genome.fa.s1.2.7.7.80.10.50.1000.152.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  152  of  187  ( 22383 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)
45224196--45224248	17	3.2	17	68	10	56	24	9	3	62	1.42
45224194--45224258	32	2.0	32	96	0	121	24	9	3	63	1.39
45230378--45230438	30	2.0	31	87	3	88	19	37	1	40	1.62
45230548--45230587	20	2.0	20	85	9	55	25	30	0	45	1.54
45231327--45231361	18	2.0	18	88	5	54	65	0	5	28	1.15
45231375--45231405	16	1.9	16	93	0	53	35	0	12	51	1.40
45238797--45238829	15	2.1	16	94	5	59	42	12	0	45	1.41
45246683--45246730	23	2.1	23	88	3	71	18	0	27	54	1.44
45246675--45246730	23	2.5	22	82	5	69	19	0	28	51	1.47
45246826--45247050	94	2.4	92	82	10	242	43	2	17	36	1.62
45246779--45247050	95	2.9	94	81	10	268	42	2	16	38	1.62
45247086--45247506	126	3.4	125	89	0	653	33	19	20	26	1.97
45253042--45253088	11	4.3	11	79	17	53	44	0	31	23	1.54
45258031--45258114	33	2.5	33	94	0	150	29	28	11	29	1.92
45260785--45260852	6	10.8	6	78	12	66	13	5	0	80	0.87
45260784--45260851	27	2.7	26	82	8	77	13	5	0	80	0.87
45260861--45260945	3	28.0	3	88	7	127	0	31	0	68	0.90
45261046--45261085	19	2.1	19	90	9	64	0	37	0	62	0.95
45261328--45261418	29	3.1	28	84	6	119	43	3	18	34	1.66
45261585--45262307	76	9.5	75	79	8	612	33	19	15	30	1.94
45261585--45262308	152	4.8	152	79	6	709	33	19	15	30	1.94
45261586--45262253	228	2.9	226	80	5	713	34	19	15	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45263952--45264035	33	2.5	33	92	0	141	30	27	11	29	1.92
45264163--45264297	44	2.8	49	85	13	208	49	17	17	15	1.80
45270319--45270344	13	2.0	13	100	0	52	30	7	23	38	1.83
45275129--45275212	33	2.5	33	90	0	132	27	29	11	30	1.92
45276121--45276155	5	7.2	5	90	6	54	85	14	0	0	0.59
45278031--45278065	15	2.4	15	90	4	54	57	0	8	34	1.29
45282139--45282190	24	2.2	24	92	0	86	40	13	13	32	1.83
45282571--45282631	14	4.3	14	80	16	72	44	40	0	14	1.46
45282571--45282631	28	2.1	29	85	8	81	44	40	0	14	1.46
45289682--45289738	28	2.0	28	100	0	114	28	7	10	54	1.60
45291664--45291708	22	2.0	22	86	0	63	55	4	17	22	1.60
45294965--45295001	14	2.6	15	83	12	51	64	2	2	29	1.21
45295246--45295404	41	3.9	41	83	7	191	34	19	21	24	1.96
45295248--45295427	41	4.4	38	77	13	155	33	20	20	26	1.96
45298994--45299032	18	2.2	18	85	0	51	20	30	33	15	1.94
45301051--45301124	19	3.8	19	84	8	96	72	8	8	10	1.27
45301051--45301129	40	2.0	40	92	0	131	72	8	7	11	1.29
45306732--45306791	31	1.9	31	89	0	93	33	11	13	41	1.80
45309186--45309273	42	2.1	42	100	0	176	29	12	14	43	1.83
45313953--45313980	4	7.0	4	100	0	56	0	25	0	75	0.81
45314470--45314499	15	2.0	15	93	0	51	43	0	13	43	1.43
45315254--45315307	23	2.3	23	96	0	99	31	5	20	42	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45317142--45317341	98	2.0	98	95	1	357	32	16	7	43	1.76
45323971--45324100	27	4.9	27	79	7	131	33	10	20	36	1.87
45323973--45324107	53	2.5	53	74	8	130	31	10	20	37	1.87
45331292--45331441	43	3.5	43	74	7	146	32	25	16	26	1.96
45331273--45331435	84	1.9	85	85	6	224	32	26	16	23	1.96
45336836--45336923	44	2.0	44	93	0	149	43	10	15	30	1.80
45342196--45342239	21	2.1	21	83	8	54	61	6	2	29	1.34
45347756--45347881	65	1.9	65	87	3	182	33	4	22	39	1.75
45347946--45348125	44	4.0	44	80	9	186	27	17	25	30	1.98
45347964--45348120	44	3.6	43	84	11	210	26	16	26	30	1.97
45347948--45348120	89	1.9	89	92	0	292	27	16	24	30	1.97
45362907--45362960	21	2.6	21	84	0	72	20	18	29	31	1.96
45367445--45367489	11	3.9	11	80	11	54	60	0	4	35	1.17
45368570--45368605	10	3.6	10	100	0	72	50	11	8	30	1.67
45369987--45370032	23	2.0	23	83	8	58	60	0	10	28	1.30
45370166--45370212	23	2.0	24	84	12	62	59	0	8	31	1.27
45370166--45370212	24	2.0	23	88	12	69	59	0	8	31	1.27
45369975--45370334	180	2.0	180	98	0	693	49	6	11	32	1.64
45371150--45371326	30	5.9	30	76	7	155	33	18	5	42	1.72
45371150--45371325	60	2.9	59	79	7	176	34	18	5	42	1.73
45371523--45371569	24	2.0	24	82	0	58	68	4	23	4	1.26
45371680--45371728	20	2.4	21	83	10	66	77	6	16	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45371670--45371741	17	4.1	17	79	12	65	76	4	16	2	1.06
45371670--45371742	19	4.1	17	74	13	58	76	4	16	2	1.05
45371865--45371894	9	3.2	9	90	9	51	86	3	10	0	0.67
45372053--45372086	13	2.6	13	100	0	68	88	0	11	0	0.52
45372052--45372088	16	2.3	15	90	9	56	89	0	10	0	0.49
45372233--45372266	13	2.8	12	91	8	59	17	0	5	76	0.98
45372223--45372275	20	2.8	19	77	8	63	18	0	3	77	0.92
45372223--45372263	13	3.0	14	85	7	57	19	0	4	75	0.98
45372388--45372414	9	3.0	9	100	0	54	77	0	0	22	0.76
45374175--45374210	4	9.0	4	87	0	54	27	25	2	44	1.68
45376299--45376394	31	3.1	31	92	3	165	31	10	13	44	1.77
45382466--45382561	31	3.1	31	95	3	174	31	9	13	45	1.75
45384158--45384190	6	5.5	6	100	0	66	33	0	15	51	1.43
45384375--45384412	19	2.0	19	100	0	76	15	42	15	26	1.87
45389685--45389974	144	2.0	144	96	0	535	32	23	10	34	1.88
45390725--45390754	9	3.3	9	90	0	51	0	23	0	76	0.78
45390821--45390862	17	2.5	16	88	7	57	50	9	0	40	1.35
45418262--45418298	19	2.0	18	89	5	56	51	0	5	43	1.24
45424903--45424948	24	2.0	24	87	8	69	23	0	2	73	0.94
45424899--45424936	13	2.8	14	88	8	60	23	0	0	76	0.79
45437446--45437473	11	2.5	11	100	0	56	25	10	17	46	1.80
45442820--45442869	25	2.0	25	84	7	66	46	6	10	38	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45443596--45443686	23	4.1	23	68	11	82	20	26	6	46	1.75
45443586--45443666	42	1.9	42	92	0	135	22	22	8	46	1.78
45446301--45446372	23	3.1	23	91	0	99	19	29	4	47	1.68
45448804--45448850	16	2.9	16	72	15	51	57	0	4	38	1.18
45449166--45449199	17	2.0	17	88	0	50	14	2	11	70	1.27
45449234--45449303	20	3.8	20	72	16	60	38	2	0	58	1.13
45449246--45449283	18	2.0	19	90	10	60	36	0	0	63	0.95
45450520--45450593	32	2.5	30	85	10	91	51	18	2	27	1.60
45450553--45450607	27	2.0	27	86	6	76	50	18	3	27	1.63
45458179--45458207	10	2.7	11	94	5	51	31	24	10	34	1.89
45459864--45459892	12	2.5	12	94	5	51	75	3	6	13	1.13
45459873--45459907	16	2.2	16	90	5	54	74	2	8	14	1.17
45460958--45460990	18	1.9	17	88	11	50	72	6	9	12	1.26
45460937--45461035	30	3.5	28	71	16	78	73	2	16	8	1.16
45461023--45461057	18	1.9	18	88	11	54	57	0	20	22	1.41
45464864--45464930	23	3.2	23	60	27	58	34	34	5	25	1.80
45464856--45464940	39	2.2	39	97	0	161	36	32	9	21	1.85
45467275--45467322	18	2.7	18	83	6	62	25	6	4	64	1.35
45477078--45477104	13	2.1	13	100	0	54	33	14	22	29	1.94
45477826--45478006	91	2.0	91	90	0	281	32	25	16	25	1.96
45484132--45484256	24	5.3	24	69	11	80	39	16	14	29	1.88
45484095--45484600	94	5.3	93	86	7	699	41	16	12	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45484170--45484276	24	4.5	24	70	10	69	43	17	10	28	1.82
45484296--45484595	46	6.4	46	75	6	273	41	17	13	28	1.87
45484295--45484600	93	3.3	93	92	0	531	40	16	13	29	1.86
45485323--45485448	28	4.5	28	86	5	157	29	26	12	30	1.93
45485323--45485448	56	2.2	56	88	5	184	29	26	12	30	1.93
45488164--45488302	50	2.8	50	84	0	179	22	29	22	25	1.99
45488690--45488748	30	2.0	30	86	0	82	28	25	5	40	1.77
45490973--45491023	24	2.2	22	79	6	57	19	0	5	74	1.02
45494909--45494943	14	2.5	14	90	0	52	17	2	8	71	1.23
45496492--45496544	21	2.5	21	87	3	79	9	0	11	79	0.94

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