genome.fa.s20.2.7.7.80.10.50.1000.171.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  171  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)
56820970--56821004	18	1.9	18	94	0	61	42	2	22	31	1.68
56821008--56821355	3	114.7	3	82	7	366	64	0	5	29	1.22
56822300--56822331	4	8.2	4	93	6	57	78	21	0	0	0.76
56839062--56839164	53	1.9	53	94	0	179	20	15	8	55	1.66
56839071--56839160	27	3.4	26	68	15	76	21	13	7	57	1.61
56839588--56839781	46	4.2	46	87	3	250	33	14	23	27	1.94
56840218--56840721	44	10.7	45	66	15	151	29	21	23	26	1.99
56840499--56840757	44	5.6	45	67	12	130	30	22	22	25	1.99
56840210--56840863	143	4.6	143	89	1	970	29	20	23	26	1.99
56840885--56841116	44	5.2	44	70	12	125	32	21	17	28	1.96
56842583--56842621	8	5.1	8	81	12	55	35	2	0	61	1.10
56844277--56844630	46	7.5	49	72	8	175	28	19	27	25	1.98
56844457--56844588	49	2.7	49	83	1	167	30	21	26	21	1.98
56846740--56846766	14	1.9	14	100	0	54	22	7	37	33	1.82
56849509--56849585	21	3.5	22	78	8	86	38	24	22	14	1.91
56849510--56849597	21	4.0	23	76	10	76	38	22	21	17	1.93
56850303--56850359	23	2.5	23	83	13	73	36	12	5	45	1.64
56850599--56850771	3	58.3	3	90	6	282	64	1	0	34	1.01
56856881--56856988	26	4.2	26	98	0	207	30	7	25	36	1.84
56865435--56865490	28	2.0	29	89	3	87	30	19	14	35	1.91
56865873--56865909	19	1.9	19	88	0	56	32	8	29	29	1.86
56867753--56867785	15	2.1	17	88	11	52	39	39	3	18	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56868828--56868856	2	15.0	2	92	7	51	48	0	0	51	1.00
56868923--56868999	21	3.9	20	77	14	63	31	0	3	64	1.11
56868939--56869003	19	3.7	19	68	19	59	32	0	4	63	1.15
56869309--56869351	11	4.2	10	85	11	52	20	0	9	69	1.15
56869299--56869347	21	2.3	21	82	10	55	16	0	6	77	0.96
56869372--56869406	18	1.9	18	88	0	52	17	0	5	77	0.96
56869538--56869657	64	1.9	63	80	10	138	32	5	11	50	1.60
56869150--56870646	748	2.0	748	99	0	2960	30	7	10	51	1.64
56870057--56870099	11	4.2	10	85	11	52	20	0	9	69	1.15
56870009--56870095	21	4.2	21	71	19	58	18	2	4	74	1.09
56870120--56870154	18	1.9	18	88	0	52	17	0	5	77	0.96
56870286--56870405	64	1.9	63	80	10	138	32	5	11	50	1.60
56874105--56874132	4	7.0	4	100	0	56	25	0	0	75	0.81
56874194--56874223	14	2.1	14	93	0	51	46	36	0	16	1.47
56874223--56874267	23	2.0	23	81	0	54	42	11	6	40	1.67
56885534--56885567	4	8.2	4	87	6	50	23	0	0	76	0.79
56885534--56885567	13	2.7	13	90	4	52	23	0	0	76	0.79
56885628--56885657	14	2.1	14	93	0	51	46	36	0	16	1.47
56885657--56885701	23	2.0	23	81	0	54	42	11	6	40	1.67
56891815--56891999	79	2.3	81	84	7	236	24	22	27	25	2.00
56891816--56891999	40	4.6	40	83	9	216	24	22	27	25	2.00
56891868--56892032	79	2.1	79	84	6	210	26	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56900469--56901250	45	17.4	43	68	15	376	31	15	25	26	1.96
56900491--56901250	90	8.5	90	91	1	1220	31	15	26	26	1.96
56902725--56902778	12	4.2	12	75	13	54	27	1	3	66	1.19
56903094--56903136	11	4.2	10	85	11	52	20	0	9	69	1.15
56903094--56903132	21	1.9	19	85	10	51	17	0	7	74	1.05
56903157--56903191	18	1.9	18	88	0	52	17	0	8	74	1.06
56903221--56903446	119	2.0	112	81	7	265	31	5	11	51	1.61
56904434--56904522	42	2.1	42	89	0	133	51	11	5	31	1.60
56904547--56904586	19	2.2	18	95	4	71	42	15	2	40	1.60
56905544--56905575	15	2.1	15	100	0	64	37	9	18	34	1.83
56907299--56907394	42	2.3	43	94	3	169	52	14	3	30	1.57
56907299--56907409	42	2.6	42	87	7	118	54	12	3	29	1.55
56907412--56907451	19	2.2	18	95	4	71	42	15	2	40	1.60
56914808--56914880	35	2.1	35	97	0	137	43	9	19	27	1.81
56915634--56915721	42	2.1	42	100	0	176	37	20	18	23	1.94
56924089--56924150	27	2.3	26	78	8	70	37	0	11	51	1.38
56924145--56924186	20	2.2	19	83	12	50	28	4	0	66	1.12
56935123--56935245	62	2.0	62	95	0	219	17	24	21	35	1.95
56942830--56942870	14	2.9	13	86	13	55	31	17	2	48	1.60
56944970--56945038	34	2.0	34	94	0	120	37	24	21	15	1.93
56945739--56945946	115	1.8	115	98	0	407	38	15	6	39	1.74
56946171--56946199	7	4.1	7	100	0	58	13	27	13	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56946198--56946377	31	5.8	31	91	2	272	26	26	18	27	1.98
56946353--56946481	50	2.5	51	90	5	199	25	22	16	35	1.94
56948745--56948793	22	2.2	21	79	10	53	42	2	2	53	1.24
56948756--56948798	10	4.1	10	85	11	59	37	0	2	60	1.10
56948755--56948798	22	2.0	22	95	0	79	38	0	2	59	1.10
56950464--56950572	43	2.6	43	83	4	123	31	15	24	28	1.96
56952454--56952497	22	2.0	22	100	0	88	31	13	18	36	1.90
56970513--56970555	18	2.3	19	88	4	61	44	0	4	51	1.22
56975696--56975874	95	1.8	98	89	4	283	44	9	7	38	1.66
56975851--56975881	9	3.4	9	90	0	53	48	19	6	25	1.72
56975696--56975874	98	1.8	96	89	4	279	44	9	7	38	1.66
56977783--56977833	16	3.1	16	75	16	50	49	0	1	49	1.12
56977909--56977979	37	1.9	37	86	11	101	57	4	1	36	1.27
56983955--56983998	22	2.0	22	86	0	61	43	4	0	52	1.22
56984975--56985013	21	1.9	21	89	5	62	38	10	20	30	1.86
56984975--56985029	20	2.7	21	80	8	60	40	9	18	32	1.82
56999084--56999164	30	2.7	31	80	5	85	54	9	1	34	1.42
56999968--57000474	169	3.0	169	98	0	978	46	5	12	35	1.65
57007582--57007745	42	3.9	42	85	1	220	29	23	15	31	1.96
57007582--57007745	85	1.9	84	85	1	220	29	23	15	31	1.96
57009854--57009903	24	2.1	24	100	0	100	44	24	4	28	1.72
57013420--57013647	116	2.0	116	100	0	456	37	8	21	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57013647--57013789	49	2.9	49	85	4	207	24	18	25	30	1.98
57013647--57013839	98	2.0	97	81	6	228	26	18	25	30	1.98
57017083--57017110	14	2.0	14	100	0	56	35	21	7	35	1.81
57018135--57018177	15	3.2	15	69	30	51	65	0	6	27	1.18
57018128--57018177	25	2.0	25	100	0	100	64	0	8	28	1.22
57024112--57024150	21	1.9	20	84	5	51	46	20	2	30	1.64
57027120--57027216	47	2.1	47	86	3	133	31	10	30	26	1.90
57027190--57027280	46	2.0	46	84	0	119	32	9	31	25	1.89
57027423--57027494	37	1.9	37	91	0	117	23	19	29	27	1.98
57046744--57046780	19	1.9	19	88	0	56	64	8	10	16	1.47
57048728--57048778	21	2.4	21	83	0	66	21	35	7	35	1.83
57049456--57049652	107	1.9	105	88	2	295	24	16	22	36	1.95
57069446--57069491	23	2.0	23	84	12	60	45	10	6	36	1.65
57069453--57069497	23	2.0	23	82	8	56	40	13	8	37	1.76
57081922--57082231	92	3.3	94	80	12	293	27	19	29	24	1.98
57081922--57082231	45	6.6	51	74	16	210	27	19	29	24	1.98
57086005--57086090	43	2.0	43	97	0	163	51	19	16	12	1.76
57086438--57086629	40	4.8	40	88	1	172	27	26	20	25	1.99
57086439--57086628	80	2.4	80	82	5	206	27	26	20	24	1.99
57093377--57093458	41	2.0	41	97	0	155	51	20	17	10	1.75
57093806--57093997	40	4.8	40	87	1	190	28	26	20	24	1.99
57093789--57093996	80	2.6	81	79	4	224	29	26	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57104507--57104548	21	2.0	22	86	13	61	35	2	26	35	1.70
57111748--57111838	25	3.8	24	79	16	109	26	23	24	26	2.00
57112043--57112237	27	7.2	27	89	1	275	27	21	17	33	1.96
57112222--57112590	27	13.6	27	75	8	133	30	9	21	38	1.84
57112095--57112266	81	2.1	81	81	6	206	29	19	17	34	1.94
57112269--57112698	108	4.0	108	83	1	495	30	9	20	38	1.85
57112269--57112678	27	15.1	27	79	5	391	30	9	20	38	1.85
57126765--57126809	23	2.1	20	84	12	54	55	11	6	26	1.59
57128594--57128877	150	1.9	153	86	4	398	44	9	4	41	1.58
57128489--57128885	149	2.7	145	80	9	405	44	10	4	40	1.59

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