genome.fa.s7.2.7.7.80.10.50.1000.187.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  187  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)
55064831--55064905	37	2.0	37	94	0	132	48	0	20	32	1.50
55066995--55067035	13	2.9	14	82	10	57	36	41	7	14	1.74
55067939--55067981	22	2.0	22	85	0	59	13	4	6	74	1.19
55074164--55074305	44	3.2	43	91	4	212	26	18	26	28	1.98
55074414--55074497	44	1.9	43	80	7	98	35	22	15	26	1.94
55083130--55083157	2	14.0	2	100	0	56	50	0	0	50	1.00
55084592--55084675	30	2.9	27	75	19	71	72	2	4	20	1.14
55084611--55084661	8	6.6	8	74	17	54	72	1	1	23	1.05
55084604--55084675	28	2.5	28	79	16	76	75	2	2	19	1.06
55084774--55084921	3	48.7	3	71	10	95	62	3	6	27	1.34
55084882--55084929	15	3.2	15	84	0	60	66	4	4	25	1.27
55087729--55087793	10	6.6	10	76	3	60	60	1	3	35	1.22
55087935--55087978	17	2.4	18	88	7	63	34	2	2	61	1.21
55094580--55094605	9	2.9	9	100	0	52	65	11	0	23	1.25
55104850--55105031	41	4.4	41	95	0	310	27	21	29	21	1.99
55106422--55106541	59	2.0	59	91	0	195	40	21	9	28	1.84
55107721--55107779	9	6.3	9	81	14	59	69	3	0	27	1.04
55108019--55108061	13	3.2	13	84	12	52	34	2	4	58	1.32
55112393--55112419	12	2.2	12	100	0	54	51	14	7	25	1.68
55119138--55119168	16	1.9	16	93	0	53	48	6	3	41	1.45
55124410--55124451	22	1.9	22	90	0	66	30	4	11	52	1.59
55134343--55134384	14	3.0	14	82	0	57	47	14	2	35	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55137393--55137437	23	2.0	23	83	12	58	20	11	8	60	1.57
55139762--55139836	37	2.0	37	92	0	123	53	12	16	18	1.73
55147574--55147606	17	1.9	17	93	0	57	69	27	3	0	1.03
55154949--55155021	26	3.0	24	78	11	76	30	10	0	58	1.32
55161207--55161389	86	2.1	87	87	1	260	28	19	23	28	1.98
55161348--55162411	134	8.0	134	92	1	1728	27	19	22	29	1.98
55162412--55162532	40	2.8	44	81	12	153	33	23	20	22	1.97
55162500--55163052	130	4.3	130	91	0	910	28	19	25	26	1.99
55162622--55162802	44	4.2	44	65	8	109	30	17	24	26	1.97
55169182--55169238	29	1.9	29	85	3	78	64	0	5	29	1.15
55174525--55174580	24	2.5	22	80	8	67	25	0	19	55	1.43
55176420--55176462	21	2.0	21	95	0	77	4	16	51	27	1.64
55179994--55180020	2	13.5	2	100	0	54	48	0	0	51	1.00
55180614--55180712	49	2.0	49	88	0	144	31	27	14	27	1.95
55181483--55181943	104	4.4	104	94	1	800	30	29	20	18	1.97
55181483--55181943	207	2.2	208	94	1	800	30	29	20	18	1.97
55182282--55182319	18	2.1	19	85	5	51	21	28	5	44	1.73
55184786--55184818	17	2.1	16	88	11	50	60	0	3	36	1.12
55186111--55186175	3	21.7	3	100	0	130	32	0	0	67	0.91
55191306--55191378	36	2.0	36	100	0	146	24	28	24	21	1.99
55208192--55208292	45	2.2	45	91	3	159	43	19	15	20	1.88
55209772--55209804	18	1.9	17	88	11	50	36	15	0	48	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55210418--55210459	21	2.0	21	85	0	57	45	9	7	38	1.64
55210915--55210954	19	2.2	18	86	8	55	50	2	0	47	1.14
55212204--55212260	24	2.4	24	84	0	69	26	5	24	43	1.75
55212909--55212957	9	5.6	8	80	17	53	65	0	0	34	0.93
55212906--55212955	19	2.7	19	85	14	61	66	0	0	34	0.92
55212874--55212958	27	3.3	27	73	12	81	62	0	2	35	1.08
55229063--55229120	22	2.7	21	76	10	53	41	18	5	34	1.73
55229076--55229154	21	3.8	20	78	16	81	37	17	10	34	1.84
55231341--55231367	4	6.8	4	100	0	54	25	0	22	51	1.48
55242465--55242495	5	6.2	5	100	0	62	41	19	19	19	1.90
55243509--55243545	9	4.1	9	85	0	56	29	8	13	48	1.71
55243601--55243631	9	3.4	9	90	0	53	38	22	12	25	1.90
55255966--55255993	13	2.2	13	100	0	56	67	0	0	32	0.91
55256301--55256356	21	2.7	20	83	10	69	39	1	3	55	1.28
55258013--55258065	27	2.0	25	82	7	61	54	0	9	35	1.33
55260274--55260336	29	2.1	30	88	2	92	69	1	14	14	1.26
55260328--55260352	13	1.9	13	100	0	50	80	0	0	20	0.72
55276402--55276439	20	2.0	20	84	5	51	15	13	2	68	1.32
55277484--55277542	21	2.8	21	89	0	91	28	10	35	25	1.89
55279741--55279788	5	9.6	5	77	8	53	25	33	2	39	1.67
55279741--55279788	15	3.2	15	82	11	62	25	33	2	39	1.67
55280691--55281133	51	8.8	50	76	4	356	29	25	15	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55280685--55281133	102	4.4	102	83	4	473	29	25	15	29	1.96
55283758--55283782	6	4.2	6	100	0	50	16	48	0	36	1.46
55286301--55286360	26	2.3	26	82	2	75	66	0	16	16	1.25
55286797--55286844	20	2.4	21	80	13	57	62	2	2	33	1.18
55286804--55286861	20	3.0	18	80	12	62	56	3	0	39	1.16
55288745--55288810	13	5.1	13	83	7	89	39	27	4	28	1.76
55292757--55292782	3	8.7	3	100	0	52	69	0	0	30	0.89
55296038--55296128	23	4.1	23	68	11	82	46	6	25	21	1.76
55296058--55296141	42	2.0	42	92	0	141	46	9	20	23	1.80
55305146--55305229	42	2.0	42	95	0	150	45	9	21	23	1.81
55305126--55305216	23	4.1	23	69	11	82	43	6	27	21	1.77
55308193--55308231	20	2.0	20	89	0	60	15	15	0	69	1.20
55317761--55317799	20	2.0	20	89	0	60	46	38	2	12	1.56
55318162--55318207	13	3.7	13	81	16	53	17	10	2	69	1.27
55318877--55318907	3	10.3	3	100	0	62	32	0	0	67	0.91
55319099--55319145	23	2.0	23	87	0	67	29	4	8	57	1.48
55319128--55319232	2	54.0	2	73	16	78	44	4	0	49	1.29
55328042--55328105	29	2.1	29	82	5	74	54	12	10	21	1.68
55332678--55332716	12	3.2	13	89	10	64	64	12	0	23	1.28
55332790--55332822	13	2.5	13	95	0	57	48	30	0	21	1.50
55337793--55337842	25	2.0	26	84	4	66	36	2	4	58	1.29
55341989--55342043	26	2.1	27	86	3	76	36	3	3	56	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55342046--55342091	17	2.6	17	80	19	58	34	2	0	63	1.07
55342039--55342095	27	2.1	27	81	15	66	31	1	0	66	1.02
55344935--55345005	21	3.3	21	70	3	70	29	1	12	56	1.45
55344918--55345025	43	2.5	42	91	4	171	29	1	9	59	1.39
55345377--55345416	2	20.0	2	100	0	80	50	0	0	50	1.00
55347081--55347119	19	2.0	20	95	5	71	41	0	0	58	0.98
55347112--55347173	30	2.2	27	80	11	70	58	1	3	37	1.24
55350568--55350611	3	14.7	3	90	9	72	31	0	0	68	0.90
55357378--55357425	22	2.2	21	85	3	60	52	2	0	45	1.12
55364208--55364247	18	2.2	19	86	13	57	70	0	0	30	0.88
55364819--55364876	23	2.5	24	81	16	68	22	13	10	53	1.70
55364859--55364910	13	4.0	13	78	7	61	25	17	9	48	1.77
55375675--55375726	17	2.9	18	75	16	54	1	11	13	73	1.19
55378367--55378396	14	2.1	14	93	0	51	20	0	0	80	0.72
55378828--55378870	5	7.5	6	92	7	56	16	0	0	83	0.64
55389523--55389575	22	2.5	22	78	9	65	13	9	3	73	1.21
55390616--55390661	6	7.7	6	100	0	92	34	0	0	65	0.93
55400389--55400530	76	1.9	75	88	1	212	37	7	12	42	1.70
55402021--55402049	4	7.2	4	100	0	58	27	0	24	48	1.51
55415513--55415547	14	2.4	15	95	4	63	25	0	0	74	0.82
55434554--55434603	22	2.3	22	100	0	100	0	36	4	60	1.16
55434669--55434771	27	3.8	27	90	2	154	21	36	22	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55436089--55436136	19	2.5	20	86	6	71	18	22	25	33	1.97
55436703--55436765	29	2.2	28	83	5	83	41	19	15	23	1.90
55440379--55440411	15	2.1	16	94	5	59	24	0	0	75	0.80
55443127--55443162	18	2.1	18	90	10	58	36	0	2	61	1.11
55448581--55448608	3	9.3	3	100	0	56	35	64	0	0	0.94
55451232--55451275	19	2.3	19	80	7	54	25	2	4	68	1.20
55456698--55456743	22	2.1	22	87	0	65	54	4	0	41	1.20
55459824--55459882	31	1.9	31	86	6	84	44	8	11	35	1.72
55465138--55465194	26	2.2	26	84	6	71	40	0	10	49	1.37
55465176--55465205	15	2.0	15	93	0	51	50	0	6	43	1.28

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