genome.fa.s20.2.7.7.80.10.50.1000.41.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  41  of  186  ( 22216 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)
12085545--12085592	19	2.6	19	78	18	57	60	0	2	37	1.09
12089172--12089418	26	9.6	25	70	13	128	30	5	3	59	1.37
12089474--12089543	25	2.7	25	76	8	70	28	8	4	58	1.47
12089534--12089574	4	11.0	4	80	15	52	26	0	0	73	0.84
12089533--12089574	7	6.3	7	84	15	54	28	0	0	71	0.86
12089538--12089612	22	3.5	22	70	17	66	26	1	2	69	1.10
12089533--12089593	25	2.4	25	83	8	70	27	0	1	70	0.97
12089632--12089680	20	2.4	21	82	3	64	28	2	6	63	1.30
12089655--12089736	24	3.5	24	74	16	82	30	0	6	63	1.19
12092201--12092247	23	2.0	23	83	0	58	10	31	12	44	1.77
12095731--12095840	26	4.2	26	97	0	184	33	5	24	36	1.79
12097621--12097725	38	2.7	40	73	8	99	23	20	26	29	1.99
12103907--12104016	26	4.2	26	96	0	175	34	5	24	35	1.79
12113321--12113365	22	2.0	22	83	8	56	35	11	0	53	1.37
12123717--12123898	90	2.0	89	93	1	310	30	23	11	34	1.90
12129403--12129618	45	4.8	45	79	2	220	45	13	16	24	1.83
12129404--12129613	89	2.3	89	83	4	253	45	13	16	24	1.83
12134535--12134609	38	2.1	35	85	7	96	46	33	5	14	1.67
12141255--12141298	23	2.0	21	82	8	52	45	4	20	29	1.71
12145570--12145918	44	7.7	44	65	16	140	32	17	21	28	1.96
12145570--12146042	138	3.4	137	89	2	689	32	17	21	28	1.96
12147788--12147817	14	2.2	14	94	5	53	20	0	3	76	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12148028--12148053	9	2.9	9	100	0	52	42	11	0	46	1.40
12148147--12148193	22	2.1	22	85	14	62	23	6	4	65	1.33
12148445--12148486	21	2.0	21	100	0	84	47	9	19	23	1.78
12153053--12153084	5	6.4	5	100	0	64	78	0	0	21	0.76
12154122--12154156	2	17.5	2	87	0	52	51	2	0	45	1.16
12155124--12155183	16	3.6	17	72	14	54	6	15	1	76	1.06
12157243--12157289	24	2.0	24	95	0	85	36	19	21	23	1.95
12166102--12166170	18	3.8	18	92	0	120	17	33	31	17	1.93
12166663--12166723	20	3.1	19	74	9	59	39	0	1	59	1.08
12166866--12166956	44	2.1	44	100	0	182	64	6	2	26	1.29
12168814--12169008	42	4.6	42	80	1	230	21	25	36	16	1.94
12169906--12169938	5	6.8	5	89	6	50	3	15	21	60	1.48
12173301--12173337	3	12.3	3	100	0	74	64	0	0	35	0.94
12173336--12173363	3	9.3	3	100	0	56	35	0	0	64	0.94
12176253--12176292	13	3.2	13	85	3	55	75	0	22	2	0.93
12189514--12189563	22	2.2	22	89	3	73	32	2	16	50	1.56
12192295--12192339	22	2.0	22	91	0	72	33	2	15	48	1.57
12197100--12197124	13	1.9	13	100	0	50	52	0	0	48	1.00
12218134--12218256	35	3.5	36	82	5	144	45	17	5	31	1.71
12220090--12220238	50	3.0	50	75	7	135	39	20	10	29	1.85
12220209--12220331	35	3.5	36	82	5	144	45	17	5	31	1.71
12230043--12230137	42	2.3	42	77	10	108	27	28	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12230519--12230557	10	3.9	10	80	12	53	28	0	2	69	1.02
12232733--12232825	21	4.4	21	73	0	78	15	21	17	46	1.84
12232636--12232825	42	4.5	42	82	3	179	16	21	17	44	1.87
12235386--12235418	16	2.1	16	94	0	57	30	6	24	39	1.79
12235451--12235566	33	3.5	33	83	1	144	32	14	25	26	1.95
12239099--12239140	21	2.2	20	84	16	54	33	7	26	33	1.83
12243131--12243190	31	1.9	31	86	0	84	26	13	15	45	1.83
12243148--12243234	31	2.8	32	84	3	106	34	13	11	40	1.81
12247370--12247504	49	2.8	48	80	6	164	35	25	15	22	1.94
12248311--12248394	42	2.0	42	90	0	132	35	21	5	36	1.78
12248983--12249016	16	2.1	17	88	5	52	76	0	23	0	0.79
12253453--12253553	42	2.4	43	81	6	116	29	23	18	27	1.98
12262512--12262538	13	2.1	13	100	0	54	48	0	0	51	1.00
12264744--12264813	16	4.2	16	79	3	59	28	2	4	64	1.27
12265484--12265527	23	1.9	23	90	0	70	22	15	6	54	1.65
12266385--12266451	25	2.7	26	77	13	68	56	5	1	35	1.33
12267396--12267429	16	2.2	16	89	5	52	35	2	5	55	1.39
12267951--12268017	23	2.9	24	72	20	63	50	1	0	47	1.10
12267955--12267996	22	1.9	22	85	9	59	52	2	0	45	1.13
12272827--12272866	16	2.6	16	84	4	55	85	7	0	7	0.76
12272837--12272872	16	2.2	16	90	0	54	80	13	0	5	0.88
12280637--12280703	19	3.5	19	91	0	116	43	11	20	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12284515--12284549	10	3.3	10	92	8	52	42	0	11	45	1.40
12285821--12285883	26	2.3	27	78	13	67	14	4	31	49	1.64
12291991--12292030	3	13.3	3	100	0	80	67	0	0	32	0.91
12293199--12293242	22	2.0	22	100	0	88	27	27	9	36	1.87
12295508--12295601	25	3.8	25	90	1	145	25	21	25	27	1.99
12295495--12295602	25	4.4	24	84	10	121	25	21	24	29	1.99
12302800--12302913	43	2.7	43	84	8	153	27	20	23	28	1.99
12318704--12318739	3	12.0	3	87	0	54	66	0	2	30	1.06
12338010--12338049	20	2.0	20	85	0	53	47	0	5	47	1.24
12339437--12339507	34	2.1	34	97	0	133	45	12	7	35	1.70
12345664--12345700	8	4.8	8	93	6	67	24	10	0	64	1.25
12345688--12345739	23	2.2	24	86	3	70	30	11	1	55	1.46
12345762--12345794	16	2.1	16	94	0	57	30	0	9	60	1.27
12345827--12345883	28	2.0	28	83	6	71	42	1	0	56	1.10
12354225--12354580	176	2.0	176	97	0	667	37	8	17	36	1.82
12356873--12357004	40	3.4	39	77	7	133	33	22	16	27	1.96
12356873--12357004	41	3.4	37	76	13	106	33	22	16	27	1.96
12366802--12366828	13	2.1	13	100	0	54	14	14	29	40	1.86
12368757--12368840	24	3.2	26	77	12	68	34	3	0	61	1.13
12374386--12374451	31	2.1	31	88	0	96	24	37	24	13	1.91
12374859--12374920	31	2.0	31	90	0	97	29	27	24	19	1.98
12377378--12377448	21	3.4	21	72	1	63	25	4	21	49	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12377646--12377687	20	2.0	20	86	9	57	33	0	9	57	1.31
12381693--12381777	24	3.5	24	87	6	127	15	57	8	18	1.62
12384126--12384169	18	2.5	18	82	10	56	18	2	2	77	0.98
12384888--12384952	34	1.9	34	93	0	112	24	20	16	38	1.93
12384944--12385246	153	2.0	154	94	0	536	32	14	14	38	1.87
12391888--12391959	37	1.9	37	88	0	108	29	16	0	54	1.43
12396514--12396850	44	7.5	45	70	11	183	35	17	18	28	1.94
12398622--12398664	18	2.4	19	81	14	56	20	2	2	74	1.04
12398621--12398672	24	2.2	24	83	13	63	23	3	1	71	1.13
12398815--12398856	13	3.1	14	86	10	52	30	0	0	69	0.89
12398813--12398856	12	3.4	14	80	20	51	31	0	0	68	0.90
12401185--12401240	24	2.3	25	84	3	69	42	0	1	55	1.10
12405269--12405324	18	3.4	18	65	27	52	26	46	7	19	1.76
12405259--12405357	30	3.3	30	92	0	171	27	49	6	17	1.70
12405299--12405352	18	3.3	18	66	28	57	22	48	7	22	1.75
12412871--12412906	14	2.7	13	86	4	54	30	13	5	50	1.65
12412946--12413208	75	3.3	76	71	16	255	27	15	18	38	1.91
12412804--12413974	162	7.1	161	79	10	917	28	16	18	35	1.93
12413231--12413538	75	4.0	75	82	13	365	32	16	18	31	1.94
12413385--12413538	73	2.1	74	86	7	213	29	17	20	32	1.95
12413518--12413552	14	2.5	14	95	0	61	22	17	0	60	1.37
12413518--12413973	177	2.6	174	82	6	557	26	17	18	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12413711--12413866	73	2.1	74	84	3	199	28	16	20	33	1.95
12413855--12413901	13	3.5	13	85	5	58	17	10	4	68	1.35
12413789--12414155	100	3.8	99	81	10	404	26	16	18	38	1.92
12414092--12414379	146	2.0	146	93	1	497	29	16	20	32	1.95
12414090--12414385	75	4.0	73	84	8	404	30	16	20	32	1.95
12414997--12415051	18	3.4	18	67	27	59	21	47	9	21	1.78
12423062--12423113	11	4.5	11	79	11	52	32	1	0	65	1.04
12423063--12423105	23	1.9	24	86	13	65	32	2	0	65	1.06
12423288--12423403	60	1.9	60	98	0	223	56	4	6	32	1.46
12427525--12427555	16	1.9	16	93	0	53	61	0	6	32	1.21

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