genome.fa.s25.2.7.7.80.10.50.1000.134.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   

This is table  134  of  214  ( 25680 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)
40691380--40691475	47	2.0	48	89	2	149	28	44	3	23	1.68
40691325--40691515	104	1.8	104	87	2	285	28	42	4	23	1.74
40698377--40698495	44	2.7	44	84	0	166	22	25	22	29	1.99
40698506--40698668	87	1.9	87	93	0	281	24	22	19	33	1.97
40698509--40698646	43	3.2	43	70	13	138	23	22	18	34	1.96
40698593--40699415	131	6.3	131	86	4	940	25	24	19	30	1.98
40701650--40701709	30	2.0	30	100	0	120	30	16	10	43	1.81
40707229--40707282	29	2.0	26	85	10	72	7	16	7	68	1.36
40708597--40708653	25	2.2	26	81	9	62	45	3	0	50	1.18
40711193--40711323	18	7.4	18	73	13	103	5	26	8	59	1.48
40711240--40711303	15	3.9	15	73	23	58	6	25	7	60	1.47
40711196--40711340	69	2.1	70	82	3	175	4	26	8	59	1.48
40711196--40711340	36	4.1	36	80	5	152	4	26	8	59	1.48
40719665--40719706	15	2.7	16	82	14	52	52	2	0	45	1.13
40719674--40719715	15	2.9	15	82	10	52	52	0	0	47	1.00
40719784--40719835	15	3.6	15	80	12	56	53	1	0	44	1.11
40719904--40719955	15	3.6	15	80	12	56	53	1	0	44	1.11
40719668--40720080	120	3.4	120	96	1	749	49	5	2	42	1.39
40720128--40720271	47	3.1	46	64	25	106	50	4	2	43	1.33
40720021--40720303	91	3.0	93	81	10	290	48	3	3	44	1.35
40720096--40720303	91	2.3	91	89	4	294	47	3	3	45	1.37
40720077--40720263	44	4.1	43	69	17	112	48	3	2	45	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40720146--40720284	47	3.0	47	68	17	137	49	4	2	43	1.34
40731159--40731237	9	8.8	9	97	0	131	37	29	10	22	1.87
40742368--40742405	18	2.1	18	90	0	58	21	26	10	42	1.85
40744253--40744663	125	3.3	124	89	0	617	30	19	17	32	1.95
40744848--40744888	21	1.9	22	90	5	66	51	36	0	12	1.40
40747819--40747887	31	2.2	31	81	0	84	17	18	33	30	1.94
40749747--40749779	17	2.0	16	94	5	57	42	18	0	39	1.50
40751891--40752083	50	3.8	50	87	0	260	25	21	31	21	1.98
40760862--40760901	14	2.7	15	84	11	55	27	2	12	57	1.48
40770049--40770094	23	2.0	23	91	0	74	28	2	4	65	1.23
40780040--40780288	124	2.0	124	99	0	489	34	30	7	27	1.84
40780955--40781017	33	1.9	33	84	12	85	39	0	3	57	1.15
40781197--40781238	18	2.5	17	84	7	50	21	0	7	71	1.09
40790403--40790555	48	3.2	48	82	4	191	30	20	26	21	1.98
40804165--40804680	44	11.7	44	72	10	295	30	23	15	29	1.96
40804164--40804672	88	5.8	88	74	8	365	31	23	16	28	1.96
40804267--40804672	133	3.1	133	87	2	532	30	24	16	28	1.96
40804175--40804666	177	2.8	176	83	2	533	30	24	16	29	1.96
40805498--40805545	25	1.9	26	91	8	82	60	10	14	14	1.59
40811404--40812129	360	2.0	360	99	0	1443	23	23	18	34	1.96
40817237--40817267	16	1.9	16	93	0	53	48	12	6	32	1.67
40822607--40822637	9	3.4	9	95	0	53	41	22	9	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40822645--40822707	17	3.5	17	71	12	63	49	14	3	33	1.59
40822636--40822710	37	2.0	37	97	0	141	45	16	4	34	1.66
40822636--40822727	37	2.5	37	89	7	125	46	15	4	33	1.65
40822840--40822913	38	1.9	39	91	2	123	18	4	24	52	1.63
40822898--40822952	13	3.9	13	78	17	56	14	3	41	40	1.63
40822902--40822939	17	2.2	18	90	4	60	10	2	47	39	1.52
40824506--40824586	38	2.2	37	78	10	85	50	2	2	44	1.28
40824508--40824634	62	2.1	58	89	5	191	50	3	2	44	1.30
40829045--40829082	20	1.9	20	94	0	67	28	23	0	47	1.52
40830516--40830575	26	2.3	26	71	2	68	51	1	0	46	1.10
40832503--40832540	19	2.0	20	89	5	60	15	7	5	71	1.28
40840449--40840492	20	2.2	20	83	4	52	59	6	4	29	1.44
40841319--40841366	22	2.2	22	92	0	78	37	14	16	31	1.89
40842633--40842697	28	2.4	27	75	17	62	64	0	12	23	1.27
40844384--40845180	44	17.8	44	79	4	729	29	20	16	33	1.94
40844384--40845180	89	8.9	89	82	4	748	29	20	16	33	1.94
40865686--40865756	9	7.6	9	78	9	61	61	0	1	36	1.05
40865685--40865756	19	3.8	19	75	12	67	62	0	1	36	1.04
40865684--40865824	10	14.3	10	68	18	57	60	1	4	34	1.25
40865684--40865756	29	2.6	28	78	8	76	63	0	1	35	1.04
40867048--40867103	21	2.6	22	77	8	62	14	26	37	21	1.92
40872089--40872127	20	2.0	19	90	5	60	38	20	23	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40874096--40874129	17	1.9	17	88	5	50	11	20	44	23	1.84
40876932--40877029	37	2.6	38	81	3	117	20	15	35	28	1.93
40878533--40878571	18	2.2	18	90	9	62	48	15	10	25	1.76
40880771--40880796	6	4.3	6	100	0	52	15	0	0	84	0.62
40889556--40889644	41	2.2	39	76	11	88	23	24	20	31	1.98
40889683--40889711	15	1.9	15	100	0	58	41	27	10	20	1.85
40889818--40889999	91	2.0	91	98	0	355	46	18	4	29	1.70
40890209--40890351	76	1.9	77	83	5	191	41	18	4	36	1.70
40891783--40891852	34	2.1	34	94	0	122	47	12	12	27	1.78
40894934--40894963	3	10.0	3	92	0	51	70	0	30	0	0.88
40899932--40899964	16	2.1	17	88	11	52	51	6	9	33	1.58
40909344--40909378	6	6.0	6	93	6	63	65	0	0	34	0.93
40911372--40911624	27	9.4	27	84	3	287	33	18	22	24	1.96
40911604--40911681	26	3.1	25	78	10	70	26	16	21	34	1.95
40911616--40911683	24	2.8	24	79	4	73	27	14	19	38	1.91
40911767--40911831	27	2.4	27	82	9	80	20	26	23	30	1.98
40911785--40911837	27	2.0	27	81	7	63	22	26	20	30	1.98
40911873--40912045	32	5.4	32	85	0	222	19	21	21	36	1.95
40916164--40916218	27	2.0	27	100	0	110	12	21	3	61	1.46
40918494--40918592	23	4.3	23	89	0	153	24	20	25	30	1.99
40919945--40920019	23	3.3	23	83	1	80	37	17	22	22	1.94
40926381--40926479	28	3.6	27	80	9	110	32	11	28	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40927411--40927532	22	5.3	22	73	18	86	29	10	14	45	1.79
40927414--40927599	47	4.0	47	86	3	234	27	12	16	44	1.83
40928485--40928670	93	2.0	93	98	0	363	38	19	10	32	1.85
40938054--40938113	29	2.1	29	100	0	120	55	16	6	21	1.64
40944331--40944419	42	2.1	42	93	4	153	34	7	26	30	1.85
40945980--40946041	31	2.0	31	100	0	124	38	6	16	38	1.74
40946153--40946196	22	2.0	22	100	0	88	45	18	4	31	1.69
40946486--40946566	20	4.1	19	79	10	83	55	6	1	37	1.33
40946503--40946555	19	2.7	19	80	8	63	56	3	1	37	1.28
40946486--40946565	39	2.1	39	83	9	101	55	6	1	37	1.33
40947978--40948007	16	1.9	15	93	6	51	33	3	0	63	1.11
40951273--40951323	25	2.1	25	81	3	59	41	0	1	56	1.10
40954793--40954832	21	1.9	21	90	10	64	22	27	37	12	1.90
40956640--40956686	25	1.9	24	86	4	67	51	4	2	42	1.33
40957261--40957419	43	3.7	43	86	0	210	30	25	15	28	1.95
40957261--40957440	43	4.2	43	84	1	209	31	25	15	28	1.95
40957261--40957467	86	2.4	86	83	4	233	30	23	15	30	1.95
40957872--40957918	21	2.2	21	84	0	58	4	48	17	29	1.65
40957882--40957923	21	2.0	21	85	0	57	4	50	14	30	1.63
40966574--40966742	40	4.2	40	85	1	205	23	21	30	24	1.99
40966574--40966778	79	2.6	80	78	6	204	24	21	30	23	1.99
40974470--40974639	40	4.3	39	87	3	216	24	21	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40974417--40974639	80	2.8	79	82	4	234	25	21	28	24	1.99
40974493--40974674	79	2.3	80	83	1	224	26	20	28	24	1.99
40984205--40984247	20	2.2	20	87	4	61	6	27	18	46	1.75
41001077--41001176	51	2.0	51	89	0	155	19	42	26	13	1.87
41001152--41001644	43	11.6	43	76	6	405	18	32	32	16	1.93
41001152--41001644	128	3.9	127	78	5	397	18	32	32	16	1.93
41001152--41001556	85	4.8	84	82	2	441	18	33	32	16	1.93
41001152--41001638	170	2.9	170	78	4	462	18	32	32	16	1.93
41001701--41001767	24	2.8	24	88	0	89	17	32	38	10	1.84
41007047--41007380	42	7.9	42	77	9	306	19	34	27	18	1.95

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214