genome.fa.s17.2.7.7.80.10.50.1000.99.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  99  of  185  ( 22116 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)
31183370--31183409	18	2.2	18	86	0	53	62	0	27	10	1.27
31196202--31196427	40	5.7	40	87	4	280	25	20	26	26	1.99
31214795--31214972	27	6.6	27	84	3	205	29	28	15	26	1.96
31214816--31214971	82	1.9	81	88	3	233	29	28	15	26	1.96
31220152--31220366	45	4.8	45	83	4	240	24	14	24	36	1.93
31220153--31220366	89	2.4	87	83	6	245	24	14	24	36	1.93
31222863--31222898	16	2.2	17	90	5	56	11	52	0	36	1.37
31225882--31225913	16	2.0	16	93	0	55	25	15	0	59	1.36
31232131--31232170	20	2.0	20	90	9	64	40	0	5	55	1.22
31236000--31236034	16	2.1	17	89	5	54	11	51	0	37	1.38
31252482--31252571	42	2.1	42	95	0	162	31	6	20	42	1.77
31253121--31253189	26	2.7	26	80	8	77	18	11	28	40	1.86
31258640--31258811	40	4.3	40	88	2	222	25	27	21	25	1.99
31258642--31258864	40	5.6	39	83	5	216	25	27	21	25	1.99
31258640--31258864	80	2.8	79	80	7	240	25	27	21	25	1.99
31258796--31258873	40	1.9	41	82	10	97	26	28	20	24	1.99
31266583--31266754	40	4.3	40	88	2	222	25	27	21	25	1.99
31266585--31266807	40	5.6	39	83	5	216	25	27	21	25	1.99
31266583--31266807	80	2.8	79	80	7	240	25	27	21	25	1.99
31266739--31266816	40	1.9	41	82	10	97	26	28	20	24	1.99
31269447--31269573	61	2.1	61	94	2	220	36	8	20	34	1.83
31270017--31270101	27	3.1	27	85	6	100	43	9	20	27	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31270126--31270291	79	2.1	79	92	1	271	28	23	23	24	1.99
31272037--31272396	27	13.4	27	84	4	426	43	18	19	18	1.89
31272568--31272619	26	2.0	26	88	0	77	11	21	26	40	1.87
31282972--31283125	76	2.0	75	94	1	272	40	8	27	23	1.83
31300531--31300588	28	2.0	29	80	9	66	18	6	18	55	1.65
31300531--31300592	29	2.1	29	82	11	74	19	6	19	54	1.65
31304600--31304628	13	2.1	14	93	6	51	68	13	6	10	1.37
31318032--31318069	19	2.0	19	94	0	67	26	7	26	39	1.83
31320893--31321078	40	4.7	40	87	5	234	25	27	22	24	1.99
31339806--31339853	20	2.5	19	83	9	71	4	37	10	47	1.57
31340141--31340178	19	2.0	19	85	10	51	28	2	2	65	1.19
31342193--31342289	28	3.5	27	84	10	108	28	27	12	30	1.93
31343935--31344017	35	2.4	35	85	4	96	28	15	15	39	1.88
31346189--31346253	10	6.5	10	71	11	53	60	3	0	36	1.13
31346216--31346261	22	2.1	22	84	8	58	65	2	0	32	1.05
31346686--31346711	11	2.4	11	100	0	52	38	7	0	53	1.30
31346711--31346783	17	4.0	17	71	15	65	35	1	0	63	1.04
31356815--31356856	19	2.2	19	100	0	84	35	0	9	54	1.33
31356960--31357042	41	2.0	41	100	0	166	28	14	18	38	1.90
31358951--31358994	11	3.8	12	79	11	56	45	15	9	29	1.77
31358949--31358994	22	2.0	23	91	4	76	45	15	10	28	1.79
31364740--31364778	19	2.1	19	100	0	78	35	10	20	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31375882--31375973	22	4.2	22	87	0	130	38	21	13	27	1.90
31379514--31379577	34	1.9	33	84	9	85	48	7	31	12	1.69
31409286--31409324	20	2.0	20	90	10	62	56	5	23	15	1.59
31416608--31416793	39	4.7	39	88	7	170	27	22	26	22	1.99
31416646--31416796	39	3.8	39	94	2	232	29	21	27	21	1.99
31416646--31416796	79	1.9	79	89	5	234	29	21	27	21	1.99
31424600--31424651	27	2.0	26	96	3	95	28	15	26	28	1.96
31424627--31424755	40	3.3	40	91	5	194	24	20	27	26	1.99
31424627--31424788	80	2.1	76	81	6	182	26	20	27	25	1.99
31432508--31432729	39	5.7	40	84	9	257	25	22	27	24	2.00
31432560--31432762	78	2.6	78	83	8	209	26	21	27	24	1.99
31434049--31434090	1	42.0	1	100	0	84	0	0	0	100	0.00
31436026--31436051	6	4.3	6	100	0	52	15	0	15	69	1.20
31436010--31436066	19	3.0	18	78	17	53	22	3	14	59	1.50
31439292--31439379	27	3.3	27	76	6	97	27	22	13	36	1.92
31444112--31444289	84	2.1	84	91	0	284	39	7	17	35	1.79
31446650--31446890	50	4.8	50	84	1	268	21	28	22	27	1.99
31447982--31448008	12	2.2	12	100	0	54	37	18	14	29	1.91
31465822--31465868	19	2.5	19	82	6	60	59	4	12	23	1.51
31466753--31466789	15	2.5	15	86	0	56	81	0	13	5	0.86
31466753--31466834	19	4.2	19	68	12	58	75	2	14	7	1.12
31469163--31469211	10	4.7	11	87	7	59	30	12	26	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31471805--31471841	13	2.8	13	95	0	65	21	45	10	21	1.82
31472114--31472147	12	2.9	12	91	4	52	23	0	8	67	1.18
31474247--31474300	20	2.7	20	82	0	63	24	20	18	37	1.94
31474247--31474320	30	2.5	30	86	8	98	21	20	18	39	1.93
31474247--31474311	20	3.2	20	71	16	53	23	21	16	38	1.93
31475809--31475847	11	3.7	11	90	6	55	82	2	5	10	0.93
31476815--31476873	21	2.8	21	84	5	75	72	0	20	6	1.06
31476826--31476873	15	3.3	14	82	5	60	77	0	18	4	0.93
31476912--31476943	12	2.7	12	95	0	55	68	0	18	12	1.20
31478517--31478679	82	2.0	82	85	2	220	34	14	23	26	1.93
31483808--31483912	30	3.4	30	78	2	111	72	1	19	6	1.16
31483808--31483912	6	17.2	6	72	3	84	72	1	19	6	1.16
31486471--31486540	25	2.8	25	91	0	113	17	20	17	45	1.85
31486950--31486991	20	2.1	20	86	0	57	38	11	21	28	1.89
31486960--31487008	21	2.4	20	86	3	62	36	8	24	30	1.85
31489042--31489071	15	2.1	15	93	6	53	6	30	0	63	1.20
31489127--31489169	23	1.9	23	86	13	63	6	18	0	74	1.04
31490077--31490150	25	2.9	25	80	8	87	20	1	5	72	1.11
31490102--31490144	11	3.6	11	82	17	59	18	0	6	74	1.04
31497073--31497118	20	2.3	21	81	11	60	28	13	13	45	1.80
31498426--31498459	13	2.6	13	90	0	59	70	0	8	20	1.13
31500630--31500678	17	2.7	19	78	12	57	71	2	18	8	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31500644--31500688	19	2.3	19	81	11	56	73	0	20	6	1.05
31503748--31503793	20	2.3	21	81	11	60	28	13	13	45	1.80
31511732--31511775	20	2.2	20	87	0	61	25	9	34	31	1.87
31522101--31522331	40	5.8	40	89	1	313	22	28	24	24	2.00
31524730--31524898	39	4.3	40	85	2	207	24	29	21	23	1.99
31524728--31524898	79	2.2	79	83	2	218	25	29	21	23	1.99
31532641--31532810	40	4.3	40	90	0	234	26	28	21	23	1.99
31535630--31535685	24	2.3	25	90	9	89	5	12	5	76	1.12
31535667--31535704	12	3.5	11	82	10	51	15	2	5	76	1.08
31535678--31535704	12	2.2	12	100	0	54	14	0	7	77	0.97
31537185--31537231	20	2.3	20	81	0	58	23	12	34	29	1.92
31539927--31540045	18	6.6	18	74	11	100	7	21	0	70	1.17
31539927--31540047	6	20.0	6	72	6	84	7	20	0	71	1.16
31539939--31540053	15	7.3	15	67	20	65	6	20	0	72	1.12
31544743--31544808	18	3.6	18	74	13	55	13	24	0	62	1.31
31547611--31547655	19	2.4	19	92	0	72	11	0	11	77	0.99
31549084--31549207	50	2.4	52	80	6	155	38	12	14	33	1.84
31556053--31556086	16	2.1	16	88	0	50	47	8	2	41	1.50
31556129--31556172	17	2.6	18	82	7	56	52	11	0	36	1.38
31558014--31558238	40	5.7	40	86	5	278	24	21	28	25	1.99
31558014--31558271	80	3.2	80	82	8	226	25	20	27	25	1.99
31565993--31566201	105	2.0	105	83	0	265	31	25	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31566108--31566264	84	1.9	84	83	2	208	30	25	17	26	1.97
31566108--31566285	84	2.1	84	82	2	205	29	25	19	25	1.98
31566002--31566357	189	1.9	189	83	0	460	30	26	18	25	1.98
31566361--31566408	21	2.3	21	85	7	62	33	29	20	16	1.95
31566191--31567121	105	8.9	105	78	7	840	30	28	16	24	1.97
31566191--31566702	207	2.5	208	83	2	575	31	26	17	24	1.97
31566586--31566791	84	2.4	84	83	4	263	32	26	16	24	1.96
31566750--31566831	42	2.0	42	85	4	112	34	25	14	25	1.94
31566414--31567209	420	1.9	420	88	1	1211	30	28	16	24	1.96
31566880--31566933	21	2.6	21	85	11	67	29	27	18	24	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