genome.fa.s20.2.7.7.80.10.50.1000.63.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  63  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)
17683713--17683737	9	2.8	9	100	0	50	64	0	12	24	1.27
17684486--17684643	84	1.9	83	82	7	198	36	4	13	44	1.64
17684916--17685176	81	3.2	81	92	2	425	23	18	24	34	1.96
17684916--17685183	122	2.2	122	91	2	423	23	18	24	33	1.97
17684916--17685183	41	6.6	41	92	3	425	23	18	24	33	1.97
17685639--17685795	71	2.2	70	84	4	208	31	10	15	42	1.81
17686851--17686880	16	1.9	16	93	6	53	43	0	16	40	1.48
17687437--17687574	60	2.3	60	86	2	188	34	29	22	13	1.93
17702653--17702910	105	2.5	102	83	5	318	31	24	12	31	1.92
17713448--17713499	20	2.6	20	84	9	79	63	0	0	36	0.95
17714848--17714897	24	2.1	24	92	0	82	60	14	14	12	1.60
17715093--17715135	22	2.0	22	95	0	77	9	20	27	41	1.83
17715245--17715389	43	3.4	43	82	5	168	19	19	24	36	1.95
17715245--17715432	86	2.2	86	79	3	191	21	21	22	33	1.97
17715377--17715582	43	4.7	42	79	11	211	28	30	19	21	1.97
17715887--17715998	21	5.3	21	85	0	116	3	41	17	36	1.67
17715970--17716116	66	2.2	66	86	4	199	13	28	18	39	1.89
17716009--17716139	66	2.0	66	87	3	192	15	24	19	41	1.89
17721539--17721572	16	2.1	16	94	0	59	32	0	14	52	1.42
17721553--17721608	25	2.2	25	83	0	67	35	5	14	44	1.68
17721610--17721807	9	22.7	9	65	16	60	38	3	14	43	1.61
17721652--17721730	34	2.3	34	80	0	86	41	1	13	43	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17721730--17721893	34	5.1	33	77	10	171	37	3	11	48	1.55
17721745--17721949	31	6.7	31	75	17	135	38	3	10	47	1.55
17721819--17721974	56	2.8	56	98	0	294	38	2	10	48	1.52
17722063--17722115	24	2.2	24	96	0	97	49	3	3	43	1.38
17723585--17723622	17	2.2	17	95	0	67	39	13	36	10	1.79
17723863--17723926	33	1.9	33	93	0	110	34	31	1	32	1.68
17724152--17724190	16	2.6	15	84	11	53	35	5	35	23	1.77
17724166--17724222	23	2.4	22	80	13	60	36	1	42	19	1.62
17724185--17724238	23	2.3	23	84	6	65	38	1	38	20	1.63
17726369--17726631	42	6.3	41	91	1	391	31	28	26	13	1.94
17726543--17726616	24	3.4	24	63	25	65	28	29	25	16	1.97
17732146--17732176	16	1.9	16	93	0	53	9	9	9	70	1.33
17734082--17734295	76	2.8	74	87	4	302	22	17	26	33	1.96
17734172--17734305	33	3.8	33	72	17	115	20	19	26	33	1.96
17734351--17734378	2	14.0	2	100	0	56	50	0	0	50	1.00
17737531--17737581	20	2.5	20	90	0	75	54	13	13	17	1.70
17737663--17737703	20	2.0	20	90	0	64	53	17	2	26	1.56
17740172--17740295	41	3.0	41	75	0	122	25	37	20	17	1.94
17741336--17741364	14	2.0	15	93	6	51	27	27	6	37	1.82
17744788--17744891	9	11.6	9	70	12	63	27	2	1	67	1.16
17744787--17744855	27	2.7	26	91	6	113	27	0	2	69	1.02
17744788--17744855	25	2.6	25	95	4	118	27	0	2	69	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17746628--17746704	30	2.6	28	80	13	75	32	10	12	44	1.77
17746649--17746710	31	2.0	32	87	6	92	32	9	12	45	1.75
17747675--17747713	15	2.6	14	84	11	51	56	0	2	41	1.13
17747718--17747759	17	2.6	16	77	7	50	59	0	0	40	0.97
17749062--17749205	64	2.2	64	81	2	164	20	24	21	34	1.97
17752155--17752184	2	15.0	2	100	0	60	0	50	0	50	1.00
17753921--17753978	23	2.6	23	86	10	77	37	1	0	60	1.07
17753944--17753978	11	3.3	11	92	8	63	37	0	0	62	0.95
17753964--17754023	25	2.3	26	80	2	68	40	10	0	50	1.36
17754404--17754537	70	1.9	70	86	6	191	29	16	17	37	1.91
17756373--17756420	24	2.0	24	91	0	78	52	10	4	33	1.55
17758476--17758548	38	2.0	36	81	10	85	50	2	2	43	1.30
17759058--17759091	17	2.0	17	94	0	59	61	0	0	38	0.96
17761165--17761224	26	2.3	26	94	0	102	41	20	18	20	1.90
17764765--17764789	13	1.9	13	100	0	50	44	8	0	48	1.32
17767706--17767759	21	2.6	20	74	14	56	51	7	3	37	1.48
17768887--17768921	17	2.1	17	88	0	52	25	31	37	5	1.80
17769963--17770234	43	6.3	43	82	0	303	27	30	18	23	1.97
17769960--17770234	129	2.1	129	83	1	345	28	30	17	23	1.97
17771583--17771832	41	6.1	41	81	6	233	31	27	18	22	1.97
17772234--17772267	17	1.9	18	88	5	52	64	2	2	29	1.22
17776734--17776909	43	4.1	43	90	4	266	25	26	19	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17778183--17778833	324	2.0	324	97	0	1221	28	20	17	32	1.96
17783014--17783131	9	13.4	9	76	16	106	33	0	18	46	1.55
17783018--17783131	25	4.7	25	82	8	146	34	0	19	45	1.56
17783014--17783100	16	5.2	17	77	15	74	35	0	18	45	1.50
17783023--17783125	16	6.0	16	74	20	84	33	0	18	46	1.56
17783078--17783121	21	2.1	21	86	0	61	31	2	20	45	1.64
17783186--17783250	12	5.6	12	81	7	89	30	0	20	49	1.49
17783186--17783250	22	2.8	24	83	9	89	30	0	20	49	1.49
17783191--17783268	12	6.2	12	73	19	52	30	0	21	47	1.51
17783343--17783399	9	6.7	9	76	9	57	43	1	12	42	1.52
17783345--17783376	16	2.0	16	93	0	55	40	0	12	46	1.42
17787881--17787956	23	3.3	23	70	23	77	50	19	1	28	1.56
17788382--17788581	41	4.9	41	91	1	321	36	28	19	17	1.93
17795471--17795544	33	2.2	33	100	0	148	37	25	5	31	1.79
17796123--17796240	34	3.5	34	81	3	123	33	29	15	21	1.94
17799617--17799676	29	2.1	29	93	0	102	31	16	20	31	1.95
17799878--17799916	18	2.1	19	85	9	53	64	0	0	35	0.94
17810671--17810741	25	2.8	25	86	4	97	59	8	4	28	1.46
17815235--17815265	12	2.6	12	94	0	53	6	19	41	32	1.77
17816888--17816929	20	2.0	21	86	4	59	42	21	2	33	1.66
17831767--17831904	42	3.5	42	71	23	136	32	26	18	22	1.97
17831732--17831941	76	2.8	75	92	0	339	31	27	19	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17831730--17831941	75	2.8	76	90	2	338	31	27	19	21	1.97
17831841--17832041	102	2.0	102	94	0	357	32	27	19	19	1.96
17839328--17839455	33	3.6	33	74	17	121	35	27	17	19	1.95
17839248--17839459	76	2.8	75	91	0	325	32	27	17	22	1.97
17839359--17839559	102	2.0	102	89	0	312	32	27	18	20	1.96
17844910--17845050	25	5.5	25	75	11	106	32	21	22	23	1.98
17846822--17846851	14	2.1	14	93	0	51	43	30	3	23	1.70
17851096--17851150	28	2.0	28	96	0	101	67	9	10	12	1.43
17852466--17852535	25	2.8	25	88	0	113	34	21	25	18	1.96
17856876--17856926	18	2.8	17	82	11	66	29	3	3	62	1.31
17858969--17859002	17	2.0	17	100	0	68	17	23	17	41	1.90
17859476--17859723	27	9.2	27	87	0	343	41	20	18	18	1.90
17861608--17861654	20	2.3	20	85	10	60	53	2	0	44	1.12
17873184--17873235	16	3.2	16	94	0	86	28	0	36	34	1.58
17873216--17873313	44	2.2	44	87	1	133	32	5	29	32	1.79
17873470--17873616	18	8.6	18	70	17	91	56	1	0	41	1.13
17873485--17873725	38	5.9	40	68	21	137	54	2	0	41	1.21
17873521--17873576	15	4.0	15	73	17	57	55	0	0	44	0.99
17873531--17873709	26	7.3	25	68	22	94	54	3	0	41	1.21
17873470--17873746	120	2.3	120	92	2	452	53	3	1	42	1.24
17873526--17873724	59	3.3	59	74	14	228	55	3	0	41	1.19
17880749--17880801	23	2.3	23	86	0	79	32	26	20	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17884778--17884822	16	2.8	16	79	0	54	28	24	26	20	1.99
17886636--17886783	57	2.5	60	83	9	187	23	25	20	30	1.98
17889459--17889523	22	3.1	21	82	6	69	33	24	21	20	1.97
17889467--17889523	22	2.6	22	86	2	71	35	24	21	19	1.96
17889532--17889663	57	2.3	57	89	0	201	40	23	18	17	1.90
17898444--17898473	8	3.8	8	100	0	60	46	0	0	53	1.00
17898470--17898513	15	2.9	15	79	3	52	31	2	0	65	1.05
17907080--17907148	31	2.2	31	82	5	77	27	10	17	44	1.80
17909875--17909912	20	1.9	20	94	0	67	26	36	5	31	1.79
17912135--17912171	3	12.3	3	88	0	56	64	5	0	29	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