genome.fa.s17.2.7.7.80.10.50.1000.95.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  95  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)
29885308--29885589	100	2.8	101	92	1	451	20	30	22	26	1.98
29885308--29885600	50	5.8	50	84	2	372	20	29	22	26	1.99
29885315--29885596	151	1.9	151	89	1	440	20	29	23	26	1.99
29902584--29902657	37	2.0	37	97	0	139	40	22	2	33	1.69
29910332--29910379	21	2.4	21	86	10	66	72	2	18	6	1.15
29919394--29920064	70	9.6	70	77	3	530	29	25	18	26	1.98
29919385--29920054	140	4.8	140	79	3	591	29	25	18	26	1.98
29919439--29920054	210	2.9	210	80	1	599	29	25	18	25	1.98
29921915--29921939	8	3.1	8	100	0	50	12	24	0	64	1.27
29921984--29922027	23	1.9	22	82	17	54	38	22	0	38	1.55
29922201--29922340	50	2.8	51	81	6	176	30	28	15	25	1.95
29926456--29926947	39	12.6	39	89	0	696	44	19	4	31	1.70
29930616--29930698	39	2.1	39	84	4	105	43	15	4	36	1.68
29933141--29933241	47	2.1	47	81	1	112	40	17	9	31	1.83
29936625--29936883	126	2.1	121	88	3	374	39	14	7	38	1.74
29942083--29942129	18	2.6	19	76	10	53	40	6	0	53	1.27
29945783--29945912	28	4.7	28	80	4	113	28	24	10	36	1.89
29948345--29948436	25	3.7	24	74	7	85	32	21	19	26	1.97
29950221--29950326	42	2.5	43	75	9	110	32	21	17	28	1.96
29956363--29956401	20	2.0	20	85	10	53	35	0	17	46	1.49
29964370--29964475	39	2.8	36	77	13	108	13	26	0	59	1.40
29970481--29970511	16	2.0	16	93	6	55	45	19	16	19	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29972818--29972856	19	2.1	19	95	0	69	35	15	33	15	1.89
29989727--29989797	25	2.8	25	82	0	79	33	12	16	36	1.87
29995833--29995873	18	2.3	18	91	8	66	9	24	46	19	1.80
29998390--29998416	14	1.9	14	100	0	54	14	11	14	59	1.62
29998944--29999014	31	2.4	31	86	9	94	35	0	0	64	0.94
29998944--29999013	35	2.1	31	82	10	77	34	0	0	65	0.93
29999760--30000011	88	2.8	88	80	9	265	28	13	10	47	1.76
30000576--30000737	41	4.0	41	87	0	218	20	20	25	32	1.98
30001127--30001246	14	8.4	14	71	14	75	20	1	30	48	1.59
30001127--30001246	7	16.7	7	73	10	64	20	1	30	48	1.59
30001410--30001447	7	5.3	7	90	3	58	23	0	44	31	1.54
30001398--30001447	14	3.5	14	86	5	64	26	0	38	36	1.57
30018558--30018614	26	2.2	26	100	0	114	50	19	10	19	1.75
30019080--30019199	22	5.2	22	74	9	89	54	6	16	22	1.65
30019080--30019310	22	10.4	22	66	15	84	52	9	16	21	1.71
30019234--30019371	70	2.0	71	80	7	156	54	8	16	20	1.68
30022234--30022301	30	2.3	29	82	10	75	48	2	1	47	1.26
30028716--30028840	62	2.1	59	80	7	135	39	4	9	47	1.55
30028823--30028861	14	2.8	14	96	0	69	58	7	15	17	1.59
30031869--30032262	126	3.1	125	86	4	512	30	16	15	37	1.90
30032321--30032440	34	3.6	33	80	4	132	43	15	0	40	1.52
30032323--30032448	68	1.9	67	84	1	171	42	14	1	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30033644--30033686	20	2.2	20	95	0	77	65	4	6	23	1.37
30036374--30036878	268	1.9	265	85	2	708	35	14	19	31	1.91
30046635--30046679	7	6.3	7	82	5	54	13	0	37	48	1.42
30046631--30046679	22	2.2	22	89	7	73	12	0	40	46	1.41
30047078--30047855	225	3.4	226	89	3	1206	35	2	18	43	1.62
30051871--30052158	50	5.8	50	86	4	388	25	22	30	21	1.99
30051871--30052158	95	2.9	97	85	5	355	25	22	30	21	1.99
30058845--30058871	13	2.1	13	100	0	54	22	7	7	62	1.46
30058974--30059257	50	5.8	50	82	4	353	26	22	29	21	1.99
30058974--30059257	95	2.9	97	85	7	342	26	22	29	21	1.99
30063740--30064022	50	5.8	50	84	5	380	25	21	30	21	1.99
30063742--30064022	145	1.9	145	89	1	429	25	22	30	21	1.99
30066418--30066459	11	3.7	11	87	3	57	47	2	28	21	1.63
30066415--30066464	22	2.3	22	83	10	66	52	2	28	18	1.56
30066417--30066464	11	4.4	11	80	15	55	52	2	27	18	1.57
30069514--30069541	6	4.7	6	100	0	56	53	0	0	46	1.00
30069450--30069625	96	1.8	96	91	6	293	44	11	6	37	1.67
30072958--30073102	47	3.1	47	72	16	158	44	2	3	49	1.30
30072982--30073124	44	3.2	44	71	16	139	46	2	2	48	1.25
30072943--30073226	91	3.0	91	86	6	363	45	2	3	48	1.31
30072974--30073117	47	3.1	47	69	20	140	45	2	2	50	1.28
30073180--30073219	15	2.6	16	81	18	50	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30073165--30073574	120	3.4	120	97	0	766	43	2	4	48	1.38
30073235--30073545	61	5.2	61	69	16	261	43	3	5	47	1.43
30073180--30073484	59	5.1	59	69	12	244	42	2	4	49	1.37
30073406--30073442	16	2.2	17	86	13	51	40	2	0	56	1.13
30073526--30073560	18	2.0	17	88	5	52	45	0	0	54	0.99
30073717--30073813	45	2.2	45	85	5	126	32	27	5	34	1.79
30073791--30073829	16	2.4	16	91	0	60	20	30	5	43	1.73
30073951--30074012	32	1.9	32	96	0	115	56	12	0	30	1.37
30075188--30075230	22	2.0	22	86	9	61	41	0	13	44	1.44
30076839--30076877	19	2.0	20	85	5	53	61	0	7	30	1.24
30076809--30076877	20	3.5	20	68	18	54	62	0	5	31	1.19
30079810--30079981	45	3.8	45	82	4	159	43	15	20	21	1.88
30079900--30080026	45	2.8	44	80	7	114	44	14	18	22	1.86
30088087--30088133	20	2.2	22	85	11	62	51	12	2	34	1.52
30105329--30105537	45	4.6	45	85	0	265	48	9	17	24	1.76
30107717--30107759	24	1.9	23	86	13	63	32	11	18	37	1.87
30117852--30117881	15	1.9	16	93	6	53	56	0	0	43	0.99
30127814--30127844	9	3.4	9	90	0	53	25	12	22	38	1.90
30127897--30127933	9	4.1	9	92	0	65	45	13	10	29	1.77
30128147--30128206	30	2.0	31	86	3	86	21	40	0	38	1.54
30128954--30128980	5	5.4	5	100	0	54	22	18	18	40	1.91
30129115--30129171	29	2.0	29	92	0	96	54	12	10	22	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30132151--30132214	9	7.2	9	92	3	94	39	28	10	21	1.87
30132625--30132656	14	2.1	16	88	11	50	53	3	0	43	1.16
30138234--30138286	29	1.9	28	81	11	65	26	3	1	67	1.17
30141721--30141786	33	2.0	34	93	3	116	42	12	3	42	1.57
30142691--30142736	21	2.2	21	84	7	58	39	0	4	56	1.19
30143231--30143276	24	2.0	24	86	4	67	41	8	8	41	1.67
30144012--30144077	31	2.2	29	79	15	71	46	7	0	45	1.31
30145937--30145987	3	17.3	3	75	4	50	33	1	3	60	1.26
30146111--30146140	3	10.0	3	100	0	60	33	0	0	66	0.92
30162121--30162292	40	4.3	40	88	2	222	25	27	22	25	2.00
30162123--30162345	40	5.6	39	83	5	216	25	27	21	25	2.00
30162121--30162345	80	2.8	78	80	7	238	25	27	21	25	1.99
30162277--30162354	40	1.9	41	82	10	97	26	28	20	24	1.99
30175147--30175199	28	1.9	27	85	11	72	60	1	0	37	1.08
30177851--30177898	25	2.0	25	91	4	80	50	2	4	43	1.33
30180226--30180301	24	3.2	24	85	11	102	15	22	22	39	1.92
30180202--30180304	24	4.2	24	80	10	86	15	21	21	41	1.89
30183648--30183680	17	1.9	17	93	0	57	33	6	3	57	1.38
30185812--30185890	24	3.3	23	77	11	70	20	10	36	32	1.86
30185835--30185911	24	3.2	24	81	3	84	19	9	38	32	1.83
30187290--30187419	46	2.8	46	85	2	172	34	26	20	18	1.95
30189411--30189558	24	6.2	24	75	6	104	16	10	36	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30189458--30189548	47	1.9	47	88	0	137	18	9	36	35	1.84
30189400--30189558	71	2.2	72	80	3	187	17	9	35	37	1.82
30190981--30191041	29	2.1	29	90	0	95	44	14	13	27	1.83
30193094--30193127	18	1.9	17	94	5	59	50	0	2	47	1.16
30193679--30193754	31	2.5	31	84	0	98	47	7	17	27	1.75
30193772--30193803	13	2.4	14	90	10	50	40	0	0	59	0.97
30205545--30205698	76	2.0	77	93	3	267	29	25	18	25	1.98
30207483--30207524	6	7.0	6	78	10	50	61	0	0	38	0.96
30207906--30207952	20	2.3	20	96	0	85	55	10	4	29	1.53
30209380--30209416	9	4.1	9	85	0	56	27	10	16	45	1.80

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