genome.fa.s20.2.7.7.80.10.50.1000.90.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  90  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)
29174194--29174603	46	8.7	46	75	9	285	23	29	19	27	1.98
29174250--29174606	94	3.8	94	82	8	390	23	29	18	28	1.98
29174296--29174564	140	1.9	140	81	6	330	23	29	18	28	1.98
29174249--29174606	188	1.9	187	81	10	435	23	29	18	28	1.98
29184329--29184384	7	8.0	7	100	0	112	28	0	0	71	0.86
29184618--29185014	131	3.0	130	78	10	385	26	10	9	52	1.66
29185099--29185145	20	2.3	20	85	7	60	31	4	4	59	1.36
29202489--29202537	12	4.2	12	73	19	50	48	2	2	46	1.25
29202494--29202537	17	2.6	18	78	10	56	47	2	2	47	1.27
29222441--29222499	26	2.3	25	82	5	66	44	18	15	22	1.87
29238497--29238560	33	1.9	33	96	0	119	15	10	40	32	1.82
29240063--29240129	34	2.0	34	90	0	107	22	22	13	41	1.88
29244097--29244198	43	2.3	43	82	11	120	50	11	21	15	1.76
29245145--29245332	94	2.0	94	97	0	358	22	13	19	44	1.86
29245782--29246039	129	2.0	129	91	1	419	35	19	14	29	1.92
29248874--29248968	28	3.3	28	71	14	77	58	2	2	36	1.21
29249463--29249525	31	2.0	31	100	0	126	47	6	6	39	1.54
29249944--29250019	27	2.8	27	89	0	107	23	25	26	25	2.00
29255438--29255496	31	1.9	31	85	0	82	33	11	18	35	1.88
29256401--29256442	20	2.1	20	90	0	66	78	0	19	2	0.86
29260133--29260251	45	2.7	44	78	13	136	42	15	21	21	1.88
29260393--29260460	27	2.5	26	81	6	73	32	23	29	14	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29264191--29264264	38	1.9	38	91	0	121	39	10	22	27	1.87
29265084--29265304	45	4.9	43	78	9	176	42	14	18	23	1.88
29265086--29265292	90	2.3	90	82	6	233	43	14	19	23	1.87
29267651--29267697	18	2.6	18	86	0	67	38	14	12	34	1.85
29267883--29267993	45	2.5	45	84	0	150	42	17	18	22	1.89
29269509--29269692	67	2.8	64	76	8	185	29	17	29	22	1.97
29280063--29280141	27	3.0	27	90	5	117	34	22	25	17	1.96
29281762--29281895	26	5.2	26	90	0	214	36	24	6	32	1.82
29282787--29282828	16	2.5	18	81	14	54	11	16	0	71	1.14
29286217--29286293	38	2.0	38	97	0	145	29	22	15	32	1.95
29291330--29291455	62	2.0	62	95	0	225	21	23	23	32	1.98
29294512--29294749	131	1.8	131	79	3	282	34	17	18	29	1.93
29295415--29295469	27	2.0	27	96	0	101	54	14	0	30	1.41
29295415--29295461	16	3.2	16	72	27	59	48	17	0	34	1.47
29295515--29295559	23	2.0	23	82	8	56	55	6	2	35	1.38
29309916--29309960	23	2.0	23	82	8	56	55	6	2	35	1.38
29319129--29319189	30	2.0	30	83	0	77	31	22	8	37	1.84
29327174--29327274	42	2.4	42	91	0	157	12	24	38	23	1.90
29327900--29327969	34	2.0	35	83	2	88	25	17	24	32	1.96
29328448--29328489	18	2.3	18	91	0	66	47	2	14	35	1.57
29328457--29328491	18	1.9	18	100	0	70	40	2	17	40	1.64
29336073--29336179	43	2.5	43	89	0	169	42	25	10	22	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29336160--29336283	22	5.7	22	69	12	78	41	36	4	17	1.69
29336117--29336265	65	2.3	65	92	0	244	42	30	7	20	1.79
29336550--29336600	19	2.7	19	67	11	50	49	21	0	29	1.50
29338932--29339194	127	2.1	127	95	0	472	33	15	6	45	1.71
29342423--29342466	22	2.0	22	86	0	61	52	0	0	47	1.00
29342486--29342527	13	2.9	14	80	13	50	52	2	0	45	1.13
29343076--29343121	14	3.2	14	84	9	58	43	4	4	47	1.42
29343894--29343959	22	3.0	22	76	10	64	34	1	3	60	1.21
29348157--29348205	24	2.0	24	92	0	80	55	2	8	34	1.41
29354036--29354070	18	1.9	18	88	0	52	28	25	8	37	1.85
29354329--29354371	21	2.0	22	86	4	61	39	41	11	6	1.68
29357617--29358139	126	4.1	127	85	2	653	29	16	15	38	1.90
29358237--29358353	33	3.5	33	78	10	132	48	16	0	35	1.46
29369432--29369474	18	2.4	18	88	0	59	69	4	16	9	1.31
29369551--29369582	5	6.6	5	92	7	57	81	0	0	18	0.70
29369552--29369582	9	3.3	9	95	4	53	80	0	0	19	0.71
29381140--29381184	2	22.5	2	90	0	63	0	57	0	42	0.98
29381140--29381184	14	3.2	14	90	0	72	0	57	0	42	0.98
29382273--29382338	2	33.5	2	86	3	80	0	56	0	43	0.99
29387058--29387095	20	1.9	20	94	0	67	21	18	5	55	1.62
29390232--29390271	20	2.0	20	100	0	80	30	20	0	50	1.49
29396599--29396629	16	1.9	16	93	0	53	35	22	0	41	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29396596--29396635	20	2.0	20	85	0	53	37	22	0	40	1.54
29404110--29404170	24	2.5	24	83	0	95	42	24	13	19	1.87
29404828--29404911	30	2.8	30	81	3	98	26	27	17	28	1.98
29410497--29410591	47	2.0	48	93	2	165	34	14	14	35	1.87
29423757--29423798	17	2.5	17	88	0	66	47	0	21	30	1.51
29423750--29423798	23	2.1	24	88	3	73	44	0	20	34	1.52
29423948--29424004	29	2.0	29	90	10	91	21	3	26	49	1.65
29423949--29424020	28	2.5	29	82	13	87	20	2	26	50	1.62
29429452--29429481	13	2.2	14	94	5	53	23	3	36	36	1.71
29429521--29429624	28	3.8	29	78	10	114	16	4	30	48	1.67
29441110--29441147	19	2.0	19	100	0	76	21	42	21	15	1.89
29442381--29442405	13	1.9	13	100	0	50	20	8	0	72	1.10
29442351--29442411	24	2.6	23	80	10	61	24	6	1	67	1.24
29453681--29453752	26	2.5	26	82	17	74	20	6	2	69	1.25
29463764--29463892	55	2.4	53	81	7	134	24	34	26	14	1.94
29468686--29468710	13	1.9	13	100	0	50	24	28	48	0	1.52
29481611--29481685	37	2.0	37	97	0	141	21	26	16	36	1.94
29488016--29488058	5	8.0	5	85	14	59	23	2	0	74	0.93
29488021--29488071	22	2.3	21	83	9	66	25	3	0	70	1.04
29488011--29488071	18	3.8	17	78	18	51	26	4	0	68	1.09
29488042--29488171	63	2.1	63	85	2	172	29	6	0	63	1.26
29492708--29492732	12	2.1	12	100	0	50	44	24	8	24	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29499296--29499343	24	2.0	24	100	0	96	16	33	12	37	1.86
29506295--29506352	15	3.9	15	76	0	62	53	12	17	17	1.73
29542057--29543062	45	21.6	45	75	8	572	33	16	19	29	1.94
29542057--29543062	96	10.7	96	73	10	604	33	16	19	29	1.94
29542377--29543038	51	13.9	51	71	13	376	34	15	19	30	1.93
29542796--29542970	95	1.8	96	88	3	273	35	13	17	33	1.89
29542144--29543062	146	6.5	144	76	10	581	33	16	19	30	1.94
29543647--29543707	21	2.9	22	85	9	83	16	6	3	73	1.17
29544773--29544805	16	2.1	15	94	5	57	18	3	0	78	0.87
29544774--29544819	23	2.0	24	82	4	58	17	8	0	73	1.07
29544865--29544919	23	2.5	22	77	13	58	25	3	3	67	1.23
29545689--29545741	27	2.0	27	96	0	97	16	15	32	35	1.90
29547827--29548012	26	7.2	26	96	0	345	30	8	26	34	1.85
29555443--29555524	26	3.2	26	98	0	155	30	9	26	32	1.89
29558078--29558157	39	2.1	39	95	0	142	18	28	26	26	1.98
29564646--29564675	5	6.0	5	100	0	60	20	0	0	80	0.72
29566468--29566503	18	2.0	18	88	0	54	30	13	25	30	1.94
29568087--29568124	20	2.1	18	85	14	51	57	10	0	31	1.32
29570653--29570753	48	2.0	49	81	9	116	54	2	0	41	1.22
29571865--29571935	37	1.9	37	91	0	115	43	11	8	36	1.71
29572115--29572174	24	2.5	24	75	5	59	51	3	1	43	1.28
29572797--29572837	13	3.1	13	82	6	55	24	7	29	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29573197--29573240	22	2.0	22	100	0	88	45	4	18	31	1.69
29575495--29575526	2	16.0	2	100	0	64	50	0	50	0	1.00
29582171--29582209	13	3.0	13	85	11	53	25	2	5	66	1.25
29584596--29584634	13	3.0	13	85	11	53	25	2	5	66	1.25
29587887--29588036	67	2.2	67	81	8	171	32	17	28	21	1.96
29587911--29588094	67	2.8	64	77	8	194	29	17	29	22	1.97
29592144--29592184	21	2.0	21	90	9	66	53	12	12	21	1.70
29592100--29592232	70	1.9	67	84	4	176	43	12	12	32	1.78
29595695--29595756	27	2.3	28	88	8	101	37	24	22	16	1.94
29597325--29597451	26	4.9	26	91	0	209	37	24	5	33	1.79

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