genome.fa.s4.2.7.7.80.10.50.1000.83.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   187   188   189   190   191   192   
          193   194   195   196   197   198   

This is table  83  of  198  ( 23681 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)
26452149--26452630	100	4.8	100	88	1	617	32	23	19	24	1.97
26452145--26452666	150	3.5	148	80	2	551	32	23	18	25	1.97
26454059--26454104	23	2.0	23	83	8	58	28	2	2	67	1.14
26458550--26458581	16	2.0	16	93	0	55	21	6	0	71	1.07
26460702--26461477	385	2.0	385	99	0	1527	30	12	24	33	1.92
26464367--26464519	41	3.7	42	82	4	186	23	20	26	29	1.99
26469849--26469882	16	2.2	15	89	5	50	44	0	0	55	0.99
26470412--26470453	21	2.0	20	86	13	59	21	50	9	19	1.75
26475729--26475814	36	2.4	36	86	1	111	24	22	16	37	1.93
26475923--26476014	43	2.2	42	86	3	130	29	18	14	38	1.90
26479707--26479808	20	5.1	20	69	0	87	36	22	23	17	1.95
26479707--26479845	40	3.5	40	84	0	188	35	21	23	18	1.95
26486328--26486394	13	5.2	13	75	0	62	40	0	20	38	1.53
26486359--26486401	13	3.3	13	80	0	50	32	0	20	46	1.51
26489676--26489803	49	2.6	50	81	6	154	30	18	27	23	1.98
26496738--26496979	50	4.8	50	78	8	197	27	21	27	23	1.99
26508733--26508870	54	2.5	53	77	8	134	35	13	21	30	1.91
26508768--26508890	27	4.5	27	79	4	122	39	13	21	26	1.90
26508738--26508913	27	6.5	27	76	2	111	35	14	20	28	1.92
26511194--26511287	28	3.3	28	76	5	91	29	21	18	30	1.97
26511443--26511595	53	2.9	53	86	5	204	28	25	13	32	1.94
26517893--26517932	18	2.2	18	86	0	53	65	2	25	7	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26527759--26527791	2	16.5	2	100	0	66	51	0	0	48	1.00
26530415--26530445	16	1.9	16	100	0	62	35	19	19	25	1.95
26531194--26531230	17	2.1	18	85	14	51	56	5	2	35	1.36
26531349--26531395	26	1.9	23	87	12	67	31	2	10	55	1.46
26535549--26535767	40	5.5	40	83	0	251	35	15	30	18	1.92
26535628--26535767	20	7.1	20	70	8	88	35	17	30	16	1.93
26538172--26538232	28	2.1	30	81	6	72	31	4	21	42	1.74
26544083--26544120	20	1.9	20	84	10	51	34	39	10	15	1.82
26544215--26544250	17	2.1	17	94	0	63	0	44	36	19	1.51
26544247--26544287	19	2.2	18	86	4	55	19	53	21	4	1.63
26544800--26544840	17	2.6	15	88	7	55	4	9	4	80	1.00
26548228--26548293	32	2.1	32	97	0	123	22	22	10	43	1.84
26553144--26553183	19	2.1	19	100	0	80	32	15	15	37	1.88
26554743--26554848	29	3.7	30	77	9	105	22	16	20	40	1.91
26554798--26554876	29	2.7	29	84	0	95	24	16	21	37	1.93
26559310--26559457	73	2.0	73	98	0	287	32	16	13	37	1.88
26564300--26564355	28	2.0	28	89	0	85	26	12	17	42	1.85
26565937--26565994	24	2.4	24	88	0	89	29	18	24	27	1.98
26570606--26570640	7	5.1	7	93	6	54	57	8	0	34	1.29
26574952--26575073	48	2.5	49	81	7	126	18	21	21	38	1.93
26580431--26580615	29	6.6	28	74	18	129	23	16	20	39	1.92
26580432--26580555	58	2.1	57	85	8	162	22	16	20	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26582936--26582980	19	2.3	20	82	17	60	31	2	4	62	1.27
26584594--26584857	42	6.3	41	76	10	230	23	15	25	35	1.94
26584594--26584863	84	3.2	85	93	1	454	23	16	24	35	1.95
26600309--26600353	12	3.8	12	87	0	63	42	15	8	33	1.78
26606896--26606949	26	2.1	26	96	0	99	29	18	25	25	1.98
26612780--26612812	15	2.2	15	94	0	57	27	9	6	57	1.53
26613991--26614098	53	2.0	53	87	3	155	25	24	13	37	1.92
26616720--26616762	13	3.3	12	81	12	50	16	0	9	74	1.06
26624090--26624165	15	5.1	15	71	23	61	61	1	22	14	1.40
26638583--26638608	12	2.2	12	100	0	52	92	0	7	0	0.39
26645815--26646016	45	4.5	45	89	0	305	36	17	18	27	1.94
26646893--26646934	20	2.1	20	95	0	75	50	4	23	21	1.68
26648806--26648973	42	4.0	42	81	0	192	29	22	17	30	1.97
26648811--26648973	84	1.9	84	86	2	229	29	21	18	30	1.97
26660889--26660966	20	4.0	19	79	9	86	32	8	12	46	1.73
26660889--26660976	40	2.2	40	82	10	108	35	7	11	45	1.69
26660892--26660967	40	1.9	39	86	7	109	32	9	13	44	1.75
26663017--26663084	20	3.5	19	75	18	54	38	7	13	41	1.72
26708647--26708740	24	3.9	24	84	5	118	26	19	23	30	1.98
26708759--26708851	48	1.9	48	86	0	132	25	21	23	29	1.99
26708759--26708849	24	3.8	24	73	2	76	26	21	23	28	1.99
26722091--26722123	16	2.1	16	100	0	66	12	30	39	18	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26723371--26723567	45	4.4	45	85	3	132	38	18	18	23	1.93
26723402--26723616	45	4.8	45	91	1	324	36	18	19	25	1.94
26726993--26727031	19	2.1	18	85	4	51	2	25	5	66	1.25
26727042--26727082	21	2.0	20	85	4	55	19	12	2	65	1.36
26729588--26729924	50	6.6	50	83	4	347	23	29	20	27	1.99
26734601--26734801	51	4.0	51	78	8	230	29	29	17	22	1.97
26734609--26734793	101	1.8	102	89	3	293	30	28	18	22	1.97
26738584--26738788	61	3.4	60	84	2	248	25	22	17	34	1.95
26738867--26739045	94	1.9	94	89	0	277	31	23	11	34	1.90
26750512--26750711	50	3.9	50	81	7	215	28	20	28	23	1.99
26762735--26762790	24	2.2	26	82	14	73	5	23	1	69	1.18
26764861--26764903	18	2.4	18	80	0	50	16	6	2	74	1.14
26767019--26767057	19	2.0	20	85	5	53	58	7	17	15	1.59
26771561--26771763	61	3.3	60	82	4	237	28	24	14	32	1.95
26771594--26771699	29	3.6	27	66	22	61	28	27	15	29	1.96
26771937--26771968	16	2.0	16	93	0	55	40	21	12	25	1.88
26774543--26775044	27	18.6	27	87	3	654	43	19	19	17	1.89
26775014--26775079	34	1.9	34	93	6	116	39	27	16	16	1.90
26775356--26775460	28	3.8	28	83	2	131	26	23	22	26	2.00
26782318--26782371	29	2.0	26	82	10	63	42	1	0	55	1.10
26782323--26782371	14	3.5	13	86	13	62	46	2	0	51	1.12
26785624--26785655	14	2.1	16	88	11	50	18	12	6	62	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26789020--26789049	16	1.9	16	93	6	53	60	0	0	40	0.97
26793136--26793207	35	2.1	35	89	5	110	31	22	15	30	1.94
26802944--26803126	37	5.0	37	94	2	309	25	21	15	37	1.93
26803106--26803410	46	5.9	52	85	10	373	28	22	14	34	1.94
26803132--26803258	59	2.2	58	94	2	218	25	24	12	37	1.91
26816543--26816584	19	2.4	17	88	11	66	28	0	0	71	0.86
26825659--26825756	20	4.9	20	68	9	65	37	18	30	13	1.89
26829861--26829948	28	3.2	28	87	7	135	32	35	5	26	1.80
26832439--26832746	40	7.7	40	82	3	334	37	16	27	18	1.92
26832518--26832589	20	3.6	20	72	7	65	40	16	26	16	1.90
26832426--26832746	120	2.7	120	86	2	439	37	16	28	17	1.92
26832628--26832730	20	5.2	20	63	6	57	35	18	31	14	1.91
26841831--26841915	26	3.3	26	88	6	120	23	14	15	47	1.82
26844403--26844460	28	2.1	28	86	0	80	24	29	18	27	1.98
26848527--26848611	41	2.1	41	100	0	170	54	10	9	25	1.65
26850200--26850258	30	2.1	27	84	9	73	45	1	1	50	1.21
26850268--26850324	19	2.8	21	79	17	66	52	1	1	43	1.21
26852088--26852262	75	2.4	73	87	3	235	57	13	4	24	1.54
26852701--26852748	18	2.7	18	96	0	87	39	12	14	33	1.84
26853496--26853551	23	2.5	22	85	8	76	58	8	3	28	1.45
26853496--26853551	24	2.4	23	90	3	85	58	8	3	28	1.45
26869266--26869380	20	5.7	19	76	18	99	59	6	0	34	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26869292--26869384	42	2.2	43	83	7	111	60	4	0	35	1.17
26869335--26869380	19	2.4	19	82	13	58	60	2	0	36	1.09
26869354--26869397	21	2.0	22	82	4	54	63	4	2	29	1.26
26881200--26881440	30	7.9	30	87	2	302	34	7	15	42	1.76
26882583--26882697	37	3.1	37	78	3	99	34	20	16	28	1.94
26883748--26883787	21	1.9	21	84	0	53	37	7	2	52	1.43
26885093--26885213	22	5.5	23	68	15	94	31	11	14	42	1.81
26885080--26885215	44	3.1	44	96	0	254	31	11	13	43	1.80
26886545--26886600	29	1.9	29	96	0	103	41	30	7	21	1.80
26886630--26886714	28	3.0	28	94	0	143	35	9	14	41	1.78

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   187   188   189   190   191   192   
          193   194   195   196   197   198