genome.fa.s17.2.7.7.80.10.50.1000.4.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_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  4  of  173  ( 20651 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)
1012463--1012614	13	11.1	13	69	17	67	36	20	5	36	1.77
1016834--1016894	27	2.3	26	83	13	72	75	0	3	21	0.94
1016837--1016892	15	3.5	15	73	17	51	76	0	3	19	0.93
1020875--1020948	33	2.2	33	80	4	87	28	9	20	41	1.83
1023135--1023190	19	3.1	18	70	12	51	64	7	5	23	1.40
1025981--1026039	30	1.9	31	89	3	93	47	0	20	32	1.50
1028542--1028649	54	2.0	54	98	1	209	48	5	19	26	1.71
1028917--1029094	51	3.5	49	79	6	189	23	17	27	30	1.97
1041001--1041069	24	3.2	24	61	26	62	36	4	2	56	1.34
1041002--1041084	41	2.0	41	100	0	166	33	4	4	56	1.42
1041089--1041139	20	2.5	20	80	6	57	45	7	7	39	1.62
1056493--1056535	22	2.0	22	85	0	59	51	9	11	27	1.69
1060622--1060675	27	2.0	27	88	0	81	11	20	24	44	1.83
1072654--1072729	26	3.0	26	86	5	102	35	17	9	38	1.81
1073011--1073079	24	2.7	25	84	8	77	39	5	27	27	1.79
1074437--1074475	20	2.0	19	85	14	53	61	2	0	35	1.10
1075076--1075156	29	2.8	28	73	14	74	38	18	4	38	1.73
1075056--1075181	59	2.1	60	84	5	159	37	17	4	40	1.71
1075176--1075215	17	2.4	17	86	0	53	57	0	2	40	1.12
1075816--1075857	20	2.1	20	91	8	68	33	2	2	61	1.21
1076347--1076399	27	2.0	27	96	0	97	26	20	18	33	1.96
1081079--1081117	18	2.3	18	86	8	55	64	7	2	25	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081068--1081117	16	3.0	16	82	5	55	68	6	2	24	1.23
1081840--1081869	5	5.8	5	92	7	51	36	0	0	63	0.95
1081887--1081982	40	2.3	40	89	3	147	63	8	28	0	1.23
1082960--1082991	13	2.5	13	94	0	55	31	0	12	56	1.37
1083086--1083327	50	4.7	50	86	4	297	26	23	28	20	1.99
1083086--1083335	100	2.4	103	88	6	364	26	23	28	21	1.99
1086257--1086305	20	2.4	22	80	13	59	65	0	6	28	1.16
1088990--1089031	22	1.9	23	85	9	61	52	9	0	38	1.34
1089068--1089111	23	1.9	23	81	9	54	54	0	20	25	1.45
1090002--1090027	11	2.4	11	100	0	52	38	7	0	53	1.30
1090053--1090125	29	2.3	32	88	11	116	31	4	1	63	1.22
1089985--1090098	41	2.8	41	81	6	160	32	3	0	64	1.11
1089985--1090119	41	3.3	40	74	13	132	30	3	0	65	1.15
1089985--1090119	40	3.3	39	72	18	114	30	3	0	65	1.15
1090503--1090541	11	3.5	11	82	0	51	69	23	2	5	1.21
1091130--1091181	18	2.9	17	78	18	61	61	0	0	38	0.96
1091095--1091192	47	2.2	45	82	12	112	59	0	2	38	1.09
1091225--1091278	10	5.4	10	76	8	56	68	1	1	27	1.10
1091223--1091278	29	1.9	30	85	10	80	67	1	1	28	1.10
1091736--1091782	20	2.3	21	88	3	78	38	2	4	55	1.31
1091873--1091923	19	2.7	19	90	0	75	29	1	3	64	1.22
1097067--1097117	10	5.1	10	81	9	50	58	1	3	35	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1104723--1104776	25	2.2	25	83	6	65	11	14	16	57	1.65
1126858--1126891	17	2.0	18	88	11	54	41	11	0	47	1.40
1128827--1128967	73	1.9	73	82	5	178	20	22	22	34	1.97
1128817--1128978	73	2.2	73	76	5	166	19	21	22	36	1.95
1134292--1134326	18	2.0	17	88	5	52	54	0	0	45	0.99
1134179--1134495	157	2.0	157	96	0	589	44	3	5	47	1.41
1134429--1134470	15	2.7	16	82	14	52	52	2	0	45	1.13
1134438--1134479	15	2.9	15	82	10	52	52	0	0	47	1.00
1134249--1134498	76	3.1	82	64	24	215	47	3	3	46	1.34
1134427--1134723	120	2.5	121	92	4	496	49	4	2	43	1.36
1134548--1134599	15	3.6	15	80	12	56	53	1	0	44	1.11
1134689--1134722	17	2.0	17	88	11	52	52	0	2	44	1.16
1134764--1134811	26	1.9	25	84	16	64	52	2	0	45	1.12
1134739--1134947	92	2.3	91	85	6	262	46	3	3	45	1.39
1140938--1140962	9	2.8	9	100	0	50	88	0	0	12	0.53
1142423--1142511	47	1.9	46	82	8	110	39	1	10	49	1.44
1142932--1142980	18	2.8	18	75	3	55	59	0	0	40	0.98
1159465--1159499	2	17.5	2	100	0	70	51	0	48	0	1.00
1165959--1165993	16	2.1	18	89	10	56	45	2	5	45	1.41
1182919--1182956	7	4.9	8	87	12	53	21	0	2	76	0.91
1192921--1193170	125	2.0	125	99	0	491	22	20	17	40	1.92
1197280--1197326	21	2.2	22	92	3	78	21	19	38	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201054--1201098	18	2.5	18	85	7	56	37	17	6	37	1.76
1201296--1201350	25	2.2	25	81	9	67	61	0	1	36	1.06
1201699--1201749	14	3.8	13	82	12	59	31	1	1	64	1.15
1203711--1203735	7	3.6	7	100	0	50	12	0	0	88	0.53
1203940--1203980	12	3.6	12	77	12	50	39	7	0	53	1.29
1204169--1204212	9	5.0	8	82	17	52	79	0	4	15	0.89
1211515--1211544	5	5.8	5	92	7	51	23	20	0	56	1.42
1213274--1213330	26	2.3	24	76	8	60	42	5	10	42	1.62
1219922--1219963	22	2.0	22	86	13	61	80	7	2	9	0.97
1231405--1231439	15	2.4	15	90	4	54	48	0	8	42	1.33
1236721--1236770	15	3.3	15	74	20	50	44	4	2	50	1.32
1239664--1239709	22	2.1	22	100	0	92	47	8	21	21	1.77
1248706--1248785	30	2.7	30	98	0	151	37	23	8	30	1.85
1253796--1253858	32	2.0	32	90	0	99	26	17	15	39	1.90
1267170--1267248	40	2.0	40	87	0	113	44	18	13	22	1.86
1270151--1270311	35	4.6	35	84	3	216	27	17	16	39	1.90
1270147--1270311	70	2.4	70	90	2	260	27	17	15	39	1.90
1270147--1270331	35	5.3	35	80	6	178	26	17	16	40	1.90
1270147--1270331	70	2.6	69	88	5	248	26	17	16	40	1.90
1272799--1272829	16	1.9	16	93	0	53	74	3	12	9	1.19
1291151--1291267	58	2.0	58	100	0	234	32	15	17	34	1.92
1292872--1292910	20	2.0	19	85	14	53	33	7	17	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1293156--1293277	45	2.7	45	82	2	147	40	15	22	21	1.91
1293736--1293792	12	4.5	12	79	20	55	47	5	0	47	1.24
1294321--1294414	9	10.4	9	82	4	118	35	25	7	31	1.84
1294321--1294414	44	2.1	46	88	4	138	35	25	7	31	1.84
1296880--1296931	18	2.7	19	82	5	61	23	17	19	40	1.91
1306484--1306544	32	1.9	32	93	0	104	27	21	8	42	1.81
1306428--1306618	90	2.1	89	81	5	226	26	15	10	47	1.79
1307320--1307375	21	2.7	21	91	0	94	28	8	33	28	1.87
1307506--1307773	143	1.9	141	80	10	312	49	4	4	41	1.42
1311054--1311175	23	5.3	23	83	3	165	30	25	20	23	1.99
1311054--1311175	46	2.7	46	90	2	192	30	25	20	23	1.99
1311401--1311439	18	2.2	17	86	13	53	46	20	0	33	1.51
1313145--1313182	14	2.8	14	84	4	51	50	0	7	42	1.31
1313516--1313555	9	4.4	9	83	0	53	52	12	2	32	1.52
1321052--1321085	16	2.0	18	88	11	54	58	2	5	32	1.37
1321143--1321201	25	2.2	28	82	17	72	62	6	6	23	1.44
1321184--1321232	13	3.6	14	78	10	57	65	8	0	26	1.20
1322366--1322399	13	2.6	13	86	13	52	20	0	2	76	0.92
1330801--1330877	37	2.1	37	100	0	154	31	10	12	45	1.76
1337967--1338173	66	3.1	66	94	2	362	26	22	27	24	2.00
1338474--1338564	42	2.2	42	93	0	155	31	19	30	17	1.95
1339349--1339392	18	2.3	19	81	18	56	70	4	2	22	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353127--1353156	5	6.0	5	100	0	60	60	0	0	40	0.97
1356401--1356428	5	5.6	5	100	0	56	17	42	0	39	1.50
1357742--1357826	4	21.2	4	100	0	170	50	24	0	24	1.49
1359128--1359177	17	2.9	17	93	0	91	22	22	8	48	1.76
1364921--1365015	48	2.0	48	97	0	181	34	17	26	21	1.95
1366294--1366383	27	3.2	27	63	16	65	25	5	12	56	1.57
1366312--1366406	31	3.2	31	62	17	83	33	5	7	53	1.51
1366292--1366413	58	2.1	58	100	0	244	30	4	10	54	1.56
1368343--1368402	31	1.9	31	89	0	93	38	15	6	40	1.73
1377867--1377927	8	7.6	8	75	14	63	40	0	0	59	0.98

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