genome.fa.s4.2.7.7.80.10.50.1000.98.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  98  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)
31492374--31492410	19	1.9	20	88	5	58	64	0	0	35	0.94
31495609--31495785	29	6.1	28	72	9	133	33	22	18	25	1.96
31495620--31495785	58	2.9	58	81	0	197	33	21	18	26	1.96
31508092--31508212	43	2.9	41	80	7	127	19	32	28	20	1.97
31513075--31513112	11	3.4	11	89	10	51	21	23	0	55	1.44
31514538--31514637	50	2.0	50	90	0	155	30	15	26	29	1.95
31519824--31519899	26	2.9	26	90	0	116	23	22	23	30	1.99
31519824--31520081	29	9.2	29	76	4	174	28	18	19	33	1.96
31519878--31520081	57	3.6	57	83	0	219	29	18	18	33	1.95
31519850--31520032	86	2.2	84	82	4	208	27	17	20	33	1.95
31519878--31520081	86	2.4	87	78	4	216	29	18	18	33	1.95
31521983--31522012	7	4.3	7	95	0	51	16	13	26	43	1.85
31522030--31522085	20	2.8	20	83	8	69	12	8	41	37	1.74
31526349--31526415	21	3.2	21	87	8	100	28	5	35	29	1.81
31526736--31526761	5	5.2	5	100	0	52	19	0	0	80	0.71
31532448--31532521	33	2.2	33	92	0	121	35	13	18	32	1.90
31533390--31533457	30	2.3	29	83	11	86	19	17	0	63	1.32
31533420--31533454	18	1.9	18	88	11	54	22	20	0	57	1.41
31533468--31533522	21	2.7	21	82	2	58	5	20	0	74	1.01
31533486--31533529	21	2.1	21	83	8	54	9	22	0	68	1.18
31552566--31552611	24	1.9	24	82	8	58	28	2	10	58	1.43
31553264--31553353	45	2.0	45	97	0	171	28	17	21	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31567752--31567813	31	2.0	31	96	0	115	41	14	11	32	1.81
31574042--31574134	31	3.0	31	93	0	159	38	16	11	33	1.85
31585920--31586056	55	2.5	55	85	0	193	25	9	15	49	1.74
31585983--31586215	94	2.5	95	88	4	337	24	9	16	50	1.74
31586106--31586173	34	2.0	35	91	2	111	22	11	20	45	1.83
31586612--31586649	17	2.2	17	90	0	58	42	0	5	52	1.24
31586618--31586651	17	2.0	17	100	0	68	35	0	5	58	1.22
31587771--31587802	6	5.5	6	96	3	57	34	0	0	65	0.93
31589563--31589610	3	15.7	3	78	4	51	37	6	0	56	1.25
31589734--31589780	24	2.0	24	95	0	85	65	6	8	19	1.41
31590225--31590278	22	2.4	24	90	9	87	40	3	9	46	1.54
31598923--31599015	40	2.4	39	82	7	109	32	19	3	45	1.66
31598967--31599019	25	2.1	26	82	10	65	32	22	1	43	1.64
31598927--31599023	13	7.5	13	73	14	58	31	19	3	45	1.66
31598923--31599033	40	2.8	40	78	13	106	31	19	2	45	1.64
31601275--31601343	24	2.9	24	84	0	84	30	27	17	24	1.97
31601330--31601421	39	2.4	39	83	0	103	32	26	17	23	1.97
31602851--31602876	9	2.9	9	100	0	52	46	30	0	23	1.53
31603250--31603292	16	2.9	15	80	19	54	41	20	0	37	1.53
31605327--31605511	50	3.7	49	81	7	171	27	22	28	22	1.99
31610570--31610816	50	4.8	50	78	6	203	28	20	26	24	1.99
31614932--31615004	38	1.9	38	86	5	103	36	12	19	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31617602--31617646	21	2.0	21	83	12	54	33	28	6	31	1.83
31627006--31627064	27	2.3	25	82	5	64	42	0	0	57	0.98
31627043--31627094	24	2.2	24	82	0	59	38	0	0	61	0.96
31627049--31627095	24	2.0	24	86	0	67	36	0	0	63	0.94
31628318--31628358	20	2.0	20	86	9	57	73	0	0	26	0.84
31628584--31628761	90	1.9	92	83	10	231	39	8	7	44	1.63
31630226--31630278	19	2.7	19	75	18	56	54	3	0	41	1.18
31630977--31631068	45	2.0	45	100	0	184	35	10	23	29	1.89
31632362--31632399	17	2.1	19	90	9	62	31	18	10	39	1.85
31634027--31634121	44	2.1	44	83	9	113	33	4	27	34	1.76
31634208--31634267	23	2.7	22	90	7	79	56	0	3	40	1.16
31634216--31634267	23	2.3	23	96	3	97	57	0	3	38	1.17
31634676--31634730	11	5.1	11	76	10	51	54	1	0	43	1.10
31636890--31637028	40	3.5	39	78	7	129	31	27	23	17	1.97
31648588--31648682	47	2.0	47	100	0	190	38	18	23	18	1.93
31659134--31659215	40	2.0	40	100	0	164	35	15	7	41	1.75
31659553--31659710	51	3.1	51	96	0	280	30	23	13	32	1.94
31663098--31663183	22	3.8	22	83	11	102	38	18	24	18	1.93
31663098--31663242	25	6.3	25	77	14	109	37	17	25	18	1.93
31663177--31663214	19	2.0	19	94	0	67	34	15	31	18	1.92
31664306--31664463	51	3.1	51	94	0	280	30	22	14	32	1.94
31667983--31668052	38	1.9	34	83	11	86	24	10	1	64	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31670022--31670107	43	2.0	43	83	0	109	48	3	23	24	1.66
31677084--31677131	16	3.0	16	93	0	78	37	10	6	45	1.64
31680239--31680452	40	5.6	40	73	7	158	22	20	24	32	1.98
31680203--31680365	36	4.4	36	76	8	148	22	20	25	31	1.98
31680545--31680591	24	2.0	24	91	0	76	55	2	19	23	1.54
31681689--31681721	11	3.0	11	100	0	66	36	0	27	36	1.57
31690361--31690399	17	2.3	17	86	0	51	28	10	15	46	1.78
31693243--31693304	17	3.7	16	79	12	54	32	27	14	25	1.95
31694773--31695294	265	2.0	266	88	2	773	32	13	17	36	1.88
31696418--31696452	17	2.1	17	88	0	52	62	0	25	11	1.28
31702050--31702105	20	2.8	19	76	15	60	25	3	33	37	1.73
31702050--31702113	20	3.2	19	75	16	58	25	6	32	35	1.81
31704435--31704560	42	3.0	42	79	15	145	23	15	28	31	1.96
31704435--31704555	41	2.9	41	78	14	140	23	16	28	31	1.96
31704435--31704601	83	2.0	83	81	2	192	26	14	26	31	1.95
31704780--31704807	13	2.2	13	100	0	56	25	0	21	53	1.46
31706008--31706052	23	2.0	23	82	8	56	13	17	15	53	1.73
31711303--31711605	151	2.0	151	86	1	419	27	17	29	26	1.97
31716952--31716996	23	2.0	22	82	4	54	40	4	17	37	1.70
31717200--31717244	23	2.0	23	86	0	63	24	0	13	62	1.31
31717706--31717749	23	2.0	22	90	4	70	34	6	4	54	1.47
31717923--31717951	3	9.7	3	100	0	58	31	0	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31722005--31722032	11	2.5	11	100	0	56	85	14	0	0	0.59
31722029--31722067	20	2.0	20	94	0	69	74	5	0	20	1.01
31723439--31723821	44	8.7	44	92	1	549	26	17	25	30	1.97
31723439--31723884	132	3.4	132	84	4	411	27	17	24	29	1.97
31723832--31724130	44	6.8	44	70	13	141	30	19	23	26	1.98
31723834--31724130	88	3.4	87	71	11	282	30	19	23	26	1.98
31723748--31724130	176	2.2	176	88	4	567	29	18	24	27	1.98
31725095--31725139	23	2.0	23	81	0	54	22	0	15	62	1.33
31725423--31725499	37	2.1	37	80	11	86	37	9	1	51	1.42
31725619--31725650	2	16.0	2	93	0	55	46	0	0	53	1.00
31725822--31725856	3	11.7	3	93	0	61	31	2	0	65	1.07
31727161--31727228	35	1.9	35	84	0	91	61	0	2	35	1.11
31732143--31732168	6	4.3	6	100	0	52	34	15	34	15	1.89
31736251--31736295	23	2.0	23	95	0	81	44	0	0	55	0.99
31744929--31744967	21	1.9	20	84	5	51	38	25	17	17	1.92
31745139--31745264	35	3.6	35	76	7	130	41	17	16	24	1.90
31749242--31749389	43	3.4	43	86	0	197	34	24	14	26	1.94
31749533--31749660	61	2.1	63	88	2	188	42	17	9	29	1.81
31749533--31749671	32	4.5	31	88	2	172	44	17	8	28	1.79
31749838--31749895	29	2.0	29	82	3	71	29	24	3	43	1.70
31753949--31753994	9	5.0	9	89	2	65	41	13	13	32	1.82
31754036--31754073	9	4.2	9	93	0	67	47	13	10	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31754078--31754136	29	2.0	29	96	0	109	37	8	0	54	1.31
31755716--31755763	5	9.4	5	84	8	53	20	25	14	39	1.91
31756954--31756997	23	2.0	22	90	4	70	56	2	6	34	1.38
31756958--31757021	27	2.5	26	82	14	71	54	1	7	35	1.39
31757005--31757075	12	5.7	12	70	9	52	52	1	4	42	1.29
31757691--31757748	22	2.6	22	81	7	64	41	17	5	36	1.72
31758291--31758416	44	2.8	44	80	5	130	29	23	17	29	1.97
31758517--31759680	45	25.9	45	84	3	1409	30	22	16	30	1.96
31761101--31761220	63	1.9	62	81	5	143	14	24	15	46	1.82
31762089--31762118	10	2.9	10	95	5	51	3	16	0	80	0.85

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