genome.fa.s26.2.7.7.80.10.50.1000.3.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  3  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)
870484--871196	113	6.3	113	86	5	924	31	24	21	22	1.98
870484--871196	227	3.1	222	86	6	932	31	24	21	22	1.98
874545--874574	2	15.0	2	92	0	51	50	3	0	46	1.18
875718--875750	3	11.0	3	100	0	66	66	0	33	0	0.92
876847--876894	16	2.9	16	85	11	62	54	0	0	45	0.99
876925--876963	18	2.2	18	85	0	51	56	0	0	43	0.99
881712--881765	24	2.3	24	80	3	65	46	18	14	20	1.84
886047--886105	24	2.4	26	75	11	61	47	10	6	35	1.64
887146--887185	21	2.0	20	85	5	53	32	0	17	50	1.47
887850--887886	3	13.0	3	86	11	51	0	62	2	35	1.10
887850--887887	13	2.7	14	80	11	51	0	60	2	36	1.11
896702--896727	13	2.0	13	100	0	52	0	0	15	84	0.62
903331--903391	28	2.2	28	85	5	79	62	4	3	29	1.32
906212--906255	21	2.1	21	87	8	63	59	9	0	31	1.29
906996--907047	26	2.0	26	100	0	104	34	11	23	30	1.90
909994--910026	17	1.9	18	88	11	52	51	0	9	39	1.34
913954--913983	7	4.4	7	91	8	53	73	0	0	26	0.84
913954--913983	13	2.2	14	94	5	53	73	0	0	26	0.84
918562--918729	83	2.0	83	98	0	327	35	5	7	51	1.55
926100--926124	7	3.6	7	100	0	50	48	0	0	52	1.00
926587--926652	31	2.1	31	91	0	105	27	7	13	51	1.68
930727--930786	23	2.5	24	76	15	61	38	1	8	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
935934--935970	19	1.9	19	88	0	56	51	0	10	37	1.37
936198--936278	35	2.4	36	78	15	84	48	2	2	46	1.28
943801--943854	27	2.0	27	85	7	74	35	0	0	64	0.94
947253--947295	2	21.5	2	80	0	50	51	9	0	39	1.34
947257--947295	8	4.9	8	90	0	60	51	10	0	38	1.36
954537--954575	19	2.1	19	85	9	53	35	7	10	46	1.67
959274--959306	16	2.1	16	88	5	50	39	6	0	54	1.25
964980--965042	29	2.2	28	81	16	67	28	4	9	57	1.51
973431--973482	24	2.2	24	89	0	77	55	9	1	32	1.43
975400--975451	24	2.2	24	89	0	77	55	9	1	32	1.43
982130--982171	18	2.3	18	88	8	59	52	2	0	45	1.13
989368--989410	22	2.0	21	86	8	61	34	0	2	62	1.08
989373--989418	22	2.1	22	83	0	56	45	0	2	52	1.13
1006385--1007089	142	5.0	141	88	2	1031	43	16	14	25	1.86
1006386--1007089	281	2.5	279	88	4	1090	43	16	14	25	1.86
1007144--1007170	10	2.7	10	100	0	54	37	33	18	11	1.86
1008060--1008125	29	2.3	28	82	15	73	59	3	1	36	1.22
1017245--1017277	14	2.4	14	90	10	50	69	0	0	30	0.88
1022661--1022712	22	2.4	21	75	15	52	26	13	7	51	1.67
1023411--1023457	24	2.0	24	83	8	60	65	2	0	31	1.04
1038869--1038900	7	4.4	7	96	4	55	59	0	0	40	0.97
1040304--1040365	25	2.5	25	79	7	65	70	0	1	27	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041243--1041294	27	1.9	27	96	0	95	34	7	23	34	1.83
1041453--1041525	36	2.0	36	94	0	128	39	9	12	38	1.76
1047571--1047622	14	3.7	14	78	0	59	61	9	21	7	1.51
1051257--1051286	14	2.1	14	100	0	60	66	0	0	33	0.92
1052534--1052575	17	2.3	18	88	8	59	40	2	2	54	1.26
1052578--1052650	35	2.0	36	84	7	94	63	4	1	31	1.22
1052618--1052687	32	2.2	32	85	5	90	70	1	2	25	1.10
1053149--1053187	16	2.4	17	91	4	62	43	0	2	53	1.14
1056384--1056451	35	1.9	35	85	5	93	47	1	5	45	1.36
1082806--1082830	12	2.1	12	100	0	50	36	8	16	40	1.77
1086126--1086218	39	2.5	37	80	7	98	27	29	22	20	1.98
1087313--1087346	17	2.1	16	88	5	50	2	14	5	76	1.09
1087335--1087385	14	3.6	14	76	7	50	17	13	0	68	1.21
1087535--1087571	14	2.4	17	86	13	53	51	0	0	48	1.00
1093434--1093507	18	4.1	18	85	0	112	32	22	12	32	1.91
1102370--1102403	14	2.5	14	95	4	61	14	0	35	50	1.44
1102533--1102580	24	2.0	25	83	4	62	68	6	6	18	1.32
1106632--1106687	21	2.7	21	91	0	94	25	8	37	28	1.86
1106857--1107037	30	6.2	30	88	5	257	37	10	1	50	1.44
1107125--1107226	13	7.8	13	69	21	54	12	51	1	33	1.51
1107190--1107227	6	6.2	6	93	6	67	15	47	0	36	1.46
1107190--1107227	19	2.0	19	100	0	76	15	47	0	36	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111371--1111454	31	2.7	31	81	1	98	28	13	14	44	1.82
1117401--1117458	26	2.3	26	81	3	73	36	13	1	48	1.53
1126575--1126618	21	2.1	21	100	0	88	29	25	9	36	1.86
1132823--1132859	17	2.1	19	90	10	60	48	10	2	37	1.52
1134844--1134904	24	2.4	27	84	13	76	62	1	4	31	1.26
1140141--1140203	22	2.9	22	83	9	92	26	50	9	12	1.71
1165841--1165907	31	2.1	31	83	2	80	17	25	35	20	1.95
1166119--1166552	216	2.0	216	100	0	868	23	11	27	37	1.89
1166920--1166958	18	2.2	18	86	9	53	23	0	17	58	1.38
1167902--1167943	7	5.9	7	91	2	57	16	2	0	80	0.81
1167901--1167935	15	2.3	15	90	0	52	17	0	0	82	0.66
1167903--1167943	21	1.9	22	90	5	66	17	2	0	80	0.82
1181321--1181364	23	1.9	23	95	0	79	54	11	13	20	1.69
1183368--1183447	31	2.6	30	86	5	99	32	3	13	50	1.60
1183389--1183447	29	2.0	29	90	3	91	30	3	13	52	1.57
1187525--1187569	21	2.0	22	84	16	58	35	4	2	57	1.31
1189040--1189417	19	18.3	19	66	26	134	30	0	12	55	1.41
1189158--1189221	8	7.2	8	74	19	56	28	1	14	56	1.47
1189144--1189243	27	4.0	27	74	19	99	32	2	13	53	1.51
1189144--1189257	46	2.5	46	94	0	192	32	1	13	52	1.50
1189217--1189566	80	4.3	80	90	5	556	30	0	11	57	1.34
1189391--1189566	88	2.0	88	95	0	316	30	0	11	58	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189482--1189587	34	3.3	32	69	17	96	32	0	10	57	1.32
1189457--1189787	61	5.9	55	80	13	272	30	0	12	56	1.37
1189518--1189614	27	3.3	27	67	18	77	27	0	12	59	1.33
1189606--1189790	27	7.0	27	90	4	297	31	0	12	55	1.38
1189631--1189827	19	10.3	19	70	20	135	31	0	13	54	1.39
1189620--1189790	8	19.6	8	67	21	69	30	0	12	56	1.37
1189631--1189827	77	2.7	73	88	9	303	31	0	13	54	1.39
1189778--1189827	23	2.0	27	81	14	63	30	0	16	54	1.42
1190051--1190087	16	2.4	16	86	13	51	32	2	8	56	1.43
1190399--1190425	14	1.9	14	100	0	54	29	7	11	51	1.64
1193110--1193144	2	17.5	2	100	0	70	0	48	0	51	1.00
1197121--1197160	19	2.1	19	86	9	55	40	0	0	60	0.97
1198125--1198184	31	1.9	31	83	6	77	31	13	10	45	1.76
1199308--1199430	60	2.0	60	84	3	158	37	13	16	33	1.87
1199959--1200347	61	6.4	61	88	1	539	30	9	17	42	1.81
1199959--1200347	31	12.7	31	87	3	504	30	9	17	42	1.81
1199959--1200347	92	4.2	92	89	1	552	30	9	17	42	1.81
1201692--1201728	19	1.9	19	89	10	58	51	0	0	48	1.00
1201739--1201780	20	2.2	19	86	4	57	42	0	9	47	1.36
1213941--1213994	18	3.2	17	73	19	51	33	0	0	66	0.92
1215102--1215166	31	2.1	31	100	0	130	41	9	9	40	1.69
1217163--1217229	31	2.2	31	83	5	82	31	17	25	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1235250--1235296	20	2.4	20	85	3	60	29	12	14	42	1.83
1241954--1242040	29	2.9	31	70	13	81	20	10	17	51	1.74
1249977--1250025	25	2.0	25	84	8	64	51	2	24	22	1.59
1249977--1250026	26	2.0	25	84	4	64	52	2	24	22	1.58
1255479--1255508	13	2.4	13	94	5	53	60	0	0	40	0.97
1258394--1258425	2	16.0	2	100	0	64	50	0	50	0	1.00
1262006--1262057	6	8.7	6	100	0	104	15	0	0	84	0.62
1262425--1262498	31	2.4	31	84	6	89	43	8	18	29	1.79
1265729--1265772	22	2.0	22	95	0	79	68	2	9	20	1.28
1265734--1265771	11	3.5	11	79	13	51	71	2	7	18	1.23

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