genome.fa.s13.2.7.7.80.10.50.1000.61.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  61  of  199  ( 23770 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)
18288969--18289221	44	5.9	42	73	8	161	26	17	24	31	1.97
18288971--18289204	129	1.8	127	80	5	283	25	18	23	32	1.97
18296141--18296170	16	1.9	16	93	6	53	30	0	20	50	1.49
18308182--18308206	9	2.8	9	100	0	50	60	0	0	40	0.97
18311938--18311979	21	2.0	21	95	0	75	40	14	11	33	1.82
18315565--18315626	31	2.0	31	87	12	92	33	6	22	37	1.80
18323864--18323943	25	3.3	25	70	16	60	20	25	21	33	1.97
18323875--18324021	72	2.0	72	80	7	165	22	25	19	32	1.97
18325819--18325853	10	3.5	10	92	0	61	25	0	22	51	1.48
18331030--18331106	24	3.2	25	80	12	74	33	2	6	57	1.38
18333263--18333321	23	2.6	22	78	19	68	77	0	16	5	0.93
18333280--18333323	11	3.9	11	85	5	61	81	0	15	2	0.78
18334282--18334406	48	2.7	46	80	7	130	38	20	24	17	1.93
18335259--18335314	24	2.3	24	96	0	103	30	14	26	28	1.95
18335592--18336389	44	17.9	45	69	11	263	30	19	22	27	1.98
18335640--18336251	44	13.7	43	71	12	283	30	19	21	27	1.98
18335729--18335979	136	1.8	139	81	7	316	31	19	19	29	1.96
18335728--18336289	223	2.5	224	84	4	688	30	19	21	29	1.97
18337777--18337801	11	2.3	11	100	0	50	40	0	0	60	0.97
18337911--18338019	24	4.4	23	70	25	80	28	6	3	61	1.38
18337913--18337995	27	3.2	25	73	11	78	26	6	4	62	1.39
18340540--18340574	10	3.5	10	84	0	52	28	0	20	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18342753--18342782	15	2.0	15	100	0	60	13	6	6	73	1.24
18342748--18342782	15	2.4	14	86	9	52	17	5	5	71	1.25
18344460--18344561	29	3.5	29	90	0	159	42	11	25	20	1.86
18344436--18344565	29	4.5	30	84	2	124	40	13	25	20	1.89
18344436--18344587	58	2.6	58	78	5	171	42	13	23	20	1.87
18352045--18352263	30	7.4	29	74	10	156	36	13	26	24	1.92
18352017--18352280	90	3.0	90	80	7	299	37	14	23	24	1.92
18354818--18354930	37	3.1	36	71	20	92	42	3	0	53	1.24
18356166--18356582	212	2.0	212	95	0	744	25	11	15	47	1.79
18357303--18357357	22	2.7	20	73	26	53	52	0	3	43	1.18
18357623--18357701	30	2.6	31	81	15	85	43	1	6	49	1.36
18357875--18357954	29	2.6	31	78	11	85	52	15	2	30	1.55
18360448--18360487	18	2.2	19	90	4	64	12	35	0	52	1.39
18360457--18360487	15	2.1	15	93	0	53	12	35	0	51	1.40
18363264--18363320	27	2.1	27	93	0	96	52	19	17	10	1.73
18363377--18363409	15	2.2	15	100	0	66	45	18	0	36	1.49
18367557--18367667	43	2.7	41	84	2	132	26	27	21	24	1.99
18373710--18373912	9	23.0	9	72	9	125	34	0	17	46	1.52
18373710--18373860	45	3.5	40	92	3	158	34	0	18	46	1.54
18373710--18373914	97	2.2	92	88	7	301	35	0	17	46	1.52
18373734--18373912	54	3.6	52	82	12	223	34	0	17	47	1.52
18373966--18373992	13	2.1	13	100	0	54	37	11	0	51	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18375257--18375286	12	2.5	12	94	0	51	20	43	0	36	1.52
18377615--18377676	17	3.3	18	73	22	56	62	6	1	29	1.29
18377696--18377746	3	16.7	3	91	4	84	66	0	1	31	1.03
18379224--18379646	44	9.7	44	72	9	248	26	22	20	30	1.98
18379219--18379692	217	2.2	219	88	2	713	26	22	20	30	1.98
18379309--18379690	44	8.7	43	70	17	173	27	22	19	30	1.98
18379713--18380319	44	13.8	43	71	11	292	29	24	15	30	1.96
18379713--18380319	89	6.9	87	76	7	345	29	24	15	30	1.96
18380020--18380097	37	2.1	38	85	2	104	30	25	15	28	1.96
18379742--18380249	215	2.3	214	82	6	527	29	24	15	30	1.95
18383322--18383361	16	2.7	14	88	7	53	42	2	5	50	1.37
18389165--18389199	17	2.0	17	88	5	52	65	5	2	25	1.28
18389236--18389295	3	20.0	3	100	0	120	66	0	0	33	0.92
18391106--18391675	114	5.0	113	80	7	516	25	20	25	27	1.99
18391909--18391965	7	7.1	8	81	18	66	15	0	50	33	1.44
18391910--18391965	26	2.4	22	85	14	76	16	0	50	33	1.45
18391929--18391965	15	2.4	16	90	4	58	16	0	48	35	1.46
18394563--18394646	31	2.7	31	92	1	134	19	15	22	42	1.88
18395449--18395482	12	2.8	13	86	13	54	50	0	0	50	1.00
18395588--18395636	26	1.9	25	87	4	71	53	6	0	40	1.26
18395652--18395933	9	32.4	9	75	12	259	45	20	1	32	1.58
18395653--18395929	34	8.0	34	76	13	228	46	20	1	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18395662--18395711	25	2.0	25	92	0	82	50	22	0	28	1.49
18395652--18395933	43	6.5	43	76	11	263	45	20	1	32	1.58
18395751--18395868	62	1.9	61	89	6	184	46	20	0	32	1.57
18397870--18397927	21	2.8	21	86	5	73	36	17	41	5	1.72
18398229--18398355	42	3.0	42	94	0	218	33	22	22	21	1.98
18398452--18398495	22	2.0	22	90	0	70	45	27	18	9	1.79
18398793--18398817	8	3.1	8	100	0	50	48	0	40	12	1.40
18399700--18400061	125	2.9	125	90	1	566	32	17	16	33	1.92
18402462--18402506	22	2.0	22	86	4	63	35	17	8	37	1.81
18402485--18402521	19	1.9	19	100	0	74	35	16	10	37	1.83
18402488--18402529	19	2.3	19	88	8	61	38	11	14	35	1.83
18403086--18403343	89	2.9	88	83	2	318	28	22	20	28	1.99
18403440--18403786	44	7.8	42	69	18	134	28	19	19	32	1.96
18403404--18403601	87	2.3	85	81	10	208	29	19	19	31	1.96
18403446--18403558	44	2.6	43	85	1	145	30	20	20	29	1.97
18403627--18403733	42	2.5	42	81	6	106	28	25	16	29	1.97
18403670--18403784	44	2.7	44	84	2	144	30	20	18	30	1.96
18403440--18403924	225	2.2	224	81	3	573	28	19	18	32	1.96
18403662--18403787	42	3.0	42	83	3	153	28	20	17	33	1.95
18403935--18404388	44	10.2	44	76	7	296	28	22	18	31	1.97
18403935--18404367	45	9.8	44	75	7	254	27	22	17	31	1.97
18403958--18404385	177	2.4	177	87	5	605	28	22	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18404665--18404720	24	2.3	24	87	0	85	32	25	10	32	1.90
18411474--18411631	79	2.0	79	96	0	289	40	13	20	25	1.89
18411727--18411784	22	2.7	21	76	10	53	43	17	3	36	1.66
18412696--18412746	22	2.3	22	100	0	102	27	33	0	39	1.57
18412718--18412830	51	2.2	51	95	0	199	27	30	0	41	1.56
18412845--18412896	10	5.1	10	83	4	68	28	0	0	71	0.87
18412845--18412890	21	2.2	21	88	3	67	30	0	0	69	0.89
18412832--18412896	31	2.1	31	94	0	112	32	0	1	66	1.01
18415091--18415159	25	2.7	25	86	2	102	46	2	11	39	1.55
18415155--18415359	18	11.8	18	87	7	316	49	22	0	28	1.50
18415198--18415387	83	2.3	83	96	0	344	47	23	0	28	1.52
18415332--18415423	29	3.1	29	93	1	157	44	29	0	26	1.54
18415446--18415480	18	1.9	18	94	0	61	37	11	0	51	1.38
18415502--18415546	10	4.7	10	81	10	58	37	8	2	51	1.46
18415446--18415925	66	7.4	66	91	5	766	37	7	4	50	1.51
18415512--18415546	18	1.9	18	94	0	61	37	8	2	51	1.47
18415530--18415716	38	5.5	37	66	23	140	36	6	4	51	1.48
18415568--18415612	10	4.7	10	81	10	58	37	8	2	51	1.46
18415578--18415612	18	1.9	18	94	0	61	37	8	2	51	1.47
18415634--18415678	10	4.7	10	81	10	58	37	8	2	51	1.46
18415644--18415678	18	1.9	18	94	0	61	37	8	2	51	1.47
18415700--18415727	10	2.8	10	100	0	56	39	7	0	53	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18415720--18415848	56	2.5	49	77	19	138	39	6	5	48	1.53
18415578--18415925	188	1.9	188	95	0	633	37	7	4	50	1.51
18415766--18415800	18	1.9	18	94	0	61	37	8	2	51	1.47
18415822--18415866	10	4.7	10	81	10	58	37	8	2	51	1.46
18415888--18415925	10	4.0	10	86	13	62	39	7	0	52	1.31
18415822--18415924	18	5.5	19	71	13	63	36	6	2	53	1.43
18415588--18415970	188	2.0	189	88	3	576	39	6	4	49	1.50
18421383--18421409	6	4.5	6	100	0	54	55	14	0	29	1.40
18423247--18423375	51	2.5	52	87	6	183	27	14	29	27	1.95
18431185--18431348	43	3.8	42	79	10	190	30	27	18	23	1.98

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