genome.fa.s7.2.7.7.80.10.50.1000.30.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  30  of  204  ( 24458 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)
11001148--11001356	10	21.6	10	65	19	52	58	6	0	34	1.30
11005200--11005279	32	2.5	30	79	15	81	32	11	13	42	1.80
11005279--11005433	42	3.5	43	79	10	143	29	18	23	29	1.97
11014020--11014049	6	5.0	6	100	0	60	33	0	16	50	1.46
11016788--11016820	3	11.0	3	93	0	57	33	0	3	63	1.10
11027271--11027330	6	10.0	6	81	0	66	11	68	1	18	1.28
11035348--11035379	6	5.3	6	100	0	64	18	46	34	0	1.49
11035339--11035378	18	2.2	18	86	0	53	22	47	27	2	1.64
11035348--11035389	18	2.3	18	87	0	57	21	45	30	2	1.65
11039201--11039260	28	2.1	28	84	6	77	48	0	6	45	1.29
11041691--11041716	5	5.2	5	100	0	52	23	19	19	38	1.93
11042007--11042038	16	1.9	17	93	6	57	6	6	34	53	1.51
11042212--11042261	12	4.1	12	78	2	55	16	22	2	60	1.46
11042212--11042260	18	2.7	18	87	3	62	16	22	2	59	1.47
11043858--11044025	23	7.3	23	97	0	318	30	29	21	19	1.97
11044251--11044289	18	2.2	17	86	13	53	46	20	0	33	1.51
11046937--11047060	54	2.3	54	78	2	133	25	23	27	24	2.00
11052136--11052251	61	2.0	60	86	8	166	50	5	3	41	1.42
11052293--11052336	18	2.6	17	78	7	54	45	0	4	50	1.22
11053520--11053917	109	3.7	108	84	5	520	32	20	18	28	1.96
11053520--11053917	216	1.8	216	90	2	638	32	20	18	28	1.96
11054530--11054594	22	2.9	22	75	9	60	75	4	4	15	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11056723--11056752	4	7.5	4	92	0	51	23	3	0	73	0.98
11061212--11061270	20	2.8	20	78	14	66	44	1	6	47	1.39
11061212--11061273	22	2.9	22	76	13	67	43	1	6	48	1.38
11069062--11069153	27	3.4	27	90	0	148	25	9	25	40	1.86
11069062--11069153	9	10.2	9	85	4	123	25	9	25	40	1.86
11090843--11090875	11	2.8	12	90	9	59	66	0	0	33	0.92
11091510--11091537	2	14.0	2	100	0	56	50	0	0	50	1.00
11093430--11093478	23	2.1	23	100	0	98	40	12	12	34	1.80
11096923--11096963	19	2.0	21	86	9	59	12	26	17	43	1.84
11097845--11098066	123	1.8	123	85	3	315	41	13	18	27	1.87
11100110--11100472	126	2.9	126	89	3	541	39	15	17	28	1.90
11103350--11103380	9	3.6	9	91	8	55	64	0	0	35	0.94
11103401--11103457	25	2.3	24	77	11	62	52	5	1	40	1.34
11103405--11103596	93	2.1	92	90	4	300	57	4	3	34	1.35
11105526--11105576	24	2.1	24	82	7	59	66	3	3	25	1.26
11105738--11105777	11	3.6	11	86	6	55	52	0	25	22	1.47
11111230--11111258	5	6.0	5	92	8	51	20	0	58	20	1.39
11114033--11114060	7	4.0	7	100	0	56	85	0	0	14	0.59
11114203--11114233	5	6.2	5	100	0	62	80	0	19	0	0.71
11115978--11116012	3	11.7	3	100	0	70	68	0	0	31	0.90
11120347--11120408	19	3.4	18	78	14	65	46	0	27	25	1.53
11121360--11121422	21	3.2	21	62	25	55	38	6	11	44	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11121358--11121441	38	2.2	38	97	0	159	36	5	9	47	1.61
11124222--11124289	16	4.2	16	86	0	91	41	2	30	25	1.70
11124220--11124282	32	2.0	32	93	0	108	42	1	30	25	1.64
11124271--11124363	44	2.1	46	91	4	154	29	4	31	35	1.77
11124635--11124732	49	2.0	49	88	4	144	48	11	7	32	1.66
11128319--11128374	28	2.0	28	96	0	103	23	3	41	32	1.71
11134782--11134827	6	7.8	6	87	4	67	30	0	0	69	0.89
11135034--11135066	16	2.1	16	94	0	57	39	6	33	21	1.78
11135279--11135315	15	2.6	15	87	8	51	51	0	0	48	1.00
11135279--11135501	120	1.9	120	95	0	401	49	5	2	42	1.39
11135410--11135444	18	2.0	17	88	5	52	54	0	0	45	0.99
11135436--11135465	16	1.9	15	93	6	51	50	10	0	40	1.36
11135308--11135491	60	3.1	59	64	17	144	48	7	2	41	1.42
11135550--11135603	15	3.9	15	72	16	53	51	1	0	46	1.11
11135494--11135767	91	3.1	87	86	8	374	47	4	3	45	1.39
11135527--11135767	91	2.7	87	89	5	385	46	3	4	46	1.38
11135733--11135771	17	2.5	15	84	12	51	58	0	0	41	0.98
11135919--11135957	19	2.1	19	100	0	78	30	5	10	53	1.56
11138311--11138377	30	2.2	30	100	0	134	56	19	14	8	1.64
11142728--11142785	3	19.3	3	92	0	98	62	0	37	0	0.96
11155529--11155639	19	5.8	19	86	0	168	40	9	13	36	1.76
11155536--11155639	38	2.7	38	96	0	190	41	8	12	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11155529--11155665	19	6.9	21	84	4	105	39	8	14	37	1.76
11156282--11156325	23	1.9	23	86	9	63	29	2	4	63	1.26
11158865--11158904	20	2.0	20	85	0	53	45	5	2	47	1.38
11163305--11163462	27	5.9	26	76	6	129	34	24	21	19	1.96
11163296--11163441	54	2.7	54	82	1	168	35	26	21	17	1.95
11163336--11163456	54	2.2	54	82	0	143	36	23	21	19	1.95
11175474--11175778	114	2.7	113	84	5	384	27	23	24	24	2.00
11176050--11176080	15	2.1	15	93	0	53	19	0	45	35	1.51
11176318--11176348	15	2.1	15	93	0	53	19	0	45	35	1.51
11176623--11176915	147	2.0	147	93	1	507	41	12	17	27	1.85
11179320--11179622	23	13.3	23	73	15	200	28	7	24	39	1.82
11179375--11179523	45	3.3	45	72	5	165	28	4	23	43	1.74
11179329--11179562	91	2.6	91	95	2	418	29	5	24	40	1.79
11180533--11180719	43	4.4	43	89	2	252	23	18	32	25	1.97
11180513--11180719	85	2.4	86	83	4	267	22	17	32	27	1.97
11183197--11183239	13	3.3	13	83	6	52	0	20	4	74	1.00
11183909--11183943	3	11.7	3	100	0	70	0	31	0	68	0.90
11183910--11183955	12	3.8	12	91	0	56	0	32	4	63	1.14
11201049--11201087	14	2.9	14	82	17	55	25	0	20	53	1.45
11213257--11213297	20	1.9	23	85	14	61	17	0	12	70	1.16
11217791--11217831	11	3.7	11	83	0	55	73	2	2	21	1.07
11219815--11219875	17	3.7	16	80	4	59	29	1	0	68	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11219817--11219855	16	2.4	17	86	4	53	33	0	0	66	0.92
11228810--11228998	50	3.7	50	84	4	225	26	20	29	23	1.99
11228812--11228998	100	1.8	103	83	6	254	26	20	29	23	1.99
11229248--11229286	12	3.2	12	85	0	51	51	5	23	20	1.67
11230226--11230275	19	2.7	19	84	9	59	38	0	0	62	0.96
11231649--11231711	31	2.0	31	96	0	117	38	14	19	28	1.90
11234226--11234277	15	3.5	15	77	17	54	73	1	21	3	1.10
11234253--11234316	18	3.6	17	77	10	58	70	7	20	1	1.21
11235179--11235314	40	3.5	39	77	10	152	25	16	25	33	1.96
11241540--11241570	2	15.5	2	100	0	62	48	0	0	51	1.00
11243984--11244008	6	4.2	6	100	0	50	68	0	0	32	0.90
11244056--11244114	29	2.0	30	93	3	102	52	15	3	28	1.58
11244060--11244135	29	2.5	29	85	6	89	47	15	5	31	1.68
11245361--11245394	10	3.3	10	92	8	59	52	0	0	47	1.00
11245361--11245393	11	3.1	11	95	4	59	54	0	0	45	0.99
11260090--11260129	14	2.8	14	88	11	55	40	0	5	55	1.22
11266150--11266207	21	2.8	22	79	10	68	63	1	0	34	1.04
11267027--11267079	20	2.7	21	75	18	51	22	7	7	62	1.47
11273768--11273806	2	20.5	2	84	10	55	53	0	0	46	1.00
11274897--11274948	21	2.4	22	83	6	61	65	3	0	30	1.10
11278787--11278887	30	3.3	31	78	10	102	40	5	1	51	1.38
11284931--11284974	21	2.1	21	91	0	70	29	20	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11292275--11292323	24	2.0	24	92	0	80	30	24	12	32	1.92
11301482--11301531	22	2.3	22	82	6	57	30	6	4	60	1.39
11301663--11301703	2	20.5	2	100	0	82	51	0	0	48	1.00
11306760--11306804	19	2.3	19	88	3	72	82	0	8	8	0.85
11308000--11308222	44	5.1	43	65	11	132	27	30	23	18	1.98
11307995--11308462	88	5.3	88	87	2	602	27	26	24	21	1.99
11308572--11308822	43	5.8	43	71	5	191	27	23	24	24	2.00
11308524--11308867	87	4.0	87	90	0	528	28	22	24	24	1.99
11308530--11308857	44	7.5	44	71	4	252	28	21	24	25	1.99
11310257--11310507	43	5.8	43	72	5	191	28	21	24	24	1.99

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