genome.fa.s20.2.7.7.80.10.50.1000.17.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  17  of  189  ( 22580 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)
5582858--5582882	6	4.2	6	100	0	50	52	16	0	32	1.44
5587066--5587093	4	7.0	4	100	0	56	50	25	0	25	1.50
5592620--5592659	22	1.9	22	85	10	57	50	0	0	50	1.00
5598581--5598616	18	1.9	19	94	5	65	66	2	0	30	1.06
5605749--5605790	21	2.0	21	85	0	57	38	7	7	47	1.58
5627191--5627242	20	2.6	20	84	6	70	46	0	0	53	1.00
5627191--5627241	18	2.7	19	84	6	59	45	0	0	54	0.99
5629656--5629715	24	2.5	25	82	17	67	55	5	3	36	1.38
5629753--5629833	3	26.3	3	72	14	58	60	3	4	30	1.35
5631297--5631725	44	9.8	45	69	12	182	27	21	19	31	1.97
5631297--5631764	175	2.7	175	91	0	729	28	21	19	30	1.97
5631768--5632026	87	3.0	87	85	1	331	26	24	21	27	1.99
5633157--5633203	21	2.2	21	88	0	67	25	38	10	25	1.88
5633297--5633331	10	3.5	10	92	7	54	8	11	0	80	0.92
5634222--5634265	1	44.0	1	81	0	52	6	2	0	90	0.51
5634222--5634263	9	4.9	9	85	11	61	7	2	0	90	0.53
5634222--5634265	16	2.9	15	90	10	63	6	2	0	90	0.51
5638892--5638945	3	17.3	3	78	14	56	62	1	5	29	1.28
5638884--5638947	9	6.8	10	77	15	57	62	1	4	31	1.25
5641130--5641731	114	5.3	113	88	3	841	24	22	26	26	2.00
5641976--5642027	14	3.6	14	87	5	59	25	0	38	36	1.56
5641994--5642027	14	2.4	14	100	0	68	26	0	38	35	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5642532--5642926	135	2.7	143	82	11	454	46	12	13	27	1.79
5642817--5643033	107	2.0	108	87	6	316	51	11	11	25	1.72
5642909--5643294	136	3.0	127	84	10	466	48	10	12	28	1.74
5643098--5643126	14	2.0	15	93	6	51	82	0	0	17	0.66
5643191--5643398	104	2.0	104	83	7	258	51	11	9	27	1.68
5646107--5646390	142	2.0	142	97	0	541	33	13	15	36	1.87
5646919--5647160	43	5.7	43	83	2	256	24	15	29	30	1.96
5646934--5647160	86	2.6	85	83	0	283	24	16	30	28	1.97
5648215--5648383	68	2.5	68	91	0	266	40	14	21	23	1.90
5653667--5653728	19	3.1	19	72	17	61	59	0	3	37	1.13
5653612--5653728	42	2.9	40	75	19	118	54	1	5	38	1.33
5655426--5655480	19	2.9	19	83	2	76	27	30	27	14	1.95
5655933--5655959	11	2.5	11	100	0	54	29	7	7	55	1.55
5658350--5658399	3	16.7	3	100	0	100	66	0	34	0	0.92
5658535--5658569	11	3.1	11	95	4	61	17	0	8	74	1.06
5658660--5658739	38	2.2	39	86	8	114	30	1	12	56	1.44
5658745--5658833	40	2.4	38	81	10	112	32	5	10	51	1.59
5660446--5660504	25	2.3	25	82	8	66	59	10	5	25	1.50
5662596--5663292	160	4.4	159	92	2	1134	29	8	8	53	1.60
5662596--5663292	319	2.2	317	92	2	1159	29	8	8	53	1.60
5663295--5663354	29	2.1	28	87	9	86	20	8	5	66	1.37
5663444--5663564	30	4.4	30	74	21	138	61	8	5	23	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5663467--5663499	12	2.8	12	95	0	57	69	6	0	24	1.10
5663798--5663919	3	41.3	3	71	15	76	0	36	1	60	1.12
5663759--5663867	52	2.1	52	80	11	118	0	37	1	59	1.14
5663859--5663909	5	9.6	5	85	10	66	0	35	0	64	0.94
5663857--5663918	10	6.5	10	82	17	55	1	35	0	62	1.05
5664906--5664954	21	2.3	21	75	6	55	65	6	0	28	1.16
5679744--5679797	22	2.3	24	78	9	58	37	1	5	55	1.34
5680120--5680180	31	2.0	31	86	0	86	32	18	16	32	1.93
5690033--5690078	20	2.3	20	100	0	92	26	4	15	54	1.59
5693662--5693733	37	2.0	36	83	5	92	38	1	2	56	1.22
5699411--5699458	17	2.9	17	90	3	71	27	0	18	54	1.44
5700678--5700709	13	2.5	13	94	0	55	31	0	12	56	1.37
5700804--5701045	50	4.7	50	88	3	313	26	23	29	20	1.99
5700804--5701053	100	2.4	103	90	5	389	26	23	29	21	1.99
5703476--5703548	23	3.2	22	63	14	58	38	8	26	27	1.84
5703451--5703589	46	3.0	46	90	2	226	35	9	25	29	1.87
5715833--5715871	12	3.2	12	85	3	51	23	5	2	69	1.21
5724017--5724046	15	1.9	16	93	6	53	46	46	0	6	1.29
5725485--5725517	16	2.1	16	88	11	50	27	0	6	66	1.15
5730627--5730708	41	2.0	40	97	2	155	31	26	14	26	1.95
5737710--5738040	44	7.6	43	70	10	190	30	20	22	26	1.98
5737713--5737953	131	1.9	129	81	6	299	29	21	21	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5737891--5738052	87	1.9	87	84	2	218	30	20	24	25	1.99
5737710--5738156	218	2.0	219	82	3	535	30	20	22	26	1.98
5738513--5738542	15	1.9	16	93	6	53	46	46	0	6	1.29
5739957--5739988	15	2.1	16	94	5	57	25	0	6	68	1.12
5741937--5741979	7	5.9	7	78	10	50	30	2	4	62	1.28
5743533--5743599	34	1.9	35	84	3	91	31	8	13	46	1.74
5746307--5746347	20	2.0	21	85	4	57	65	7	0	26	1.18
5749945--5750065	60	2.0	60	98	0	233	40	4	11	42	1.63
5755825--5755858	13	2.5	14	85	4	52	32	14	11	41	1.82
5767355--5767577	79	2.8	78	77	8	236	33	9	27	29	1.89
5767556--5767608	26	2.0	26	92	0	88	43	1	32	22	1.64
5767677--5767732	26	2.2	24	77	17	60	33	1	39	25	1.66
5767518--5767846	132	2.5	132	92	0	559	35	7	29	27	1.84
5770557--5771138	79	7.7	79	71	14	256	34	8	26	30	1.86
5770567--5770780	78	2.8	77	79	9	227	34	8	26	30	1.86
5770657--5771055	146	2.7	146	81	9	414	33	8	28	30	1.87
5776754--5776865	56	2.0	56	100	0	224	41	16	14	28	1.87
5776904--5776945	15	2.7	15	88	3	57	30	0	0	69	0.89
5777053--5777090	15	2.3	16	82	17	51	63	0	0	36	0.95
5777058--5777089	15	2.1	16	94	5	57	62	0	0	37	0.95
5780418--5780457	17	2.4	17	86	0	53	57	15	7	20	1.61
5794349--5794394	22	2.1	22	91	0	74	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5794668--5794730	30	2.2	30	88	8	96	34	0	0	65	0.93
5796528--5796564	18	2.1	18	100	0	74	32	21	13	32	1.92
5797321--5797350	10	3.1	10	95	4	53	50	6	0	43	1.28
5797346--5797417	26	2.7	27	78	4	83	36	0	1	62	1.04
5797365--5797418	19	2.8	19	81	13	67	37	0	0	62	0.95
5798289--5798406	60	2.0	57	83	4	146	49	9	11	30	1.70
5798506--5798540	15	2.2	16	90	5	54	25	8	2	62	1.38
5801655--5801736	23	3.4	23	88	8	103	29	21	26	21	1.99
5801655--5801746	23	3.9	23	80	15	98	30	21	26	21	1.99
5811834--5811988	36	4.0	36	77	15	157	29	21	13	36	1.91
5811870--5812024	46	3.6	46	73	16	177	29	21	12	36	1.90
5811791--5812024	82	2.9	82	92	1	384	29	21	13	36	1.91
5815280--5815363	10	8.4	10	71	19	59	30	3	3	61	1.30
5815280--5815363	41	2.1	39	82	8	98	30	3	3	61	1.30
5815286--5815363	29	2.6	31	78	6	81	30	3	3	61	1.32
5815280--5815361	19	4.2	19	73	13	76	30	3	3	62	1.30
5816742--5816798	30	1.9	30	100	0	114	33	3	24	38	1.73
5821964--5822023	21	2.8	21	82	5	75	55	3	3	38	1.33
5822579--5822684	54	1.9	55	88	1	160	23	27	17	31	1.97
5822587--5822714	55	2.4	54	83	1	175	26	29	15	28	1.96
5831253--5831278	12	2.2	12	100	0	52	92	0	7	0	0.39
5840764--5840813	27	1.9	27	84	8	68	32	6	6	56	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5841028--5841074	23	2.1	22	84	4	58	63	2	0	34	1.06
5846704--5846780	39	2.0	39	82	5	93	3	44	1	50	1.28
5852514--5852553	9	4.4	9	87	0	53	45	20	7	27	1.78
5852656--5852699	18	2.4	18	84	0	52	15	2	40	40	1.60
5854333--5854388	19	2.8	20	84	10	80	73	3	3	19	1.13
5854333--5854390	20	2.9	21	85	7	77	72	5	3	18	1.18
5854386--5854434	24	2.1	23	84	3	62	51	30	0	18	1.47
5857847--5857896	21	2.3	22	79	3	57	30	4	2	64	1.23
5858055--5858092	16	2.4	16	90	0	58	39	5	23	31	1.77
5858254--5858347	37	2.5	37	83	8	120	52	2	0	45	1.12

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