genome.fa.s19.2.7.7.80.10.50.1000.105.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   

This is table  105  of  230  ( 27491 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)
30029824--30030001	27	6.5	27	78	5	160	35	11	23	29	1.90
30032844--30032902	26	2.3	26	82	5	75	45	8	15	30	1.75
30041385--30041429	22	2.0	23	86	4	65	62	2	0	35	1.08
30041487--30041541	29	1.9	28	85	3	74	23	16	20	40	1.91
30042990--30043077	44	2.0	44	97	0	167	46	11	19	22	1.81
30044577--30044711	68	2.0	69	86	1	191	42	3	3	49	1.38
30045209--30045263	24	2.3	24	81	9	60	36	1	0	61	1.06
30045284--30045337	15	3.6	15	80	5	56	40	0	0	59	0.98
30045299--30045349	15	3.3	16	84	13	63	39	0	0	60	0.97
30050747--30050843	33	2.8	35	72	20	89	45	3	1	50	1.24
30053726--30053756	16	1.9	16	93	0	53	9	6	9	74	1.23
30055156--30055569	204	2.0	203	94	0	720	38	4	5	51	1.45
30055474--30055590	62	1.9	62	86	5	168	40	2	4	52	1.34
30057278--30057319	18	2.3	18	87	0	57	50	7	9	33	1.62
30060251--30060349	49	2.0	50	84	4	128	33	29	15	22	1.94
30064063--30064087	13	1.9	13	100	0	50	0	8	4	88	0.64
30070383--30070409	6	4.5	6	100	0	54	18	0	51	29	1.46
30071925--30071966	22	1.9	22	85	9	59	64	4	7	23	1.38
30087593--30087741	44	3.5	43	76	7	124	26	20	24	28	1.99
30091894--30092044	40	3.8	41	86	3	200	23	22	30	23	1.99
30091895--30092064	80	2.1	79	80	7	191	23	21	29	25	1.99
30097422--30097451	12	2.5	12	94	0	51	30	40	23	6	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30101127--30101482	174	2.0	174	95	0	631	50	17	14	17	1.78
30107666--30107792	63	2.0	62	84	6	166	29	27	17	25	1.97
30109352--30109416	26	2.5	26	90	2	105	60	10	12	16	1.59
30118672--30118704	16	2.1	16	100	0	66	51	6	18	24	1.68
30119263--30119304	16	2.7	16	81	3	50	16	0	4	78	0.91
30126455--30126639	79	2.3	81	81	7	209	26	28	21	23	1.99
30126455--30126639	40	4.7	40	80	6	207	26	28	21	23	1.99
30134466--30134650	79	2.3	81	83	7	227	25	27	22	24	2.00
30134466--30134650	40	4.7	40	82	7	225	25	27	22	24	2.00
30138337--30138382	7	6.0	7	90	9	56	30	0	17	52	1.45
30138344--30138854	9	59.3	9	78	11	511	34	0	18	46	1.54
30138666--30138690	13	1.9	13	100	0	50	36	0	16	48	1.46
30138836--30138874	20	2.0	19	85	5	51	30	5	12	51	1.62
30139030--30139103	22	3.4	22	73	3	78	36	2	16	44	1.62
30141764--30142231	228	2.0	229	85	4	624	27	25	22	24	2.00
30141826--30142254	114	3.8	113	84	4	531	28	24	22	25	1.99
30142161--30142304	73	2.0	73	87	2	209	30	20	20	28	1.98
30142227--30142662	114	3.8	113	80	5	457	28	25	22	23	1.99
30142841--30142911	26	2.7	27	82	2	81	39	8	4	47	1.53
30143491--30143516	10	2.6	10	100	0	52	42	0	7	50	1.31
30145361--30145479	41	2.9	41	87	0	148	31	26	22	19	1.98
30149983--30150044	24	2.6	24	90	7	92	40	16	20	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30153956--30153988	14	2.2	16	89	10	52	63	12	6	18	1.48
30154237--30154362	65	1.9	65	86	0	180	44	7	14	34	1.72
30166074--30166253	28	6.5	28	94	2	285	26	13	28	31	1.94
30166074--30166253	55	3.3	55	93	1	290	26	13	28	31	1.94
30166074--30166253	83	2.2	82	92	1	297	26	13	28	31	1.94
30174041--30174276	55	4.3	56	96	1	406	25	13	28	31	1.94
30174041--30174276	28	8.5	28	96	1	406	25	13	28	31	1.94
30181381--30181443	29	2.2	29	85	0	81	15	30	30	23	1.96
30181431--30181565	70	1.9	70	90	0	216	12	21	25	40	1.88
30182202--30182258	3	19.3	3	81	3	71	31	3	1	63	1.22
30194082--30194180	25	4.0	25	75	12	96	28	20	24	27	1.99
30194081--30194176	50	1.9	50	89	0	147	29	19	25	26	1.99
30200911--30200986	37	2.1	37	92	0	125	30	15	9	44	1.78
30201138--30201192	25	2.2	26	78	15	62	36	21	18	23	1.95
30201113--30201226	50	2.3	50	84	3	140	36	21	19	22	1.95
30205248--30205489	121	2.0	121	90	1	387	33	20	14	30	1.93
30211699--30211753	27	2.0	28	89	6	87	50	1	0	47	1.11
30214956--30215005	17	2.9	16	82	11	55	80	6	0	14	0.90
30215214--30215262	19	2.6	19	100	0	98	18	40	28	12	1.86
30216671--30216698	10	2.8	10	100	0	56	21	0	0	78	0.75
30216656--30216694	18	2.2	17	86	4	51	17	2	0	79	0.84
30227641--30227719	37	2.1	37	86	4	106	25	29	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30227838--30228309	47	10.1	47	93	2	763	29	28	8	33	1.87
30233613--30233970	88	4.1	88	84	3	434	25	24	25	23	2.00
30233650--30233875	44	5.1	44	63	10	111	26	24	25	23	2.00
30233704--30233941	44	5.4	45	66	7	150	25	26	26	21	2.00
30234059--30234163	44	2.4	45	80	1	122	28	23	22	24	1.99
30234255--30234403	44	3.5	44	73	9	171	29	17	22	30	1.96
30234296--30234443	41	3.5	41	76	7	163	26	18	22	32	1.97
30234255--30234449	85	2.3	85	95	1	347	28	18	23	29	1.98
30234468--30234889	173	2.4	172	90	0	664	30	19	22	27	1.98
30234833--30234933	44	2.3	45	89	1	150	33	19	26	19	1.96
30234664--30235281	218	2.8	219	91	0	961	30	18	23	27	1.98
30235031--30235155	44	2.8	45	81	2	135	32	18	21	28	1.97
30235569--30235602	18	1.9	18	88	5	52	82	2	0	14	0.79
30235575--30235621	13	3.5	14	80	8	53	76	2	2	19	0.99
30240814--30240911	49	2.0	49	100	0	196	26	20	12	40	1.87
30253353--30253390	17	2.2	18	85	4	51	47	0	0	52	1.00
30253345--30253403	30	2.0	30	83	6	75	42	1	3	52	1.28
30253362--30253394	17	1.9	17	88	11	50	42	0	0	57	0.98
30253482--30253538	15	3.5	15	71	17	51	49	1	1	47	1.22
30255001--30255051	26	2.0	26	88	0	75	47	11	11	29	1.76
30258931--30258980	26	1.9	26	100	0	100	24	26	16	34	1.95
30265940--30265972	5	6.6	5	100	0	66	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30268887--30269071	67	2.7	67	87	1	262	22	22	17	37	1.94
30275898--30275943	15	3.0	16	81	9	60	15	4	0	80	0.86
30283957--30284141	79	2.3	82	83	7	229	24	27	22	24	2.00
30283938--30284141	40	5.1	40	81	8	229	24	27	22	25	2.00
30291876--30292060	79	2.3	82	82	7	220	25	27	22	24	2.00
30291857--30292060	40	5.1	40	80	8	220	25	27	22	25	2.00
30296237--30296337	50	2.0	50	98	0	193	47	13	9	28	1.75
30299280--30299377	28	3.5	28	94	1	162	26	13	28	31	1.94
30299280--30299390	28	4.0	27	89	3	125	28	12	26	32	1.93
30301515--30301702	24	7.6	24	69	14	96	35	22	25	17	1.95
30301628--30301678	26	2.0	26	84	7	68	37	21	21	19	1.95
30304606--30304703	43	2.3	43	78	3	117	23	18	20	37	1.94
30310487--30310549	22	2.9	21	73	15	65	44	22	23	9	1.82
30314121--30314181	27	2.3	27	86	5	81	16	16	21	45	1.85
30318637--30318921	43	6.7	43	85	5	332	28	28	18	24	1.98
30318635--30318921	85	3.4	84	85	6	357	28	28	18	24	1.98
30318632--30318909	128	2.1	130	86	7	413	28	28	18	24	1.98
30322331--30322528	107	1.9	105	86	7	287	30	9	10	49	1.69
30323310--30323366	16	3.4	17	76	18	57	78	7	1	12	1.01
30337957--30338057	50	2.0	50	98	0	193	47	13	9	28	1.75
30340982--30341104	55	2.2	56	88	2	176	26	12	28	33	1.92
30340982--30341104	28	4.4	28	90	2	176	26	12	28	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30341007--30341117	28	4.0	27	90	3	116	28	11	26	33	1.91
30343240--30343427	24	7.6	24	69	14	96	35	22	25	17	1.95
30343353--30343403	26	2.0	26	84	7	68	37	21	21	19	1.95
30346330--30346427	43	2.3	43	78	3	117	23	18	20	37	1.94
30352081--30352142	22	2.9	21	68	20	56	45	20	24	9	1.81
30355685--30355745	27	2.3	27	86	5	81	16	16	21	45	1.85
30360223--30360506	43	6.7	43	85	5	332	28	28	18	24	1.98
30360221--30360506	85	3.4	83	85	6	362	28	28	18	24	1.98
30360223--30360494	128	2.1	129	88	6	410	27	29	18	24	1.98
30363911--30364109	103	1.9	105	86	6	287	30	9	10	49	1.69

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230