genome.fa.s6.2.7.7.80.10.50.1000.5.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  42799318

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   

This is table  5  of  141  ( 16820 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)
1232486--1232565	36	2.2	38	95	4	146	63	11	0	25	1.27
1232939--1232984	19	2.4	18	78	7	56	71	4	6	17	1.24
1236240--1236289	21	2.5	21	87	9	70	72	0	0	28	0.86
1237252--1237295	16	2.9	16	86	6	56	22	6	6	63	1.43
1241226--1241270	23	2.0	23	100	0	90	46	13	0	40	1.43
1241228--1241306	13	6.5	13	77	16	98	48	13	0	37	1.43
1241228--1241306	36	2.2	36	100	0	158	48	13	0	37	1.43
1241264--1241315	23	2.3	23	96	0	95	50	13	0	36	1.42
1249141--1249174	13	2.5	13	90	4	50	76	0	20	2	0.92
1249273--1249315	13	3.5	13	75	18	56	48	13	0	37	1.43
1249273--1249323	23	2.3	23	96	3	95	49	11	0	39	1.40
1251840--1251935	19	4.9	19	91	5	156	37	10	15	36	1.82
1251840--1251942	40	2.7	38	88	8	156	37	9	16	35	1.82
1251874--1251958	21	4.0	22	77	14	72	37	5	16	40	1.73
1251924--1251968	23	2.0	23	82	4	56	33	2	15	48	1.57
1253079--1253273	98	2.0	98	96	0	363	28	10	24	36	1.88
1256377--1256409	2	16.5	2	100	0	66	0	48	0	51	1.00
1259076--1259291	100	2.1	101	86	0	299	31	13	24	29	1.94
1261992--1262032	17	2.4	17	95	0	73	19	36	31	12	1.89
1261992--1262040	17	2.9	17	90	0	71	20	32	32	14	1.92
1262609--1262639	16	1.9	16	93	0	53	74	0	0	25	0.82
1266097--1266317	101	2.2	101	86	1	309	32	16	23	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266195--1266273	35	2.3	35	82	8	92	32	15	22	29	1.95
1266228--1266305	33	2.4	32	80	6	84	35	17	20	25	1.95
1272144--1272240	49	2.0	49	100	0	194	49	2	5	43	1.36
1275088--1275147	28	2.1	30	84	6	79	35	15	11	38	1.83
1278378--1278414	18	2.1	18	94	0	65	24	27	8	40	1.83
1278845--1278892	25	1.9	25	100	0	96	45	0	14	39	1.45
1278949--1279401	44	10.0	44	81	8	425	48	24	1	26	1.58
1278949--1279401	67	6.7	67	78	12	426	48	24	1	26	1.58
1278953--1279401	23	19.8	23	80	10	403	48	23	1	26	1.58
1279283--1279402	21	5.5	22	89	6	165	49	29	0	20	1.55
1279283--1279378	43	2.2	43	94	0	174	47	31	0	20	1.50
1279406--1279645	116	2.1	116	92	1	392	40	9	7	43	1.64
1285977--1286005	9	3.0	10	90	10	51	82	0	0	17	0.66
1285977--1286029	19	2.8	19	79	0	61	75	1	0	22	0.90
1285980--1286069	28	3.1	29	78	12	89	67	2	2	27	1.14
1286081--1286118	19	2.0	19	90	10	60	63	5	5	26	1.37
1286362--1286416	10	5.7	10	77	14	62	29	3	1	65	1.20
1294127--1294173	22	2.1	23	84	4	60	46	6	17	29	1.72
1304052--1304492	236	1.9	235	89	1	695	35	16	22	26	1.95
1307300--1307503	108	1.9	108	88	4	313	50	18	6	25	1.71
1309422--1309476	27	2.0	27	96	0	101	32	23	9	34	1.86
1310382--1310418	13	2.8	13	91	0	56	18	29	21	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332450--1332489	16	2.5	16	87	0	62	42	5	22	30	1.75
1332632--1332801	56	2.8	60	82	11	197	53	3	1	41	1.25
1335766--1335800	17	2.0	18	88	5	54	11	34	45	8	1.71
1336251--1336288	13	2.9	13	96	0	67	23	21	13	42	1.88
1339646--1339697	20	2.6	19	93	3	86	21	25	38	15	1.92
1340066--1340140	26	2.8	26	76	6	71	21	21	21	36	1.96
1342035--1342059	11	2.3	11	100	0	50	60	16	16	8	1.58
1343418--1343481	33	1.9	33	84	6	85	23	25	23	28	2.00
1347702--1347782	31	2.6	31	92	1	128	40	2	0	56	1.12
1348856--1348941	43	2.0	43	93	0	145	45	11	10	32	1.75
1350234--1350277	20	2.2	20	88	4	63	22	0	2	75	0.92
1359428--1359469	18	2.3	18	100	0	84	33	4	19	42	1.72
1360608--1360938	47	6.7	47	85	9	410	31	9	31	28	1.88
1360690--1360718	14	2.1	14	100	0	58	20	27	31	20	1.98
1360643--1360765	61	2.0	61	100	0	246	29	13	30	27	1.94
1377805--1377853	11	4.9	10	79	16	57	57	14	22	6	1.59
1377805--1377852	20	2.4	20	89	6	71	56	14	22	6	1.61
1377965--1378011	17	2.8	17	90	0	67	25	27	27	19	1.99
1378157--1378193	9	4.1	9	92	0	65	45	13	10	29	1.77
1378410--1378468	30	2.0	30	83	6	75	20	37	0	42	1.52
1378548--1378605	17	3.2	17	79	16	55	24	24	0	51	1.48
1380897--1380945	20	2.5	20	93	0	80	48	8	12	30	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385775--1385800	3	8.7	3	100	0	52	30	0	0	69	0.89
1386550--1386584	17	2.1	17	94	0	61	60	5	28	5	1.43
1386509--1386625	58	2.0	58	88	0	171	44	10	28	17	1.81
1391668--1391708	10	3.8	11	87	6	50	7	4	4	82	0.93
1391668--1391702	10	3.4	10	88	4	52	8	2	2	85	0.79
1394671--1394714	20	2.1	21	84	12	56	52	13	25	9	1.70
1397093--1397141	20	2.5	19	84	15	64	83	8	0	8	0.81
1397093--1397151	26	2.3	25	88	5	91	83	6	3	6	0.91
1403134--1403210	34	2.4	33	84	6	104	48	7	14	29	1.72
1406144--1406201	20	2.9	19	78	16	64	34	12	27	25	1.91
1406142--1406207	20	3.3	19	72	8	60	39	10	25	24	1.87
1407429--1407464	18	1.9	19	88	5	56	52	0	22	25	1.47
1411791--1411833	8	5.5	8	78	15	54	25	0	2	72	0.97
1411793--1411834	15	2.9	15	76	16	52	28	0	2	69	1.01
1415235--1415361	62	2.0	62	100	0	254	22	26	3	47	1.66
1415471--1415509	19	2.0	21	90	10	64	58	0	10	30	1.31
1430102--1430308	106	2.0	106	86	3	292	24	15	16	42	1.87
1431981--1432188	91	2.3	91	88	2	301	45	3	3	46	1.39
1432191--1432266	28	2.8	27	70	18	68	42	2	0	55	1.14
1432242--1432452	66	3.4	64	69	20	194	41	3	6	49	1.44
1432204--1432496	120	2.4	120	94	2	509	42	2	4	49	1.38
1432329--1432380	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)
1432445--1432479	18	2.0	17	88	5	52	45	0	0	54	0.99
1432627--1432731	44	2.5	40	74	15	113	30	28	4	36	1.78
1432625--1432734	45	2.6	44	80	8	131	30	28	5	35	1.80
1432713--1432766	16	3.4	16	94	0	90	31	35	0	33	1.58
1434424--1434506	25	3.2	25	77	9	87	18	25	24	32	1.97
1434583--1434611	14	2.1	14	100	0	58	20	13	6	58	1.58
1436942--1437069	62	2.1	61	86	1	175	23	25	25	25	2.00
1439783--1439819	19	1.9	19	89	10	58	27	0	27	45	1.54
1446450--1446508	13	4.8	12	70	17	50	52	1	35	10	1.45
1446452--1446508	19	3.1	19	69	19	57	50	1	36	10	1.47
1447405--1447475	35	2.0	35	91	0	115	47	8	5	38	1.57
1449412--1449489	34	2.3	34	82	4	95	41	12	14	32	1.83
1460424--1460465	21	2.0	21	100	0	84	33	19	19	28	1.96
1466163--1466255	48	2.0	47	85	8	127	49	7	6	36	1.57
1474439--1474474	11	3.2	11	88	4	54	30	0	0	69	0.89
1474505--1474530	5	5.2	5	100	0	52	0	19	57	23	1.40
1474545--1474611	27	2.5	27	95	0	116	31	25	31	11	1.92
1474681--1474724	21	2.1	21	91	0	70	29	2	11	56	1.46
1474812--1474857	16	2.9	16	80	3	58	60	2	2	34	1.21
1474890--1474971	38	2.2	38	97	0	155	39	2	3	54	1.31
1475004--1475125	60	2.0	60	85	6	167	53	13	0	31	1.46
1475113--1475279	27	7.2	21	76	16	104	53	13	0	32	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1475140--1475270	8	15.4	8	66	20	61	50	13	0	35	1.48
1475166--1475353	19	9.7	19	68	22	108	53	12	0	33	1.39
1475166--1475270	27	4.1	27	90	7	159	52	12	0	35	1.39
1475193--1475341	67	2.3	60	80	11	138	55	12	0	32	1.37
1475349--1475415	27	2.5	27	92	0	107	13	31	23	31	1.93
1475349--1475426	27	2.9	27	83	14	99	15	30	24	29	1.95
1475758--1475787	15	2.0	15	93	0	51	56	0	6	36	1.26
1476857--1476922	34	1.9	34	81	6	80	50	0	0	50	1.00
1477579--1477604	3	8.7	3	100	0	52	65	0	0	34	0.93
1478753--1479068	41	7.8	40	80	5	298	21	20	28	29	1.98

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