genome.fa.s23.2.7.7.80.10.50.1000.90.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_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  90  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)
29717300--29717389	45	2.0	45	97	0	171	14	28	16	40	1.88
29720103--29720141	18	2.2	18	86	9	53	48	0	7	43	1.31
29741920--29741976	28	2.0	29	86	10	82	28	0	12	59	1.33
29743651--29743687	19	1.9	19	88	0	56	51	13	5	29	1.63
29760284--29760356	31	2.4	30	82	8	85	30	8	9	52	1.63
29760494--29760612	58	2.1	57	82	9	143	36	17	20	25	1.94
29775986--29776135	59	2.5	59	78	2	140	24	14	15	45	1.84
29779120--29779158	19	2.0	20	85	5	53	33	10	0	56	1.33
29789993--29790089	17	5.4	17	65	13	59	32	3	13	50	1.57
29789988--29790099	37	3.0	37	93	0	197	33	3	14	48	1.61
29790009--29790073	20	3.4	19	69	14	62	33	4	16	44	1.69
29794418--29794561	74	1.9	74	88	2	218	32	19	13	34	1.91
29800128--29800154	13	2.1	13	100	0	54	40	0	7	51	1.30
29817769--29818650	6	146.7	6	99	0	1674	49	32	0	16	1.52
29846687--29846738	26	1.9	26	88	7	77	15	25	5	53	1.63
29853317--29853853	107	5.0	107	90	1	792	34	18	16	29	1.94
29853317--29853853	215	2.5	215	91	1	857	34	18	16	29	1.94
29854067--29854103	4	9.5	4	83	16	51	75	0	0	24	0.80
29854067--29854099	16	2.0	17	94	5	59	75	0	0	24	0.80
29854067--29854103	7	4.8	8	90	9	51	75	0	0	24	0.80
29854242--29854270	8	3.6	8	100	0	58	62	0	0	37	0.96
29854436--29854462	3	9.0	3	100	0	54	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29854461--29854490	3	10.0	3	100	0	60	33	0	33	33	1.58
29855898--29856566	85	7.8	84	66	15	264	27	20	20	31	1.98
29855898--29856389	44	11.5	44	69	12	204	27	20	20	31	1.98
29855889--29856565	129	5.2	129	84	2	860	27	21	20	31	1.98
29856455--29856609	44	3.5	44	80	3	143	28	23	18	30	1.97
29856805--29857384	50	11.5	50	64	4	236	26	19	20	33	1.97
29856730--29856880	75	2.0	75	80	5	171	25	18	21	34	1.96
29856681--29856929	125	2.0	125	87	3	358	25	19	20	34	1.96
29856822--29857411	101	5.9	101	93	1	900	26	19	21	32	1.97
29858549--29858649	42	2.4	42	94	0	175	26	26	10	35	1.90
29858735--29858768	14	2.4	14	95	0	59	11	11	0	76	1.02
29863048--29864004	107	8.9	107	94	1	1619	35	20	16	28	1.94
29863048--29864004	322	3.0	321	94	0	1644	35	20	16	28	1.94
29868015--29868054	21	2.0	20	85	5	53	50	20	12	17	1.78
29868742--29868832	21	4.3	21	88	2	130	24	20	28	26	1.99
29872299--29872365	22	3.0	22	74	8	64	17	22	19	40	1.92
29872582--29872629	21	2.3	21	80	16	55	50	0	18	31	1.48
29881606--29881646	20	2.0	20	100	0	82	31	4	9	53	1.55
29882326--29883756	719	2.0	719	100	0	2862	37	14	12	35	1.85
29884784--29884815	9	3.6	9	95	0	55	43	0	0	56	0.99
29892059--29892119	26	2.4	25	77	2	77	54	9	6	29	1.59
29894481--29894635	37	4.2	37	72	10	93	36	14	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29897600--29897660	25	2.5	25	81	2	70	44	16	16	22	1.86
29897600--29897673	25	3.0	25	78	2	69	43	14	17	24	1.87
29897772--29897891	64	1.9	64	85	0	168	37	23	19	20	1.94
29904486--29904520	18	1.9	18	88	0	52	57	0	8	34	1.29
29906570--29906606	16	2.3	16	86	13	58	40	0	0	59	0.97
29912236--29912273	20	1.9	19	89	5	58	55	2	0	42	1.14
29918994--29919027	17	2.1	17	88	5	52	50	0	17	32	1.47
29919848--29919947	42	2.4	42	91	0	155	38	10	26	26	1.87
29926957--29926999	3	14.3	3	90	0	68	37	30	0	32	1.58
29933079--29933119	3	13.7	3	94	0	64	0	60	0	39	0.96
29933070--29933110	18	2.3	18	95	0	73	2	56	0	41	1.13
29940995--29941028	17	1.9	18	88	5	52	58	5	0	35	1.22
29941405--29941444	20	2.0	20	90	0	62	75	2	5	17	1.10
29956928--29957017	24	3.9	22	84	10	101	84	1	14	0	0.68
29956928--29957018	7	13.3	7	82	13	118	84	1	14	0	0.68
29956932--29957009	1	78.0	1	71	0	57	85	1	12	0	0.65
29957284--29958036	106	7.1	106	94	1	1267	25	16	7	49	1.73
29957284--29958036	214	3.5	213	95	1	1280	25	16	7	49	1.73
29958702--29958741	15	2.7	15	84	0	53	42	20	2	35	1.65
29958948--29959310	46	7.9	46	89	2	516	25	15	26	31	1.96
29958948--29959445	138	3.5	139	86	5	633	25	15	27	31	1.96
29959294--29959326	16	2.1	16	94	0	57	21	18	48	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29959250--29959370	62	2.0	62	91	0	197	23	14	32	28	1.95
29959310--29959445	46	3.0	46	91	0	227	24	15	29	30	1.95
29959202--29959418	108	2.0	108	91	1	355	25	15	29	29	1.96
29959156--29959445	154	1.9	154	90	0	463	25	15	28	30	1.96
29960742--29960775	16	2.1	16	88	0	50	8	5	2	82	0.93
29963444--29963497	25	2.2	24	87	9	74	40	1	0	57	1.09
29963930--29964309	114	3.3	111	79	5	395	24	21	27	27	1.99
29963899--29964309	228	1.8	228	80	3	504	24	22	26	26	2.00
29965672--29966019	146	2.4	146	80	4	353	27	15	21	35	1.93
29966095--29966140	23	2.0	23	95	0	83	32	43	2	21	1.65
29968102--29968276	43	4.1	43	80	6	178	25	19	21	33	1.97
29968102--29968414	42	7.4	42	76	7	177	26	19	21	32	1.97
29968812--29968840	8	3.6	8	100	0	58	75	0	0	24	0.80
29975276--29975311	7	4.9	8	80	19	51	50	0	0	50	1.00
29975472--29975524	25	2.2	24	86	3	70	32	1	3	62	1.24
29980817--29980929	60	1.9	60	85	7	158	15	26	20	38	1.92
29997674--29997858	66	2.8	66	81	3	221	22	25	24	26	2.00
29997675--29997883	66	3.2	66	79	5	174	23	25	24	25	2.00
30000406--30000860	88	5.0	87	72	11	324	35	19	18	26	1.95
30000406--30000674	132	2.0	132	84	1	360	36	18	18	26	1.94
30000428--30000697	44	6.1	43	79	5	168	35	18	19	26	1.95
30002577--30002610	17	2.0	17	94	0	59	52	5	8	32	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30005109--30005384	141	2.0	140	80	7	317	27	22	20	30	1.98
30019954--30020059	54	2.0	54	94	0	185	33	20	12	33	1.90
30020330--30020363	16	2.1	17	88	5	52	14	58	0	26	1.36
30024972--30025023	25	2.1	25	100	0	104	25	23	28	23	1.99
30029427--30029577	42	3.6	41	78	10	144	35	25	14	23	1.93
30029423--30029577	85	1.8	84	87	4	231	34	25	15	23	1.94
30029435--30029617	41	4.4	41	79	8	145	33	24	14	27	1.94
30038338--30038404	31	2.2	31	100	0	134	25	16	14	43	1.86
30038338--30038417	31	2.7	31	88	5	85	27	15	16	41	1.88
30069502--30069531	15	2.0	15	93	0	51	6	16	13	63	1.50
30071531--30071584	27	2.0	27	100	0	108	44	14	11	29	1.80
30080537--30080586	22	2.3	22	82	6	66	46	0	0	54	1.00
30084493--30084536	23	1.9	23	86	9	63	47	0	2	50	1.13
30084461--30084538	23	3.3	22	75	21	61	50	0	1	48	1.09
30088600--30088673	29	2.7	26	85	8	85	28	12	28	31	1.93
30094184--30094227	23	1.9	23	86	9	63	63	6	4	25	1.38
30096483--30096554	30	2.5	29	80	8	76	58	1	1	38	1.15
30096781--30096833	22	2.4	21	78	9	52	33	1	5	58	1.32
30107095--30107282	59	3.2	59	66	11	150	41	3	3	51	1.35
30107084--30107372	119	2.4	120	92	2	483	42	2	4	50	1.34
30107204--30107259	15	3.5	18	75	24	63	42	0	0	57	0.99
30107158--30107340	56	3.1	58	66	23	146	42	2	6	49	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30107337--30107378	15	2.7	16	82	14	52	45	0	2	52	1.13
30107328--30107369	15	2.9	15	82	10	52	47	0	0	52	1.00
30107592--30107640	16	3.1	16	90	0	80	24	34	6	34	1.80
30121660--30121698	6	6.5	6	100	0	78	33	0	15	51	1.44
30125103--30125423	3	107.0	3	100	0	642	33	0	0	66	0.92
30129679--30129704	3	8.7	3	100	0	52	30	0	0	69	0.89
30132240--30132271	16	2.1	15	94	5	55	53	0	0	46	1.00
30132446--30132475	15	2.0	15	93	0	51	60	0	3	36	1.14
30132669--30132704	3	12.7	3	88	11	58	66	0	0	33	0.92
30133274--30133315	7	5.7	7	91	8	66	71	0	2	26	0.98

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