genome.fa.s23.2.7.7.80.10.50.1000.39.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  39  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)
11914711--11914769	21	2.6	21	80	20	66	28	18	22	30	1.97
11922128--11922200	32	2.5	27	76	19	83	26	4	19	50	1.65
11922141--11922201	32	1.9	32	93	0	104	27	4	18	49	1.68
11926801--11926849	22	2.2	22	100	0	98	26	4	22	46	1.69
11926801--11926912	22	5.0	22	74	14	86	27	6	21	44	1.76
11926761--11926887	68	1.9	68	94	0	227	26	6	22	44	1.77
11926769--11926912	68	2.1	68	89	2	218	28	6	20	44	1.77
11927307--11927362	14	3.9	14	90	4	94	37	19	5	37	1.75
11927307--11927373	29	2.4	28	92	2	107	40	16	4	38	1.69
11933666--11933877	26	8.2	26	93	0	361	32	6	25	36	1.80
11935475--11935614	54	2.6	54	89	2	210	19	24	21	35	1.96
11935475--11935614	27	5.2	27	80	10	162	19	24	21	35	1.96
11935475--11935632	27	5.9	27	78	14	157	20	24	20	34	1.96
11937299--11937330	16	2.1	16	94	5	57	50	18	0	31	1.48
11954712--11954788	22	3.4	22	85	5	91	27	18	16	37	1.92
11957358--11957461	37	2.8	36	74	9	102	19	16	28	35	1.93
11963813--11964091	105	2.7	105	89	0	414	29	15	21	32	1.95
11963817--11964091	35	7.9	35	79	6	261	29	16	21	32	1.95
11985167--11985226	26	2.2	27	82	5	68	71	0	13	15	1.14
11986509--11986558	24	2.1	24	88	7	75	18	0	24	58	1.40
11990416--11990458	18	2.4	18	92	0	68	44	6	27	20	1.77
11992244--11992290	22	2.2	21	85	14	62	46	8	17	27	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11993506--11993549	23	1.9	23	100	0	88	31	20	2	45	1.64
12000777--12000815	18	2.2	18	90	0	60	38	2	0	58	1.12
12005892--12005932	20	2.0	20	100	0	82	36	9	24	29	1.87
12007325--12007391	29	2.2	29	78	5	71	50	11	14	22	1.76
12013116--12013151	14	2.6	14	91	4	56	55	0	2	41	1.14
12014325--12014377	25	2.1	25	96	0	97	22	15	9	52	1.70
12023786--12023839	23	2.3	24	84	12	76	48	3	0	48	1.19
12025463--12025519	25	2.3	23	82	8	60	52	3	14	29	1.58
12039739--12039973	44	5.4	43	76	7	208	31	17	20	31	1.95
12039739--12039944	84	2.4	85	82	6	263	30	16	20	31	1.95
12039869--12039988	44	2.7	44	85	2	143	27	16	23	32	1.96
12040353--12040461	26	4.2	26	95	0	200	32	6	25	35	1.81
12042011--12042051	22	1.9	21	85	14	57	14	14	19	51	1.77
12043139--12044179	45	22.1	44	67	15	217	33	16	19	30	1.94
12043139--12043317	85	2.1	85	84	4	223	36	17	18	26	1.94
12043110--12044223	96	11.7	96	83	6	1101	33	16	19	30	1.94
12043469--12044173	45	14.9	45	68	14	335	32	15	20	31	1.94
12043420--12044223	45	16.7	50	68	12	290	32	16	19	31	1.94
12045727--12045776	26	1.9	26	84	8	66	18	8	8	66	1.42
12048793--12048823	10	3.1	10	90	0	53	67	0	19	12	1.22
12049261--12049289	14	2.0	15	93	6	51	0	44	0	55	0.99
12055577--12055702	24	5.3	23	81	9	110	20	13	30	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12055589--12055700	48	2.3	48	87	0	152	19	14	29	36	1.91
12067806--12067964	44	3.7	44	78	9	150	32	24	15	27	1.95
12067815--12067964	43	3.5	43	79	9	137	32	24	16	28	1.96
12069212--12069270	29	2.0	29	86	0	82	13	38	25	22	1.90
12072631--12072673	21	2.0	21	95	0	77	46	20	4	27	1.71
12076129--12076222	30	3.1	30	90	1	143	25	24	6	43	1.78
12076139--12076216	15	5.2	15	67	11	61	25	21	7	44	1.79
12080792--12081665	30	29.1	30	99	0	1694	26	23	6	43	1.78
12083920--12084176	126	2.0	126	87	0	370	26	28	20	25	1.99
12086465--12086489	13	1.9	13	100	0	50	64	4	0	32	1.12
12088946--12088975	9	3.4	9	90	9	53	90	0	0	10	0.47
12088946--12088976	8	3.8	8	95	4	53	87	0	0	12	0.55
12089495--12089756	3	88.0	3	74	12	105	32	4	4	58	1.40
12089641--12089701	11	5.5	11	79	11	54	24	1	4	68	1.18
12089661--12089719	26	2.3	26	85	5	75	27	5	1	66	1.22
12089637--12089713	35	2.3	33	80	10	93	25	5	3	64	1.31
12089658--12089720	29	2.3	26	77	22	67	28	4	1	65	1.22
12092798--12092865	30	2.3	30	84	5	84	47	5	19	27	1.72
12095293--12095565	46	5.9	46	89	0	368	39	14	23	22	1.90
12095851--12095883	17	2.0	17	94	5	59	48	0	15	36	1.45
12101626--12102589	46	21.0	46	87	1	1360	37	13	22	26	1.92
12101629--12102579	92	10.3	92	96	1	1694	37	13	22	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12102809--12102842	16	2.1	16	88	5	50	52	0	14	32	1.42
12108821--12108991	93	1.8	93	93	0	297	27	29	21	21	1.99
12108813--12108988	46	3.8	46	79	12	207	28	28	21	21	1.98
12110312--12110753	44	9.8	44	71	10	189	32	17	19	30	1.95
12112138--12112309	3	58.0	3	71	15	83	33	4	2	59	1.31
12112167--12112252	11	7.9	11	74	14	63	25	3	4	66	1.27
12112197--12112254	14	3.9	14	76	19	55	25	1	5	67	1.21
12112170--12112254	35	2.3	35	86	6	116	25	3	4	65	1.28
12113902--12113940	18	2.1	18	85	4	51	38	15	7	38	1.76
12114162--12114315	78	2.0	77	84	6	204	24	37	1	37	1.64
12114747--12114783	18	2.0	19	89	5	58	32	8	27	32	1.86
12119648--12119711	32	2.0	32	100	0	128	12	21	12	53	1.71
12122515--12122556	21	2.0	21	100	0	84	38	28	4	28	1.77
12129430--12129497	34	2.0	32	81	13	75	54	22	2	20	1.58
12138465--12138794	164	2.0	164	99	0	651	25	16	20	38	1.92
12138965--12139010	19	2.5	19	92	3	76	45	10	4	39	1.59
12145124--12145156	17	1.9	18	88	11	52	63	0	0	36	0.95
12150150--12150181	16	2.0	16	93	0	55	34	12	6	46	1.67
12155897--12155921	13	1.9	13	100	0	50	12	0	0	88	0.53
12158357--12158393	18	2.2	18	85	9	51	64	13	2	18	1.39
12168710--12168814	44	2.5	40	76	15	113	32	28	3	35	1.75
12168708--12168817	45	2.6	44	81	8	131	32	28	4	34	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12168798--12168849	16	3.2	16	91	0	77	34	34	0	30	1.58
12173416--12173494	34	2.4	33	81	6	106	37	3	1	56	1.25
12173463--12173501	20	2.0	19	85	14	53	41	5	0	53	1.23
12173463--12173501	19	2.0	20	85	14	55	41	5	0	53	1.23
12174409--12174493	42	2.0	43	93	2	145	32	21	18	27	1.97
12174571--12174769	85	2.3	85	84	3	249	33	22	18	25	1.96
12174571--12174786	42	5.1	42	81	5	231	34	21	17	25	1.95
12174571--12174794	85	2.6	81	80	7	232	34	22	17	25	1.96
12175097--12175164	21	3.2	21	87	0	100	1	45	20	32	1.60
12180579--12180806	9	25.9	9	75	11	204	32	1	19	46	1.58
12180572--12180805	25	8.9	27	71	16	140	31	1	19	47	1.58
12180609--12180805	104	1.9	104	87	2	288	31	1	20	46	1.57
12180818--12180992	57	3.1	57	92	0	287	40	6	7	46	1.57
12180786--12181131	151	2.3	151	80	6	380	41	5	9	44	1.59
12180875--12181086	94	2.3	94	80	8	227	41	5	9	43	1.60
12180853--12181254	20	21.2	20	65	18	139	41	4	8	45	1.56
12180818--12181037	114	1.9	114	81	7	268	41	5	8	43	1.59
12180821--12181198	208	1.8	208	94	1	668	41	5	8	44	1.58
12181029--12181254	57	4.0	57	91	0	328	41	3	8	46	1.53
12180948--12181131	94	2.0	94	81	4	219	41	5	10	42	1.63
12180875--12181203	151	2.2	150	80	5	387	40	5	9	44	1.59
12184353--12184397	23	2.0	23	95	4	83	22	4	42	31	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12184471--12184940	147	3.2	146	79	2	444	36	22	14	26	1.93
12186185--12186605	114	3.7	114	79	5	397	25	27	22	23	2.00
12186482--12186558	41	1.9	40	81	7	93	27	27	18	27	1.98
12188248--12188348	46	2.1	47	78	10	109	28	18	16	35	1.93
12189315--12189360	18	2.6	17	86	10	65	26	6	4	63	1.38
12198443--12198490	16	3.1	15	90	6	69	64	2	2	31	1.16
12198439--12198494	24	2.3	24	81	6	69	66	1	1	30	1.12
12198439--12198490	8	6.5	8	82	8	61	65	1	1	30	1.14
12198567--12198644	30	2.6	30	97	0	147	23	3	48	24	1.67
12199393--12199427	14	2.5	14	90	0	61	62	5	11	20	1.48

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