genome.fa.s20.2.7.7.80.10.50.1000.40.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  40  of  199  ( 23844 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)
12189927--12189951	7	3.6	7	100	0	50	60	12	0	28	1.32
12190839--12190867	13	2.2	13	100	0	58	31	13	13	41	1.84
12197984--12198491	110	4.6	110	92	2	745	33	20	14	31	1.93
12198535--12198574	20	2.1	18	86	13	53	57	2	15	25	1.50
12198821--12198908	39	2.3	39	79	0	95	53	6	7	31	1.56
12198947--12199014	24	2.8	24	76	14	68	52	1	10	35	1.44
12198981--12199026	22	2.1	22	87	0	65	58	2	4	34	1.30
12199036--12199065	3	10.0	3	92	0	51	63	0	3	33	1.11
12209767--12209831	14	4.6	14	72	0	58	41	10	3	44	1.55
12210207--12210347	71	2.0	71	91	0	228	29	16	17	36	1.92
12216001--12216031	15	2.1	15	100	0	62	32	0	29	38	1.57
12216663--12216703	21	2.1	19	86	13	57	36	4	0	58	1.20
12227415--12227444	16	1.9	16	93	6	53	33	0	3	63	1.11
12235202--12235240	20	2.0	20	85	10	53	5	15	5	74	1.17
12238704--12238755	24	2.2	24	89	0	77	55	9	1	32	1.43
12243083--12243148	31	2.2	31	84	13	84	25	1	6	66	1.23
12243347--12243391	23	1.9	23	90	4	72	60	8	4	26	1.46
12246058--12246428	46	8.6	45	80	13	426	34	14	22	28	1.93
12246140--12246293	36	4.0	36	75	16	148	37	13	20	28	1.91
12246094--12246428	82	4.0	80	85	7	429	34	14	22	28	1.94
12251191--12251399	92	2.3	92	86	5	280	45	3	3	46	1.39
12251327--12251374	26	1.9	25	84	16	64	45	0	2	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12251452--12251663	66	3.4	63	70	21	203	41	3	5	49	1.44
12251415--12251707	120	2.4	120	93	3	493	42	3	4	49	1.38
12251549--12251701	15	10.1	15	66	21	54	43	1	3	50	1.31
12251669--12251710	15	2.7	16	82	14	52	45	0	2	52	1.13
12251415--12251699	59	4.8	57	69	20	199	43	3	4	49	1.38
12251926--12251961	16	2.2	16	90	0	54	36	33	2	27	1.72
12253615--12253730	36	3.2	35	82	4	135	31	49	5	14	1.65
12253713--12253747	3	11.7	3	93	0	61	31	65	0	2	1.07
12253632--12253728	36	2.7	37	87	6	137	29	49	6	14	1.67
12260109--12260147	14	2.8	14	84	0	51	33	7	15	43	1.75
12260117--12260182	34	1.9	35	87	3	98	33	9	13	43	1.76
12260131--12260169	20	2.0	20	84	0	51	30	10	12	46	1.75
12266009--12266111	52	2.0	51	90	7	163	44	4	11	38	1.62
12266245--12266286	22	2.0	22	90	4	68	45	7	9	38	1.64
12266274--12266374	33	3.1	30	71	18	78	50	1	0	46	1.19
12270613--12270668	15	3.7	15	77	11	53	67	5	1	25	1.21
12270638--12270677	21	1.9	21	84	0	53	75	2	0	22	0.93
12272855--12272910	15	3.7	15	77	11	53	67	5	1	25	1.21
12272880--12272919	21	1.9	21	84	0	53	75	2	0	22	0.93
12275681--12275719	12	3.2	12	85	0	51	48	20	0	30	1.50
12277047--12277127	42	1.9	42	90	5	128	24	14	18	41	1.88
12280969--12281040	10	7.6	9	77	14	65	83	0	11	5	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12280969--12281040	23	3.1	22	76	13	65	83	0	11	5	0.80
12282418--12282552	45	3.0	45	65	8	105	32	18	22	25	1.97
12282563--12282724	43	3.7	43	70	8	112	30	24	24	20	1.99
12282606--12282768	44	3.7	44	69	8	134	29	22	25	23	1.99
12282560--12282769	87	2.4	87	92	0	357	30	23	23	22	1.99
12282822--12282999	43	4.1	44	64	17	104	33	20	19	25	1.97
12282767--12283058	129	2.3	129	92	0	485	32	21	19	26	1.97
12283803--12283829	14	1.9	14	100	0	54	14	7	3	74	1.18
12284991--12285029	12	3.2	12	85	0	51	48	20	0	30	1.50
12285039--12285102	26	2.4	28	77	12	73	39	7	4	48	1.53
12291607--12291741	40	3.4	41	77	9	118	37	22	22	17	1.94
12291781--12292083	41	7.4	41	83	5	326	16	23	25	35	1.95
12292567--12292607	15	2.8	15	81	3	57	26	0	34	39	1.57
12295948--12295988	21	2.0	21	85	0	55	31	21	26	19	1.97
12299735--12299869	40	3.4	41	75	9	109	37	21	22	18	1.95
12299909--12300228	41	7.8	41	82	4	324	16	24	24	34	1.95
12300698--12300738	15	2.8	15	81	3	57	26	0	34	39	1.57
12302036--12302107	37	1.9	38	88	2	110	19	1	43	36	1.60
12302074--12302128	25	2.3	24	81	15	69	18	0	47	34	1.49
12305049--12305095	23	2.0	23	95	0	85	44	21	2	31	1.64
12305046--12305098	16	3.3	16	76	15	56	43	22	1	32	1.64
12305084--12305756	34	21.4	33	66	21	211	44	11	1	41	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12305084--12305658	65	9.1	64	74	14	394	45	11	2	41	1.52
12305119--12305354	94	2.6	94	94	2	408	46	10	1	41	1.46
12305325--12305467	9	15.8	9	68	20	50	47	11	3	37	1.56
12305486--12305862	9	44.3	9	67	20	102	44	15	1	38	1.56
12305646--12305792	16	8.8	16	72	14	93	43	18	1	36	1.59
12305646--12305772	25	5.1	24	67	16	64	43	17	0	38	1.55
12305645--12305792	34	4.4	32	72	15	95	43	18	1	36	1.58
12305830--12305862	16	2.1	16	94	0	57	51	18	0	30	1.46
12309085--12309255	66	2.6	65	85	6	220	42	18	26	12	1.85
12309237--12309338	21	4.9	21	81	0	114	36	16	42	4	1.70
12309690--12309910	43	5.1	43	78	3	221	24	17	30	28	1.97
12309690--12309913	86	2.6	86	83	5	292	24	17	30	27	1.97
12310684--12310729	3	15.7	3	86	4	58	58	0	2	39	1.10
12310683--12310731	12	4.2	12	84	2	64	57	0	2	40	1.10
12312036--12312595	100	5.6	100	88	3	804	24	25	21	28	1.99
12312049--12312602	50	11.1	50	64	6	260	24	25	21	28	1.99
12314003--12314052	7	7.0	7	80	13	57	14	12	0	74	1.09
12320494--12320543	26	2.0	25	88	4	73	2	34	0	64	1.05
12321493--12321568	23	3.4	22	70	5	71	21	21	21	36	1.95
12322540--12322823	100	2.9	97	77	11	292	42	3	5	48	1.45
12322766--12322823	28	2.0	29	86	3	82	34	1	8	55	1.41
12334994--12335035	17	2.6	17	81	7	52	35	2	16	45	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12337962--12337986	8	3.1	8	100	0	50	36	0	40	24	1.55
12339632--12339856	40	5.7	40	87	3	285	23	19	28	28	1.98
12339679--12339889	80	2.7	80	86	1	228	24	18	28	27	1.98
12347258--12347482	40	5.7	40	87	3	285	23	19	28	28	1.98
12347305--12347515	80	2.7	80	86	1	228	24	18	28	27	1.98
12361315--12361511	97	2.0	97	95	0	349	37	22	18	22	1.94
12362160--12362410	74	3.4	73	83	9	309	33	19	21	25	1.97
12362190--12362353	34	4.4	40	70	22	113	35	18	20	25	1.95
12362176--12362401	35	6.2	35	69	19	108	34	18	20	26	1.96
12363884--12363943	30	2.0	31	87	9	88	41	0	36	21	1.54
12364126--12364150	9	2.8	9	100	0	50	32	12	12	44	1.78
12364638--12364681	7	6.4	7	85	15	65	54	0	0	45	0.99
12367845--12368056	74	2.8	76	77	7	171	34	20	21	23	1.97
12367888--12368056	40	4.4	40	77	10	172	36	19	21	23	1.95
12370952--12371153	27	7.6	27	75	7	171	35	17	21	25	1.95
12370993--12371154	81	2.0	81	87	2	236	32	16	22	27	1.96
12370979--12371167	27	7.1	27	78	2	177	33	16	22	26	1.95
12371193--12371274	24	3.5	24	77	8	78	18	9	24	47	1.78
12371442--12371679	32	7.5	32	77	6	146	21	20	21	36	1.95
12386123--12386169	21	2.2	21	96	0	85	72	12	8	6	1.27
12386130--12386176	21	2.2	21	92	0	76	68	21	6	4	1.30
12388593--12388638	23	2.0	22	84	12	58	47	21	0	30	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12393417--12393467	18	2.8	18	81	0	66	41	1	17	39	1.61
12396756--12397190	27	16.2	27	75	5	310	41	18	15	24	1.89
12397129--12397206	27	2.9	27	84	3	86	38	24	16	20	1.93
12397395--12397463	26	2.7	26	86	0	102	10	24	28	36	1.88
12397575--12397689	30	3.9	30	82	2	135	22	25	22	29	1.99
12406211--12406242	15	2.0	17	88	11	50	43	0	6	50	1.27
12407004--12407049	14	3.4	14	82	17	62	76	0	23	0	0.79
12407001--12407049	22	2.2	23	88	3	73	75	0	24	0	0.80
12409326--12409419	49	1.9	49	93	0	161	43	8	24	23	1.81
12410140--12410174	13	2.5	14	90	9	54	42	2	0	54	1.15

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