genome.fa.s20.2.7.7.80.10.50.1000.104.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  104  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)
34142045--34142091	10	4.6	10	80	15	51	31	27	14	25	1.95
34150002--34150098	30	3.2	30	75	2	106	28	26	15	28	1.96
34154580--34154629	22	2.2	23	86	13	77	50	0	0	50	1.00
34154583--34154621	11	3.5	11	92	0	69	51	0	0	48	1.00
34154649--34154689	3	13.7	3	89	0	64	31	0	4	63	1.15
34156224--34156311	21	4.0	23	79	10	85	15	21	23	38	1.92
34156236--34156296	21	2.8	21	90	5	86	13	24	27	34	1.93
34159570--34159603	17	2.0	17	94	0	59	50	5	20	23	1.70
34162492--34162541	22	2.2	23	86	13	77	50	0	0	50	1.00
34162495--34162533	11	3.5	11	92	0	69	51	0	0	48	1.00
34162561--34162601	3	13.7	3	89	0	64	31	0	4	63	1.15
34164454--34164525	21	3.3	23	83	11	80	15	23	26	34	1.94
34164466--34164525	21	2.8	22	87	10	88	13	23	28	35	1.92
34170907--34171038	46	2.8	47	78	4	117	26	20	30	22	1.98
34179316--34179485	67	2.5	66	80	7	166	32	13	28	25	1.94
34183106--34183175	27	2.6	27	84	4	79	34	15	28	21	1.94
34187952--34187992	19	2.2	19	86	8	57	39	2	2	56	1.26
34189119--34189168	20	2.5	20	86	0	73	36	14	26	24	1.93
34196754--34197110	70	5.1	68	73	10	222	34	26	15	24	1.94
34196722--34197178	140	3.3	140	78	3	427	32	25	16	25	1.96
34200249--34200362	23	4.9	23	78	8	115	21	21	19	37	1.94
34200249--34200362	45	2.5	46	77	9	115	21	21	19	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34207832--34208113	141	2.0	141	99	0	555	29	22	19	28	1.98
34209531--34209679	75	2.0	75	97	0	280	26	30	16	27	1.96
34212761--34212788	13	2.2	13	100	0	56	39	21	0	39	1.54
34222397--34222521	62	2.0	62	98	0	241	23	16	14	46	1.83
34228104--34228138	18	1.9	18	88	0	52	54	17	17	11	1.71
34237298--34237488	43	4.4	43	64	13	113	32	19	24	23	1.97
34237216--34237551	130	2.6	130	93	0	582	31	22	22	23	1.99
34237442--34237852	217	1.9	216	85	4	578	31	19	22	26	1.98
34237754--34237912	44	3.7	44	72	6	128	31	16	21	30	1.95
34237800--34237990	41	4.5	41	72	8	132	28	19	21	29	1.98
34237759--34237946	85	2.2	85	89	0	286	29	17	21	31	1.96
34237785--34237992	85	2.4	85	83	1	229	31	18	21	29	1.97
34238043--34238218	50	3.5	50	77	0	199	33	23	19	22	1.97
34238011--34238222	100	2.1	100	90	0	325	32	23	19	24	1.98
34240046--34240110	32	2.0	32	82	5	78	41	3	3	52	1.32
34242839--34242872	9	3.9	9	84	7	52	0	11	0	88	0.52
34242840--34242872	17	1.9	17	93	0	57	0	12	0	87	0.53
34243881--34243923	10	4.2	10	80	13	52	72	0	6	20	1.08
34243894--34243952	17	3.6	16	73	15	57	76	0	5	18	0.97
34243890--34243954	22	3.0	21	80	13	62	75	0	4	20	0.98
34258007--34258357	146	2.4	145	80	2	389	37	10	13	38	1.80
34267351--34268066	106	7.0	93	78	15	340	40	14	15	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34267430--34268199	106	7.2	106	87	6	1063	40	13	15	30	1.86
34270447--34270760	108	2.9	109	87	7	426	30	15	14	38	1.88
34271784--34271822	19	2.0	20	90	5	62	53	0	0	46	1.00
34274386--34274755	185	2.0	185	100	0	740	41	8	21	29	1.82
34276766--34276912	54	2.7	54	88	1	204	28	17	21	32	1.96
34284129--34284222	25	3.7	25	67	18	59	35	7	7	50	1.59
34284141--34284246	51	2.1	51	98	0	203	37	4	9	48	1.57
34284206--34284336	65	2.0	64	95	1	235	39	5	6	48	1.53
34284515--34284553	14	2.8	14	84	7	53	43	7	10	38	1.67
34286550--34286610	25	2.5	24	84	5	70	21	13	14	50	1.76
34293399--34293521	52	2.4	52	100	0	246	40	9	8	40	1.69
34294434--34294539	42	2.5	41	81	6	131	24	19	19	35	1.95
34294447--34294559	42	2.7	42	85	0	136	25	16	19	38	1.93
34296199--34296237	20	2.0	20	100	0	78	30	25	5	38	1.78
34296201--34296248	20	2.4	20	89	6	71	33	25	2	39	1.67
34298216--34298343	25	5.0	25	73	23	108	65	0	1	32	1.02
34298222--34298285	18	3.3	19	76	14	69	67	0	1	31	1.00
34298211--34298340	39	3.3	41	73	20	134	68	0	1	30	0.99
34298246--34298295	11	4.5	11	81	13	59	66	0	2	32	1.03
34298281--34298338	29	2.0	28	90	3	89	70	0	1	27	0.97
34298661--34298824	27	6.1	27	88	0	220	38	21	18	21	1.94
34299800--34299949	42	3.6	42	74	5	117	23	19	20	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34302630--34302695	29	2.2	29	81	10	80	50	4	0	45	1.22
34306787--34306867	37	2.2	37	88	2	117	30	30	20	17	1.96
34307264--34307295	16	1.9	17	93	6	57	56	6	3	34	1.40
34308829--34308883	20	2.7	21	76	18	62	67	3	1	27	1.17
34309973--34310019	19	2.5	19	89	0	67	70	0	4	25	1.05
34319265--34319326	27	2.3	27	83	5	81	17	24	20	37	1.94
34319494--34319644	45	3.4	44	77	8	169	21	20	14	43	1.88
34323702--34323765	4	15.8	4	75	15	51	21	4	0	73	1.01
34324369--34324405	15	2.5	15	90	0	56	32	0	8	59	1.27
34324821--34324864	22	2.0	22	90	0	70	29	9	4	56	1.50
34325220--34325252	15	2.2	15	94	0	57	24	0	12	63	1.28
34335779--34335803	7	3.6	7	100	0	50	36	0	0	64	0.94
34342554--34342828	48	5.7	48	89	0	415	27	30	17	25	1.97
34349257--34349627	48	7.7	48	83	1	406	27	31	15	25	1.95
34351019--34351101	29	2.9	29	81	5	96	31	25	22	20	1.98
34355787--34355838	27	1.9	27	92	0	86	44	11	19	25	1.84
34360376--34360424	25	2.0	24	92	4	80	22	10	28	38	1.87
34362886--34363030	40	3.6	40	82	7	186	22	28	22	27	1.99
34366138--34366227	35	2.6	35	96	0	162	31	25	15	27	1.96
34370212--34370304	42	2.2	42	96	0	168	24	22	34	18	1.96
34379214--34379328	57	2.0	57	98	0	221	27	11	19	41	1.85
34383231--34383379	40	3.7	40	96	0	262	32	20	25	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34385600--34385629	15	2.0	15	100	0	60	26	6	26	40	1.81
34387669--34387729	28	2.2	27	85	2	77	19	14	14	50	1.77
34396469--34396561	24	3.9	24	84	0	114	31	20	21	26	1.98
34396468--34396560	48	1.9	48	88	0	141	31	19	21	27	1.97
34400167--34400205	20	1.9	20	84	5	51	38	0	17	43	1.50
34403465--34403637	49	3.6	48	84	3	197	23	26	20	30	1.99
34412512--34412546	18	1.9	18	88	0	52	20	40	25	14	1.90
34413912--34413946	17	2.1	17	100	0	70	45	11	22	20	1.82
34413912--34413946	8	4.1	9	89	10	56	45	11	22	20	1.82
34414822--34414855	12	2.8	13	86	13	54	50	0	0	50	1.00
34417890--34417914	4	6.2	4	100	0	50	76	0	0	24	0.80
34419486--34419544	27	2.2	27	100	0	118	32	16	11	38	1.86
34421164--34421191	3	9.3	3	100	0	56	67	0	32	0	0.91
34426900--34427011	23	4.8	23	79	9	93	37	16	23	23	1.93
34426907--34426977	22	3.2	22	86	7	99	36	16	22	23	1.94
34428154--34428274	59	2.1	59	96	0	224	41	16	3	38	1.65
34432516--34432608	43	2.2	43	84	0	123	13	19	33	33	1.91
34432779--34432866	29	3.0	29	71	12	99	25	20	25	29	1.99
34441385--34441514	46	2.8	46	79	8	131	25	30	10	33	1.89
34449712--34449744	16	2.1	16	88	11	50	21	0	3	75	0.93
34467356--34467414	30	2.0	30	100	0	118	45	6	3	44	1.47
34473493--34473517	13	1.9	13	100	0	50	0	40	28	32	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34476684--34476727	20	2.2	20	91	0	70	20	27	31	20	1.97
34477691--34477774	37	2.3	36	83	2	96	33	16	20	29	1.95
34477764--34477958	42	4.7	41	73	6	142	27	13	27	32	1.94
34481904--34481979	40	1.9	40	83	0	98	18	13	31	36	1.89
34481996--34482070	28	2.7	28	79	4	89	29	10	30	29	1.91
34489564--34489627	28	2.3	28	97	0	119	18	43	17	20	1.88
34495558--34495650	46	2.0	46	97	0	177	29	9	13	47	1.75
34495565--34495662	46	2.1	46	90	0	151	30	12	15	41	1.83
34501523--34501730	110	1.9	110	93	2	364	18	12	27	41	1.86
34505557--34505595	6	6.3	6	85	5	51	15	5	0	79	0.90

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