genome.fa.s20.2.7.7.80.10.50.1000.44.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  44  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)
13104591--13104628	20	1.9	20	88	0	58	36	2	13	47	1.56
13105396--13105443	21	2.2	22	88	3	71	8	6	8	77	1.14
13116297--13116559	92	2.7	98	87	7	403	35	14	21	27	1.93
13116363--13116559	46	4.3	46	97	0	358	36	14	21	27	1.92
13116523--13116631	37	3.0	36	88	5	166	34	16	23	24	1.95
13119653--13119737	43	2.0	42	95	0	143	32	4	27	34	1.77
13134830--13134884	27	2.0	27	92	0	92	20	10	29	40	1.86
13135100--13135152	24	2.2	24	82	0	61	32	11	15	41	1.82
13135123--13135193	24	3.0	24	81	4	81	36	5	15	42	1.71
13136321--13136390	35	2.0	35	97	0	131	42	32	0	24	1.55
13146779--13146847	20	3.5	20	91	0	111	46	7	10	36	1.65
13146921--13146959	19	2.0	20	90	5	62	35	0	17	46	1.49
13151187--13151320	45	3.1	43	75	13	114	32	23	17	26	1.97
13152234--13152274	21	1.9	22	85	5	57	48	9	0	41	1.36
13154373--13154423	5	9.6	5	76	19	50	23	1	0	74	0.92
13154391--13154434	22	2.0	23	86	4	63	25	4	0	70	1.06
13154383--13154434	12	4.4	12	80	11	63	25	3	0	71	1.03
13154374--13154457	37	2.2	38	83	6	100	27	3	1	67	1.14
13155841--13155888	21	2.3	21	88	0	69	37	0	2	60	1.09
13155863--13155888	13	2.0	13	100	0	52	38	0	0	61	0.96
13155853--13155881	8	3.8	8	95	4	51	34	0	0	65	0.93
13155965--13156023	5	12.4	5	92	3	88	77	0	20	1	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13159669--13159748	39	2.1	39	97	0	151	17	21	30	31	1.96
13163366--13163548	40	4.6	39	79	8	183	24	26	22	26	2.00
13163353--13163510	80	2.0	80	83	5	203	24	25	21	27	1.99
13163856--13163934	29	2.7	29	86	5	106	27	32	15	24	1.95
13163916--13164018	43	2.4	43	100	0	206	26	35	15	22	1.94
13165872--13165950	37	2.1	37	88	4	115	25	30	18	25	1.98
13166123--13166495	47	7.9	47	93	0	638	29	27	8	34	1.86
13168664--13168768	39	2.7	39	91	4	158	18	22	29	29	1.97
13168668--13168784	40	3.0	39	89	3	164	17	22	29	31	1.96
13173472--13173500	8	3.8	8	95	4	51	37	0	0	62	0.96
13173472--13173504	13	2.3	15	90	10	52	39	0	0	60	0.97
13182840--13182868	11	2.6	11	100	0	58	6	13	0	79	0.93
13185104--13185291	35	5.3	35	97	1	340	36	14	11	37	1.83
13185104--13185296	17	10.8	18	86	12	122	36	14	11	37	1.82
13186566--13186643	27	2.9	26	86	7	95	33	21	24	20	1.97
13188231--13189066	26	32.2	26	99	0	1654	34	26	7	30	1.85
13193870--13193947	27	2.9	26	86	7	95	33	21	24	20	1.97
13194554--13194618	31	2.1	31	91	0	103	49	13	10	26	1.75
13195585--13195666	26	3.2	26	96	0	146	35	26	7	30	1.84
13196200--13196286	13	6.7	13	74	8	63	79	2	5	12	1.00
13196232--13196280	19	2.6	19	78	12	55	79	0	10	10	0.93
13196384--13196430	9	5.2	9	84	0	58	80	0	0	19	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13196384--13196430	18	2.6	18	82	0	67	80	0	0	19	0.70
13196391--13196435	18	2.6	17	86	6	63	80	0	0	20	0.72
13196384--13196435	26	2.1	24	85	7	68	78	0	0	21	0.74
13196777--13196834	30	1.9	30	86	6	82	15	36	25	22	1.94
13200831--13200888	30	1.9	30	89	0	89	13	31	37	17	1.89
13202527--13202556	15	1.9	16	93	6	53	66	0	33	0	0.92
13207320--13207372	26	2.0	27	85	7	74	24	15	22	37	1.92
13222793--13222843	21	2.4	21	76	0	57	17	27	35	19	1.94
13244088--13244309	21	10.6	21	72	9	114	17	21	16	45	1.86
13244087--13244309	42	5.3	42	85	0	239	17	21	16	45	1.86
13244088--13244306	63	3.5	63	78	1	215	17	21	16	45	1.86
13248452--13248736	131	2.2	131	83	1	347	28	20	19	31	1.97
13248452--13248787	131	2.6	131	80	6	335	27	20	21	31	1.98
13248698--13248968	131	2.1	131	81	8	320	26	20	19	33	1.97
13250882--13251009	62	2.1	62	82	2	150	28	22	27	21	1.99
13250906--13251064	62	2.6	62	83	2	203	28	22	24	24	2.00
13259271--13259316	18	2.6	18	96	0	83	41	15	21	21	1.90
13264922--13264965	22	2.0	22	90	0	70	22	15	20	40	1.90
13266843--13266880	12	3.2	12	85	3	51	2	2	10	84	0.83
13267522--13267649	62	2.1	62	83	0	157	21	17	31	28	1.97
13269408--13269466	26	2.3	26	96	0	109	20	23	22	33	1.97
13273145--13273323	40	4.5	40	86	2	234	24	14	25	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13273304--13273377	28	2.6	28	86	0	112	22	13	32	31	1.93
13274021--13274047	9	3.0	9	100	0	54	33	0	33	33	1.58
13285590--13285751	86	1.9	86	82	10	206	31	11	11	45	1.76
13285680--13285828	77	1.9	77	82	8	187	35	10	10	42	1.75
13285869--13286219	77	4.5	77	75	11	297	33	9	9	47	1.68
13286266--13286336	23	3.3	22	70	20	60	30	8	1	59	1.36
13288395--13288440	23	2.0	24	86	4	67	34	0	4	60	1.16
13288402--13288453	25	2.0	25	85	14	70	36	0	1	61	1.07
13290677--13290735	28	2.1	28	100	0	118	42	6	13	37	1.71
13290677--13290752	28	2.8	28	88	6	84	40	7	14	36	1.75
13291433--13291496	32	1.9	34	84	9	87	51	1	1	45	1.20
13292543--13292595	20	2.4	22	78	18	56	32	5	0	62	1.19
13295592--13295647	16	3.2	17	80	10	69	41	25	1	32	1.66
13295588--13295673	32	2.6	34	81	15	101	39	20	4	34	1.74
13296999--13297078	32	2.5	32	97	2	153	7	36	33	22	1.82
13302059--13302097	17	2.3	17	81	0	51	0	10	5	84	0.76
13302690--13302836	62	2.4	62	84	1	195	21	20	33	24	1.97
13308318--13308413	40	2.4	40	87	0	138	26	15	20	37	1.93
13312737--13312797	28	2.2	28	94	2	106	37	31	9	21	1.86
13314471--13314548	35	2.2	35	79	0	93	39	21	15	23	1.91
13316850--13316954	50	2.1	51	92	1	176	26	7	27	38	1.83
13322369--13322429	17	3.6	16	74	12	59	31	4	29	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13332451--13332481	15	2.1	15	100	0	62	41	25	6	25	1.79
13337382--13337747	183	2.0	183	91	0	597	31	21	17	29	1.96
13339562--13339729	83	2.0	83	98	0	327	34	17	13	33	1.90
13339972--13340028	28	2.0	28	100	0	114	36	17	14	31	1.89
13345619--13345852	49	4.7	50	87	2	303	25	18	26	29	1.98
13353617--13353707	42	2.1	44	80	13	109	36	21	14	27	1.92
13357327--13357367	20	2.0	20	85	0	55	39	0	19	41	1.52
13362400--13362439	21	2.1	19	86	13	55	30	22	30	17	1.97
13363164--13363193	14	2.1	15	93	6	53	56	13	10	20	1.65
13365634--13365677	21	2.0	22	83	12	56	72	0	6	20	1.07
13376111--13376272	81	2.0	81	97	0	306	26	14	31	27	1.95
13379979--13380225	40	6.2	40	80	12	253	23	23	28	25	2.00
13379979--13380202	119	1.9	120	86	2	326	22	23	28	25	1.99
13380019--13380225	79	2.6	79	86	3	283	23	23	28	25	2.00
13387625--13387769	40	3.6	40	93	1	238	24	22	28	24	2.00
13396188--13396319	66	2.0	66	100	0	264	40	9	21	28	1.83
13405226--13405546	27	11.9	27	82	12	376	18	25	21	33	1.96
13405223--13405546	54	6.0	54	95	1	562	18	25	21	33	1.96
13412300--13413199	54	16.7	54	99	0	1748	18	26	22	33	1.97
13412303--13413217	27	33.9	26	82	7	781	18	26	22	33	1.97
13421310--13421462	39	3.9	39	90	1	220	27	26	20	24	1.99
13429559--13429623	32	2.0	32	100	0	130	30	6	24	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13431105--13431157	26	2.0	26	85	7	72	39	22	13	24	1.90
13432440--13432613	39	4.5	39	83	7	205	28	28	20	22	1.98
13436741--13436765	13	1.9	13	100	0	50	16	24	40	20	1.91
13462180--13462213	11	3.1	11	91	0	50	26	20	0	52	1.46
13468217--13468388	93	1.8	93	94	0	308	27	29	21	21	1.99
13468210--13468385	46	3.8	46	78	12	207	28	28	21	21	1.98
13475343--13475430	46	1.9	46	88	0	122	27	30	22	19	1.98
13488498--13488589	47	2.0	47	88	0	139	29	13	16	41	1.86
13495216--13495244	14	2.0	15	93	6	51	65	6	6	20	1.40
13496065--13496117	18	2.9	19	86	8	74	54	9	1	33	1.43

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