	3	3	49	1.34
11896155--11896506	120	2.9	120	98	0	677	43	2	4	49	1.35
11896317--11896346	15	1.9	16	93	6	53	43	0	6	50	1.28
11896337--11896372	18	2.0	18	88	0	54	50	0	0	50	1.00
11896437--11896466	15	1.9	16	93	6	53	43	0	6	50	1.28
11896462--11896501	14	2.9	15	82	14	50	47	0	0	52	1.00
11896458--11896494	16	2.2	17	86	13	51	40	0	0	59	0.97
11896639--11896744	44	2.5	41	79	18	135	33	32	4	29	1.78
11896652--11896744	44	2.1	46	93	4	163	35	31	5	27	1.80
11896726--11896795	16	4.4	16	94	0	122	27	34	1	37	1.66
11899483--11899544	27	2.3	27	80	5	72	35	16	11	37	1.84
11901111--11901144	14	2.3	15	90	5	52	61	17	0	20	1.34
11915704--11915741	20	2.0	20	85	15	53	36	7	13	42	1.73
11927404--11927540	27	5.1	26	70	11	98	40	18	16	23	1.90
11927464--11927594	27	4.9	27	77	9	108	36	18	18	26	1.94
11927425--11927594	54	3.2	53	77	7	148	38	17	17	26	1.92
11927494--11927602	27	4.0	27	81	1	119	34	20	18	26	1.95
11927840--11928022	32	5.7	33	75	10	146	19	19	24	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11927840--11928022	64	2.9	64	84	9	189	19	19	24	36	1.95
11928273--11928339	28	2.4	28	97	0	125	23	28	19	28	1.98
11931194--11931242	17	2.8	17	81	9	55	55	12	0	32	1.37
11934662--11934710	21	2.3	21	83	13	57	22	0	12	65	1.26
11935662--11935707	23	2.0	23	83	8	58	28	2	19	50	1.60
11936810--11936843	14	2.4	14	95	0	59	23	35	14	26	1.94
11937001--11937038	18	2.1	19	85	5	51	57	5	7	28	1.49
11940496--11940521	3	8.7	3	100	0	52	69	0	0	30	0.89
11944371--11944631	43	6.1	43	75	3	177	39	16	18	26	1.91
11944397--11944508	42	2.7	42	81	0	134	38	16	19	25	1.92
11949224--11949314	46	2.0	47	82	6	114	41	28	5	24	1.77
11951190--11951216	14	1.9	14	100	0	54	59	0	7	33	1.25
11951190--11951223	14	2.4	14	90	0	50	58	5	5	29	1.45
11952169--11952213	7	6.4	7	97	0	72	35	13	13	37	1.84
11953526--11953588	31	2.1	30	82	8	74	50	3	1	44	1.27
11955695--11955724	14	2.2	14	94	5	53	33	6	20	40	1.78
11955845--11955883	20	2.0	20	94	0	69	48	2	0	48	1.15
11956090--11956176	38	2.3	38	100	0	174	50	10	4	34	1.57
11956109--11956173	22	3.2	22	67	24	70	49	10	4	35	1.58
11956090--11956189	38	2.6	38	92	3	139	52	11	4	33	1.55
11957181--11957245	32	2.0	32	96	0	121	52	16	3	27	1.59
11957184--11957253	32	2.4	29	86	11	90	54	17	2	25	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11958824--11958869	21	2.1	21	84	11	58	60	4	8	26	1.44
11963069--11963120	24	2.2	24	85	0	68	38	3	7	50	1.50
11966664--11966699	19	1.9	18	94	5	63	30	19	0	50	1.48
11967901--11967941	22	1.9	21	95	5	73	12	4	7	75	1.16
11968080--11968148	31	2.2	31	85	10	88	53	4	1	40	1.30
11968205--11968261	29	2.0	29	89	6	89	52	3	0	43	1.18
11968215--11968285	37	1.9	37	82	5	90	56	2	0	40	1.14
11971641--11971715	38	2.0	38	100	0	150	37	32	9	21	1.85
11974157--11974192	19	1.9	18	94	5	63	30	19	0	50	1.48
11975406--11975447	22	1.9	22	90	9	68	11	4	7	76	1.15
11980429--11980480	24	2.2	24	85	0	68	38	3	7	50	1.50
11980446--11980491	24	1.9	24	86	8	67	41	4	6	47	1.49
11982738--11982960	51	4.4	52	77	5	217	29	27	17	25	1.97
11990663--11990857	54	3.5	54	80	12	250	31	24	17	26	1.97
11990665--11990910	113	2.2	113	97	0	474	32	23	17	27	1.96
12001014--12001201	51	3.7	50	82	3	216	31	26	18	23	1.98
12003797--12003884	46	1.9	46	84	9	117	38	17	21	22	1.93
12004100--12004238	32	4.4	31	83	6	163	39	19	20	20	1.93
12004419--12004461	11	3.7	11	76	11	50	55	27	2	13	1.51
12004409--12004466	24	2.4	24	97	0	107	50	25	5	18	1.68
12004409--12004495	24	3.6	24	80	11	88	47	26	4	21	1.70
12004532--12004603	27	2.6	28	82	6	94	27	18	16	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12004526--12004638	27	4.1	27	75	12	79	26	18	22	32	1.97
12004554--12004921	27	13.7	27	81	6	385	23	18	19	38	1.93
12006633--12006724	44	2.2	41	90	7	132	14	18	17	50	1.79
12007879--12007911	12	2.8	12	86	13	50	0	0	9	90	0.44
12008485--12008509	5	5.0	5	100	0	50	40	0	0	60	0.97
12010623--12010677	22	2.5	23	79	8	69	20	29	16	34	1.94
12011301--12011331	16	1.9	16	93	0	53	9	9	9	70	1.33
12012896--12012927	14	2.3	14	94	0	55	28	50	15	6	1.68
12018018--12018049	14	2.3	14	100	0	64	31	46	15	6	1.71
12026316--12026444	68	1.9	70	82	6	165	42	4	3	49	1.39
12026446--12026506	17	3.8	17	82	6	74	39	6	1	52	1.37
12053951--12054014	29	2.2	29	100	0	128	39	23	12	25	1.90
12064428--12064612	36	5.0	37	84	4	239	34	19	15	30	1.93
12064428--12064625	73	2.7	73	82	3	245	33	19	15	31	1.92
12066084--12066132	24	2.0	24	96	0	89	12	46	4	36	1.60
12073238--12073298	23	2.7	22	85	7	70	36	21	24	18	1.95
12073246--12073298	23	2.3	23	87	3	72	35	20	24	18	1.95
12077281--12077313	11	3.1	11	82	8	50	60	9	18	12	1.57
12082150--12082536	194	2.0	193	96	0	720	27	8	23	41	1.83
12083487--12083556	22	3.2	22	81	0	86	27	15	30	27	1.96
12084196--12084282	23	3.8	23	80	1	86	36	19	21	21	1.95
12087057--12087117	30	2.0	30	100	0	122	29	9	9	50	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12096089--12096155	35	1.9	35	93	0	116	32	20	10	35	1.87
12096510--12096565	28	2.0	28	100	0	112	17	10	10	60	1.57
12102286--12102325	13	2.9	14	88	3	55	70	7	5	17	1.30
12102971--12103010	5	8.0	5	83	10	55	15	0	2	82	0.77
12102959--12103011	9	5.8	9	76	10	54	15	1	1	81	0.87
12102961--12103010	21	2.5	19	84	9	64	14	2	2	82	0.86
12102959--12103014	16	3.6	16	85	7	71	16	1	1	80	0.88
12112133--12112192	29	2.0	31	90	6	97	45	3	10	41	1.54
12115534--12115578	23	1.9	23	81	4	54	26	4	6	62	1.39
12119653--12119749	39	2.5	38	85	8	117	56	7	6	29	1.51

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   
          209   210   211   212   213   214