genome.fa.s18.2.7.7.80.10.50.1000.40.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: Gbar_D05
Parameters: 2 7 7 80 10 50 1000
Length:  63323194

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  ( 23841 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)
15957024--15957065	3	14.3	3	80	5	50	61	0	38	0	0.96
16010251--16010389	42	3.3	42	83	0	134	15	22	18	43	1.87
16010259--16010368	21	5.2	21	74	0	94	15	21	18	44	1.86
16010297--16010392	21	4.6	21	78	0	84	13	23	18	43	1.86
16010253--16010391	63	2.2	63	78	0	152	14	23	18	43	1.86
16014519--16014848	67	5.0	67	78	4	222	34	15	23	26	1.95
16014523--16014823	133	2.3	134	80	2	320	34	16	23	25	1.95
16028151--16028231	30	2.7	30	98	0	153	43	16	7	33	1.75
16028305--16028336	9	3.6	9	91	0	55	40	25	9	25	1.85
16028304--16028344	18	2.3	18	91	0	73	43	24	7	24	1.79
16028305--16028344	9	4.4	9	87	0	53	42	25	7	25	1.80
16032747--16032790	10	4.4	10	82	8	54	75	2	22	0	0.92
16032754--16032791	19	2.0	20	94	5	69	76	0	23	0	0.79
16033688--16033801	38	2.9	40	68	9	99	30	14	20	34	1.93
16033686--16033820	40	3.4	39	69	7	112	28	16	22	32	1.96
16035017--16035093	40	2.0	40	94	2	138	61	2	0	36	1.10
16035018--16035109	22	4.4	22	74	18	61	58	3	0	38	1.14
16045683--16045744	30	2.0	31	87	3	90	46	1	33	17	1.58
16046205--16046287	14	6.1	14	76	10	82	73	0	0	26	0.83
16046176--16046279	26	3.9	27	80	7	97	68	0	0	30	0.96
16046234--16046287	7	7.7	7	93	0	90	75	0	0	24	0.80
16055008--16055065	14	4.3	13	81	16	57	60	0	39	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16055028--16055066	3	13.3	3	89	5	62	64	0	35	0	0.94
16055020--16055066	20	2.3	20	92	0	76	61	0	38	0	0.96
16055237--16055422	22	9.0	21	73	15	163	32	0	12	55	1.37
16055261--16055317	19	2.9	19	86	2	78	33	0	14	52	1.41
16055237--16055422	41	4.5	40	74	17	175	32	0	12	55	1.37
16055520--16055577	22	2.9	19	71	14	53	34	1	12	51	1.49
16055371--16055593	97	2.3	99	92	3	369	32	1	13	53	1.48
16055371--16055594	49	4.5	49	85	8	319	32	1	13	53	1.48
16059112--16059454	19	18.5	19	65	23	128	54	12	0	32	1.43
16059106--16059318	49	4.3	49	85	9	306	53	13	0	31	1.45
16059106--16059318	97	2.1	101	92	3	362	53	13	0	31	1.45
16059267--16059452	22	9.0	21	72	20	133	55	12	0	32	1.37
16059267--16059452	41	4.5	41	73	17	170	55	12	0	32	1.37
16059272--16059453	83	2.2	84	77	13	198	55	12	0	32	1.37
16059616--16059658	3	14.3	3	95	0	77	0	34	0	65	0.93
16060606--16060675	22	3.2	21	84	9	86	34	24	1	40	1.64
16060647--16060705	30	2.0	30	89	0	91	33	28	0	37	1.58
16060677--16060728	22	2.4	22	83	3	70	34	30	0	34	1.58
16060886--16060919	15	2.3	15	90	5	52	26	0	5	67	1.13
16063065--16063556	28	17.3	28	81	11	468	44	21	1	32	1.61
16063084--16063232	23	5.7	24	68	25	72	43	22	1	32	1.62
16063065--16063556	114	4.3	114	85	7	610	44	21	1	32	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16063065--16063553	142	3.4	141	86	8	588	44	21	1	32	1.61
16063466--16063540	23	3.0	23	74	20	78	46	21	1	30	1.59
16063154--16063574	119	3.6	113	83	12	473	44	21	0	32	1.59
16064226--16064491	125	2.1	123	88	2	399	31	23	16	28	1.96
16072294--16072334	18	2.3	19	83	12	59	24	9	0	65	1.22
16072357--16072443	3	29.0	3	85	0	66	34	10	1	54	1.42
16074156--16074189	10	3.2	10	91	8	50	17	0	0	82	0.67
16074156--16074183	12	2.3	12	100	0	56	14	0	0	85	0.59
16074162--16074278	39	2.8	41	83	8	157	35	1	0	63	1.05
16074186--16074251	11	6.4	11	72	24	54	36	3	0	60	1.12
16074197--16074250	28	1.9	28	81	7	65	35	3	0	61	1.14
16074387--16074420	17	2.0	17	100	0	68	23	23	17	35	1.95
16082982--16083092	21	5.3	21	79	13	131	13	24	17	45	1.84
16082981--16083092	42	2.7	42	95	1	199	13	24	16	45	1.83
16088723--16088807	39	2.2	38	83	8	109	45	0	0	54	1.00
16088727--16088803	10	7.8	10	74	18	56	44	0	0	55	0.99
16088994--16089026	11	3.0	11	83	16	50	78	9	12	0	0.95
16089383--16089426	23	1.9	24	90	9	74	54	2	20	22	1.56
16089967--16090025	27	2.2	28	81	9	77	23	0	30	45	1.53
16100740--16100865	43	2.9	43	82	10	150	19	18	29	32	1.96
16101519--16101553	15	2.3	15	90	9	54	25	0	22	51	1.48
16101677--16102610	325	2.9	325	94	1	1575	32	11	15	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16101677--16102610	47	20.1	47	91	1	1472	32	11	15	40	1.82
16101677--16102610	140	6.7	141	90	1	1463	32	11	15	40	1.82
16102951--16102975	12	2.1	12	100	0	50	40	0	8	52	1.31
16103321--16103359	17	2.3	17	95	0	69	25	15	33	25	1.95
16105088--16105125	10	3.5	11	86	13	53	63	2	0	34	1.09
16107289--16107428	40	3.5	40	75	8	126	26	16	24	32	1.96
16110963--16111016	26	2.1	26	100	0	108	14	18	7	59	1.58
16116330--16116357	3	9.3	3	100	0	56	0	32	0	67	0.91
16116908--16117022	59	1.9	59	100	0	230	23	10	19	46	1.80
16116956--16117016	24	2.5	25	73	7	63	24	9	18	47	1.78
16120582--16120631	25	2.0	25	92	7	84	44	0	4	52	1.20
16121036--16121165	43	3.0	43	80	12	142	20	18	30	30	1.97
16124770--16124953	82	2.2	82	90	0	287	33	25	17	23	1.96
16124770--16124957	41	4.6	41	87	0	259	34	24	18	23	1.96
16128638--16128719	23	3.5	23	85	5	78	40	17	10	31	1.84
16128780--16128838	23	2.6	23	81	5	75	42	18	8	30	1.80
16128663--16128912	119	2.1	121	92	2	416	47	17	8	26	1.76
16136715--16136755	20	2.0	21	85	4	57	12	26	19	41	1.87
16146421--16146451	15	2.1	15	93	0	53	35	9	9	45	1.70
16150099--16150303	88	2.3	89	86	5	279	45	4	3	46	1.39
16150370--16150564	66	3.1	65	68	22	191	41	2	6	49	1.42
16150441--16150492	15	3.6	15	80	12	56	44	0	1	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16150419--16150605	54	3.2	54	67	23	155	43	1	4	50	1.33
16150319--16150613	120	2.5	120	92	5	483	42	2	4	50	1.36
16150376--16150562	61	3.1	59	67	20	161	41	2	6	48	1.44
16150570--16150611	15	2.7	16	82	14	52	45	0	2	52	1.13
16150561--16150602	15	2.9	15	82	10	52	47	0	0	52	1.00
16150545--16150817	147	1.9	147	96	1	503	46	2	3	47	1.32
16150704--16150738	18	2.0	17	88	5	52	45	0	0	54	0.99
16150898--16150992	45	2.1	45	88	5	140	33	26	6	33	1.82
16150971--16151040	16	4.4	16	94	0	95	32	34	0	32	1.58
16153348--16153384	19	1.9	19	94	0	65	37	18	5	37	1.74
16155928--16155984	27	2.1	27	96	0	105	36	7	26	29	1.83
16168896--16168934	18	2.2	17	86	13	53	33	0	20	46	1.51
16169160--16169257	23	4.3	23	90	2	162	20	21	26	31	1.98
16169162--16169250	45	2.0	45	95	0	160	19	22	26	31	1.97
16176259--16176297	18	2.2	17	86	13	53	33	0	20	46	1.51
16176522--16176619	23	4.3	23	90	2	162	20	21	26	31	1.98
16176524--16176612	45	2.0	45	95	0	160	19	22	26	31	1.97
16179678--16179745	21	3.2	21	93	2	109	22	20	36	20	1.95
16188028--16188052	5	5.0	5	100	0	50	0	20	20	60	1.37
16197246--16197273	5	5.6	5	100	0	56	21	0	57	21	1.41
16202759--16202799	21	2.0	21	90	9	66	29	21	7	41	1.80
16212088--16212243	59	2.6	59	82	7	156	46	7	13	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16218836--16218959	61	2.0	61	100	0	248	43	8	4	43	1.55
16220804--16220984	99	1.8	99	89	0	281	27	9	14	48	1.75
16232798--16232822	2	12.5	2	100	0	50	48	0	0	52	1.00
16238789--16238904	46	2.6	45	89	4	173	26	24	16	32	1.96
16244682--16244722	20	2.0	20	90	0	64	56	0	4	39	1.21
16248737--16248880	75	1.9	75	81	5	175	23	25	22	28	1.99
16249596--16249692	30	3.2	30	98	0	185	21	24	34	19	1.97
16249619--16249671	17	3.4	17	70	20	60	22	26	33	16	1.96
16249604--16249684	13	5.6	14	67	22	51	25	28	32	13	1.94
16250581--16250626	15	3.1	15	84	9	58	28	0	4	67	1.10

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