genome.fa.s18.2.7.7.80.10.50.1000.25.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: D05
Parameters: 2 7 7 80 10 50 1000
Length:  64368997

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   

This is table  25  of  208  ( 24943 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)
9669036--9669247	96	2.2	96	89	1	318	40	18	19	21	1.91
9683713--9683738	11	2.4	11	100	0	52	0	7	0	92	0.39
9687536--9687573	19	2.0	19	100	0	76	26	10	10	52	1.68
9688798--9688823	13	2.0	13	100	0	52	46	15	15	23	1.83
9692721--9692758	19	2.0	19	94	0	67	39	0	0	60	0.97
9692718--9692755	13	3.0	13	80	7	51	44	0	0	55	0.99
9692723--9692764	19	2.2	19	86	4	57	42	0	2	54	1.13
9713209--9713242	16	2.1	16	88	5	50	55	8	8	26	1.59
9715701--9715791	44	2.1	44	89	0	137	68	1	16	14	1.28
9716075--9716135	28	2.2	27	88	8	88	26	4	1	67	1.20
9717004--9717037	17	2.1	15	89	10	50	73	5	0	20	1.04
9719175--9719233	31	1.9	31	89	0	91	37	3	6	52	1.45
9723183--9723335	79	1.9	80	86	1	218	25	17	14	42	1.87
9727310--9727342	15	2.3	15	89	5	50	54	3	0	42	1.15
9727523--9727564	22	1.9	22	85	0	57	52	7	2	38	1.42
9728943--9729248	126	2.4	125	86	1	416	32	17	20	29	1.96
9729344--9729443	51	2.0	51	86	7	141	47	3	25	25	1.66
9738828--9738865	4	9.5	4	100	0	76	26	0	23	50	1.50
9742552--9742595	20	2.1	21	84	12	56	54	4	2	38	1.33
9743157--9743204	3	16.0	3	100	0	96	33	0	0	66	0.92
9754221--9754298	32	2.5	31	82	12	90	55	5	11	28	1.57
9754221--9754303	29	2.8	29	80	12	82	56	4	12	26	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9764950--9764995	23	2.0	23	86	0	65	54	2	2	41	1.25
9765335--9765391	30	2.0	27	83	10	69	38	3	21	36	1.70
9770550--9770606	22	2.6	22	97	0	105	31	3	21	43	1.69
9771562--9771624	32	2.0	32	90	0	99	23	6	25	44	1.77
9771534--9771726	96	2.0	97	96	1	361	24	10	21	43	1.84
9772533--9772577	22	2.0	22	91	0	72	48	15	2	33	1.57
9776307--9776351	22	2.0	22	91	0	72	48	15	2	33	1.57
9784062--9784099	6	6.3	6	82	11	51	84	2	10	2	0.83
9784057--9784101	21	2.2	21	84	4	56	84	2	11	2	0.80
9787550--9787606	22	2.6	22	88	0	87	31	3	24	40	1.72
9788571--9788633	32	2.0	32	90	0	99	23	6	25	44	1.77
9788546--9788735	96	2.0	97	95	1	346	25	9	21	43	1.82
9807741--9807781	11	3.9	11	79	20	52	53	0	2	43	1.13
9807767--9807825	20	3.3	20	63	31	53	66	0	1	32	1.02
9807741--9807838	32	3.2	31	84	9	112	61	0	2	36	1.08
9808435--9808469	16	2.1	16	89	5	52	62	0	0	37	0.95
9814562--9815271	84	8.5	84	86	4	859	17	31	10	40	1.83
9817093--9817130	19	2.1	18	85	14	51	55	2	0	42	1.14
9817193--9817263	35	2.1	34	84	7	92	29	0	5	64	1.16
9817459--9817483	6	4.2	6	100	0	50	16	0	0	84	0.63
9817649--9817692	20	2.1	21	87	4	63	59	0	0	40	0.98
9824523--9824709	7	25.6	7	68	13	56	16	0	28	54	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9824555--9824609	23	2.4	22	82	14	67	14	0	25	60	1.35
9824523--9824739	15	15.3	14	71	15	81	16	0	28	54	1.45
9824601--9824711	21	5.2	20	77	9	78	17	0	26	55	1.47
9824668--9824733	23	2.8	24	82	13	84	15	0	27	57	1.38
9824770--9824800	14	2.3	14	94	5	55	12	0	22	64	1.27
9824531--9824801	53	5.2	53	69	14	124	14	0	27	57	1.41
9824768--9824807	14	2.8	14	80	3	53	15	0	17	67	1.23
9824871--9824917	21	2.2	22	88	3	69	14	2	23	59	1.46
9824958--9825042	22	3.9	22	83	9	95	17	1	18	62	1.40
9824994--9825072	15	5.4	15	75	4	54	20	1	22	55	1.50
9825066--9825191	38	3.3	38	71	18	118	15	2	25	56	1.52
9825102--9825161	8	7.8	8	80	14	56	21	0	25	53	1.46
9825053--9825192	75	1.9	75	90	3	228	17	2	24	55	1.53
9825239--9825271	15	2.2	15	94	0	57	12	3	27	57	1.49
9825283--9825403	14	8.4	14	66	13	50	18	0	22	58	1.44
9825278--9825342	28	2.3	28	78	19	73	20	0	20	60	1.37
9825284--9825323	21	1.9	21	84	0	53	22	0	17	60	1.37
9825239--9825429	102	1.9	101	83	7	253	17	2	20	58	1.50
9825282--9825349	21	3.2	21	66	15	50	17	0	22	60	1.36
9825311--9825401	30	3.1	29	78	10	94	16	1	23	59	1.44
9825333--9825376	23	1.9	23	86	9	63	13	2	25	59	1.46
9825269--9825478	102	2.1	103	81	8	243	17	2	20	59	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9825488--9825532	21	2.1	21	91	0	72	20	0	24	55	1.43
9825553--9825584	16	2.0	16	93	0	55	12	0	21	65	1.25
9829778--9829831	6	9.0	6	97	0	99	33	0	35	31	1.58
9830426--9830474	25	2.0	24	92	4	80	55	2	0	42	1.11
9836781--9837201	222	1.9	222	97	0	806	31	15	18	34	1.92
9842652--9842704	27	1.9	28	92	3	90	30	11	7	50	1.65
9852211--9852248	20	1.9	20	88	0	58	15	2	39	42	1.61
9857501--9857545	24	1.9	24	95	4	83	22	8	13	55	1.65
9857839--9858212	190	2.0	190	94	0	658	28	12	16	41	1.85
9859169--9859374	105	2.0	103	88	5	308	48	12	16	23	1.79
9860362--9860750	190	2.0	190	97	0	733	25	20	14	39	1.90
9869658--9869792	63	2.1	64	88	2	200	20	27	20	31	1.98
9884733--9884772	2	20.0	2	94	0	71	0	47	0	52	1.00
9896441--9896477	19	2.1	19	85	10	51	86	0	13	0	0.57
9898628--9898686	29	2.0	30	90	3	93	50	6	3	38	1.45
9898706--9898807	50	2.0	50	100	0	204	42	5	9	42	1.62
9899133--9899179	22	2.2	22	85	11	62	17	0	10	72	1.12
9903777--9903810	18	1.9	17	94	5	59	35	0	2	61	1.11
9907266--9907294	14	2.1	14	100	0	58	20	13	27	37	1.91
9915364--9915403	6	6.5	6	85	2	53	2	0	20	77	0.88
9946378--9946427	26	1.9	26	87	0	73	38	10	20	32	1.85
9953453--9953488	4	9.0	4	100	0	72	25	0	25	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9975078--9975128	12	4.5	11	90	9	68	0	9	1	88	0.60
9975078--9975116	6	6.7	6	97	2	71	0	12	0	87	0.55
9975078--9975127	18	2.9	17	88	11	75	0	10	2	88	0.61
9980067--9980116	15	3.0	18	72	19	54	32	0	0	68	0.90
9980109--9980151	14	2.8	15	82	13	52	34	0	2	62	1.08
9993755--9993804	15	3.0	18	72	19	54	32	0	0	68	0.90
9993797--9993839	14	2.8	15	82	13	52	34	0	2	62	1.08
10004139--10004164	9	2.9	9	100	0	52	69	19	0	11	1.18
10007226--10007554	164	2.0	164	97	0	622	35	10	13	39	1.80
10013713--10013778	33	2.0	33	100	0	132	24	18	18	39	1.92
10017825--10017922	33	2.9	35	73	19	91	46	3	0	50	1.17
10017873--10017929	30	1.9	30	82	13	73	47	3	0	49	1.18
10031246--10031311	29	2.3	29	82	5	73	22	7	19	50	1.73
10033359--10033398	20	2.0	21	85	5	55	32	0	2	65	1.06
10033385--10033412	14	2.0	14	100	0	56	21	0	0	78	0.75
10034673--10034760	45	2.0	44	84	6	115	35	4	25	35	1.76
10034906--10034947	15	2.7	16	82	14	52	52	2	0	45	1.13
10034915--10034956	15	2.9	15	82	10	52	52	0	0	47	1.00
10038388--10038585	41	4.8	41	86	3	229	23	26	19	30	1.98
10038430--10038603	41	4.2	41	85	4	208	23	27	20	29	1.99
10040240--10040264	13	1.9	13	100	0	50	68	24	0	8	1.16
10054632--10054666	16	2.1	17	89	5	54	40	5	5	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10062059--10062141	34	2.4	34	87	0	112	49	8	9	32	1.66
10083554--10083655	26	3.8	27	75	8	93	34	1	2	60	1.23
10085063--10085129	27	2.5	26	95	4	116	31	20	32	14	1.93
10085337--10085422	22	3.8	20	81	15	73	52	13	1	32	1.49
10085310--10085428	27	4.9	23	79	18	127	52	12	0	33	1.45
10085257--10085427	48	3.5	48	84	5	222	52	14	1	32	1.49
10085463--10085519	27	2.1	27	90	0	87	35	1	14	49	1.53
10085722--10085785	8	7.4	8	73	16	56	35	3	15	45	1.62
10085925--10085965	19	2.2	19	90	0	64	51	19	0	29	1.47
10086078--10086115	20	1.9	20	84	10	51	47	0	0	52	1.00

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