genome.fa.s5.2.7.7.80.10.50.1000.148.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  148  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)
45280913--45280966	10	5.3	10	75	20	58	75	0	1	22	0.89
45280915--45280966	25	2.1	24	86	10	70	75	0	1	23	0.91
45283105--45283592	243	2.0	243	98	0	940	38	23	6	31	1.81
45284023--45284058	18	2.0	18	100	0	72	27	22	11	38	1.88
45286852--45286886	18	1.9	18	88	11	54	40	25	0	34	1.56
45293661--45293810	50	3.0	49	79	11	173	22	17	22	38	1.93
45293661--45293818	48	3.3	46	81	9	167	20	17	24	37	1.94
45293750--45293848	47	2.1	48	84	1	128	26	19	20	34	1.96
45293661--45293865	98	2.1	97	82	8	247	23	18	22	36	1.95
45296851--45296894	22	2.0	23	86	4	63	50	0	20	29	1.49
45296963--45297005	21	2.1	21	87	8	63	65	0	11	23	1.25
45297012--45297082	5	13.2	5	77	11	52	59	0	21	19	1.38
45297039--45297080	16	2.6	16	88	0	57	64	0	14	21	1.29
45297012--45297082	21	3.3	21	76	5	61	59	0	21	19	1.38
45297457--45297527	37	1.9	37	82	2	90	67	1	4	26	1.17
45300858--45301184	48	6.8	48	80	8	319	22	24	20	32	1.98
45300858--45301184	94	3.4	96	80	9	373	22	24	20	32	1.98
45304090--45304171	25	3.3	25	79	3	94	30	20	21	26	1.98
45308201--45308231	16	1.9	16	93	0	53	38	12	32	16	1.86
45308987--45309021	4	9.0	4	93	6	63	74	0	0	25	0.82
45309324--45309419	31	3.1	31	95	3	174	45	13	9	31	1.75
45326232--45326336	20	5.2	20	72	2	77	33	17	33	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45326281--45326440	40	4.0	40	81	2	162	35	17	30	17	1.93
45332065--45332277	20	10.7	19	64	11	79	12	34	17	35	1.88
45332049--45332277	40	5.8	40	83	2	291	13	33	17	35	1.89
45348315--45348576	129	2.0	129	91	1	418	38	19	14	27	1.90
45348917--45349060	25	5.8	25	78	3	137	30	16	18	34	1.93
45353522--45354011	163	3.0	163	90	2	777	39	19	16	24	1.91
45356490--45356733	129	1.9	129	89	1	382	39	20	13	27	1.89
45356709--45356734	12	2.2	12	100	0	52	42	19	0	38	1.51
45358363--45358593	49	4.7	49	82	9	283	41	7	1	49	1.39
45358410--45358485	23	3.2	22	63	22	55	44	7	1	46	1.41
45358491--45358573	26	3.2	25	67	6	67	38	7	1	53	1.37
45358363--45358593	100	2.3	97	88	5	347	41	7	1	49	1.39
45360859--45360896	10	3.7	10	89	3	58	34	7	0	57	1.28
45360861--45360901	20	2.0	21	90	4	66	36	4	0	58	1.20
45360971--45361029	24	2.4	25	85	2	75	59	6	5	28	1.45
45364822--45364968	41	3.5	41	75	3	141	24	17	23	35	1.95
45365711--45365743	15	2.4	14	90	10	50	66	0	12	21	1.23
45367024--45367050	2	13.5	2	100	0	54	48	0	0	51	1.00
45368239--45368269	2	15.5	2	100	0	62	0	48	0	51	1.00
45371505--45372181	342	2.0	342	94	0	1174	27	20	19	33	1.96
45381927--45381973	22	2.2	21	81	7	60	36	14	23	25	1.93
45402647--45402696	24	2.1	24	88	0	73	52	8	4	36	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45404228--45404294	25	2.5	27	80	20	79	64	2	2	29	1.23
45404036--45404307	141	1.9	140	79	13	301	58	3	4	33	1.34
45404277--45404324	15	3.6	14	81	13	57	62	0	0	37	0.95
45405574--45405642	24	2.9	24	93	0	111	33	30	20	15	1.94
45405729--45405919	44	4.3	44	72	5	143	27	24	21	27	1.99
45406136--45406299	57	2.9	56	79	5	186	25	19	20	34	1.96
45406349--45406471	44	2.8	44	88	2	167	29	25	17	27	1.98
45406464--45406733	147	1.8	147	91	0	441	26	26	18	29	1.98
45406611--45407145	169	3.2	169	93	0	874	27	25	17	28	1.98
45407106--45407181	36	2.1	36	87	0	107	27	22	22	27	1.99
45413805--45413891	25	3.3	27	73	18	67	62	3	2	32	1.25
45432484--45432514	14	2.2	14	94	0	53	48	12	0	38	1.42
45435178--45435253	6	12.2	6	76	13	64	75	6	2	15	1.13
45435178--45435243	26	2.6	25	79	13	73	75	7	3	13	1.13
45435178--45435253	25	3.0	25	78	16	61	75	6	2	15	1.13
45445101--45445128	14	2.0	14	100	0	56	35	14	14	35	1.86
45451545--45451829	41	7.0	41	78	7	276	22	19	27	31	1.97
45451545--45451829	82	3.5	80	79	5	315	22	19	27	31	1.97
45451549--45451847	163	1.8	162	85	6	417	22	18	25	33	1.97
45452188--45452264	22	3.6	21	77	5	64	23	2	27	46	1.65
45452297--45452343	15	3.1	15	84	3	67	19	0	31	48	1.49
45452272--45452345	7	10.1	7	69	13	51	20	0	35	44	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45453457--45453490	4	8.5	4	100	0	68	0	73	0	26	0.83
45459502--45459547	21	2.2	21	88	0	65	19	8	21	50	1.75
45462005--45462121	41	2.8	42	80	10	148	24	17	28	29	1.98
45463763--45463806	22	2.0	21	83	12	54	40	0	0	59	0.98
45471817--45471866	3	16.7	3	100	0	100	32	0	0	68	0.90
45472115--45472139	2	12.5	2	100	0	50	52	0	0	48	1.00
45473272--45473302	9	3.4	9	90	0	53	38	22	12	25	1.90
45474520--45474731	89	2.4	89	91	3	327	24	4	12	58	1.54
45475409--45475460	21	2.4	21	78	15	61	59	1	5	32	1.32
45477299--45477358	29	2.1	29	100	0	120	46	10	5	38	1.59
45484473--45484614	49	2.9	48	83	4	167	29	31	15	23	1.95
45484797--45484836	21	2.0	20	85	9	55	60	10	17	12	1.59
45495206--45495399	103	1.9	101	85	4	264	30	17	25	26	1.97
45498209--45498292	30	2.8	30	88	1	123	35	17	2	44	1.62
45498647--45498687	20	2.0	21	86	13	59	73	0	24	2	0.96
45498647--45498718	23	3.1	23	74	18	69	69	0	29	1	0.97
45498663--45498714	19	2.7	19	76	8	52	69	0	30	0	0.89
45498672--45498740	31	2.4	29	79	16	72	62	0	37	0	0.96
45498804--45498898	18	4.7	21	78	15	78	74	0	24	1	0.88
45498814--45498911	7	13.9	7	72	14	60	75	0	22	2	0.90
45498814--45498917	18	5.7	18	78	16	90	75	0	22	1	0.89
45498811--45498917	11	9.7	11	76	14	105	75	0	22	1	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45499251--45499313	15	4.2	15	72	6	56	33	39	22	4	1.75
45499477--45499524	24	2.0	25	84	12	64	25	0	4	70	1.04
45509106--45509305	50	3.9	50	78	8	181	29	20	28	22	1.98
45509485--45509522	20	1.9	20	88	0	58	52	2	23	21	1.59
45511329--45511379	22	2.3	22	89	0	75	41	9	19	29	1.84
45516701--45516832	50	2.6	50	84	0	156	28	22	28	20	1.99
45517097--45517142	20	2.3	20	88	0	65	54	4	26	15	1.59
45518313--45519615	76	17.1	75	85	5	1567	27	17	21	33	1.96
45518313--45519615	384	3.4	379	84	4	1678	27	17	21	33	1.96
45519796--45519928	30	4.4	30	83	0	149	37	18	2	41	1.63
45519796--45519928	60	2.2	60	86	0	176	37	18	2	41	1.63
45520162--45520188	12	2.2	12	100	0	54	70	14	7	7	1.32
45520324--45520377	25	2.3	22	82	17	65	72	1	25	0	0.95
45520333--45520374	16	2.5	17	81	18	52	69	0	30	0	0.89
45520321--45520375	9	6.2	9	77	10	51	70	1	27	0	0.97
45520495--45520567	28	2.6	27	84	4	83	78	0	19	2	0.88
45520471--45520558	20	4.0	22	71	15	67	73	0	26	0	0.83
45520471--45520558	23	4.0	21	74	12	63	73	0	26	0	0.83
45521106--45521139	11	2.9	12	91	8	61	23	8	8	58	1.56
45523849--45523903	18	3.2	17	82	10	58	74	1	20	3	1.06
45523832--45523906	33	2.3	32	78	13	82	72	1	22	4	1.10
45524824--45524849	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45526273--45526323	15	3.5	15	71	15	52	50	15	13	19	1.77
45526281--45526344	29	2.1	29	83	11	76	48	15	15	20	1.81
45528081--45528110	2	15.0	2	100	0	60	50	0	0	50	1.00
45528132--45528208	41	1.9	41	84	5	104	37	7	1	53	1.38
45533123--45533180	1	58.0	1	75	0	53	87	6	1	3	0.70
45533123--45533180	11	5.3	11	81	8	73	87	6	1	3	0.70
45533123--45533180	14	3.9	14	81	18	64	87	6	1	3	0.70
45533930--45534108	93	1.9	94	84	4	243	27	16	7	48	1.74
45534718--45535788	129	8.3	129	90	0	1570	32	23	19	25	1.97
45538811--45538855	22	2.0	22	83	8	56	46	11	6	35	1.66

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