genome.fa.s10.2.7.7.80.10.50.1000.174.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  174  of  202  ( 24201 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)
54221643--54221682	18	2.2	18	90	0	62	42	7	27	22	1.80
54223501--54223598	51	1.9	51	85	4	135	44	3	23	28	1.68
54223574--54223635	11	5.6	11	86	3	81	43	1	32	22	1.63
54223560--54223637	22	3.5	22	84	5	95	43	1	29	25	1.63
54225246--54225585	33	9.7	34	66	26	144	32	27	19	21	1.97
54225279--54225590	103	3.0	103	90	0	500	32	27	18	21	1.97
54227259--54227288	14	2.2	13	94	5	51	76	0	23	0	0.78
54230979--54231213	62	3.8	61	93	0	407	34	6	11	47	1.64
54231089--54231117	14	2.1	14	100	0	58	51	6	0	41	1.28
54231150--54231178	14	2.1	14	100	0	58	51	6	0	41	1.28
54230979--54231207	123	1.9	124	95	0	415	34	6	10	47	1.65
54231194--54231221	8	3.5	8	100	0	56	28	0	21	50	1.49
54233020--54233050	3	10.0	3	93	6	53	67	0	0	32	0.91
54234546--54234602	18	3.2	18	79	0	69	3	29	38	28	1.73
54235219--54235248	14	2.1	14	93	0	51	43	6	10	40	1.64
54236764--54236820	27	2.3	24	76	23	64	31	28	7	33	1.84
54240558--54240618	3	20.3	3	100	0	122	65	0	0	34	0.93
54242123--54242217	25	3.8	25	73	5	68	21	28	17	32	1.96
54246140--54246202	27	2.4	27	89	2	92	36	0	1	61	1.05
54255264--54255303	16	2.5	16	88	8	55	70	2	0	27	1.01
54256355--54256405	15	3.5	15	78	10	61	17	9	37	35	1.83
54269286--54269355	15	4.8	15	84	7	90	35	40	8	15	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54269286--54269355	28	2.4	30	80	4	90	35	40	8	15	1.78
54279846--54279886	19	2.2	19	95	0	73	43	12	4	39	1.63
54280579--54280610	3	10.7	3	100	0	64	68	0	0	31	0.90
54285829--54285854	10	2.6	10	100	0	52	0	7	0	92	0.39
54285950--54285980	12	2.7	11	90	9	53	29	0	0	70	0.87
54286779--54286846	24	3.1	22	68	24	54	47	1	5	45	1.36
54286779--54286867	42	2.1	42	83	8	110	47	3	4	44	1.40
54287108--54287138	2	15.5	2	100	0	62	51	0	0	48	1.00
54287200--54287228	2	14.5	2	100	0	58	51	0	0	48	1.00
54287476--54287511	17	2.1	17	100	0	72	27	0	13	58	1.36
54291490--54291537	22	2.2	20	80	20	53	62	10	2	25	1.38
54291495--54291538	19	2.2	19	88	8	61	59	11	2	27	1.44
54294764--54294815	21	2.5	21	84	3	70	36	1	40	21	1.64
54298644--54298829	45	4.2	45	82	6	209	34	25	16	23	1.95
54298650--54298829	90	2.0	88	87	4	254	34	26	16	23	1.95
54305086--54305128	21	2.0	21	100	0	86	41	23	4	30	1.74
54308819--54308844	2	13.0	2	100	0	52	50	0	0	50	1.00
54313292--54313348	22	2.6	22	85	0	78	8	21	15	54	1.68
54318812--54318851	3	13.3	3	100	0	80	32	0	35	32	1.58
54319193--54319246	23	2.4	22	90	6	81	33	0	1	64	1.04
54319182--54319230	11	4.4	11	76	5	53	34	2	0	63	1.06
54321856--54321921	26	2.6	26	82	2	71	16	25	19	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54321941--54322006	24	2.7	24	83	2	69	18	28	19	33	1.95
54321963--54322106	25	5.9	25	70	5	80	19	25	21	34	1.97
54325506--54325683	51	3.5	50	72	8	146	25	16	26	30	1.97
54325691--54325948	42	6.1	43	81	9	271	21	18	24	35	1.95
54325690--54325948	84	3.1	83	87	4	358	21	18	23	35	1.96
54333200--54333250	26	2.0	26	84	7	68	19	21	21	37	1.95
54336608--54336651	20	2.2	20	100	0	88	43	9	25	22	1.82
54339376--54339501	30	4.2	30	85	2	155	24	32	26	16	1.96
54339383--54339502	60	2.0	60	88	3	179	24	32	26	16	1.96
54340260--54340356	40	2.4	41	81	11	103	19	5	4	71	1.22
54340310--54340356	17	2.8	17	83	3	60	14	4	6	74	1.17
54341081--54341106	13	2.0	13	100	0	52	30	15	23	30	1.95
54341666--54341699	15	2.3	15	95	5	61	32	11	26	29	1.92
54342027--54342069	6	7.5	6	86	2	54	16	0	4	79	0.90
54342027--54342069	18	2.5	17	88	7	61	16	0	4	79	0.90
54346550--54346607	30	1.9	30	89	0	89	27	22	17	32	1.96
54346998--54347046	24	2.0	24	100	0	98	20	4	28	46	1.68
54349342--54349571	18	12.8	18	82	3	239	3	14	29	52	1.59
54349324--54349571	54	4.6	54	84	4	302	3	15	28	52	1.59
54349342--54349568	36	6.3	36	84	1	267	3	14	29	51	1.59
54352572--54352649	40	2.0	40	82	10	97	30	11	10	47	1.73
54353743--54353799	3	19.0	3	96	0	105	66	1	0	31	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54353855--54353910	29	1.9	29	85	0	76	39	1	1	57	1.20
54353947--54353982	18	1.9	19	88	5	56	38	0	5	55	1.23
54354482--54354740	43	6.1	43	82	4	260	34	25	13	25	1.93
54354482--54354740	86	3.1	84	80	5	299	34	25	13	25	1.93
54356787--54356811	7	3.6	7	100	0	50	28	0	12	60	1.32
54358633--54358681	19	2.6	19	93	6	82	14	4	6	75	1.14
54359089--54359173	7	11.9	7	79	10	59	36	41	0	22	1.54
54359089--54359169	14	5.6	14	74	10	65	35	43	0	20	1.53
54359611--54359708	40	2.5	40	84	0	124	24	22	24	28	1.99
54359634--54359721	40	2.2	40	81	4	106	25	22	22	29	1.99
54359778--54359855	40	2.0	40	92	7	133	29	25	20	24	1.99
54359536--54359856	155	2.1	155	86	2	457	27	22	20	29	1.98
54360663--54360687	3	8.3	3	100	0	50	32	68	0	0	0.90
54360794--54360823	6	5.0	6	100	0	60	16	33	16	33	1.92
54362489--54362543	2	27.5	2	84	0	74	47	3	3	45	1.38
54362700--54362744	19	2.5	17	82	13	54	53	2	2	42	1.25
54362730--54362786	23	2.5	23	83	8	71	64	0	1	33	1.04
54368386--54368439	27	2.0	27	82	7	65	38	5	5	50	1.49
54371364--54371677	149	2.1	149	86	4	427	43	5	8	42	1.59
54371923--54371987	27	2.5	25	76	9	67	16	27	20	35	1.94
54372030--54372087	25	2.4	25	80	8	66	20	31	17	31	1.96
54382300--54382372	27	2.8	25	82	8	101	16	27	23	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54382409--54382467	25	2.4	23	83	13	66	16	28	25	28	1.97
54382281--54382494	24	8.5	26	70	14	96	19	25	22	32	1.98
54384232--54384277	10	4.4	11	80	5	51	34	0	0	65	0.93
54384228--54384271	21	2.2	20	95	4	79	29	0	0	70	0.88
54384228--54384279	26	2.0	26	88	7	79	32	0	0	67	0.91
54384232--54384279	21	2.3	21	89	7	71	35	0	0	64	0.94
54387172--54387309	21	6.6	21	76	0	114	44	17	20	18	1.87
54387172--54387348	42	4.2	42	80	2	176	42	16	21	19	1.89
54387170--54387348	84	2.1	84	82	2	207	43	16	21	19	1.88
54387172--54387348	21	8.4	21	75	2	113	42	16	21	19	1.89
54391968--54392011	23	1.9	23	82	17	56	68	2	2	27	1.14
54394470--54394619	74	2.0	74	100	0	300	39	8	17	34	1.80
54398625--54398734	58	1.9	58	84	0	148	40	12	9	38	1.75
54403315--54403344	2	15.0	2	100	0	60	50	0	0	50	1.00
54416875--54416936	23	2.7	23	92	0	97	50	17	1	30	1.56
54416865--54416935	23	3.2	21	84	9	65	46	19	2	30	1.64
54430582--54430621	20	2.0	20	85	0	53	45	2	10	42	1.51
54432109--54432163	27	2.0	27	92	0	92	30	10	18	40	1.85
54434916--54434955	2	20.0	2	100	0	80	50	0	0	50	1.00
54435084--54435134	2	25.5	2	95	0	93	49	0	0	50	1.00
54435186--54435338	41	3.7	41	95	0	279	20	28	20	29	1.98
54435186--54435361	41	4.3	41	90	2	255	23	27	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54437118--54437142	13	1.9	13	100	0	50	40	24	4	32	1.73
54439105--54439203	52	1.9	51	85	6	137	46	2	32	19	1.61
54441270--54441310	19	2.2	19	91	8	66	68	0	4	26	1.10
54441253--54441312	13	4.7	13	73	8	52	66	3	3	26	1.23
54442887--54442956	28	2.5	28	92	0	113	40	8	15	35	1.78
54447373--54448592	609	2.0	610	95	0	2221	44	12	12	31	1.79
54463915--54463962	22	2.1	23	92	3	80	22	12	35	29	1.91
54474470--54474501	2	16.5	2	93	6	57	53	0	0	46	1.00
54478027--54478203	90	2.0	90	85	4	241	23	13	22	40	1.89
54482586--54482616	15	2.1	15	100	0	62	38	25	12	22	1.90

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