genome.fa.s5.2.7.7.80.10.50.1000.105.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  105  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)
31865522--31865590	22	3.2	21	66	20	52	50	2	7	39	1.45
31865528--31865614	43	2.0	43	100	0	174	50	4	9	35	1.55
31865540--31865610	22	3.3	22	70	18	76	52	5	7	35	1.52
31865885--31865934	25	2.0	25	96	0	91	46	8	16	30	1.75
31870648--31870689	15	2.7	16	82	14	52	52	2	0	45	1.13
31870657--31870698	15	2.9	15	82	10	52	52	0	0	47	1.00
31870683--31870873	61	3.2	61	70	14	205	49	6	1	42	1.39
31870651--31870943	120	2.4	121	94	1	509	50	5	2	42	1.36
31870767--31870818	15	3.6	15	80	12	56	53	1	0	44	1.11
31870884--31871166	91	3.0	93	84	7	317	48	3	3	44	1.35
31870984--31871044	28	2.2	28	85	5	81	50	3	0	45	1.17
31870991--31871134	47	3.1	46	65	23	113	49	4	2	44	1.33
31870959--31871166	91	2.3	90	90	4	326	46	4	3	45	1.39
31870984--31871126	44	3.2	43	68	16	119	48	3	2	46	1.31
31871009--31871147	47	3.0	47	68	17	137	49	4	2	43	1.34
31874146--31874217	28	2.6	28	93	4	119	29	13	8	48	1.72
31876197--31876224	13	2.2	13	100	0	56	64	21	14	0	1.29
31876915--31877004	30	3.0	30	83	6	110	35	7	13	43	1.73
31881592--31881630	20	2.0	20	90	10	62	15	23	5	56	1.59
31887309--31887447	50	2.8	50	83	0	161	21	28	22	28	1.99
31893516--31893584	16	4.3	16	90	0	102	37	5	33	23	1.79
31893817--31893851	18	2.0	17	88	5	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31893937--31893970	17	2.0	17	100	0	68	58	0	0	41	0.98
31893793--31894256	119	4.0	119	80	11	561	50	4	1	43	1.31
31893932--31894173	102	2.4	102	88	3	335	51	4	1	43	1.29
31894028--31894173	26	5.7	26	65	22	85	52	2	1	43	1.24
31894047--31894238	38	4.9	37	71	17	138	51	3	1	44	1.27
31893909--31894208	73	4.1	72	64	23	176	51	4	1	44	1.27
31893954--31894207	102	2.5	101	88	4	307	50	4	1	43	1.29
31901727--31901785	29	2.0	29	93	0	100	37	20	3	38	1.69
31902098--31902273	45	4.0	45	80	4	205	35	23	14	26	1.93
31913654--31913723	3	23.3	3	100	0	140	0	0	32	67	0.91
31914472--31914554	35	2.3	36	81	4	105	33	28	8	28	1.86
31923447--31923532	25	3.4	25	74	6	91	19	22	25	32	1.97
31924973--31925012	20	2.0	20	85	0	53	32	10	7	50	1.64
31931047--31931079	2	16.5	2	100	0	66	51	0	0	48	1.00
31937775--31937808	17	2.0	17	88	0	50	26	17	17	38	1.92
31940479--31940520	22	1.9	22	100	0	84	26	33	4	35	1.77
31951339--31951377	19	2.1	19	85	0	51	35	5	12	46	1.65
31962272--31962297	5	5.2	5	100	0	52	42	19	19	19	1.90
31963318--31963354	9	4.1	9	89	0	56	29	8	13	48	1.71
31963408--31963438	9	3.4	9	90	0	53	38	22	12	25	1.90
31967473--31967512	6	6.7	6	83	11	55	52	0	0	47	1.00
31969830--31969863	4	8.5	4	93	0	59	26	2	0	70	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31970130--31970327	109	1.8	108	86	3	292	29	17	19	33	1.94
31971011--31971048	2	19.5	2	94	5	69	47	0	0	52	1.00
31971536--31971597	31	2.0	31	100	0	124	16	3	16	64	1.42
31984672--31984745	36	2.1	36	81	0	85	24	18	8	48	1.75
31989108--31989168	28	2.2	28	96	0	113	42	6	6	44	1.56
31990539--31990582	21	2.2	20	83	4	52	15	9	0	75	1.05
31991350--31991411	9	7.1	8	72	16	52	19	4	0	75	0.97
31991335--31991412	36	2.2	36	80	6	90	23	6	1	69	1.19
31991355--31991411	19	3.2	19	70	12	57	19	5	0	75	0.99
31992929--31992962	16	2.1	16	100	0	68	17	17	23	41	1.90
31993405--31993446	19	2.2	19	83	8	50	28	21	9	40	1.84
31995333--31995374	20	2.2	20	87	8	61	14	11	7	66	1.43
31996287--31996328	7	6.0	7	81	18	52	69	0	16	14	1.20
31996287--31996328	21	2.0	21	86	9	59	69	0	16	14	1.20
31997609--31998493	89	9.9	89	87	5	999	30	16	23	28	1.97
31997878--31998468	312	1.9	310	92	2	1006	30	17	23	28	1.97
31997608--31998424	45	18.3	43	71	12	436	30	17	23	28	1.97
31997608--31998493	268	3.3	266	83	5	1022	31	16	23	28	1.97
31999401--31999440	21	2.0	20	90	5	62	15	10	0	75	1.05
32000218--32000279	18	3.5	17	78	6	70	17	4	0	77	0.94
32000205--32000280	35	2.2	35	79	6	84	21	6	1	71	1.16
32000218--32000276	9	6.7	9	76	19	54	18	5	0	76	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32005752--32005786	18	2.0	18	88	5	54	60	0	2	37	1.12
32006350--32006412	28	2.2	29	85	2	83	63	6	4	25	1.38
32015062--32015142	18	4.7	16	74	11	63	77	1	17	3	0.97
32016834--32017367	88	6.1	88	91	0	838	25	19	27	27	1.99
32016907--32017039	43	3.1	40	62	15	95	22	22	30	24	1.99
32017375--32017489	44	2.6	45	86	8	148	27	19	25	27	1.98
32030995--32031135	53	2.6	54	84	6	196	41	15	11	31	1.83
32038355--32038391	18	2.1	18	94	0	65	45	8	10	35	1.69
32038605--32038664	30	2.0	31	83	3	77	18	41	0	40	1.50
32038766--32038812	20	2.3	20	85	7	60	21	31	0	46	1.51
32045844--32045893	21	2.4	21	79	0	55	48	14	14	24	1.80
32045991--32046040	20	2.4	21	86	3	66	58	16	6	20	1.59
32047795--32047993	107	1.9	107	82	4	258	28	29	15	27	1.96
32052901--32053133	67	3.5	67	82	2	281	27	20	15	36	1.93
32057245--32057278	17	1.9	17	88	5	50	47	11	11	29	1.76
32072641--32072718	30	2.6	30	91	4	122	10	23	0	66	1.22
32074527--32074812	146	1.9	148	87	2	414	26	17	14	41	1.88
32082841--32082900	27	2.2	26	88	5	84	40	11	20	28	1.87
32083061--32083109	24	2.0	24	100	0	98	32	16	24	26	1.96
32084695--32084767	36	2.0	36	100	0	146	36	13	13	35	1.85
32088128--32088442	29	10.9	29	85	1	389	20	26	13	40	1.88
32094130--32094167	16	2.4	16	82	8	51	36	18	10	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32095985--32096033	22	2.2	22	78	7	55	48	18	14	18	1.80
32096025--32096320	32	9.3	32	76	3	258	37	23	20	19	1.94
32096026--32096326	64	4.7	64	81	4	322	37	23	20	19	1.94
32096025--32096326	128	2.4	128	82	3	360	37	23	20	19	1.94
32096319--32096379	26	2.3	26	82	0	77	37	24	21	16	1.93
32096495--32096576	24	3.5	23	80	5	83	46	24	8	20	1.78
32096613--32096916	54	5.6	54	82	3	335	24	19	20	35	1.96
32096613--32096858	81	3.0	81	84	3	343	25	20	20	33	1.97
32096598--32096905	27	11.5	27	82	4	304	24	21	19	34	1.96
32109135--32109195	30	2.0	31	87	3	88	27	22	24	24	2.00
32109298--32109404	26	4.1	26	85	4	144	37	23	21	17	1.94
32109551--32109873	27	12.0	27	78	3	283	21	16	20	42	1.89
32110548--32110594	24	1.9	25	86	4	69	27	31	0	40	1.57
32112034--32112140	26	4.1	26	87	4	162	37	25	21	15	1.93
32112297--32112482	27	6.9	27	80	7	171	19	15	21	44	1.87
32112324--32112486	81	2.0	81	86	0	227	20	15	21	42	1.89
32117222--32117250	15	1.9	15	100	0	58	31	6	27	34	1.83
32125812--32125843	15	2.1	15	94	0	55	81	0	3	15	0.82
32127962--32128152	51	3.8	51	79	8	237	31	28	16	23	1.96
32127960--32128144	101	1.8	102	91	3	311	31	28	16	23	1.96
32129608--32129639	3	10.7	3	100	0	64	0	31	0	68	0.90
32130713--32130738	12	2.2	12	100	0	52	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32133205--32133289	31	2.6	32	76	14	86	56	7	0	36	1.27
32136229--32136253	11	2.3	11	100	0	50	32	0	40	28	1.57
32137420--32137532	25	4.5	25	73	6	70	32	20	19	27	1.97
32137420--32137543	50	2.5	49	81	7	135	33	19	20	26	1.97
32146455--32146522	27	2.5	27	82	0	82	22	25	17	35	1.95
32161145--32161175	15	2.1	15	100	0	62	12	25	41	19	1.87
32164517--32164547	16	1.9	16	93	0	53	35	0	9	54	1.33
32166147--32166226	39	2.1	39	86	9	110	51	3	7	37	1.48
32166533--32166578	24	2.0	24	83	12	60	52	2	4	41	1.33
32171620--32171725	34	3.2	33	77	10	117	52	3	0	42	1.25

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