genome.fa.s9.2.7.7.80.10.50.1000.87.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  87  of  226  ( 27023 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)
30816598--30816707	54	2.0	54	84	3	141	21	14	23	40	1.90
30829575--30829617	23	1.9	22	86	13	61	37	2	9	51	1.47
30831167--30831215	25	1.9	26	91	4	82	55	4	2	38	1.31
30840976--30841007	2	16.0	2	100	0	64	50	0	0	50	1.00
30850974--30851022	18	2.7	19	84	9	66	73	6	4	16	1.19
30853138--30853570	46	9.4	46	91	0	616	30	26	15	26	1.96
30854459--30854774	97	3.0	106	83	10	416	49	7	16	26	1.73
30855040--30855120	5	16.8	5	71	20	57	4	14	0	80	0.88
30855039--30855124	6	14.3	6	72	26	51	4	15	0	80	0.87
30855046--30855121	15	5.1	14	79	14	71	3	14	0	81	0.83
30855056--30855132	32	2.4	31	79	16	86	3	16	0	79	0.88
30855051--30855126	16	5.0	15	75	21	70	3	15	0	80	0.86
30855153--30855215	33	1.9	33	96	0	117	28	19	19	33	1.96
30859542--30859590	18	2.7	19	84	9	66	73	6	4	16	1.19
30862314--30862356	23	1.9	22	86	13	61	37	2	9	51	1.47
30869112--30869154	23	1.9	22	86	13	61	37	2	9	51	1.47
30870703--30870751	25	1.9	26	91	4	82	55	4	2	38	1.31
30885775--30885817	23	1.9	22	86	13	61	37	2	9	51	1.47
30897890--30897956	29	2.3	29	92	0	107	40	11	20	26	1.88
30898355--30898444	9	10.0	9	83	4	83	34	6	22	36	1.80
30898882--30899034	75	2.0	75	100	0	306	32	6	37	23	1.80
30900051--30900433	27	14.2	27	78	5	355	44	18	15	22	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30900586--30900650	26	2.5	25	85	5	76	26	23	21	29	1.99
30900611--30900688	26	3.0	26	76	0	84	24	21	23	30	1.99
30900611--30900717	52	2.1	52	80	3	117	23	19	22	34	1.96
30900826--30900936	30	3.8	29	80	4	109	22	27	21	27	1.99
30907207--30907565	27	13.1	27	78	8	357	42	16	18	22	1.89
30907427--30907494	33	2.1	33	86	5	93	41	13	23	22	1.89
30907561--30907613	27	2.0	27	84	0	70	35	15	20	28	1.93
30907780--30907881	26	3.9	26	76	10	93	21	21	21	35	1.96
30907988--30908084	30	3.3	30	86	2	135	20	25	22	30	1.98
30910571--30910616	23	1.9	24	83	16	60	21	8	10	58	1.58
30916598--30916640	10	4.1	10	80	11	50	39	2	0	58	1.11
30924806--30925170	183	2.0	183	97	0	685	37	6	21	33	1.80
30926064--30926257	50	3.9	49	80	3	201	27	21	28	22	1.99
30928600--30928662	29	2.3	29	89	10	98	49	20	0	30	1.49
30934698--30934888	68	2.9	65	75	16	164	49	3	3	43	1.36
30940378--30940518	74	2.0	72	87	9	211	45	18	4	31	1.69
30940402--30940518	37	3.2	37	65	18	107	44	16	4	35	1.67
30940700--30940739	13	3.3	12	89	6	55	75	0	0	25	0.81
30950741--30950806	14	4.8	14	74	20	59	33	24	19	22	1.97
30950726--30950806	41	2.0	41	85	4	110	32	23	20	23	1.98
30952431--30952513	23	3.6	23	79	6	96	26	19	18	36	1.94
30952775--30952869	23	4.1	23	81	5	102	32	14	17	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30952761--30952863	46	2.2	48	84	3	129	33	12	17	36	1.88
30954403--30954468	32	2.1	32	97	0	123	50	18	7	24	1.72
30955238--30955272	17	2.1	17	100	0	70	5	17	5	71	1.25
30970035--30970090	21	2.6	22	88	2	78	23	14	25	37	1.92
30973925--30973993	16	4.4	16	69	20	65	47	0	10	42	1.37
30973946--30974529	121	4.8	121	95	1	1010	43	2	6	48	1.40
30973946--30974529	243	2.4	243	94	1	1021	43	2	6	48	1.40
30974677--30974767	45	2.0	45	85	2	121	37	28	6	27	1.82
30974748--30974811	16	3.9	16	95	4	119	35	39	0	25	1.56
30974748--30974810	33	1.9	33	100	0	126	34	39	0	25	1.56
30975451--30975674	44	5.1	45	62	15	126	30	20	23	25	1.98
30975395--30975707	88	3.5	88	92	1	502	30	21	25	23	1.99
30980524--30980592	29	2.3	29	92	2	111	47	5	15	30	1.69
30980790--30980825	18	1.9	19	88	5	56	55	11	11	22	1.66
30982331--30982486	44	3.6	42	77	10	120	26	22	21	29	1.99
30982417--30982527	41	2.7	40	88	4	159	27	18	22	31	1.97
30982681--30982841	44	3.7	43	70	11	119	34	21	14	29	1.93
30982892--30983122	45	5.2	45	86	2	279	25	22	19	32	1.98
30982870--30983158	90	3.2	90	80	4	271	26	23	18	31	1.98
30982870--30983122	134	1.9	133	80	2	301	26	22	19	31	1.98
30982870--30983158	89	3.2	89	80	4	278	26	23	18	31	1.98
30991466--30991500	18	1.9	18	88	0	52	51	17	14	17	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30993119--30993150	15	2.2	14	94	5	55	31	31	0	37	1.58
30997191--30997247	25	2.3	25	90	0	96	33	14	21	31	1.92
31003533--31003566	12	2.7	13	90	9	61	23	5	14	55	1.61
31005238--31005312	29	2.6	29	86	0	96	20	22	32	25	1.98
31005248--31005327	29	2.8	29	84	0	97	18	20	35	26	1.95
31010158--31010215	25	2.4	25	80	11	68	44	0	3	51	1.18
31011129--31011241	60	1.9	60	96	0	208	53	14	0	31	1.41
31013406--31013460	24	2.3	24	80	0	74	29	29	10	30	1.91
31017678--31017737	18	3.3	18	76	17	70	13	43	1	41	1.54
31020418--31020477	20	2.9	21	87	5	61	36	13	15	35	1.86
31020430--31020479	20	2.5	20	96	0	91	38	10	16	36	1.82
31026783--31026823	21	1.9	22	85	5	57	29	7	21	41	1.80
31033840--31033883	22	2.0	22	90	0	70	29	15	18	36	1.92
31035063--31035109	18	2.6	18	100	0	94	55	4	0	40	1.19
31041472--31041512	19	2.2	19	90	0	64	53	2	14	29	1.54
31042412--31042529	27	4.4	27	77	5	123	38	22	17	20	1.93
31042412--31042516	54	1.9	54	84	3	140	40	20	19	19	1.91
31042533--31042576	21	2.1	21	95	0	79	25	4	29	40	1.75
31044985--31045036	26	2.0	26	92	3	88	57	7	9	25	1.57
31045300--31045397	51	1.9	50	83	2	124	24	32	7	35	1.83
31051407--31051446	20	2.1	20	86	9	57	35	2	0	62	1.09
31055410--31055508	25	4.0	25	91	0	162	37	18	26	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31055410--31055521	25	4.5	25	85	6	147	37	16	25	19	1.93
31055486--31055532	25	1.9	25	82	4	60	36	17	23	23	1.95
31056028--31056053	8	3.2	8	100	0	52	34	23	0	42	1.54
31056685--31056721	15	2.5	15	100	0	74	24	5	0	70	1.08
31061890--31062005	28	3.3	36	69	23	95	6	27	9	56	1.54
31064195--31064221	8	3.4	8	100	0	54	33	14	25	25	1.95
31064885--31064926	15	2.7	16	82	14	52	45	0	2	52	1.13
31064876--31064917	15	2.9	15	82	10	52	47	0	0	52	1.00
31064860--31065185	166	2.0	162	92	5	554	46	4	3	45	1.40
31065042--31065096	24	2.2	26	81	12	71	45	0	1	52	1.11
31065218--31065327	45	2.6	43	79	11	120	31	28	5	34	1.80
31065633--31065666	14	2.3	15	90	5	52	38	23	35	2	1.70
31066171--31066204	16	2.2	16	89	5	52	32	0	0	67	0.91
31068729--31068849	34	3.5	35	79	6	122	45	9	22	22	1.81
31068696--31068849	71	2.2	69	83	10	190	46	9	21	22	1.80
31068754--31068851	34	2.9	33	81	4	124	42	10	24	22	1.84
31070796--31070830	2	17.5	2	100	0	70	48	0	0	51	1.00
31071491--31071559	29	2.3	29	82	5	84	20	40	0	39	1.52
31071712--31071804	40	2.3	40	100	0	186	23	48	2	25	1.62
31073157--31073196	14	2.9	14	84	0	53	32	7	17	42	1.77
31073180--31073219	20	2.0	20	90	0	62	27	10	12	50	1.72
31073165--31073231	34	1.9	35	90	3	109	31	8	13	46	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31073159--31073235	14	5.0	15	71	20	52	32	9	15	42	1.78
31073879--31073918	17	2.3	17	95	4	71	15	20	5	60	1.53
31074577--31074645	35	1.9	36	94	2	122	52	17	4	26	1.63
31077107--31077132	10	2.6	10	100	0	52	57	23	0	19	1.40
31079596--31079717	5	24.4	5	96	0	163	46	0	0	52	1.06
31079909--31079956	22	2.2	22	81	7	53	68	6	22	2	1.23
31079933--31079990	30	2.0	29	82	3	71	62	1	32	3	1.22
31084477--31084663	51	3.7	50	79	4	223	30	27	17	24	1.97
31084475--31084659	101	1.8	101	89	3	291	30	27	17	24	1.97
31089326--31089400	23	3.3	23	86	0	105	34	25	18	21	1.96

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226