genome.fa.s13.2.7.7.80.10.50.1000.56.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  56  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)
16458595--16458633	20	1.9	21	85	15	55	17	2	0	79	0.84
16458567--16458638	26	2.6	27	81	14	69	18	2	2	76	1.03
16458573--16458624	17	3.1	16	86	5	68	17	3	1	76	1.02
16460467--16460524	30	1.9	30	89	0	89	18	36	31	13	1.90
16471775--16472024	50	4.9	50	81	5	252	25	20	30	24	1.98
16478653--16478696	16	2.8	16	96	3	81	75	0	6	18	1.02
16485072--16485110	20	2.0	20	85	10	53	35	2	0	61	1.10
16488274--16488327	6	9.0	6	93	0	81	44	0	5	50	1.25
16488274--16488327	8	6.8	8	93	0	81	44	0	5	50	1.25
16488274--16488327	14	3.9	14	95	0	81	44	0	5	50	1.25
16488470--16488524	25	2.2	25	87	3	76	36	1	0	61	1.06
16489397--16489439	21	2.0	21	86	0	59	48	2	0	48	1.14
16489426--16489470	18	2.6	18	89	3	65	46	0	4	48	1.22
16491361--16491510	62	2.4	62	95	0	264	20	22	31	26	1.98
16496317--16496433	47	2.5	47	84	6	141	23	15	16	45	1.85
16496327--16496434	23	4.7	23	77	8	112	22	15	15	46	1.84
16496428--16496453	13	2.0	13	100	0	52	23	7	23	46	1.78
16496441--16496619	70	2.6	70	91	2	281	26	12	19	41	1.86
16496457--16496583	23	5.5	22	76	7	119	25	14	18	40	1.89
16501068--16501296	126	1.8	126	85	0	323	24	16	30	29	1.96
16501069--16501300	63	3.7	63	81	3	261	24	17	29	29	1.97
16502649--16502754	37	2.9	37	85	2	142	39	18	14	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16502638--16502767	37	3.5	37	80	6	138	37	18	12	31	1.88
16504357--16504411	25	2.2	25	87	3	76	14	27	23	34	1.94
16506976--16507046	33	2.2	33	100	0	142	40	11	19	28	1.86
16510467--16510523	24	2.3	24	82	8	62	22	24	17	35	1.95
16510478--16510543	25	2.7	24	76	6	62	21	24	19	34	1.96
16512196--16512226	10	3.1	10	100	0	62	41	0	19	38	1.51
16512453--16512516	32	2.0	32	96	0	119	18	18	17	45	1.86
16512785--16512866	43	1.9	43	92	0	137	21	31	29	17	1.96
16516260--16516285	5	5.2	5	100	0	52	61	0	0	38	0.96
16521285--16521464	57	3.2	57	78	6	152	32	10	17	39	1.84
16521462--16522193	71	10.4	71	79	1	594	27	17	22	33	1.96
16521510--16522265	213	3.6	210	77	6	693	26	17	21	34	1.96
16531139--16531192	29	1.9	29	85	7	76	48	3	9	38	1.53
16539531--16539556	5	5.2	5	100	0	52	80	0	0	19	0.71
16541203--16541401	43	4.6	43	83	5	251	32	26	17	24	1.97
16541203--16541401	86	2.3	86	88	1	292	32	26	17	24	1.97
16549559--16549682	42	3.1	41	76	12	114	24	23	19	33	1.97
16549814--16549862	19	2.5	19	90	3	71	14	2	8	75	1.12
16550202--16550436	7	33.0	7	70	13	68	42	33	1	22	1.62
16550202--16550441	14	16.9	14	72	12	87	43	32	1	22	1.62
16550326--16550430	22	4.9	22	69	16	58	48	28	0	21	1.57
16550864--16551294	40	10.9	40	75	8	339	28	22	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16550864--16551294	80	5.4	80	74	6	376	28	22	20	28	1.99
16550744--16551283	235	2.3	236	85	2	719	28	21	21	28	1.99
16562111--16562235	60	2.1	60	87	0	178	40	14	29	16	1.87
16564051--16564300	5	50.0	5	86	1	340	39	20	2	37	1.67
16580065--16580149	43	2.0	43	92	0	143	50	2	21	25	1.60
16583734--16583763	15	2.0	15	93	0	51	70	0	23	6	1.11
16589591--16589888	30	9.9	29	73	7	229	25	25	13	35	1.92
16589594--16589765	92	1.9	92	85	2	238	25	25	13	36	1.93
16589603--16589888	60	4.7	60	84	1	347	25	26	11	36	1.91
16589587--16589889	90	3.4	90	78	3	313	26	25	12	35	1.92
16599761--16599792	17	1.9	16	93	6	55	6	37	3	53	1.42
16600101--16600283	9	19.2	9	67	17	77	62	1	4	31	1.25
16600119--16600222	29	3.6	28	81	12	106	62	0	1	34	1.13
16600100--16600146	19	2.4	20	85	7	69	59	0	4	36	1.17
16600179--16600221	20	2.2	20	86	0	59	67	0	4	27	1.10
16600167--16600279	39	2.9	37	78	10	111	66	1	5	26	1.23
16600167--16600260	38	2.4	38	79	10	102	64	1	6	27	1.24
16600207--16600280	19	3.9	19	75	18	64	64	2	5	27	1.28
16600199--16600259	20	3.2	19	76	17	56	67	1	6	24	1.24
16600463--16600522	19	3.3	18	81	9	70	30	0	1	68	0.99
16600471--16600551	37	2.2	37	84	4	101	30	1	1	66	1.07
16600463--16600551	9	9.7	9	77	9	81	30	1	1	67	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16600463--16600550	19	4.8	17	75	12	68	30	1	1	67	1.06
16600628--16600894	91	2.9	90	83	9	292	36	9	17	35	1.83
16603524--16603687	76	2.1	75	81	11	190	41	0	30	27	1.61
16604303--16604362	17	3.4	17	76	17	52	56	3	1	38	1.26
16613649--16613871	27	8.3	28	87	5	259	42	16	21	20	1.89
16613649--16613873	81	2.8	81	84	4	294	42	16	20	20	1.89
16614108--16614208	26	3.9	26	80	0	121	15	18	24	40	1.90
16614103--16614202	52	1.9	53	89	6	159	19	19	23	39	1.93
16614318--16614431	30	3.9	29	76	3	111	21	26	21	29	1.99
16623774--16623800	13	2.1	13	100	0	54	33	0	22	44	1.53
16624058--16624086	14	2.0	15	93	6	51	31	0	6	62	1.22
16627042--16627143	19	5.0	22	87	8	69	38	16	7	37	1.78
16627065--16627158	19	4.9	19	97	0	179	37	15	9	37	1.81
16627042--16627158	38	3.0	38	91	5	180	38	16	8	36	1.79
16634799--16634909	55	2.0	56	87	1	161	37	8	10	43	1.69
16634799--16634945	55	2.5	55	81	7	159	36	8	12	42	1.73
16640672--16640709	16	2.4	16	95	0	67	39	10	18	31	1.85
16650952--16651046	45	2.1	45	90	3	147	29	21	20	29	1.98
16659041--16659093	21	2.5	20	79	11	61	43	15	0	41	1.46
16659365--16660079	238	3.0	239	91	2	1172	36	14	13	35	1.86
16660450--16660494	24	1.9	24	86	4	65	44	2	44	8	1.47
16668736--16668847	56	2.0	56	98	0	215	40	8	25	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16668977--16669025	25	2.0	24	92	4	80	34	10	16	38	1.82
16681206--16681244	20	1.9	21	89	5	62	46	0	5	48	1.24
16686710--16686864	33	4.6	33	68	21	106	33	29	20	16	1.94
16686500--16686868	102	3.6	102	86	1	558	31	28	20	19	1.97
16694449--16694513	28	2.2	29	89	8	105	35	3	20	41	1.68
16695447--16695479	8	4.1	8	100	0	66	12	0	24	63	1.28
16697382--16697765	27	14.3	27	79	5	379	41	20	20	17	1.90
16697382--16697764	54	7.1	54	84	6	467	41	20	20	17	1.90
16697763--16697814	27	2.0	26	85	11	70	32	19	21	26	1.97
16697945--16698025	26	3.1	26	87	3	119	18	24	25	30	1.98
16698775--16698922	53	2.8	53	88	4	235	43	14	18	22	1.87
16699466--16699663	53	3.7	53	88	0	270	41	15	20	23	1.89
16699466--16699663	107	1.9	106	85	1	279	41	15	20	23	1.89
16700061--16700128	30	2.3	30	79	5	75	17	20	23	38	1.93
16702557--16702611	29	1.9	28	85	3	74	21	36	29	12	1.91
16708334--16708417	42	2.0	42	97	0	159	34	19	0	46	1.50
16716968--16717010	22	2.0	22	90	0	68	48	2	0	48	1.14
16716976--16717187	103	2.1	102	94	2	372	39	3	8	49	1.49
16719801--16719920	64	1.9	64	92	0	204	48	21	5	25	1.70
16719898--16719940	19	2.3	19	92	8	70	58	16	0	25	1.38
16719898--16719943	10	4.9	9	84	7	56	56	17	0	26	1.41
16720046--16720138	19	5.1	19	70	17	79	46	11	9	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16720036--16720161	54	2.3	54	91	0	216	42	14	9	33	1.78
16720894--16720924	16	1.9	16	93	0	53	0	12	6	80	0.89
16733418--16733452	8	4.5	8	96	3	63	25	0	0	74	0.82
16733418--16733457	16	2.6	15	88	7	62	22	2	0	75	0.93
16733680--16733754	37	2.0	37	92	5	123	54	8	6	30	1.55
16742386--16742424	18	2.2	18	86	9	53	25	17	2	53	1.56
16743939--16743984	21	2.1	23	84	8	60	36	4	15	43	1.66
16746626--16746670	19	2.4	19	85	7	56	26	24	11	37	1.89
16750454--16750534	24	3.4	24	88	6	119	34	12	23	29	1.91
16750817--16751468	45	14.6	45	78	7	469	30	19	24	25	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