genome.fa.s5.2.7.7.80.10.50.1000.147.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   199   200   201   202   203   204   205   206   207   208   

This is table  147  of  208  ( 24913 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)
44883846--44883890	22	2.0	22	86	0	63	57	0	4	37	1.19
44890857--44890893	17	2.1	18	90	5	58	78	0	8	13	0.96
44891526--44891614	42	2.1	42	84	10	112	19	26	26	26	1.99
44892949--44892990	17	2.3	18	88	8	59	2	21	0	76	0.90
44893906--44894208	27	11.3	27	85	4	357	44	17	14	23	1.85
44893907--44894195	107	2.7	106	84	3	375	44	17	13	23	1.84
44895284--44895660	40	9.4	39	83	2	371	31	15	29	23	1.95
44895259--44895660	80	5.0	80	83	0	457	32	14	28	24	1.95
44895273--44895660	120	3.2	120	84	2	478	32	14	28	23	1.95
44896392--44896452	28	2.2	28	88	5	88	27	21	26	24	1.99
44896812--44896919	32	3.4	32	80	5	128	37	17	20	25	1.94
44896781--44896939	64	2.5	64	81	4	194	39	16	20	22	1.92
44896768--44896935	32	5.3	32	73	3	115	39	17	20	22	1.92
44896956--44897016	27	2.3	27	86	11	81	36	26	24	13	1.92
44897096--44897217	24	5.1	24	84	0	163	45	21	6	26	1.76
44897238--44897368	27	4.9	27	83	0	163	26	24	16	32	1.96
44900674--44900707	16	2.1	16	88	0	50	70	5	11	11	1.32
44904276--44904426	50	3.0	50	77	3	115	31	21	17	29	1.96
44905167--44905224	29	2.0	29	100	0	116	17	20	27	34	1.95
44910307--44910345	20	1.9	20	84	5	51	46	2	38	12	1.56
44911526--44911578	17	3.0	17	76	10	61	41	20	7	30	1.80
44924183--44924328	72	2.0	72	90	0	229	26	14	26	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44929787--44929840	25	2.2	25	89	0	81	24	12	46	16	1.82
44929956--44930002	24	2.1	21	81	18	51	34	4	38	23	1.74
44931304--44931407	27	3.9	27	86	5	138	37	12	24	25	1.91
44931317--44931449	27	4.9	27	84	4	108	42	15	18	23	1.88
44931317--44931434	54	2.2	54	83	6	141	41	12	21	24	1.88
44938175--44938228	23	2.3	23	87	0	72	18	16	27	37	1.93
44974538--44974729	50	3.8	50	93	0	294	20	30	23	25	1.98
44977533--44977568	19	1.9	19	94	5	65	61	5	5	27	1.41
44977582--44977622	3	13.7	3	89	0	64	60	0	4	34	1.18
44979141--44979252	44	2.5	44	85	2	145	23	19	20	36	1.95
44979266--44979813	45	12.1	45	86	4	706	31	22	15	30	1.95
44980875--44980955	42	1.9	42	90	5	128	23	30	14	30	1.95
44984854--44984920	22	3.0	22	93	0	107	29	16	28	25	1.97
44992471--44992506	19	1.9	19	88	5	56	63	5	2	27	1.30
44994653--44994692	14	2.9	15	82	14	50	47	12	5	35	1.63
44997542--44997649	3	36.3	3	84	1	137	29	4	2	62	1.29
44999611--44999640	15	2.0	15	93	0	51	36	0	36	26	1.57
45002550--45002635	40	2.2	40	86	0	118	40	20	25	12	1.88
45019616--45019703	25	3.6	24	73	13	72	25	25	17	32	1.96
45022164--45022217	16	3.4	16	92	0	90	35	1	35	27	1.68
45022354--45022533	51	3.2	51	64	24	117	50	5	1	43	1.33
45022350--45022762	120	3.4	120	93	0	693	49	6	2	42	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45022466--45022512	15	3.3	15	82	11	55	53	2	0	44	1.12
45022586--45022632	15	3.3	15	82	11	55	53	2	0	44	1.12
45022395--45022702	61	5.1	61	67	17	230	48	8	2	41	1.45
45022769--45022985	91	2.4	91	84	3	267	47	4	3	44	1.38
45025030--45025069	8	5.2	8	82	11	57	62	25	0	12	1.30
45030997--45031030	8	4.5	8	89	10	54	32	0	26	41	1.56
45039834--45040029	49	3.8	50	80	9	193	27	21	26	24	1.99
45061081--45061129	7	7.3	7	84	6	57	12	0	40	46	1.41
45061097--45061130	13	2.5	13	85	4	50	8	0	44	47	1.34
45061108--45061459	96	3.6	95	82	7	404	36	2	20	40	1.67
45061492--45061783	125	2.3	125	91	1	460	32	18	20	28	1.96
45065476--45065517	18	2.3	18	87	0	57	45	7	28	19	1.76
45067323--45067386	23	3.0	21	86	10	94	43	0	32	23	1.54
45072682--45072718	18	2.1	18	89	0	56	18	37	0	43	1.51
45084764--45084848	40	2.1	40	86	0	116	36	16	23	23	1.94
45094606--45094671	27	2.4	27	82	0	78	21	33	18	27	1.96
45096395--45096424	16	1.9	15	93	6	51	46	0	13	40	1.43
45097213--45097282	29	2.4	29	85	0	86	37	14	27	21	1.92
45097327--45097521	60	3.2	61	71	12	170	39	12	24	23	1.89
45097293--45097489	90	2.2	90	81	7	231	40	13	25	20	1.89
45097211--45097490	30	9.4	30	75	10	159	39	13	25	21	1.90
45097357--45097519	30	5.4	30	80	4	107	40	12	23	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45114881--45114933	22	2.4	23	87	9	83	35	20	5	37	1.77
45115342--45115370	12	2.3	13	94	5	51	65	6	6	20	1.40
45115825--45115896	34	2.2	33	84	2	99	15	26	48	9	1.75
45119412--45119678	134	2.0	134	85	4	358	44	9	7	38	1.66
45121322--45121346	12	2.1	12	100	0	50	48	8	0	44	1.32
45122953--45123437	76	6.6	75	78	6	434	40	16	21	21	1.91
45123186--45123316	65	2.0	65	83	0	163	40	19	21	18	1.92
45123111--45123389	140	2.0	140	84	1	362	41	18	20	19	1.90
45123516--45123563	18	2.7	18	93	0	78	14	18	31	35	1.91
45127876--45127916	17	2.4	18	80	19	52	53	0	4	41	1.22
45128227--45128340	53	2.2	52	88	3	165	48	1	14	35	1.54
45137289--45137333	23	2.0	23	82	8	56	20	2	8	68	1.27
45139332--45139377	23	2.0	23	95	0	83	32	17	23	26	1.97
45140303--45140377	39	1.9	39	83	5	98	40	22	18	18	1.92
45140480--45140527	20	2.4	19	82	3	51	22	6	6	64	1.39
45140576--45140626	26	2.0	26	84	0	66	58	5	11	23	1.55
45140913--45140942	14	2.1	14	93	0	51	20	3	36	40	1.69
45141017--45141178	88	1.8	88	86	5	238	27	1	26	44	1.65
45141164--45141214	21	2.4	21	80	9	59	13	0	45	41	1.44
45142528--45142572	21	2.1	21	84	8	56	22	51	2	24	1.60
45143890--45143921	5	6.4	5	100	0	64	18	0	0	81	0.70
45144933--45144957	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45145534--45145814	43	6.5	44	84	6	337	25	16	30	27	1.97
45145534--45145814	87	3.3	87	85	5	349	25	16	30	27	1.97
45151567--45151618	23	2.3	23	89	0	77	32	1	13	51	1.52
45158670--45158694	4	6.2	4	100	0	50	72	0	0	28	0.86
45170260--45170289	16	1.9	15	93	6	51	80	6	0	13	0.91
45170231--45170293	27	2.3	27	84	10	76	74	6	1	17	1.10
45174790--45174840	22	2.3	22	86	6	68	49	39	0	11	1.40
45201250--45201329	21	3.9	21	83	3	101	43	18	25	12	1.85
45206839--45206882	20	2.2	20	91	0	70	34	4	18	43	1.70
45221079--45221148	27	2.6	27	86	0	95	20	15	37	27	1.93
45221210--45221325	52	2.2	53	84	1	162	17	19	32	30	1.95
45222209--45222587	95	4.0	95	88	2	474	18	20	22	37	1.94
45222357--45222532	54	3.5	53	72	19	162	17	19	22	40	1.91
45222400--45222481	42	2.0	41	92	2	137	15	23	24	36	1.94
45223902--45224058	40	3.9	40	88	1	208	21	31	17	30	1.96
45223986--45224051	20	3.3	20	69	0	69	19	33	16	30	1.94
45224052--45224151	40	2.5	39	72	15	96	15	31	22	32	1.94
45227747--45227771	12	2.1	12	100	0	50	28	24	0	48	1.52
45228282--45228379	42	2.3	41	77	8	99	25	21	32	20	1.97
45239214--45239269	24	2.3	25	81	3	69	60	16	14	8	1.57
45239258--45239302	10	4.5	10	82	0	54	60	11	20	8	1.57
45239261--45239289	15	1.9	15	100	0	58	62	6	20	10	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45250942--45250973	16	2.0	16	93	0	55	25	15	0	59	1.36
45251191--45251391	51	4.0	52	80	7	225	30	27	16	24	1.97
45251191--45251378	102	1.9	102	85	3	254	31	27	17	24	1.97
45256897--45256928	16	2.0	16	93	0	55	25	15	0	59	1.36
45257152--45257296	50	2.9	50	86	5	211	31	28	15	24	1.96
45260522--45260556	17	2.1	17	94	0	61	37	5	20	37	1.76
45263262--45263573	153	2.0	154	90	3	486	33	14	14	37	1.87
45270491--45270587	46	2.1	46	98	0	185	40	2	20	37	1.64
45280915--45280966	4	12.8	4	80	15	54	75	0	1	23	0.91
45280916--45280965	7	7.3	7	78	17	52	74	0	2	24	0.93

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   199   200   201   202   203   204   205   206   207   208