genome.fa.s17.2.7.7.80.10.50.1000.134.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  134  of  185  ( 22116 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)
41503218--41503515	100	2.9	102	80	6	347	29	21	27	22	1.99
41505805--41505845	21	2.0	21	85	9	57	51	17	0	31	1.46
41506482--41506607	57	2.2	58	84	4	166	39	33	13	13	1.84
41507420--41507464	20	2.2	20	88	0	63	48	8	4	37	1.55
41507388--41507464	40	1.9	40	81	0	91	45	7	10	36	1.67
41507428--41507467	20	2.0	20	100	0	80	45	5	5	45	1.47
41507440--41507496	30	1.9	30	85	7	80	43	3	7	45	1.48
41508940--41508972	11	3.1	11	86	8	50	45	0	0	54	0.99
41509115--41509170	19	3.0	19	71	10	53	28	1	7	62	1.32
41509116--41509175	18	3.3	18	73	13	52	25	1	6	66	1.25
41516260--41516485	40	5.7	40	90	4	280	26	26	21	25	2.00
41520307--41520354	21	2.3	21	89	7	71	18	39	18	22	1.92
41520113--41520401	147	2.0	147	92	0	479	22	31	20	24	1.98
41525037--41525288	90	2.8	89	79	8	233	28	16	22	32	1.96
41526116--41526221	44	2.4	46	75	10	112	26	0	22	50	1.56
41526120--41526220	23	4.6	21	71	18	71	25	0	22	50	1.55
41526118--41526303	66	2.8	66	85	0	237	29	0	19	50	1.52
41526804--41526875	36	2.0	36	94	0	126	38	8	30	22	1.83
41533145--41533377	50	4.6	50	80	5	218	28	20	27	23	1.99
41533518--41533562	22	2.0	22	100	0	90	40	13	8	37	1.76
41539572--41539604	16	2.0	17	88	5	50	39	24	3	33	1.71
41549022--41549053	12	2.7	12	100	0	64	43	6	0	50	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41551685--41551821	42	3.3	41	80	4	132	43	18	15	22	1.87
41553678--41553710	17	1.9	17	100	0	66	12	6	3	78	1.04
41556279--41556318	20	2.0	20	95	0	71	37	5	7	50	1.53
41562501--41562533	16	2.1	16	94	0	57	42	0	15	42	1.46
41564925--41564959	18	1.9	18	94	0	61	31	0	0	68	0.90
41571533--41571584	23	2.3	22	75	21	54	9	21	1	67	1.29
41571578--41571616	18	2.2	18	85	0	51	12	23	2	61	1.43
41580990--41581035	7	6.6	7	100	0	92	28	0	13	58	1.35
41581687--41581721	18	1.9	18	94	0	61	25	31	8	34	1.86
41582128--41582213	43	2.0	45	86	4	122	39	0	12	47	1.42
41582181--41582293	25	4.7	25	74	18	123	40	0	14	44	1.51
41582138--41582294	70	2.3	69	94	2	280	40	0	13	45	1.48
41582317--41582682	29	14.5	23	73	24	200	46	26	0	26	1.53
41582303--41582385	29	2.8	30	94	3	150	46	25	0	27	1.53
41582361--41582487	21	5.9	21	76	21	120	48	24	0	27	1.52
41582317--41582564	89	2.6	92	84	14	310	47	25	0	26	1.52
41582373--41582535	67	2.4	70	90	6	278	47	26	0	26	1.53
41582480--41583034	29	19.1	29	86	8	749	46	27	0	26	1.57
41582981--41583044	23	2.8	23	90	0	92	50	23	1	25	1.58
41583041--41583394	116	3.1	116	94	0	609	37	10	9	42	1.72
41583370--41583411	17	2.4	18	80	4	50	42	9	2	45	1.49
41586422--41586775	124	2.8	125	90	2	557	32	22	15	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41588048--41588081	17	2.0	17	100	0	68	70	0	0	29	0.87
41594539--41594585	19	2.5	19	82	0	58	34	23	25	17	1.96
41601527--41601697	41	4.2	41	85	3	213	22	26	15	35	1.94
41609055--41609132	27	2.9	27	96	0	138	17	24	30	26	1.97
41608953--41609208	129	2.0	130	91	0	415	19	19	28	32	1.97
41614177--41614226	22	2.3	22	86	6	66	30	22	12	36	1.90
41617804--41618106	40	7.6	40	89	2	387	27	27	20	24	1.99
41625792--41626094	40	7.6	40	89	2	396	27	28	20	24	1.99
41627639--41627667	12	2.3	13	94	5	51	55	0	20	24	1.44
41633128--41633173	24	2.0	23	82	4	56	32	4	2	60	1.28
41646022--41646061	15	2.7	15	81	14	55	67	2	7	22	1.28
41645973--41646042	24	2.9	24	79	10	63	68	4	5	21	1.28
41646024--41646086	21	3.1	19	73	13	54	71	1	7	19	1.19
41653150--41653185	18	2.1	18	89	5	56	19	13	0	66	1.24
41665401--41665451	25	2.0	26	96	3	95	54	15	3	25	1.58
41667593--41667622	10	3.0	10	90	0	51	23	0	36	40	1.55
41668352--41668450	36	2.8	36	85	0	117	28	20	28	23	1.99
41678381--41678539	41	3.7	43	77	6	135	27	28	18	25	1.98
41683013--41683094	28	2.9	28	92	0	137	35	15	20	28	1.94
41683013--41683110	28	3.5	28	88	2	126	35	16	22	25	1.94
41684349--41684480	66	2.0	66	100	0	264	43	12	16	27	1.83
41684693--41684735	18	2.5	17	81	7	52	65	0	2	32	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41685421--41685469	22	2.3	22	80	13	57	69	4	8	18	1.30
41703070--41703107	18	2.2	18	86	9	53	68	2	5	23	1.23
41709420--41709503	33	2.5	33	90	0	123	19	19	35	26	1.95
41721236--41721473	120	2.0	120	96	0	440	41	7	13	36	1.74
41723578--41723660	22	3.8	22	70	12	71	24	3	24	48	1.67
41733292--41733349	7	8.4	7	75	21	52	60	0	1	37	1.07
41733281--41733324	20	2.2	20	92	4	72	59	0	2	38	1.10
41733493--41733556	22	2.9	22	77	11	60	65	0	0	34	0.93
41733544--41733597	21	2.3	23	87	12	76	55	0	1	42	1.10
41733592--41733620	11	2.6	11	100	0	58	58	0	0	41	0.98
41733576--41733620	22	2.1	21	84	12	56	51	0	2	46	1.13
41738857--41738902	8	5.6	8	79	5	56	45	0	0	54	0.99
41744668--41744706	11	3.4	11	80	13	51	41	12	0	46	1.42
41744657--41744706	24	2.1	24	96	0	91	40	14	0	46	1.44
41744657--41744698	13	3.4	12	80	12	50	38	16	0	45	1.48
41749104--41749153	24	2.1	24	81	7	57	62	6	2	30	1.31
41749513--41749555	16	2.6	17	81	7	52	65	4	11	18	1.42
41752978--41753018	20	2.0	21	85	4	57	31	14	2	51	1.56
41753188--41753257	29	2.5	26	77	18	70	42	1	1	54	1.18
41753206--41753255	13	3.2	16	70	18	52	48	0	0	52	1.00
41753198--41753255	29	2.0	30	83	10	75	44	1	1	51	1.21
41753595--41753635	7	5.9	7	88	11	66	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41765351--41765400	25	2.0	25	92	0	82	20	22	4	54	1.61
41766486--41766516	15	2.1	14	94	5	53	0	22	0	77	0.77
41769030--41769222	50	3.8	50	84	0	251	26	22	30	20	1.99
41769882--41769914	11	2.9	12	86	13	52	33	0	0	66	0.92
41770040--41770102	30	2.1	30	90	0	99	55	14	4	25	1.58
41771503--41771552	26	2.0	26	84	7	68	28	0	4	68	1.08
41779209--41779548	44	7.8	43	72	9	154	28	23	18	29	1.98
41779539--41780075	128	4.2	127	88	3	767	25	23	19	31	1.98
41779539--41780071	252	2.1	255	88	2	788	25	23	19	31	1.98
41779971--41780159	103	1.8	103	96	0	351	25	25	17	31	1.97
41781523--41781586	7	9.0	7	86	11	87	15	14	0	70	1.17
41781523--41781577	13	4.0	13	86	11	74	14	14	0	70	1.16
41781523--41781581	20	2.8	20	90	10	84	15	15	0	69	1.19
41782459--41782504	6	7.7	6	87	0	56	13	6	13	67	1.41
41782495--41782532	18	2.2	17	86	9	51	5	5	7	81	0.98
41782489--41782533	22	2.1	21	87	4	63	6	4	8	80	1.03
41796684--41796708	3	8.3	3	100	0	50	32	36	0	32	1.58
41799435--41799485	3	17.0	3	95	0	93	33	1	0	64	1.05
41799677--41799705	12	2.4	12	100	0	58	41	10	0	48	1.37
41800999--41801102	44	2.5	41	76	18	99	32	2	26	37	1.72
41801213--41801410	59	3.4	59	71	13	185	53	3	0	42	1.22
41801242--41801476	117	2.0	119	93	2	384	51	4	1	42	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41801236--41801473	120	2.0	119	93	2	408	51	4	1	42	1.30
41802863--41802966	49	2.1	49	92	0	172	49	10	7	32	1.66
41812699--41812874	87	2.0	88	94	1	309	28	17	18	35	1.94
41814577--41814627	16	3.2	16	80	0	66	29	21	3	45	1.70
41814671--41814706	16	2.2	16	90	0	54	41	2	25	30	1.69
41814887--41814915	14	2.1	14	100	0	58	62	0	0	37	0.96
41815282--41815345	29	2.3	27	84	7	76	64	0	0	35	0.94
41831175--41831263	36	2.5	36	94	0	160	31	13	24	30	1.94
41831175--41831267	18	5.2	18	86	0	132	31	13	24	30	1.94
41831802--41831844	11	4.0	11	84	3	61	30	2	46	20	1.63

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