genome.fa.s21.2.7.7.80.10.50.1000.31.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: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  55873576

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   

This is table  31  of  182  ( 21791 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)
10201172--10201671	246	2.0	246	99	0	982	47	9	12	30	1.73
10207919--10207952	17	2.0	17	100	0	68	23	11	23	41	1.87
10207952--10208054	43	2.4	43	90	0	161	24	17	22	35	1.95
10207952--10208116	86	1.9	86	82	2	206	23	17	25	33	1.96
10207952--10208113	43	3.8	42	77	9	159	22	17	25	33	1.96
10219976--10220015	20	2.0	20	95	0	71	37	0	5	57	1.21
10220959--10220996	19	2.1	19	85	5	51	50	13	0	36	1.42
10223997--10224064	31	2.3	29	85	7	84	47	14	14	23	1.82
10224074--10224151	38	2.1	38	95	0	138	48	16	2	32	1.60
10225832--10225892	26	2.5	26	80	15	76	21	24	22	31	1.98
10227485--10227521	16	2.2	17	90	4	58	51	2	0	45	1.15
10228651--10228694	20	2.2	20	83	0	52	34	9	6	50	1.61
10229088--10229157	30	2.4	29	83	9	81	37	1	1	60	1.15
10229116--10229159	22	2.0	23	86	4	63	31	0	2	65	1.05
10229286--10229903	83	7.5	84	78	8	410	31	14	11	42	1.81
10229346--10229500	74	2.1	74	93	0	265	31	15	10	41	1.82
10229286--10229587	160	1.9	161	85	0	417	32	13	10	42	1.80
10229761--10229920	77	2.1	78	79	3	171	31	14	12	41	1.83
10232814--10232977	29	5.6	30	83	2	165	31	18	6	43	1.76
10232838--10232977	59	2.4	59	81	4	158	30	17	6	45	1.74
10232838--10232977	30	4.8	28	81	8	104	30	17	6	45	1.74
10233230--10233270	16	2.8	15	86	13	59	60	0	39	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10233336--10233400	3	21.3	3	80	9	51	76	0	23	0	0.78
10233337--10233362	13	2.0	13	100	0	52	61	0	38	0	0.96
10233336--10233404	9	7.7	9	82	10	61	78	0	21	0	0.76
10233360--10233401	13	3.2	13	93	3	66	85	0	14	0	0.59
10233364--10233404	21	2.0	21	90	9	66	87	0	12	0	0.53
10233357--10233404	13	3.8	12	84	13	60	85	0	14	0	0.60
10233499--10233551	18	3.0	17	77	5	61	75	7	13	3	1.15
10233707--10233737	9	3.4	9	95	0	53	87	0	12	0	0.55
10244042--10246910	78	37.3	77	79	9	2373	27	15	20	36	1.93
10246529--10246808	151	1.8	152	85	6	397	26	18	22	32	1.97
10246938--10248660	78	22.3	76	79	10	1500	27	15	20	36	1.93
10246938--10248622	153	10.9	152	77	11	1059	27	15	20	36	1.93
10247906--10248629	72	9.4	73	77	12	580	28	16	20	34	1.94
10246957--10248629	231	7.2	225	81	10	1267	28	15	20	35	1.93
10248342--10248622	86	3.5	86	76	13	260	29	14	20	34	1.93
10248435--10248660	79	3.0	76	81	7	228	27	16	20	34	1.95
10248791--10248957	29	5.7	29	82	4	165	31	16	4	47	1.68
10248792--10248956	59	2.8	58	79	4	179	30	16	4	47	1.68
10249212--10249251	16	2.7	15	85	14	57	57	0	42	0	0.98
10249317--10249381	3	21.3	3	80	9	60	75	0	24	0	0.81
10249317--10249385	9	7.7	9	85	10	70	76	0	23	0	0.78
10249348--10249385	8	4.8	8	83	9	51	86	0	13	0	0.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10249344--10249378	17	2.0	18	94	5	63	85	0	14	0	0.59
10249481--10249530	16	3.0	16	91	5	73	74	10	16	0	1.08
10249480--10249530	17	3.0	18	86	13	81	74	9	15	0	1.06
10249633--10249697	21	3.2	20	75	12	69	81	0	18	0	0.69
10249652--10249697	11	4.2	11	94	0	74	86	0	13	0	0.56
10249653--10249690	18	2.1	17	90	9	58	89	0	10	0	0.49
10249858--10249882	5	5.0	5	100	0	50	40	0	0	60	0.97
10251602--10251647	14	3.4	14	78	3	58	34	0	0	65	0.93
10252306--10252341	18	2.1	18	89	5	56	38	5	0	55	1.23
10254673--10254743	34	2.1	34	81	0	79	56	8	15	19	1.65
10260336--10260376	19	2.2	19	86	0	55	36	4	12	46	1.63
10261322--10261387	32	2.1	32	97	2	125	46	12	10	30	1.75
10265798--10265957	40	4.0	41	84	4	175	40	11	11	36	1.78
10265780--10265957	20	8.9	20	74	9	130	41	11	10	36	1.76
10265824--10265919	41	2.4	40	94	1	174	41	10	10	37	1.74
10266114--10266239	20	6.4	20	70	15	84	38	7	11	42	1.71
10266105--10266218	40	2.8	40	74	10	108	35	7	13	42	1.73
10266282--10266431	80	1.9	79	82	8	187	32	8	20	38	1.82
10266462--10266540	40	2.0	40	89	0	122	37	7	8	45	1.64
10266401--10266537	20	6.9	20	70	14	97	33	8	12	45	1.73
10266643--10266705	33	1.9	33	90	0	99	39	11	7	41	1.70
10266672--10266859	40	4.7	40	74	10	143	37	9	10	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10266672--10266859	79	2.4	80	84	2	236	37	9	10	43	1.70
10266788--10266854	20	3.4	19	78	12	64	40	10	4	44	1.59
10267605--10267647	21	2.0	23	81	9	54	46	13	0	39	1.44
10270063--10270093	7	4.4	7	100	0	62	61	12	0	25	1.32
10278381--10278413	13	2.7	12	95	4	57	0	6	15	78	0.93
10278382--10278421	11	3.5	11	89	6	53	0	5	17	77	0.94
10278409--10278451	15	2.9	14	79	6	50	0	6	11	81	0.87
10278405--10278452	21	2.4	19	76	13	51	0	6	12	81	0.87
10278979--10279043	32	2.1	32	97	2	123	47	12	9	30	1.72
10279388--10279468	40	2.0	40	100	0	162	24	19	14	40	1.90
10281474--10281557	28	3.0	28	77	6	89	34	21	16	27	1.95
10281600--10281662	22	2.8	22	78	7	65	30	26	20	22	1.98
10284334--10284377	7	6.0	7	84	10	61	84	2	0	13	0.73
10286162--10286404	50	4.9	50	79	7	237	28	18	27	24	1.98
10286611--10286641	16	1.9	16	93	0	53	51	6	22	19	1.69
10286612--10286657	20	2.3	20	88	0	65	54	2	26	17	1.54
10303242--10303280	19	2.1	19	85	0	51	38	0	10	51	1.36
10303384--10303421	18	2.1	18	85	9	51	28	5	10	55	1.56
10304145--10304199	29	1.9	29	85	3	76	60	12	5	21	1.53
10306295--10306364	6	10.8	6	76	13	59	75	1	21	1	0.96
10306316--10306352	10	3.6	10	96	3	65	78	0	21	0	0.75
10306314--10306367	24	2.2	24	83	3	72	79	0	20	0	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10306307--10306364	15	3.7	15	81	6	71	75	0	24	0	0.80
10315185--10315381	43	4.6	43	83	3	263	23	17	21	38	1.93
10315185--10315382	85	2.3	86	88	2	283	23	17	21	37	1.93
10322555--10322579	4	6.2	4	100	0	50	48	0	0	52	1.00
10323096--10323138	21	2.2	20	87	8	61	34	2	4	58	1.32
10323192--10323310	52	2.3	52	80	11	122	32	16	14	36	1.89
10327973--10328198	40	5.7	40	92	2	330	26	27	22	24	2.00
10335985--10336076	39	2.3	39	88	5	132	25	28	22	23	2.00
10335966--10336129	40	4.1	40	80	10	176	24	27	23	25	2.00
10338735--10338796	27	2.3	27	86	5	81	41	6	24	27	1.79
10347406--10347445	19	2.0	21	85	9	57	60	5	5	30	1.40
10348400--10348466	21	3.2	21	73	0	62	25	25	5	43	1.77
10354451--10354641	93	2.1	93	92	2	321	27	13	17	41	1.87
10366962--10367348	193	2.0	193	98	0	756	31	19	22	26	1.98
10383571--10383690	42	2.9	41	83	6	150	35	25	17	21	1.95
10383577--10383690	43	2.7	42	84	6	140	35	26	17	21	1.95
10383667--10383716	26	1.9	26	95	0	91	32	34	16	18	1.92
10383690--10383881	41	4.7	41	89	0	285	26	24	18	31	1.97
10385896--10386120	34	6.8	32	83	2	198	43	12	9	33	1.76
10385900--10386120	68	3.4	65	88	3	300	43	12	9	33	1.76
10385933--10386114	34	5.5	34	83	5	239	43	12	8	35	1.73
10400518--10400578	25	2.4	25	78	10	63	37	3	1	57	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10414260--10414306	14	3.4	14	85	5	60	0	21	0	78	0.75
10417265--10417304	19	2.1	19	86	9	55	35	0	5	60	1.19
10421116--10421178	12	5.7	11	76	22	53	47	3	0	49	1.17
10426748--10426810	2	31.5	2	96	0	117	0	49	1	49	1.10
10429339--10429397	31	1.9	31	96	0	109	35	13	10	40	1.78
10431941--10432006	22	3.0	22	75	0	69	28	24	15	31	1.95
10431907--10432007	44	2.3	44	78	8	107	28	24	13	32	1.94
10431868--10432294	103	4.1	103	88	3	617	27	22	14	36	1.93
10433372--10433409	20	1.9	20	88	0	58	60	0	5	34	1.19
10433822--10433870	20	2.5	20	89	0	71	26	12	0	61	1.31

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