genome.fa.s5.2.7.7.80.10.50.1000.144.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  144  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)
43981036--43981385	129	2.8	127	90	4	539	26	21	22	30	1.99
43981493--43981673	50	3.6	50	75	10	174	25	24	17	32	1.96
43981886--43982043	44	3.6	43	86	6	178	27	27	18	26	1.98
43983370--43983431	11	5.5	11	77	11	63	16	4	3	75	1.10
43983370--43983431	6	9.8	6	75	16	54	16	4	3	75	1.10
43983518--43983553	14	2.6	14	100	0	72	30	33	5	30	1.81
43984185--43984250	25	2.6	25	88	9	89	57	4	13	24	1.55
43988172--43988217	3	15.3	3	100	0	92	67	0	0	32	0.91
43991259--43991315	30	1.9	30	85	7	80	24	29	15	29	1.96
43994451--43994537	24	3.6	24	80	7	104	18	34	1	45	1.57
43997849--43997941	19	5.1	19	68	12	68	30	10	12	46	1.76
43997830--43997951	54	2.3	54	92	0	208	31	10	15	41	1.81
43998044--43998080	19	1.9	19	88	0	56	21	0	24	54	1.45
43998058--43998177	64	1.9	64	94	0	213	23	5	22	48	1.72
44002602--44002718	57	2.1	57	100	0	234	35	11	18	35	1.87
44004645--44004974	44	7.5	44	84	3	326	28	18	24	28	1.98
44004748--44005020	132	2.1	132	80	6	295	28	17	24	29	1.98
44004968--44005124	44	3.6	43	72	8	138	28	21	25	25	1.99
44004976--44005142	87	1.9	87	88	0	253	29	20	25	23	1.99
44005000--44005173	87	2.0	87	81	2	206	28	23	23	24	1.99
44005123--44005311	88	2.1	88	87	1	263	28	25	23	21	1.99
44005672--44005948	45	6.0	45	80	8	306	29	15	24	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44005704--44005977	96	2.9	95	82	7	287	30	17	24	28	1.97
44006003--44006235	116	2.0	116	87	1	333	30	17	26	24	1.97
44006762--44006867	52	2.0	52	100	0	212	33	41	13	11	1.80
44007096--44007153	30	1.9	30	86	6	82	3	18	1	75	1.03
44007681--44007773	26	3.5	26	74	18	84	38	7	1	52	1.37
44009415--44009447	16	2.0	17	94	5	59	42	3	0	54	1.15
44016485--44016682	26	7.5	26	84	2	227	26	25	12	35	1.92
44019076--44019112	9	4.1	9	89	0	56	32	10	10	45	1.74
44019165--44019195	9	3.4	9	90	0	53	38	22	12	25	1.90
44019677--44019703	6	4.5	6	100	0	54	18	0	18	62	1.32
44019677--44019716	20	2.1	20	86	9	57	22	0	12	65	1.26
44032288--44032363	29	2.5	31	78	4	84	48	15	10	25	1.77
44035297--44035329	14	2.3	15	90	10	52	48	3	0	48	1.17
44045620--44045664	18	2.5	18	85	0	63	37	17	4	40	1.70
44049160--44049191	2	16.5	2	93	6	57	46	0	0	53	1.00
44051023--44051163	74	1.9	73	81	4	167	30	18	23	27	1.98
44050928--44051277	188	1.9	187	87	4	517	30	18	23	27	1.98
44051079--44051373	114	2.6	111	77	8	283	30	18	23	27	1.97
44050908--44051696	301	2.6	299	88	3	1138	30	18	23	27	1.97
44051311--44051448	75	1.9	74	87	4	206	29	17	23	29	1.97
44051386--44051715	114	2.9	113	78	5	378	30	19	23	27	1.98
44051738--44051809	16	4.4	17	89	3	112	33	1	9	55	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44051738--44051809	33	2.2	33	90	5	110	33	1	9	55	1.41
44052708--44052776	16	4.2	16	96	3	129	24	0	37	37	1.56
44052708--44052776	33	2.1	32	97	2	129	24	0	37	37	1.56
44052757--44052847	45	2.0	45	85	2	121	27	6	28	37	1.82
44052992--44053046	15	3.4	16	80	16	53	54	1	0	43	1.10
44052998--44053046	16	2.9	18	80	20	61	55	0	0	44	0.99
44052898--44053226	156	2.1	156	97	0	613	43	3	6	46	1.47
44053168--44053202	18	2.0	17	88	5	52	54	0	0	45	0.99
44052904--44053344	156	3.1	137	67	19	306	43	3	5	46	1.44
44053094--44053306	67	3.1	67	63	19	152	46	4	3	46	1.38
44053106--44053384	137	2.0	135	82	6	330	45	5	3	45	1.44
44058900--44058944	22	2.0	22	100	0	90	40	17	4	37	1.70
44061502--44062419	250	3.7	249	95	0	1658	47	10	7	34	1.66
44062448--44062765	9	36.0	9	74	14	270	46	22	0	30	1.56
44062459--44062738	88	3.2	88	97	0	524	47	21	0	30	1.54
44062559--44062774	61	3.8	56	71	17	146	46	22	0	31	1.56
44068228--44068277	21	2.4	22	83	10	68	38	18	42	2	1.61
44068679--44068738	30	2.0	30	90	0	93	26	28	25	20	1.99
44068749--44068802	25	2.2	25	100	0	108	27	24	25	22	2.00
44068710--44068842	66	2.0	65	95	1	239	24	21	25	29	1.99
44070157--44070200	19	2.3	19	88	7	63	54	0	20	25	1.45
44073532--44073577	19	2.3	20	85	3	67	45	10	2	41	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44073767--44074376	246	2.5	233	79	8	702	45	6	10	37	1.64
44074242--44074271	10	3.0	10	95	0	51	46	0	3	50	1.18
44074866--44074932	26	2.5	27	88	9	102	53	0	8	37	1.32
44074990--44075086	50	1.9	50	83	4	124	37	5	12	45	1.64
44075790--44075883	40	2.3	40	81	0	107	30	30	14	23	1.95
44080451--44080485	8	4.4	8	100	0	70	65	0	0	34	0.93
44087790--44087863	32	2.3	32	100	0	148	16	22	8	52	1.69
44088689--44088763	29	2.6	29	82	8	89	28	13	25	33	1.93
44091593--44091644	27	1.9	27	92	0	86	21	26	32	19	1.97
44091707--44091839	24	5.6	24	73	11	105	66	0	32	0	0.97
44091718--44091776	5	12.4	5	73	8	52	66	0	33	0	0.92
44091702--44091833	34	3.8	35	80	13	130	65	0	33	0	0.98
44091716--44091806	28	3.0	28	83	13	85	68	0	31	0	0.90
44091708--44091826	38	3.2	38	83	11	158	67	0	31	0	0.97
44092205--44092656	158	2.9	153	73	16	411	50	8	11	30	1.68
44095017--44095051	3	11.7	3	87	0	52	62	5	0	31	1.18
44095294--44095384	27	3.4	27	76	11	96	18	34	25	21	1.96
44099243--44099278	9	4.0	9	92	0	54	2	13	0	83	0.76
44104509--44104575	35	1.9	35	100	0	134	41	8	5	43	1.60
44108660--44109011	43	8.3	43	78	5	322	30	29	15	24	1.96
44108660--44109021	86	4.2	84	83	4	431	31	28	15	24	1.96
44108660--44109014	129	2.8	128	77	4	360	30	29	15	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44110271--44110298	12	2.3	12	100	0	56	50	10	7	32	1.64
44111001--44111067	5	13.2	5	73	20	50	73	2	2	20	1.10
44113429--44113488	10	5.7	11	75	18	56	46	5	0	48	1.24
44113422--44113496	29	2.5	29	81	12	82	48	5	1	45	1.33
44113422--44113494	30	2.4	30	82	8	87	49	4	1	45	1.29
44113429--44113491	20	3.1	20	77	11	74	44	4	0	50	1.23
44115068--44115337	41	6.6	41	87	0	380	32	25	24	17	1.97
44115067--44115337	122	2.2	123	87	1	391	32	25	24	17	1.97
44115397--44115512	40	3.0	37	73	13	108	25	16	19	38	1.92
44119252--44119320	24	3.0	23	82	4	93	59	1	1	37	1.15
44119267--44119332	21	3.0	21	79	12	62	54	3	3	39	1.31
44119417--44119460	20	2.2	20	88	8	63	56	4	0	38	1.20
44119873--44119940	30	2.4	28	81	13	84	42	4	2	50	1.37
44122955--44122987	2	16.5	2	93	0	57	51	0	0	48	1.00
44123781--44123841	29	2.1	28	81	3	68	26	13	14	45	1.81
44124041--44124091	22	2.3	22	100	0	102	27	33	0	39	1.57
44124144--44124209	29	2.4	27	85	7	87	34	0	0	65	0.93
44124146--44124209	28	2.2	29	91	5	103	35	0	0	64	0.94
44124302--44124332	15	2.0	16	93	6	55	25	0	6	67	1.14
44125291--44125315	7	3.6	7	100	0	50	28	0	12	60	1.32
44125967--44126001	18	1.9	18	88	0	52	25	34	8	31	1.86
44128504--44128857	125	2.8	126	92	3	615	32	22	16	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44131642--44131689	21	2.2	21	79	13	53	39	2	4	54	1.32
44131652--44131699	21	2.3	20	82	10	60	37	0	4	58	1.18
44131982--44132022	21	2.0	21	85	9	57	39	0	2	58	1.11
44133616--44133641	7	3.7	7	100	0	52	42	0	0	57	0.98
44138144--44138191	24	2.0	23	88	4	69	45	12	4	37	1.61
44140256--44140460	76	2.7	75	76	11	200	40	12	9	38	1.75
44143742--44143783	15	2.9	15	82	10	52	47	0	0	52	1.00
44143936--44144026	45	2.0	44	87	2	128	34	28	5	31	1.80
44144005--44144042	16	2.4	16	90	0	58	34	34	0	31	1.58
44145137--44145418	77	3.7	77	80	7	258	45	11	12	31	1.77

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