genome.fa.s9.2.7.7.80.10.50.1000.191.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  191  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)
60886680--60886765	28	3.1	28	79	1	93	43	10	19	26	1.84
60889498--60889600	50	2.1	50	88	0	152	31	9	29	30	1.89
60891571--60891633	32	2.0	32	96	3	119	49	12	6	31	1.66
60899977--60900096	28	4.3	28	73	1	89	34	14	25	26	1.94
60903029--60903083	15	3.6	14	76	13	56	63	1	1	32	1.15
60915446--60915552	33	3.2	33	91	0	169	42	31	7	17	1.77
60915407--60915556	66	2.3	66	85	3	194	40	34	7	17	1.77
60917680--60917711	13	2.5	13	94	0	55	21	18	43	15	1.87
60919767--60919804	20	1.9	20	94	0	67	23	23	34	18	1.96
60928383--60928470	43	2.0	43	93	0	149	25	32	28	13	1.94
60943499--60943532	16	2.2	15	89	5	50	44	0	0	55	0.99
60950221--60950462	50	4.7	50	79	4	218	23	28	21	26	1.99
60956122--60956323	27	7.5	27	75	12	164	30	23	16	29	1.96
60956129--60956323	54	3.6	54	77	10	186	31	23	15	29	1.95
60963981--60964017	5	7.6	5	87	6	58	75	2	0	21	0.92
60963981--60964017	15	2.6	14	91	8	65	75	2	0	21	0.92
60969615--60969657	18	2.3	19	84	4	61	69	4	2	23	1.18
60978444--60978484	21	2.0	21	85	0	55	31	9	9	48	1.69
60979220--60979548	164	2.0	165	86	3	466	44	17	13	25	1.84
60989548--60989573	13	2.0	13	100	0	52	23	23	23	30	1.99
60992334--60992383	26	1.9	26	91	4	75	56	0	0	44	0.99
60992504--60992534	16	1.9	16	100	0	62	58	9	6	25	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60992662--60993079	120	3.5	120	94	1	714	42	2	5	49	1.39
60992916--60992962	16	3.0	16	78	12	53	46	0	2	51	1.13
60993036--60993077	15	2.7	16	82	14	52	45	0	2	52	1.13
60993027--60993068	15	2.9	15	82	10	52	47	0	0	52	1.00
60993290--60993342	16	3.3	16	83	0	70	24	30	3	41	1.72
60996117--60996160	20	2.2	20	92	4	72	4	25	6	63	1.38
60997703--60997749	3	15.7	3	100	0	94	68	31	0	0	0.90
60997934--60997977	23	2.0	22	90	4	70	54	2	9	34	1.44
60998656--60998701	22	2.0	23	84	12	60	45	15	0	39	1.46
60998691--60998734	22	2.0	22	100	0	88	31	18	9	40	1.81
61004975--61005020	18	2.6	18	86	3	58	43	0	2	54	1.12
61005254--61005291	16	2.4	16	90	0	58	31	28	0	39	1.57
61007330--61007411	33	2.5	33	100	0	164	26	19	29	24	1.98
61009170--61009215	19	2.3	20	88	3	67	26	8	15	50	1.73
61009542--61009580	4	9.8	4	100	0	78	48	25	0	25	1.51
61017665--61017698	18	1.9	18	88	5	52	52	0	0	47	1.00
61017690--61017719	15	1.9	16	93	6	53	50	6	0	43	1.28
61017759--61017805	16	3.0	16	78	12	53	51	0	2	46	1.13
61017765--61017818	15	3.4	16	80	14	51	53	0	1	44	1.11
61017784--61017818	18	2.0	17	88	5	52	54	0	0	45	0.99
61017810--61017839	15	1.9	16	93	6	53	50	6	0	43	1.28
61017644--61018033	120	3.2	120	97	0	735	50	4	1	44	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61017885--61017938	15	3.4	16	80	19	53	53	0	0	46	1.00
61017904--61017938	18	2.0	17	88	5	52	54	0	0	45	0.99
61017930--61017959	15	1.9	16	93	6	53	50	6	0	43	1.28
61017679--61017999	61	5.3	60	70	17	272	51	4	1	42	1.32
61019500--61019599	49	2.0	49	92	0	164	48	11	9	32	1.70
61019964--61020020	28	2.0	28	100	0	114	24	28	14	33	1.94
61021281--61021352	30	2.4	30	97	0	135	55	15	25	4	1.58
61021623--61021870	19	12.1	20	72	20	74	32	1	12	54	1.45
61021685--61021868	19	8.9	19	73	19	147	33	1	11	53	1.45
61021624--61021849	64	3.6	64	93	4	374	32	1	12	53	1.46
61021764--61021894	45	3.1	45	75	18	170	33	1	12	52	1.48
61021939--61022039	48	2.1	47	85	5	132	47	5	4	41	1.49
61022131--61022183	17	3.1	17	88	0	70	67	9	3	18	1.33
61022457--61022510	15	3.9	15	70	22	55	61	12	12	12	1.58
61022447--61022539	25	3.6	25	86	2	114	59	13	11	15	1.62
61024139--61024186	12	4.2	12	77	17	57	56	20	14	8	1.64
61025199--61025281	38	2.2	37	81	10	98	26	22	26	24	2.00
61026861--61026901	7	5.9	7	88	0	64	29	26	2	41	1.69
61026862--61026912	21	2.5	21	83	3	59	31	29	1	37	1.69
61026904--61026958	21	2.7	20	83	5	74	32	12	1	52	1.50
61029671--61029701	16	1.9	16	93	0	53	35	6	9	48	1.62
61031782--61031848	20	3.3	20	68	4	62	22	28	14	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61031778--61031882	21	5.1	21	68	4	79	22	29	16	31	1.96
61031786--61031885	41	2.4	41	91	0	155	22	31	15	32	1.94
61032771--61032874	42	2.5	42	87	1	147	22	24	32	21	1.98
61039215--61039315	36	2.9	34	71	18	91	24	27	17	29	1.98
61043255--61043548	50	5.9	50	79	2	297	25	15	21	37	1.93
61043368--61043499	25	5.3	25	66	10	81	25	15	20	38	1.92
61048971--61049178	100	2.1	100	84	1	265	23	16	23	36	1.94
61048971--61049175	50	4.1	51	80	3	220	23	16	23	37	1.94
61048988--61049210	100	2.2	100	80	3	225	25	16	22	35	1.94
61055661--61055997	50	6.7	50	78	7	333	29	15	25	29	1.96
61063407--61063750	51	6.8	52	81	5	366	28	15	26	29	1.96
61063407--61063742	102	3.3	101	87	2	444	28	14	26	30	1.95
61066683--61066716	18	1.9	18	88	5	52	20	32	35	11	1.89
61078357--61078390	4	8.5	4	93	0	59	50	0	2	47	1.16
61081141--61081187	12	3.9	12	88	0	76	23	6	31	38	1.80
61082648--61082681	13	2.5	14	90	4	52	38	0	14	47	1.45
61085122--61085213	19	4.8	19	86	0	130	40	8	13	38	1.75
61085122--61085213	38	2.4	38	98	0	175	40	8	13	38	1.75
61085122--61085239	19	5.9	21	83	5	99	38	7	14	38	1.75
61085654--61085728	12	6.3	11	71	15	51	29	6	2	61	1.35
61092098--61092126	6	4.8	6	100	0	58	86	0	13	0	0.58
61093432--61094071	44	14.5	44	76	6	537	27	16	26	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61093466--61094071	132	4.6	132	87	2	785	27	16	26	30	1.96
61093432--61093980	220	2.5	220	85	1	699	27	15	26	30	1.96
61093994--61094097	44	2.3	44	85	1	127	31	18	26	23	1.97
61094175--61094671	132	3.8	132	93	1	836	29	18	23	28	1.98
61095000--61095110	19	5.8	19	89	0	177	39	9	13	37	1.76
61095007--61095110	38	2.7	38	98	0	199	40	8	12	38	1.74
61095548--61095622	12	6.3	11	71	15	51	29	6	2	61	1.35
61097539--61097578	2	20.5	2	94	5	73	52	0	0	47	1.00
61102946--61102978	2	16.5	2	100	0	66	51	0	0	48	1.00
61103734--61103765	2	16.5	2	93	6	57	53	0	0	46	1.00
61105814--61105882	21	3.5	20	75	15	72	43	1	0	55	1.08
61108890--61108952	20	3.0	20	79	4	72	23	15	15	44	1.86
61108848--61109015	42	4.0	42	78	3	131	23	16	17	42	1.89
61108886--61108994	22	5.1	21	74	8	96	23	14	17	44	1.86
61125045--61125363	139	2.3	138	90	1	503	39	10	5	43	1.63
61125429--61125461	17	1.9	17	88	11	50	54	9	0	36	1.32
61127296--61127423	64	2.0	64	93	0	220	26	6	25	41	1.79
61134261--61134535	137	2.0	138	90	2	437	40	8	5	45	1.58
61135140--61135193	22	2.3	24	78	15	60	35	3	5	55	1.41
61137655--61137696	18	2.3	18	80	8	50	28	0	38	33	1.58
61143972--61144001	15	2.0	15	93	0	51	30	0	6	63	1.20
61148909--61148941	17	1.9	17	93	0	57	54	6	0	39	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61150123--61150244	50	2.4	50	77	0	127	31	17	24	26	1.97
61150386--61150474	27	3.1	27	67	17	72	33	16	29	20	1.95
61153488--61153579	46	2.0	46	85	6	125	39	1	13	46	1.50
61153770--61153848	21	3.8	21	66	6	61	16	16	18	48	1.82
61153757--61153947	42	4.6	42	78	7	192	15	20	17	46	1.84
61160217--61160293	40	1.9	40	86	0	109	45	9	10	35	1.70
61160640--61160903	130	2.0	130	79	5	284	27	12	35	23	1.92
61160890--61160953	32	2.0	32	87	0	92	31	15	31	21	1.95
61161429--61161468	16	2.7	14	84	7	53	50	0	5	45	1.23
61167439--61167472	18	1.9	17	88	5	50	50	11	2	35	1.54

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