genome.fa.s2.2.7.7.80.10.50.1000.104.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  104  of  206  ( 24623 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)
30649338--30649362	13	1.9	13	100	0	50	16	0	16	68	1.22
30652151--30652245	25	3.8	25	75	5	93	25	18	24	31	1.98
30659789--30659903	49	2.3	49	82	5	126	23	22	33	20	1.98
30660250--30660304	26	2.1	26	83	12	69	25	16	29	29	1.97
30683521--30683628	53	2.0	53	90	0	171	24	26	33	15	1.95
30687188--30687446	27	9.6	27	84	0	266	20	19	19	40	1.92
30687189--30687455	81	3.3	81	79	5	297	21	18	19	40	1.91
30688076--30688108	14	2.4	14	94	0	57	15	42	0	42	1.46
30695913--30695990	36	2.2	36	92	0	129	52	8	3	34	1.51
30703149--30703290	25	5.7	25	74	9	119	29	17	22	30	1.97
30703151--30703290	50	2.8	50	85	4	192	29	17	22	30	1.97
30731072--30731101	11	2.6	11	94	5	51	40	10	16	33	1.82
30732203--30732446	50	4.9	49	82	1	245	27	20	29	22	1.99
30732203--30732446	100	2.4	101	82	2	287	27	20	29	22	1.99
30735887--30735916	11	2.6	11	94	5	51	40	10	16	33	1.82
30738424--30739310	456	1.9	456	88	1	1314	35	17	18	28	1.93
30748613--30748688	37	2.1	37	100	0	152	23	27	21	27	1.99
30750360--30750530	84	2.0	87	82	4	213	37	21	8	32	1.83
30750866--30750943	9	8.4	9	75	10	61	25	1	1	71	1.01
30750876--30750969	28	3.4	28	78	11	95	29	2	1	67	1.10
30750883--30750969	27	3.1	28	73	11	79	29	2	1	66	1.11
30750914--30750952	17	2.3	18	82	13	55	23	5	0	71	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30750875--30750987	54	2.1	56	80	6	124	30	1	1	65	1.13
30751012--30751041	9	3.2	9	90	9	51	23	0	0	76	0.78
30751054--30751365	95	3.5	88	78	7	313	30	9	21	37	1.86
30751160--30751365	88	2.3	88	86	4	283	31	10	22	35	1.88
30754507--30754595	38	2.3	38	90	0	133	17	17	28	35	1.94
30771768--30772615	449	1.9	448	95	0	1527	33	15	16	34	1.91
30778003--30778034	16	2.0	16	93	0	55	25	15	0	59	1.36
30780892--30780973	42	2.0	42	82	4	103	30	23	14	31	1.94
30780933--30781025	47	2.0	47	84	2	123	32	27	16	23	1.96
30783761--30783792	16	2.0	16	93	0	55	25	15	0	59	1.36
30784089--30784331	43	5.7	43	79	4	224	30	29	17	22	1.96
30785520--30785546	5	5.4	5	100	0	54	81	0	0	18	0.69
30786112--30786138	14	1.9	14	100	0	54	51	0	7	40	1.30
30788678--30788735	27	2.1	27	87	6	82	43	17	1	37	1.59
30788988--30789029	21	2.0	21	86	9	59	33	47	0	19	1.49
30789142--30789179	14	2.7	14	88	8	51	34	42	0	23	1.55
30789055--30789298	132	1.8	132	87	1	364	41	27	1	29	1.64
30789254--30789318	14	4.6	14	76	12	62	35	36	0	27	1.57
30789324--30789356	14	2.3	15	94	5	59	36	33	0	30	1.58
30789847--30789928	26	3.2	26	62	19	64	34	26	13	25	1.93
30790161--30790191	16	1.9	16	93	0	53	38	9	6	45	1.63
30792967--30792999	15	2.2	15	94	0	57	30	21	6	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30795153--30795184	17	1.9	17	93	6	57	0	12	6	81	0.87
30795472--30795920	150	3.1	148	88	5	678	42	4	10	42	1.59
30811950--30811995	23	2.0	23	95	0	83	43	8	15	32	1.77
30813202--30813253	20	2.6	20	93	0	86	50	0	28	21	1.49
30817649--30817711	33	1.9	33	83	6	83	7	26	0	65	1.20
30818799--30818859	20	3.0	20	82	0	77	22	19	19	37	1.94
30831061--30831149	42	2.1	43	95	2	162	50	2	21	25	1.60
30835051--30835098	23	2.1	23	84	3	62	2	20	2	75	1.02
30842472--30842619	27	5.5	27	83	0	154	43	18	16	20	1.88
30842472--30842620	54	2.8	54	81	1	174	43	18	16	20	1.88
30846883--30847061	50	3.6	50	78	5	159	21	27	22	27	1.99
30854374--30854659	27	10.6	27	81	4	301	39	12	21	26	1.89
30863082--30863119	20	1.9	19	89	5	58	39	5	7	47	1.55
30879371--30879555	101	1.8	101	86	5	266	25	14	26	34	1.94
30885951--30886161	104	2.0	104	99	0	413	32	15	15	36	1.89
30886821--30886861	14	2.9	14	88	3	64	58	0	0	41	0.98
30894012--30894070	30	2.0	30	86	6	84	49	10	6	33	1.63
30900208--30900306	23	4.3	23	85	0	126	30	25	20	24	1.99
30900208--30900305	46	2.1	46	88	0	142	30	25	20	23	1.98
30905769--30905965	50	3.8	51	81	5	191	26	19	30	23	1.98
30906216--30906254	20	2.0	20	90	10	62	56	5	23	15	1.59
30915614--30915668	19	3.0	19	81	5	51	45	3	0	50	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30915887--30915947	24	2.5	23	80	15	61	49	4	0	45	1.23
30915895--30915974	35	2.3	35	85	8	103	50	5	0	45	1.23
30916382--30916420	20	2.0	20	90	10	62	56	5	23	15	1.59
30922499--30922538	21	2.0	21	95	5	73	25	12	2	60	1.45
30936248--30936293	22	2.1	22	100	0	92	13	23	13	50	1.76
30937830--30938140	135	2.3	135	82	3	358	47	15	16	20	1.83
30937835--30938139	45	6.8	45	82	6	305	46	16	16	20	1.83
30938523--30938664	73	1.9	74	88	1	214	33	4	18	43	1.69
30938531--30938682	73	2.1	73	83	2	189	34	3	19	42	1.70
30945162--30945228	25	2.7	25	81	2	82	37	16	25	20	1.93
30951667--30951722	21	2.6	22	80	8	53	17	1	10	69	1.26
30957423--30957495	5	14.4	5	82	13	87	21	20	16	41	1.90
30964454--30964588	40	3.4	40	87	0	189	28	13	25	31	1.94
30967146--30967185	20	2.0	21	85	5	55	42	0	7	50	1.30
30969096--30969172	9	9.0	9	74	16	58	67	2	1	28	1.12
30969128--30969175	9	5.6	8	85	9	60	68	2	0	29	1.01
30974005--30974112	17	6.4	17	69	0	81	46	17	8	27	1.77
30974005--30974111	51	2.1	51	87	0	151	46	16	8	28	1.76
30980931--30980957	14	1.9	14	100	0	54	29	14	22	33	1.94
30984472--30984510	21	1.9	19	85	10	51	48	7	12	30	1.69
30985824--30986120	45	6.7	45	78	9	308	30	19	16	32	1.94
30985888--30986009	38	3.1	38	73	13	118	34	18	13	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30985843--30986009	82	2.0	83	85	1	228	34	19	13	32	1.91
30994496--30994544	18	2.7	18	77	3	53	4	22	6	67	1.30
30994573--30994609	18	2.1	18	90	5	58	5	13	2	78	1.03
30997919--30998023	51	2.1	51	87	0	147	41	17	13	27	1.86
31002702--31002748	19	2.6	18	80	12	60	21	2	6	70	1.20
31003210--31003239	14	2.1	14	93	0	51	53	0	3	43	1.17
31003831--31003900	26	3.0	22	80	19	88	52	0	12	34	1.40
31003835--31003900	27	2.5	26	85	9	80	56	0	13	30	1.38
31003836--31003915	27	3.2	26	76	10	62	55	2	12	30	1.50
31004173--31004216	16	3.0	14	84	12	61	45	2	0	52	1.13
31004181--31004213	16	2.1	16	100	0	66	51	0	0	48	1.00
31019739--31019787	19	2.6	19	96	0	89	32	12	12	42	1.79
31032980--31033016	17	2.2	17	90	0	56	18	18	40	21	1.91
31033741--31033817	11	6.8	11	75	10	57	25	2	6	64	1.30
31045168--31045215	18	2.6	18	80	6	51	47	2	6	43	1.40
31045222--31045269	22	2.3	21	85	7	62	27	4	6	62	1.38
31045819--31045848	14	2.1	14	93	0	51	16	43	0	40	1.48
31046000--31046024	6	4.2	6	100	0	50	16	16	0	68	1.22
31046000--31046130	58	2.3	57	83	12	162	29	17	6	46	1.74
31051791--31052005	29	7.4	29	81	4	202	34	11	27	26	1.90
31051842--31052037	87	2.2	87	82	6	252	35	12	27	24	1.92
31051818--31052031	116	1.8	117	91	1	358	35	11	27	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31051791--31052037	58	4.2	57	73	7	201	35	11	27	25	1.91
31052846--31053089	29	8.4	29	78	7	183	37	12	25	24	1.91
31052874--31053081	87	2.4	86	83	4	254	37	12	24	25	1.91
31068385--31068540	43	3.6	43	82	9	167	30	27	17	25	1.97
31073812--31074146	123	2.7	124	92	0	555	31	16	20	30	1.95
31077254--31077278	10	2.5	10	100	0	50	48	0	8	44	1.32
31077262--31077628	55	6.3	56	74	17	309	45	5	10	38	1.62
31077317--31077343	10	2.7	10	100	0	54	51	0	7	40	1.30
31077365--31077399	18	1.9	18	94	0	61	51	2	8	37	1.47
31077254--31077399	66	2.2	64	86	8	197	45	6	8	39	1.60

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