genome.fa.s23.2.7.7.80.10.50.1000.4.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: At_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  4  of  167  ( 19959 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)
945365--946220	71	12.1	71	100	0	1712	33	14	8	43	1.75
951619--951652	5	6.8	5	96	0	50	32	0	0	67	0.91
954472--954511	20	2.0	20	100	0	80	25	10	10	55	1.64
955063--955213	39	3.8	39	78	3	124	37	21	19	21	1.95
955181--955507	113	2.9	113	83	3	397	25	21	23	30	1.99
955999--956051	21	2.6	21	84	3	72	13	3	43	39	1.62
956014--956066	27	2.0	27	100	0	106	11	3	47	37	1.58
956466--956844	189	2.0	189	90	1	589	26	14	19	39	1.90
956558--956729	75	2.3	75	95	2	310	27	13	18	39	1.89
956633--956949	115	2.8	114	93	1	553	27	16	18	38	1.91
967156--967186	16	1.9	16	93	0	53	51	12	0	35	1.40
971242--971281	21	1.9	21	85	10	55	42	2	0	55	1.13
971925--971983	6	9.8	6	100	0	118	16	50	0	32	1.46
972004--972044	20	2.0	20	100	0	82	14	48	9	26	1.75
972191--972238	24	2.0	24	88	8	71	14	62	2	20	1.42
974743--974868	62	2.0	62	98	0	243	21	23	11	43	1.84
975834--975860	10	2.7	10	100	0	54	40	0	7	51	1.30
979565--979595	16	1.9	16	93	0	53	51	12	0	35	1.40
983000--983056	20	2.7	21	82	17	66	33	0	8	57	1.29
983000--983049	20	2.5	20	87	12	68	36	0	8	56	1.29
983176--983229	23	2.3	23	78	6	56	35	20	12	31	1.90
997259--997319	31	2.0	31	90	0	95	49	8	11	31	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1008781--1008937	31	5.1	30	73	13	106	38	14	5	42	1.67
1008781--1008986	62	3.3	62	77	12	162	38	12	7	41	1.71
1008812--1008933	31	3.9	32	75	8	110	40	15	4	40	1.66
1014112--1014732	322	1.9	324	84	4	840	25	16	28	29	1.97
1014719--1014746	14	2.0	14	100	0	56	21	0	35	42	1.53
1023489--1023535	23	2.1	21	84	7	58	42	19	6	31	1.76
1025792--1025817	11	2.4	11	100	0	52	23	0	7	69	1.14
1028355--1028587	69	3.3	69	81	11	274	33	16	17	33	1.92
1033833--1033870	14	2.8	14	92	4	60	21	5	42	31	1.75
1035545--1035591	16	2.9	16	75	9	51	63	0	0	36	0.94
1035528--1035613	27	3.1	27	75	11	66	62	2	0	34	1.08
1040862--1040887	3	8.7	3	100	0	52	69	0	0	30	0.89
1044431--1044472	20	2.0	21	86	9	59	52	14	14	19	1.75
1045704--1045729	3	8.7	3	100	0	52	65	0	0	34	0.93
1054614--1054670	29	2.0	29	100	0	114	56	3	12	28	1.52
1055896--1055956	30	2.1	30	81	9	72	31	6	13	49	1.67
1061831--1061872	11	3.6	11	80	20	50	40	2	0	57	1.12
1061800--1061847	17	2.7	17	77	6	51	43	2	0	54	1.12
1061831--1061882	24	2.1	23	86	10	68	38	1	0	59	1.08
1061831--1061883	23	2.2	24	83	3	63	39	1	0	58	1.09
1067987--1068035	16	3.1	15	77	11	53	20	0	0	79	0.73
1067991--1068018	8	3.5	8	100	0	56	10	0	0	89	0.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1068018--1068064	23	2.0	23	83	4	58	38	0	4	57	1.18
1073841--1073880	18	2.2	18	86	8	55	62	0	2	35	1.09
1077529--1077581	6	9.0	6	81	4	63	22	1	0	75	0.90
1077530--1077591	29	2.1	29	96	0	115	27	1	0	70	0.96
1079014--1079051	20	1.9	20	89	10	60	55	15	10	18	1.68
1080057--1080118	30	2.1	30	82	11	74	48	6	0	45	1.28
1080285--1080316	13	2.5	13	94	0	55	53	18	0	28	1.45
1082635--1082923	97	3.0	96	81	6	332	47	19	15	17	1.83
1087046--1087083	18	2.1	18	100	0	76	15	15	10	57	1.64
1093664--1093807	61	2.3	63	86	4	204	50	7	19	22	1.72
1096201--1096263	32	2.0	32	84	9	85	46	11	9	33	1.72
1106494--1106918	104	4.1	104	91	1	647	40	16	11	31	1.83
1111849--1111887	20	1.9	21	89	5	62	28	0	2	69	1.02
1118647--1118693	5	9.8	5	84	15	64	38	0	0	61	0.96
1118648--1118683	19	1.9	18	94	5	63	41	0	0	58	0.98
1118975--1119032	30	1.9	30	89	0	89	41	3	24	31	1.71
1119244--1119275	13	2.5	13	94	0	55	31	0	12	56	1.37
1119370--1119660	50	5.7	50	95	2	492	26	23	31	18	1.97
1121865--1121902	20	2.0	20	89	5	60	18	5	2	73	1.14
1121910--1121950	16	2.7	16	88	7	59	39	2	0	58	1.11
1125390--1125441	22	2.4	22	93	0	86	30	23	21	25	1.99
1131750--1131797	23	2.1	23	88	3	71	22	6	8	62	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132523--1132596	31	2.4	31	84	6	89	32	12	13	41	1.81
1142172--1142210	20	2.0	20	85	5	53	33	0	7	58	1.26
1147500--1147534	18	1.9	19	88	11	56	17	0	5	77	0.96
1147500--1147534	17	2.0	18	88	5	54	17	0	5	77	0.96
1147588--1147626	20	1.9	20	89	5	60	43	0	0	56	0.99
1147852--1147899	23	2.1	23	100	0	96	20	12	22	43	1.86
1158360--1158401	18	2.5	18	81	11	54	33	7	4	54	1.49
1158508--1158550	20	2.2	19	83	4	50	55	0	4	39	1.20
1162512--1162541	2	15.0	2	92	0	51	50	46	0	3	1.18
1170482--1170529	20	2.3	20	80	13	53	29	8	4	58	1.46
1182478--1182542	31	2.1	31	85	0	85	38	12	6	43	1.67
1183860--1183901	18	2.3	19	91	8	77	42	4	4	47	1.45
1185339--1185386	24	2.0	24	91	0	78	52	8	25	14	1.69
1190225--1190258	17	2.1	15	89	10	50	5	64	0	29	1.17
1195180--1195221	11	3.7	11	84	6	57	57	0	2	40	1.12
1195187--1195245	31	2.0	30	87	9	86	59	0	1	38	1.08
1202653--1202705	23	2.4	22	76	20	56	9	18	1	69	1.25
1256076--1256143	33	2.1	33	83	5	84	44	7	17	30	1.76
1257051--1257097	23	2.0	23	95	0	85	23	4	10	61	1.46
1275847--1275915	29	2.4	29	97	0	129	30	28	14	26	1.95
1300417--1300594	87	2.0	88	88	3	261	39	5	21	34	1.75
1309584--1309641	30	1.9	30	85	0	80	41	5	25	27	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1309979--1310181	33	5.6	33	70	21	147	22	17	26	33	1.96
1310013--1310266	42	6.5	41	70	20	195	24	16	25	33	1.95
1309980--1310223	75	3.3	75	90	1	373	23	16	25	34	1.96
1310162--1310266	43	2.5	42	87	4	149	24	14	25	35	1.93
1310087--1310301	118	1.8	117	86	3	315	24	17	26	32	1.97
1316062--1316196	40	3.5	39	74	11	116	33	25	17	22	1.96
1317125--1317171	21	2.2	22	85	11	71	23	0	10	65	1.23
1317132--1317172	21	2.0	20	95	4	73	24	0	9	65	1.22
1318504--1318548	23	2.0	23	95	0	81	26	42	4	26	1.74
1319941--1319985	20	2.1	23	84	12	60	37	2	17	42	1.62
1325094--1325177	40	2.1	40	100	0	168	29	11	7	51	1.65
1326526--1326597	24	3.0	24	87	0	108	11	48	4	36	1.58
1330137--1330287	78	1.9	78	89	0	230	28	22	21	27	1.99
1332551--1332576	13	2.0	13	100	0	52	15	23	15	46	1.83
1335735--1335811	9	8.6	9	87	5	77	37	19	10	32	1.86
1335735--1335824	18	4.9	18	73	11	67	37	20	10	32	1.85
1335886--1335924	18	2.1	19	85	4	53	28	0	2	69	1.02
1336266--1336307	20	2.1	20	95	0	75	26	7	33	33	1.83
1347463--1347544	31	2.6	31	86	0	119	34	14	10	40	1.81
1347716--1347765	15	3.3	15	75	5	55	18	22	26	34	1.96
1347716--1347798	31	2.7	31	87	9	125	21	22	22	32	1.98
1347746--1347807	30	2.1	30	81	6	72	32	20	19	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1348065--1348106	22	1.9	22	100	0	84	19	11	21	47	1.81
1348786--1348873	44	2.0	45	80	14	103	18	6	22	52	1.69
1359967--1359995	15	1.9	15	100	0	58	44	6	0	48	1.29
1359457--1360407	516	1.8	518	92	1	1629	29	17	16	36	1.92
1361232--1361277	22	2.0	23	87	8	67	52	4	4	39	1.41
1362006--1362075	36	2.0	35	91	2	113	47	31	0	21	1.51
1362003--1362097	7	13.4	7	78	6	93	47	33	0	18	1.49
1362380--1362512	7	18.4	7	73	18	51	12	2	42	42	1.54
1362380--1362409	15	1.9	16	93	6	53	23	0	36	40	1.55
1362408--1362513	22	5.0	22	70	5	83	8	2	46	42	1.49

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