genome.fa.s16.2.7.7.80.10.50.1000.125.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  125  of  175  ( 20966 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)
39135133--39135319	82	2.3	82	80	11	197	28	19	28	23	1.98
39139369--39139415	19	2.5	19	86	6	60	27	19	8	44	1.79
39146555--39146683	51	2.5	51	87	2	177	44	18	24	12	1.84
39147845--39148007	44	3.7	44	79	8	143	28	23	25	22	1.99
39147928--39148013	45	1.9	45	90	0	136	31	24	25	18	1.98
39149733--39149775	21	2.0	22	82	13	54	11	4	6	76	1.13
39149801--39149835	15	2.3	15	95	0	61	25	2	2	68	1.17
39151471--39151524	17	3.2	17	78	0	63	44	25	7	22	1.79
39153320--39153404	44	1.9	44	92	0	143	30	12	10	45	1.76
39156096--39156151	23	2.5	22	72	8	60	33	16	25	25	1.95
39161512--39161545	17	2.0	17	94	0	59	35	8	5	50	1.58
39161938--39162261	17	18.4	17	72	10	197	42	12	12	32	1.80
39161937--39162261	35	9.2	35	73	11	202	42	12	12	32	1.80
39162186--39162288	37	2.7	38	83	5	120	39	7	12	39	1.72
39161940--39162263	18	18.3	19	68	17	80	42	12	12	32	1.80
39162186--39162303	37	3.1	36	75	13	112	38	8	12	40	1.74
39162902--39162957	8	6.8	9	78	13	59	0	23	0	76	0.78
39162897--39162955	32	1.9	32	86	6	86	0	22	0	77	0.76
39162925--39162970	13	3.6	12	83	13	56	0	23	0	76	0.79
39162925--39162969	14	3.3	14	84	3	56	0	22	0	77	0.76
39162909--39162967	11	5.4	11	76	17	52	0	23	0	76	0.79
39163149--39163178	8	3.9	8	91	8	53	13	0	0	86	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39163149--39163178	15	2.0	15	100	0	60	13	0	0	86	0.57
39163176--39163256	4	20.0	4	78	16	78	0	27	0	72	0.84
39163176--39163254	26	3.0	27	83	10	83	0	26	0	73	0.84
39163151--39163256	7	15.0	7	78	8	63	2	20	0	76	0.91
39163370--39163424	21	2.6	21	83	11	69	0	20	7	72	1.07
39163752--39163856	29	3.6	29	79	6	113	42	5	20	31	1.75
39164066--39164192	67	1.9	67	90	1	200	35	22	14	28	1.93
39164163--39164216	24	2.2	24	93	0	90	20	37	24	18	1.94
39164187--39164495	75	4.0	77	85	4	417	36	22	15	25	1.94
39164192--39164495	152	2.0	155	86	5	436	36	21	16	25	1.94
39165353--39165388	14	2.5	14	95	4	63	0	0	11	88	0.50
39172748--39172844	17	5.6	16	75	12	68	42	13	10	34	1.78
39172752--39172844	35	2.6	34	80	11	89	40	13	9	35	1.78
39172752--39172860	18	6.1	18	76	13	82	44	13	8	33	1.74
39172823--39172869	17	2.7	18	83	6	62	51	17	2	29	1.57
39172921--39172996	18	4.4	17	74	12	66	43	11	10	34	1.76
39172888--39172996	35	3.1	35	81	6	114	41	13	11	33	1.80
39172958--39173083	40	3.1	40	82	7	157	38	6	11	43	1.67
39173016--39173059	22	2.0	23	90	4	72	36	6	11	45	1.67
39173476--39173525	17	2.9	17	82	8	57	74	0	0	26	0.83
39173486--39173532	14	3.8	13	81	16	55	72	0	0	27	0.85
39173670--39173720	7	7.1	7	80	10	59	0	19	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39173697--39173732	14	2.6	14	90	0	54	0	25	0	75	0.81
39173667--39173732	35	1.9	34	84	3	87	0	21	0	78	0.75
39173974--39174078	29	3.6	29	77	12	106	43	5	18	32	1.73
39183065--39183861	411	1.9	411	97	0	1522	20	12	27	39	1.88
39191560--39191597	20	1.9	20	89	10	60	10	26	15	47	1.78
39207215--39207272	25	2.4	24	75	18	57	8	39	1	50	1.43
39209892--39209937	23	2.0	23	82	0	56	36	0	4	58	1.18
39210159--39210210	21	2.5	21	80	0	59	36	32	1	28	1.69
39212289--39212329	17	2.3	18	87	4	57	80	2	0	17	0.82
39218547--39218585	19	2.0	19	85	14	53	51	0	0	48	1.00
39224876--39224962	45	1.9	45	92	0	147	34	22	16	26	1.95
39224964--39225157	51	3.8	50	78	4	203	29	28	18	23	1.97
39224970--39225158	101	1.9	99	84	7	256	30	28	17	23	1.97
39227373--39227411	16	2.3	18	82	13	55	51	0	7	41	1.31
39230868--39230927	30	2.0	30	96	0	111	25	3	15	56	1.54
39235281--39235337	27	2.2	25	81	6	60	47	1	1	49	1.22
39235424--39235479	18	2.9	19	73	26	55	48	0	0	51	1.00
39235489--39235528	13	3.0	13	86	13	55	52	0	2	45	1.14
39236455--39236519	19	3.3	20	76	22	57	47	3	0	49	1.17
39236479--39236519	20	2.0	21	86	13	59	46	2	0	51	1.14
39241097--39241146	19	2.6	19	83	0	64	36	0	6	58	1.23
39241717--39241742	4	6.5	4	100	0	52	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39242096--39242126	13	2.4	13	100	0	62	22	19	12	45	1.84
39242882--39242937	6	9.3	6	100	0	112	83	0	16	0	0.64
39257696--39257818	60	2.0	60	96	0	228	30	21	14	32	1.94
39259808--39259885	38	2.1	38	95	0	138	19	16	28	35	1.93
39260713--39260769	29	2.0	29	82	6	71	57	0	1	40	1.09
39266075--39266487	133	3.1	133	80	10	473	33	15	21	29	1.94
39266834--39266886	21	2.6	20	79	5	61	20	3	37	37	1.71
39268725--39268765	17	2.3	18	87	4	57	53	7	4	34	1.50
39271270--39271302	17	1.9	17	93	0	57	39	3	6	51	1.42
39271311--39271349	15	2.6	16	88	8	55	43	0	5	51	1.24
39271568--39271646	21	3.8	21	83	5	97	40	13	6	39	1.71
39271473--39271713	116	2.1	116	96	1	448	42	12	5	38	1.67
39271682--39271927	9	26.8	9	76	4	233	47	17	3	32	1.63
39271696--39271927	27	8.5	27	82	2	257	48	17	3	31	1.62
39271712--39271928	36	6.0	36	85	1	263	49	17	2	31	1.59
39275964--39275993	14	2.1	14	100	0	60	66	0	13	20	1.24
39288882--39288914	12	2.8	12	86	13	50	6	42	24	27	1.78
39291619--39291649	16	1.9	16	100	0	62	67	0	6	25	1.14
39294002--39294044	22	2.0	22	86	9	61	72	6	18	2	1.19
39294755--39295032	50	5.7	50	69	9	205	23	26	21	28	1.99
39294735--39295026	100	3.0	98	83	8	375	24	25	21	28	1.99
39307512--39307555	21	2.1	21	83	8	54	59	2	2	36	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39309551--39309580	13	2.3	13	94	0	51	30	6	6	56	1.51
39312136--39312160	10	2.5	10	100	0	50	64	0	36	0	0.94
39312420--39312507	26	3.4	25	76	6	95	46	1	3	48	1.26
39313126--39313177	9	5.6	9	80	8	50	57	1	1	38	1.21
39314701--39314742	16	2.6	16	85	11	50	33	0	2	64	1.07
39317437--39317471	18	2.0	17	88	5	52	14	5	2	77	1.07
39321379--39321464	43	2.0	43	95	0	154	23	25	2	48	1.62
39323186--39323301	29	4.0	29	75	10	112	41	21	23	13	1.89
39325491--39325540	26	2.0	24	84	7	64	56	0	0	44	0.99
39325495--39325533	16	2.4	16	86	0	51	56	0	0	43	0.99
39328919--39329075	46	3.3	46	84	10	140	36	14	22	27	1.92
39328867--39329075	52	4.1	51	84	9	275	35	13	22	27	1.93
39328853--39329076	98	2.3	98	93	0	385	34	14	23	27	1.93
39329038--39329258	37	6.0	37	93	1	365	38	15	21	24	1.93
39336488--39336522	14	2.6	14	95	4	63	62	0	0	37	0.95
39346802--39346853	25	2.1	25	96	0	95	30	19	19	30	1.96
39351097--39351169	25	3.0	23	83	13	85	36	19	12	31	1.88
39351125--39351529	69	5.9	69	90	3	586	45	20	9	24	1.80
39351430--39351527	22	4.2	24	66	21	73	45	20	10	23	1.81
39352336--39352485	41	3.7	41	86	1	194	34	25	19	20	1.96
39353327--39353378	28	1.9	26	88	7	77	46	5	0	48	1.26
39360152--39360234	29	2.9	29	88	0	130	34	26	10	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39371171--39371306	70	1.9	70	96	0	254	58	9	13	18	1.62
39376985--39377034	19	2.6	19	84	9	57	26	2	24	48	1.62
39380678--39381474	402	2.0	402	92	3	1350	40	15	19	25	1.91
39381900--39381929	15	1.9	16	93	6	53	10	40	0	50	1.36
39395049--39395094	22	2.3	19	85	11	56	54	4	21	19	1.61
39403411--39403489	34	2.3	34	80	8	81	39	3	17	39	1.68
39403738--39403841	41	2.5	41	93	3	174	26	20	30	22	1.98
39413682--39413757	20	3.8	20	89	0	116	51	0	27	21	1.48
39413686--39413773	40	2.2	40	83	0	104	53	0	25	21	1.46
39416672--39416706	16	2.2	16	90	10	54	74	2	5	17	1.14

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