genome.fa.s25.2.7.7.80.10.50.1000.101.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  101  of  196  ( 23409 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)
30159412--30159700	137	2.1	137	96	1	535	40	24	5	29	1.78
30160036--30160119	39	2.1	39	86	4	114	51	5	11	30	1.63
30163364--30163393	16	1.9	15	93	6	51	53	0	0	46	1.00
30164515--30164864	41	8.5	40	73	11	269	28	23	26	21	1.99
30164503--30164864	82	4.4	81	76	7	354	28	22	26	22	1.99
30164546--30164865	164	2.0	164	89	2	491	27	23	26	22	1.99
30164960--30165052	40	2.3	40	77	5	98	26	22	20	30	1.98
30165885--30166215	169	2.0	169	93	1	574	23	11	15	50	1.76
30170046--30170091	14	3.1	14	84	6	56	26	0	36	36	1.57
30170310--30170351	15	2.7	16	82	14	52	52	2	0	45	1.13
30170319--30170360	15	2.9	15	82	10	52	52	0	0	47	1.00
30170217--30170531	157	2.0	155	96	1	585	44	3	5	47	1.41
30170466--30170507	15	2.7	16	82	14	52	52	2	0	45	1.13
30170475--30170516	15	2.9	15	82	10	52	52	0	0	47	1.00
30170283--30170516	75	3.0	75	62	24	178	47	3	3	45	1.36
30170524--30170720	58	3.2	61	69	19	169	49	6	3	41	1.45
30170469--30170758	119	2.4	120	92	4	482	50	4	2	42	1.38
30170811--30170854	18	2.3	18	84	7	52	52	4	0	43	1.22
30170842--30170985	47	3.1	44	68	18	114	47	5	2	44	1.41
30170774--30170980	91	2.3	90	89	3	308	47	3	2	45	1.36
30170814--30170961	47	3.2	47	70	16	146	50	4	1	43	1.31
30177710--30177764	28	2.0	28	88	0	83	63	5	27	3	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30187149--30187248	42	2.4	42	94	0	173	38	10	26	26	1.87
30191954--30191986	12	2.6	13	90	4	50	27	36	27	9	1.87
30195714--30195955	50	4.7	51	78	5	197	26	21	28	23	1.99
30197874--30197919	16	2.9	16	78	12	58	28	2	2	67	1.14
30199260--30199317	30	1.9	30	89	0	89	24	36	24	15	1.94
30201557--30201629	26	2.8	26	83	6	87	38	8	17	35	1.80
30205358--30205450	42	2.2	42	92	0	159	19	23	33	23	1.97
30205358--30205467	42	2.6	42	86	0	121	19	25	31	23	1.98
30208948--30208978	16	1.9	16	100	0	62	51	12	16	19	1.76
30216086--30216273	40	4.7	40	93	1	306	25	20	29	24	1.99
30218939--30218994	25	2.3	24	84	6	78	53	0	3	42	1.18
30219015--30219195	56	3.1	56	69	20	170	43	1	4	50	1.34
30218972--30219601	120	5.3	120	91	2	993	43	2	5	49	1.36
30218972--30219601	235	2.6	236	90	3	985	43	2	5	49	1.36
30219542--30219576	18	2.0	17	88	5	52	45	0	0	54	0.99
30219527--30219621	26	3.5	26	67	14	66	46	0	3	50	1.17
30219811--30219861	16	3.2	16	97	0	93	23	37	5	33	1.79
30219981--30220038	25	2.3	23	81	16	71	32	0	15	51	1.44
30219994--30220044	25	2.0	25	92	0	84	35	1	15	47	1.57
30221887--30221929	20	2.2	20	82	0	50	9	34	18	37	1.83
30224254--30224287	15	2.3	15	89	0	50	47	8	17	26	1.77
30227619--30227673	26	2.1	26	82	0	65	43	0	25	30	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30230577--30230618	21	2.0	22	90	4	68	33	4	4	57	1.41
30230770--30230901	50	2.6	50	87	0	183	26	23	30	19	1.98
30231165--30231213	20	2.5	20	75	15	57	59	6	20	14	1.56
30238498--30238616	49	2.4	49	78	4	132	33	21	23	21	1.97
30238829--30238867	20	2.0	20	90	10	62	56	2	23	17	1.53
30243292--30243438	27	5.4	27	80	8	129	24	17	19	38	1.92
30247006--30247072	19	3.4	19	71	15	64	29	29	22	17	1.97
30246985--30247073	40	2.2	41	91	4	144	31	26	22	19	1.97
30250446--30250558	43	2.7	43	80	4	122	30	23	20	25	1.99
30251209--30251233	13	1.9	13	100	0	50	40	24	4	32	1.73
30266040--30266377	29	11.8	28	75	8	218	25	15	19	39	1.91
30266149--30266421	87	3.1	88	77	6	256	24	15	20	39	1.91
30266096--30266444	29	12.1	29	75	6	172	24	14	20	39	1.90
30270318--30271378	529	2.0	529	95	0	1897	34	15	18	31	1.92
30276269--30276357	27	3.3	27	81	4	92	35	37	12	14	1.84
30288505--30288538	16	2.0	18	88	11	54	41	0	2	55	1.15
30289525--30289549	12	2.1	12	100	0	50	44	0	8	48	1.32
30289870--30289967	21	4.5	21	77	9	99	32	31	8	27	1.86
30289891--30289959	24	3.0	24	72	12	81	36	27	7	28	1.84
30289869--30289959	45	2.0	45	93	0	155	34	28	7	29	1.85
30290639--30290974	45	7.5	45	85	2	361	39	17	17	24	1.91
30290864--30291120	46	5.6	45	84	5	203	43	18	19	17	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30290639--30290973	135	2.5	135	83	0	429	39	17	17	24	1.91
30290909--30291120	46	4.6	46	87	1	266	45	17	19	16	1.85
30300513--30300601	21	4.4	21	67	21	55	51	1	3	43	1.25
30300612--30300660	20	2.7	18	77	22	57	51	4	0	44	1.20
30309750--30310209	159	2.9	159	99	0	895	22	16	16	44	1.87
30312153--30312194	21	2.0	21	100	0	84	38	14	14	33	1.86
30313239--30313292	28	1.9	28	81	7	65	62	11	0	25	1.28
30315689--30315754	24	2.8	24	83	4	71	37	10	10	40	1.74
30320911--30321135	40	5.7	40	90	5	314	26	27	21	24	1.99
30320878--30321135	80	3.3	79	86	4	333	25	27	21	25	1.99
30328914--30329139	40	5.7	40	89	6	298	26	27	22	24	2.00
30330438--30330552	56	2.1	56	93	3	196	22	27	24	25	2.00
30331167--30331214	11	4.4	11	80	17	55	18	6	0	75	1.01
30332658--30332750	45	2.1	45	85	4	125	25	19	23	31	1.98
30340343--30340502	40	4.0	40	86	0	214	15	12	25	47	1.80
30340343--30340521	80	2.3	79	84	2	216	14	11	25	48	1.77
30344712--30345042	50	6.6	50	88	3	470	26	21	31	20	1.98
30351990--30352226	50	4.8	50	83	6	281	25	21	30	22	1.99
30358809--30358837	11	2.7	11	94	5	51	27	3	0	68	1.05
30359413--30359552	31	4.5	31	85	0	190	30	10	15	44	1.79
30369276--30369421	31	4.7	31	85	0	195	30	8	16	45	1.76
30399468--30399510	21	2.0	22	82	8	54	32	2	20	44	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30399468--30399515	21	2.2	22	81	7	53	35	4	18	41	1.70
30412089--30412115	14	1.9	14	100	0	54	37	22	25	14	1.93
30416429--30416462	18	1.9	17	88	5	50	5	38	0	55	1.24
30417129--30417199	35	2.0	35	100	0	142	36	8	14	40	1.76
30419147--30419339	50	3.8	50	90	0	287	20	29	22	26	1.99
30427058--30427103	22	2.1	22	87	0	65	39	47	4	8	1.54
30427070--30427130	11	5.5	11	76	0	59	34	49	4	11	1.61
30429676--30429706	16	2.0	16	93	6	55	38	0	29	32	1.57
30430361--30430410	11	4.6	10	82	7	55	40	50	4	6	1.46
30430362--30430410	22	2.2	22	92	0	80	38	51	4	6	1.46
30434652--30434742	48	1.9	47	90	2	146	19	16	25	38	1.92
30436518--30436747	49	4.8	50	76	10	246	26	16	23	33	1.96
30436518--30436747	93	2.4	96	88	5	324	26	16	23	33	1.96
30442266--30442293	9	3.1	9	100	0	56	46	10	10	32	1.73
30443414--30443444	5	6.2	5	100	0	62	22	19	19	38	1.93
30443168--30443576	207	2.0	201	93	2	692	35	19	12	32	1.89
30443534--30443559	5	5.2	5	100	0	52	19	19	19	42	1.90
30445299--30445371	32	2.3	32	85	4	94	31	15	16	36	1.90
30446637--30446683	23	2.0	23	100	0	94	8	8	34	48	1.64
30455057--30455100	13	3.1	14	78	15	54	54	0	0	45	0.99
30455063--30455099	16	2.3	16	86	13	58	59	0	0	40	0.97
30455057--30455112	29	2.0	27	83	16	69	53	3	0	42	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30459434--30459475	21	2.0	21	90	0	66	19	16	11	52	1.74
30461154--30461218	30	2.2	29	75	5	69	36	12	18	32	1.88
30461455--30461639	101	1.8	102	91	3	311	23	17	27	30	1.97
30461451--30461646	51	3.9	51	81	4	227	23	17	28	30	1.97
30461561--30461641	26	3.2	26	62	28	64	23	14	28	33	1.94
30461643--30461737	45	2.1	45	88	0	145	27	17	23	31	1.97
30466201--30466225	2	12.5	2	100	0	50	0	48	0	52	1.00
30468879--30468992	41	2.8	41	86	1	158	21	28	14	35	1.93
30482388--30482421	14	2.4	14	90	5	50	0	2	8	88	0.62
30485305--30485338	16	2.2	15	89	5	50	55	0	0	44	0.99

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