genome.fa.s18.2.7.7.80.10.50.1000.10.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  10  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)
3904731--3904772	19	2.2	19	95	0	75	50	16	0	33	1.46
3904788--3904863	27	2.8	27	87	0	116	25	36	21	17	1.94
3905565--3905590	6	4.3	6	100	0	52	34	0	0	65	0.93
3909161--3909196	6	6.5	6	81	18	51	66	0	0	33	0.92
3909161--3909212	27	1.9	27	88	7	79	61	0	0	38	0.96
3909183--3909222	21	1.9	21	89	0	62	52	0	0	47	1.00
3919954--3919993	20	2.0	21	85	5	55	45	7	5	42	1.54
3924342--3924392	24	2.1	24	88	0	75	37	3	9	49	1.55
3926908--3926938	15	2.1	15	100	0	62	48	12	25	12	1.77
3928810--3928848	16	2.4	16	82	0	51	71	0	15	12	1.14
3936558--3936619	32	2.0	31	87	3	88	48	11	19	20	1.79
3936789--3936832	22	2.1	21	87	8	63	54	22	2	20	1.56
3936816--3936863	21	2.2	23	77	11	55	50	20	8	20	1.74
3936825--3936865	22	1.9	22	90	5	66	46	19	9	24	1.80
3937268--3937294	2	13.5	2	100	0	54	0	0	48	51	1.00
3940405--3940617	71	3.0	71	96	0	399	47	13	14	24	1.79
3940508--3940617	37	3.1	37	61	17	86	48	14	14	22	1.80
3940474--3940583	34	3.1	34	62	16	80	48	11	12	27	1.76
3947408--3947457	3	17.3	3	75	8	50	66	6	0	28	1.15
3948578--3948670	44	2.1	46	93	4	163	36	31	4	27	1.76
3948652--3948704	16	3.3	16	94	0	97	22	33	5	37	1.78
3951733--3951819	5	16.6	5	75	12	59	49	2	0	48	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3951741--3951806	24	2.8	23	72	6	69	50	3	0	46	1.16
3951743--3951836	45	2.0	46	87	8	136	54	3	0	42	1.16
3952588--3952634	24	2.0	24	84	16	62	31	0	17	51	1.46
3994710--3994737	2	14.0	2	100	0	56	50	0	50	0	1.00
3994984--3995018	18	2.0	17	88	5	52	71	2	0	25	1.00
4009441--4009476	2	18.0	2	100	0	72	50	0	50	0	1.00
4016454--4016559	54	2.0	54	96	0	194	28	31	20	19	1.97
4031779--4031906	67	1.9	67	85	0	175	21	25	16	36	1.94
4032050--4032096	19	2.5	19	80	10	60	23	6	2	68	1.24
4032212--4032247	17	2.1	18	89	5	56	52	2	2	41	1.30
4040793--4040896	22	4.4	23	80	9	104	38	19	25	16	1.92
4059691--4059724	17	1.9	18	88	5	52	55	0	5	38	1.24
4062823--4062880	31	1.9	31	86	10	84	34	12	12	41	1.79
4063378--4063406	14	2.0	15	93	6	51	58	20	6	13	1.58
4064751--4064798	15	3.2	15	71	11	53	43	8	22	25	1.81
4069247--4069422	37	4.8	37	96	0	298	39	13	21	26	1.90
4069385--4069508	46	2.8	46	91	3	200	33	16	22	27	1.96
4076939--4077077	37	3.8	37	95	0	242	39	13	20	25	1.90
4077040--4077163	46	2.8	46	91	3	200	33	16	22	27	1.96
4079900--4080007	15	7.2	15	67	12	78	44	7	22	25	1.79
4079893--4080007	30	3.8	30	96	0	194	45	6	22	25	1.77
4085054--4085116	30	2.1	30	93	0	108	25	3	14	57	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4086388--4086427	2	19.5	2	94	5	71	50	47	0	2	1.14
4091168--4091204	19	2.0	19	89	5	58	78	0	18	2	0.87
4099894--4099922	13	2.2	13	100	0	58	58	6	6	27	1.50
4100339--4100363	5	5.0	5	100	0	50	80	0	0	20	0.72
4100595--4100651	22	2.5	23	82	8	80	61	0	1	36	1.07
4120165--4120222	20	2.8	21	79	10	57	48	3	1	46	1.29
4120191--4120246	9	6.1	9	76	19	62	55	0	1	42	1.10
4120214--4120259	16	2.8	17	83	6	58	58	0	0	41	0.98
4120190--4120230	11	3.9	11	84	9	59	51	0	2	46	1.14
4123498--4123545	25	2.0	24	83	4	60	54	2	0	43	1.12
4133618--4133925	151	2.0	151	99	0	607	26	14	21	37	1.92
4151379--4151840	111	4.1	111	86	2	609	27	22	27	22	1.99
4154094--4154149	22	2.5	23	82	2	69	51	1	1	44	1.22
4154125--4154164	16	2.5	16	91	0	62	47	2	7	42	1.45
4154153--4154351	66	3.1	66	93	5	331	40	5	9	45	1.58
4154418--4154463	24	1.9	24	86	8	67	58	2	0	39	1.10
4161972--4162118	41	3.6	41	92	1	242	23	29	19	28	1.98
4162687--4162733	12	4.0	12	86	2	51	53	6	2	38	1.39
4163714--4163738	13	1.9	13	100	0	50	68	24	0	8	1.16
4164316--4164362	14	3.3	14	77	13	51	34	6	17	42	1.74
4164345--4164384	20	2.0	20	95	0	71	35	7	15	42	1.75
4164559--4164594	18	2.0	18	88	0	54	61	8	0	30	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4167689--4167741	27	2.0	27	96	3	99	28	33	22	15	1.94
4167618--4167949	102	3.3	102	93	0	558	30	28	19	21	1.98
4168284--4168340	30	1.9	30	85	3	80	29	24	7	38	1.82
4170302--4170412	47	2.4	47	81	6	136	35	21	16	27	1.94
4171175--4171255	4	19.8	4	77	5	72	4	24	3	66	1.28
4171940--4171968	6	4.8	6	100	0	58	86	0	13	0	0.58
4173190--4173215	5	5.2	5	100	0	52	19	0	0	80	0.71
4173200--4173255	27	2.1	26	90	3	85	33	0	0	66	0.92
4173192--4173252	15	3.9	15	79	8	59	34	0	0	65	0.93
4173199--4173267	27	2.6	27	84	6	79	36	0	0	63	0.94
4173207--4173266	26	2.3	26	81	10	70	38	0	0	61	0.96
4173231--4173277	19	2.4	19	80	16	51	42	0	2	55	1.12
4173500--4173631	66	2.0	66	98	0	255	26	16	23	33	1.96
4188558--4188936	101	3.5	103	83	13	417	35	14	17	31	1.91
4195761--4195821	29	2.1	28	82	8	70	22	6	1	68	1.21
4207612--4207655	22	2.0	23	81	4	54	15	11	2	70	1.26
4208024--4208061	20	1.9	19	89	5	58	76	2	0	21	0.91
4218866--4219086	60	3.7	60	94	1	356	27	16	40	15	1.88
4236909--4236953	18	2.6	17	79	6	54	33	11	6	48	1.65
4241090--4241195	53	2.0	52	94	3	187	49	16	22	11	1.78
4242289--4242379	35	2.6	35	81	10	105	49	1	3	46	1.25
4242387--4242429	18	2.4	17	81	11	50	72	0	23	4	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4242562--4242627	32	2.1	32	97	0	123	37	19	9	33	1.84
4243339--4243473	37	3.4	39	73	11	114	28	15	22	34	1.94
4243617--4243656	20	2.0	20	100	0	80	40	10	20	30	1.85
4245338--4245385	19	2.4	21	86	6	64	54	2	2	41	1.24
4246690--4246726	19	1.9	19	100	0	74	48	2	0	48	1.15
4246679--4246735	24	2.3	24	84	3	69	45	3	1	49	1.29
4255819--4255861	18	2.4	18	84	0	59	55	0	39	4	1.20
4265208--4265247	19	2.0	20	85	4	55	52	0	2	45	1.14
4271222--4271461	122	2.0	123	91	0	392	42	17	13	26	1.87
4280058--4280246	100	1.9	96	82	6	236	26	16	8	48	1.75
4283564--4283606	21	2.1	21	86	4	61	72	2	18	6	1.19
4298178--4298218	20	2.0	20	85	0	55	53	4	4	36	1.44
4300548--4300677	46	2.8	46	92	2	217	39	10	23	27	1.86
4301019--4301219	109	1.9	106	90	3	321	32	18	18	29	1.95
4302062--4302152	3	30.0	3	72	10	60	62	2	4	30	1.27
4302062--4302151	31	3.0	30	79	9	85	62	2	4	31	1.27
4307812--4307885	29	2.5	30	84	4	87	52	5	4	37	1.43
4328657--4328699	18	2.4	18	80	11	52	69	2	0	27	1.00
4331846--4331943	23	4.3	23	90	2	162	31	26	21	20	1.98
4331853--4331941	45	2.0	45	95	0	160	31	26	22	19	1.97
4334657--4334942	46	6.3	46	86	10	374	36	14	21	27	1.93
4334591--4334905	98	3.3	97	91	3	478	34	14	22	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4334597--4334905	144	2.1	145	88	4	449	35	14	22	27	1.93
4334869--4335014	37	4.0	37	93	1	242	36	16	21	24	1.94
4336268--4336435	58	3.0	58	87	10	237	22	13	30	33	1.92
4336287--4336377	28	3.2	28	66	22	80	25	15	31	27	1.95
4336328--4336470	49	2.9	49	93	0	232	23	13	30	32	1.94
4339186--4339471	46	6.3	46	86	10	374	36	14	21	27	1.93
4339120--4339434	98	3.3	97	91	3	478	34	14	22	28	1.93
4339126--4339434	144	2.1	145	88	4	449	35	14	22	27	1.93
4339398--4339543	37	4.0	37	93	1	242	36	16	21	24	1.94
4345902--4345944	21	2.0	21	100	0	86	27	0	9	62	1.25

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