genome.fa.s17.2.7.7.80.10.50.1000.63.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: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  63  of  173  ( 20651 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)
18206512--18206639	54	2.4	54	85	2	159	17	28	26	27	1.98
18224596--18224654	29	2.0	29	86	0	82	33	32	10	23	1.88
18229443--18229490	17	2.8	17	80	0	60	47	16	6	29	1.71
18229389--18229488	51	2.0	51	83	0	128	47	15	10	28	1.77
18230127--18230189	18	3.5	18	73	0	63	44	17	7	30	1.77
18230129--18230207	36	2.2	36	86	4	106	44	18	7	29	1.78
18231902--18231945	23	2.0	21	83	16	54	40	6	0	52	1.28
18231875--18231945	31	2.3	31	83	13	85	40	5	0	53	1.24
18233610--18233644	14	2.5	14	100	0	70	31	14	8	45	1.75
18235069--18235105	17	2.2	17	90	0	56	51	0	0	48	1.00
18239180--18239305	51	2.5	51	86	2	164	23	16	26	32	1.96
18239313--18239451	45	3.1	45	92	4	235	24	15	25	34	1.95
18243428--18243476	16	3.1	16	76	2	55	38	0	0	61	0.96
18243427--18243502	34	2.3	32	82	10	91	38	0	1	60	1.05
18243440--18243487	16	2.8	17	79	14	55	33	0	0	66	0.92
18243455--18243504	20	2.5	20	83	3	57	34	0	2	64	1.05
18243597--18243624	14	2.0	14	100	0	56	57	0	7	35	1.26
18243629--18244297	87	7.8	84	78	7	539	33	12	10	43	1.78
18243629--18244297	85	7.8	85	77	9	469	33	12	10	43	1.78
18243812--18244360	255	2.1	254	88	2	812	32	13	11	42	1.80
18249683--18249737	15	3.7	15	72	13	51	72	0	20	7	1.07
18249689--18249747	12	4.7	12	72	12	55	69	0	20	10	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18253127--18253235	41	2.7	41	95	0	191	26	27	22	22	1.99
18254969--18254998	4	7.5	4	100	0	60	23	0	0	76	0.78
18259841--18259949	41	2.7	41	95	0	191	26	27	22	22	1.99
18266764--18266842	25	3.3	25	61	10	65	32	5	29	32	1.79
18266748--18266938	47	4.1	47	89	1	285	31	8	31	28	1.87
18266748--18266938	93	2.0	94	88	1	285	31	8	31	28	1.87
18267057--18267135	37	2.1	37	90	0	122	24	18	31	25	1.98
18269043--18269116	29	2.6	29	89	4	105	25	16	32	25	1.96
18269433--18269612	40	4.5	40	78	9	129	25	22	28	23	1.99
18269547--18269695	40	3.7	40	91	0	235	24	22	28	24	2.00
18273294--18273372	25	3.3	25	61	10	65	32	5	29	32	1.79
18273278--18273469	47	4.1	47	91	0	294	31	9	30	28	1.88
18273588--18273665	36	2.1	37	90	2	122	24	19	30	25	1.98
18275312--18275361	20	2.5	20	83	0	55	34	8	6	52	1.55
18285727--18285790	32	2.0	32	93	0	110	46	17	4	31	1.68
18287827--18287922	41	2.3	41	89	0	138	28	16	21	33	1.95
18297613--18297723	41	2.7	41	81	5	125	35	17	27	20	1.95
18300868--18300902	18	1.9	18	94	0	61	28	14	11	45	1.79
18303807--18303832	13	2.0	13	100	0	52	53	0	0	46	1.00
18308364--18308414	25	2.0	25	88	7	75	41	1	0	56	1.10
18313316--18313441	48	2.6	48	84	0	144	21	32	20	25	1.98
18316643--18316734	22	4.2	22	88	0	112	30	27	0	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18316660--18316751	45	2.1	43	80	13	98	26	31	0	42	1.56
18316804--18316866	29	2.1	30	88	2	92	36	0	1	61	1.05
18317436--18317716	124	2.3	124	85	4	370	33	24	14	28	1.94
18318981--18319151	30	5.8	29	72	12	100	33	18	5	43	1.72
18318981--18319153	90	1.9	90	82	4	217	33	17	5	43	1.72
18319754--18319798	18	2.6	16	80	16	54	75	6	15	2	1.11
18319749--18319826	20	3.8	20	78	18	88	78	5	15	1	0.99
18319760--18319795	18	1.9	19	88	5	56	72	8	16	2	1.21
18319749--18319827	21	3.8	21	75	17	83	78	5	15	1	0.99
18319942--18319974	7	4.9	7	85	7	50	60	0	39	0	0.97
18319918--18319986	20	3.3	21	76	11	54	65	1	33	0	1.02
18320597--18320673	37	2.0	38	85	5	102	54	10	2	32	1.48
18320797--18320853	19	3.1	19	85	10	82	43	8	10	36	1.70
18320797--18320881	17	4.8	17	81	11	73	34	9	12	43	1.75
18320805--18320942	18	7.7	18	75	14	108	30	13	12	44	1.80
18320797--18320925	35	3.7	34	83	6	134	32	12	11	43	1.78
18331601--18331652	12	4.5	11	75	20	52	84	7	3	3	0.85
18332528--18332805	77	3.6	77	91	2	434	29	15	20	34	1.94
18332810--18333201	81	5.0	81	88	4	586	28	17	20	33	1.95
18332810--18333201	158	2.5	157	89	2	606	28	17	20	33	1.95
18334322--18334358	15	2.4	16	90	4	58	75	8	13	2	1.13
18334476--18334528	4	12.2	4	81	15	61	73	0	26	0	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18334477--18334571	18	5.5	18	74	19	78	71	0	28	0	0.86
18334476--18334544	22	3.1	22	82	12	79	71	0	28	0	0.87
18335366--18335463	17	5.6	17	73	12	92	27	14	11	46	1.78
18335354--18335461	35	3.2	33	78	11	119	31	13	11	43	1.80
18345456--18345543	44	2.0	44	100	0	176	38	27	11	22	1.88
18346186--18346380	98	2.0	98	94	0	345	36	24	10	28	1.88
18347846--18347967	19	6.3	19	90	3	190	36	14	9	38	1.80
18347847--18347966	59	2.0	59	93	0	204	37	13	10	39	1.78
18349509--18349733	40	5.7	40	81	6	224	24	28	21	25	1.99
18349476--18349733	40	6.5	38	78	9	200	24	27	21	26	1.99
18349665--18349742	40	1.9	41	82	10	97	26	28	20	24	1.99
18351271--18351783	44	11.8	43	74	13	344	27	23	20	29	1.99
18351410--18351737	173	1.9	173	81	6	405	28	23	20	28	1.99
18351261--18351871	217	2.8	217	92	1	1006	27	23	20	29	1.99
18351319--18351874	44	12.8	44	72	11	310	28	23	20	28	1.99
18351859--18352247	132	2.9	132	94	0	670	24	24	21	29	1.99
18353520--18353556	11	3.3	11	85	7	56	0	5	10	83	0.79
18353489--18353558	12	5.8	12	75	18	65	4	8	7	80	1.03
18357409--18357599	98	1.9	98	96	0	355	37	24	10	27	1.88
18364878--18364923	7	6.9	7	75	9	51	69	0	15	15	1.19
18364878--18364923	20	2.3	20	84	0	65	69	0	15	15	1.19
18366197--18366356	43	3.7	44	76	6	125	30	21	22	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18366289--18366665	44	8.5	44	71	6	235	28	20	24	27	1.99
18366327--18366722	134	3.0	134	95	0	693	28	19	23	27	1.99
18366327--18366850	134	4.0	133	87	5	656	29	19	23	27	1.98
18366639--18367186	175	3.1	175	94	1	920	31	18	20	29	1.97
18366371--18367065	44	15.7	46	68	14	316	30	19	22	27	1.98
18366687--18367131	44	10.2	44	68	9	142	31	18	20	28	1.97
18367214--18367415	44	4.6	45	86	3	268	30	17	26	24	1.97
18370495--18370552	3	19.0	3	80	16	66	62	1	1	34	1.16
18371115--18371189	19	3.8	19	87	6	114	34	16	13	36	1.87
18378543--18378583	2	20.5	2	100	0	82	51	0	48	0	1.00
18380126--18380159	17	2.0	17	88	0	50	58	0	2	38	1.13
18380127--18380208	35	2.3	34	85	6	101	59	0	1	39	1.05
18380133--18380195	26	2.3	27	83	5	74	61	0	0	38	0.96
18380170--18380229	20	2.9	20	73	14	59	51	0	0	48	1.00
18380168--18380239	20	3.5	20	70	10	56	54	0	0	45	0.99
18387234--18387459	40	5.7	40	82	4	242	25	27	22	24	2.00
18387234--18387459	79	2.8	79	83	6	267	25	27	22	24	2.00
18387236--18387459	119	1.9	121	80	7	269	25	27	22	25	2.00
18390069--18390241	53	3.3	53	81	8	192	28	29	15	26	1.96
18390069--18390240	26	6.5	27	80	7	156	28	29	15	26	1.96
18397857--18398034	27	6.6	27	83	3	196	29	29	15	26	1.96
18397857--18398034	54	3.3	54	86	3	232	29	29	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18397878--18398033	81	1.9	82	88	1	233	28	29	15	26	1.96
18410183--18410231	21	2.3	22	75	3	55	34	8	0	57	1.29
18412597--18412667	25	2.9	25	81	4	83	35	19	22	22	1.96
18434212--18434262	25	2.1	24	82	7	59	19	17	5	56	1.61
18434584--18434635	28	1.9	26	88	7	77	46	5	0	48	1.26
18453284--18453333	26	1.9	26	84	8	66	20	28	6	46	1.74
18465637--18465671	17	2.1	17	100	0	70	31	34	5	28	1.81
18465795--18465829	17	2.1	17	94	0	61	31	34	8	25	1.86
18465573--18465890	158	2.0	158	98	0	618	32	20	12	33	1.91
18469163--18469220	30	1.9	30	92	0	98	27	13	22	36	1.92

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