genome.fa.s17.2.7.7.80.10.50.1000.133.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  133  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)
41286204--41286247	21	2.1	21	86	0	61	43	9	2	45	1.48
41289142--41289178	12	3.1	12	92	0	56	43	13	21	21	1.87
41296822--41296855	5	6.8	5	100	0	68	20	20	17	41	1.91
41297077--41297153	27	2.9	27	92	3	120	40	20	18	20	1.92
41297077--41297162	27	3.2	27	90	3	111	38	23	16	22	1.93
41297534--41297756	81	2.8	80	87	1	302	43	19	17	20	1.89
41297534--41297755	27	8.2	27	83	3	250	43	19	17	19	1.88
41298092--41298235	28	5.2	28	81	1	166	27	22	19	30	1.98
41298836--41298880	21	2.1	21	87	0	63	44	11	2	42	1.52
41298874--41298898	11	2.3	11	100	0	50	28	16	0	56	1.41
41302007--41302210	109	1.9	109	88	0	309	31	23	12	32	1.92
41304637--41304709	27	2.7	27	85	4	85	26	21	17	34	1.96
41319181--41319221	20	2.0	20	100	0	82	41	24	0	34	1.55
41319332--41319436	42	2.5	42	83	9	117	29	23	19	27	1.98
41319332--41319492	86	1.9	84	82	10	202	32	24	17	26	1.97
41325175--41325222	19	2.4	21	83	13	57	27	2	8	62	1.35
41325185--41325222	18	2.1	18	85	14	51	28	2	7	60	1.38
41331906--41331930	9	2.8	9	100	0	50	68	0	0	32	0.90
41332460--41332496	9	4.1	9	92	0	65	29	10	13	45	1.77
41332549--41332579	9	3.4	9	90	0	53	38	22	12	25	1.90
41334344--41334369	10	2.6	10	100	0	52	73	0	0	26	0.84
41338596--41338625	15	2.0	15	93	0	51	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41339635--41339737	54	1.9	54	97	0	197	37	15	17	29	1.91
41339917--41339954	20	1.9	20	88	0	58	65	2	2	28	1.19
41340534--41340572	20	2.0	20	94	0	69	64	2	2	30	1.21
41344450--41344478	15	1.9	15	100	0	58	41	6	17	34	1.76
41346309--41346343	17	2.0	17	88	5	52	40	0	25	34	1.56
41350582--41350882	57	5.3	57	77	6	259	30	21	16	30	1.96
41350582--41350874	29	10.3	28	72	5	174	30	22	17	30	1.96
41352259--41352283	6	4.2	6	100	0	50	68	0	16	16	1.22
41354125--41354165	21	2.0	21	95	0	73	60	7	0	31	1.24
41358821--41358896	21	3.8	20	84	3	82	42	11	9	36	1.74
41358888--41358932	21	2.0	23	83	8	58	37	4	13	44	1.64
41359097--41359135	19	2.0	21	85	10	55	15	10	5	69	1.34
41359357--41359402	3	15.3	3	86	8	67	32	0	2	65	1.05
41359341--41359403	18	3.8	17	84	12	69	31	0	3	65	1.09
41366121--41366739	44	14.1	44	64	8	184	30	19	23	25	1.98
41366773--41366857	44	1.9	44	88	4	127	29	17	23	29	1.97
41365981--41366775	132	6.0	132	91	0	1252	30	19	24	25	1.98
41367044--41367228	44	4.2	44	65	5	113	30	21	22	25	1.98
41366503--41367481	489	2.0	489	99	0	1931	29	20	24	25	1.99
41366992--41367264	132	2.1	132	95	0	483	30	20	24	24	1.99
41367262--41367346	44	1.9	44	90	4	136	28	17	24	29	1.97
41366992--41367320	132	2.5	132	88	3	412	29	20	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41367248--41367346	44	2.2	44	85	5	110	29	18	24	28	1.98
41367550--41367611	19	3.1	21	84	8	78	41	9	12	35	1.76
41367805--41367843	19	2.0	21	85	10	55	15	10	5	69	1.34
41368065--41368107	3	14.3	3	80	9	52	30	0	0	69	0.88
41379945--41379998	21	2.6	21	84	0	72	25	0	14	59	1.36
41379947--41379997	7	7.3	7	80	14	52	23	0	15	60	1.35
41380100--41380254	79	2.0	79	93	0	265	44	9	13	32	1.75
41384571--41384644	38	1.9	39	94	2	132	55	10	0	33	1.35
41386101--41386130	11	2.7	11	94	0	51	3	0	6	90	0.56
41399196--41399435	133	1.8	132	88	4	367	37	8	20	34	1.83
41401016--41401087	27	2.5	29	80	11	76	23	18	19	38	1.93
41401094--41401154	27	2.2	27	80	13	72	37	18	21	22	1.94
41401209--41401297	28	3.2	27	81	7	106	31	14	21	32	1.93
41403851--41403895	22	2.0	22	86	8	63	35	17	2	44	1.62
41404105--41404172	25	2.7	25	71	13	59	35	16	23	25	1.95
41410265--41410320	27	2.2	25	83	6	67	7	8	7	76	1.15
41410426--41412511	699	3.0	699	99	0	4118	31	16	19	33	1.94
41416762--41416786	3	8.3	3	100	0	50	68	0	0	32	0.90
41417262--41417299	11	3.3	12	89	10	62	47	0	52	0	1.00
41417264--41417307	22	2.0	22	86	8	63	43	0	56	0	0.99
41417811--41417879	35	2.0	35	100	0	138	20	11	50	17	1.76
41418584--41419412	73	10.8	73	73	14	494	33	19	17	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41418858--41419407	232	2.4	229	86	5	723	33	20	17	28	1.95
41418978--41419412	159	2.9	148	82	8	536	32	20	17	30	1.95
41419177--41419394	75	2.9	74	93	1	373	30	21	17	31	1.96
41419283--41420161	191	4.6	192	94	1	1503	34	20	13	30	1.92
41419863--41420089	122	1.9	122	84	3	305	35	21	13	30	1.91
41433446--41433483	11	3.3	12	89	10	62	47	0	52	0	1.00
41433448--41433491	22	2.0	22	86	8	63	43	0	56	0	0.99
41433989--41434057	35	2.0	35	97	0	129	21	11	49	17	1.78
41434540--41434587	17	2.8	17	96	0	87	27	29	2	41	1.67
41438118--41438167	17	2.9	17	96	0	91	24	26	6	44	1.76
41455253--41455292	20	2.0	20	90	0	62	45	0	0	55	0.99
41459307--41459350	23	2.0	23	90	4	72	40	4	2	52	1.34
41459442--41459511	27	2.6	27	86	4	97	27	25	28	18	1.98
41459554--41459692	4	34.0	4	75	17	92	68	0	31	0	0.90
41459543--41459613	18	4.1	17	78	10	72	64	0	35	0	0.94
41459544--41459753	34	6.0	34	75	17	155	67	0	32	0	0.91
41459559--41459725	40	4.2	40	73	21	134	68	0	31	0	0.89
41459589--41459743	45	3.5	45	80	7	158	68	0	31	0	0.90
41459544--41459758	79	2.8	78	85	10	259	67	0	32	0	0.91
41459637--41459738	15	7.1	15	73	21	69	68	0	31	0	0.90
41460375--41460519	73	1.9	76	86	5	206	50	8	4	36	1.54
41460500--41460544	22	2.0	22	100	0	90	35	8	0	55	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41460947--41460978	15	2.1	15	100	0	64	53	0	6	40	1.26
41464955--41464989	3	11.7	3	100	0	70	68	31	0	0	0.90
41465240--41465295	27	2.1	27	96	0	103	19	30	26	23	1.98
41465323--41465348	13	2.0	13	100	0	52	15	7	15	61	1.55
41465349--41465393	23	2.0	23	100	0	90	53	0	8	37	1.32
41465659--41465719	29	2.1	29	93	0	104	50	3	1	44	1.28
41466189--41466243	22	2.5	21	82	8	65	70	1	5	21	1.16
41469052--41469122	25	3.0	23	83	6	79	30	18	29	21	1.97
41469151--41469228	25	3.1	25	84	0	102	38	19	25	16	1.92
41469367--41469427	24	2.5	23	76	7	59	32	18	22	26	1.97
41468919--41469534	305	2.0	305	93	0	1063	36	18	20	23	1.95
41469462--41469600	25	5.6	25	75	1	127	36	18	27	17	1.93
41469462--41469600	50	2.8	50	83	2	172	36	18	27	17	1.93
41471991--41472099	25	4.4	25	84	2	130	33	19	22	24	1.97
41474881--41476464	787	2.0	789	96	0	2956	42	20	8	28	1.81
41476669--41476752	25	3.4	25	73	6	80	34	17	21	26	1.96
41482052--41482110	27	2.2	27	81	3	66	44	10	10	35	1.72
41483504--41483619	57	2.1	55	85	9	155	45	6	17	31	1.72
41483511--41483637	57	2.3	57	82	8	145	47	7	16	29	1.73
41484796--41484858	6	10.3	6	91	1	99	1	17	0	80	0.78
41489749--41489854	52	2.0	52	94	0	185	30	24	24	20	1.99
41491377--41491558	87	2.1	87	96	0	337	46	13	9	30	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41493992--41494020	13	2.1	14	93	6	51	58	0	3	37	1.15
41494024--41494074	19	2.7	19	81	3	59	47	0	1	50	1.12
41494128--41494158	15	2.1	15	93	0	53	54	0	3	41	1.16
41494688--41494712	10	2.5	10	100	0	50	40	0	0	60	0.97
41495728--41495757	11	2.7	11	100	0	60	50	0	0	50	1.00
41497222--41497347	43	2.9	43	75	14	134	22	17	28	31	1.96
41500616--41500645	16	1.9	15	93	6	51	46	0	6	46	1.29
41502614--41502663	24	2.1	24	100	0	100	40	12	8	40	1.72
41502619--41502673	24	2.3	24	87	0	74	36	12	10	40	1.79
41503219--41503515	50	5.8	50	83	2	308	28	21	27	22	1.99

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