genome.fa.s8.2.7.7.80.10.50.1000.4.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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   

This is table  4  of  135  ( 16172 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)
1205576--1205608	16	2.1	16	88	11	50	39	0	6	54	1.25
1207511--1207657	72	2.0	72	98	0	285	36	18	6	39	1.76
1214371--1214526	46	3.5	46	92	2	255	27	22	15	34	1.94
1215536--1215630	39	2.3	42	87	8	133	37	1	0	61	1.03
1229148--1229178	15	2.1	15	93	0	53	77	0	0	22	0.77
1231073--1231103	16	1.9	16	100	0	62	45	0	0	54	0.99
1256035--1256063	2	14.5	2	100	0	58	48	0	0	51	1.00
1256305--1256365	25	2.6	23	75	15	61	63	4	3	27	1.30
1261330--1261404	30	2.5	31	91	2	125	38	13	6	41	1.70
1267812--1267863	25	2.1	25	89	7	79	25	25	9	40	1.85
1272738--1272814	14	5.0	15	71	20	52	42	15	9	32	1.78
1272754--1272793	20	2.0	20	90	0	62	50	12	10	27	1.72
1272742--1272808	34	1.9	35	90	3	109	46	13	8	31	1.74
1272777--1272816	14	2.9	14	84	0	53	42	17	7	32	1.77
1287907--1288000	47	2.0	47	97	0	179	42	11	19	26	1.85
1313678--1313715	6	6.3	6	93	0	67	15	2	44	36	1.61
1313766--1313882	34	3.4	35	79	10	134	35	0	17	47	1.48
1313974--1314346	124	3.0	124	86	3	507	36	16	18	28	1.92
1317739--1317781	18	2.4	18	92	0	68	41	9	27	20	1.83
1318366--1318397	7	4.6	7	100	0	64	59	12	0	28	1.34
1318824--1318875	27	1.9	27	92	0	86	32	1	0	65	1.04
1319583--1319635	20	2.6	19	74	11	52	62	3	0	33	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322263--1322292	14	2.1	14	93	0	51	60	0	0	40	0.97
1322888--1322936	24	2.0	24	88	0	71	48	8	4	38	1.52
1329764--1330886	561	2.0	562	99	0	2239	39	14	9	36	1.78
1334489--1334656	83	2.0	84	98	1	329	35	0	11	52	1.38
1341828--1341860	2	16.5	2	93	0	57	0	45	0	54	0.99
1355074--1355098	3	8.3	3	100	0	50	0	36	0	64	0.94
1371696--1371735	16	2.6	16	88	4	55	42	15	0	42	1.46
1372192--1372234	6	6.8	6	81	7	50	44	16	20	18	1.87
1382363--1382389	2	13.5	2	100	0	54	51	0	0	48	1.00
1407832--1407881	25	2.0	25	96	0	91	28	6	6	60	1.44
1408561--1408610	24	2.1	24	85	7	66	28	24	16	32	1.96
1408805--1408830	11	2.4	11	100	0	52	46	0	34	19	1.50
1409357--1409493	33	4.1	33	74	7	105	31	17	23	27	1.97
1410348--1410397	25	2.0	25	96	0	91	28	6	6	60	1.44
1411077--1411126	24	2.1	24	85	7	66	28	24	16	32	1.96
1411449--1411474	11	2.4	11	100	0	52	46	0	34	19	1.50
1412001--1412137	33	4.1	33	74	7	105	31	17	23	27	1.97
1413388--1413476	25	3.5	26	87	6	119	17	23	22	35	1.95
1413377--1413476	25	3.9	25	81	5	110	19	23	22	36	1.95
1413440--1413553	50	2.3	51	77	10	119	21	24	21	32	1.98
1413480--1413562	25	3.3	25	77	12	82	22	24	21	31	1.98
1414019--1414043	11	2.3	11	100	0	50	20	16	48	16	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416301--1416347	20	2.3	20	78	14	51	57	2	6	34	1.36
1418264--1418292	13	2.1	14	93	6	51	41	3	0	55	1.17
1418777--1418813	18	2.0	20	84	10	51	62	10	0	27	1.28
1418988--1419111	61	2.0	61	98	0	239	55	6	16	20	1.63
1427881--1427955	37	2.0	37	100	0	150	20	10	24	45	1.82
1429433--1429488	29	1.9	29	81	0	67	30	8	12	48	1.72
1432497--1432559	30	2.1	30	93	0	108	25	4	12	57	1.55
1435983--1436014	11	2.8	12	81	18	50	0	21	0	78	0.76
1435984--1436017	16	2.2	15	89	5	50	0	17	0	82	0.67
1438589--1438624	6	6.0	6	96	0	63	30	0	0	69	0.89
1440911--1440943	14	2.2	15	89	10	50	48	0	0	51	1.00
1447037--1447097	19	3.2	20	72	23	60	29	1	1	67	1.10
1447065--1447103	19	2.1	19	85	9	53	35	0	0	64	0.94
1448286--1448503	99	2.2	99	100	0	436	32	11	13	43	1.79
1458911--1458944	15	2.2	16	89	5	52	32	0	0	67	0.91
1458978--1459477	249	2.0	250	99	0	993	42	10	12	35	1.76
1462220--1462263	22	2.0	22	100	0	88	36	9	18	36	1.82
1462313--1462355	21	1.9	22	86	13	61	48	4	0	46	1.22
1463007--1463052	24	1.9	24	90	0	74	54	13	2	30	1.50
1464967--1465018	24	2.2	24	89	0	77	55	9	1	32	1.43
1472674--1472704	13	2.5	12	90	10	53	90	0	9	0	0.46
1478793--1478832	6	6.5	6	91	2	62	52	0	47	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1499846--1499980	51	2.7	51	84	3	166	31	27	17	24	1.97
1499803--1499980	51	3.5	50	77	6	164	30	28	16	24	1.96
1499846--1500027	51	3.6	51	80	5	165	29	26	17	26	1.97
1500758--1500847	43	2.1	43	93	4	155	22	21	10	46	1.80
1501085--1501188	54	1.9	54	86	0	145	27	19	17	35	1.94
1505179--1505225	22	2.0	24	84	8	62	53	8	4	34	1.51
1505667--1505952	133	2.1	134	96	2	531	30	8	9	52	1.62
1505907--1505978	25	2.8	26	77	10	69	37	1	0	61	1.05
1512575--1512621	24	2.0	23	87	4	67	46	23	0	29	1.52
1516795--1516852	29	2.0	29	100	0	116	31	20	10	37	1.86
1517819--1518387	283	2.0	283	99	0	1129	28	8	24	37	1.86
1532026--1532176	75	2.0	75	94	2	268	34	35	4	25	1.77
1535327--1535417	41	2.2	41	96	0	164	20	13	40	25	1.89
1544168--1544251	31	2.8	31	80	3	91	40	11	10	36	1.77
1560655--1560781	21	6.0	21	84	5	141	15	25	18	40	1.90
1560655--1560781	63	2.0	63	83	6	159	15	25	18	40	1.90
1562426--1562491	31	2.1	31	91	0	105	21	28	18	31	1.96
1563841--1563881	2	20.5	2	94	0	73	2	0	46	51	1.14
1565013--1565038	2	13.0	2	100	0	52	0	0	50	50	1.00
1570499--1570539	18	2.3	18	87	8	57	36	0	0	63	0.95
1578967--1579031	32	2.0	32	90	0	103	18	20	20	41	1.91
1584377--1584503	63	2.0	63	100	0	254	18	15	17	48	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1598873--1599071	98	2.0	99	99	0	391	32	17	6	44	1.73
1612084--1612118	18	1.9	18	88	0	52	57	0	28	14	1.38
1614517--1614550	16	2.2	16	94	5	61	52	0	5	41	1.25
1626592--1626735	71	2.0	72	95	1	263	50	9	0	40	1.34
1626756--1626814	27	2.2	27	90	0	91	30	22	32	15	1.94
1627282--1627344	19	3.3	19	67	8	56	41	7	3	47	1.48
1627379--1627413	17	2.0	17	88	5	52	48	0	17	34	1.47
1628468--1628556	27	3.3	27	89	6	144	12	33	23	30	1.92
1629444--1629495	26	2.0	26	100	0	104	30	19	7	42	1.79
1631304--1631346	23	1.9	23	85	4	61	30	16	16	37	1.91
1637725--1637769	21	2.1	22	83	4	56	40	0	8	51	1.33
1640038--1640463	67	6.4	67	99	0	843	22	20	21	35	1.96
1650845--1651030	33	5.5	33	67	14	110	33	16	23	26	1.95
1650914--1651052	66	2.1	66	93	0	233	35	15	22	26	1.94
1650914--1651052	33	4.2	33	75	6	129	35	15	22	26	1.94
1650914--1651090	66	2.7	66	85	5	198	34	16	23	25	1.95
1664586--1664685	51	2.0	51	90	4	157	24	28	2	46	1.64
1664574--1664669	11	9.0	11	67	18	60	22	30	2	44	1.64
1664684--1664717	15	2.3	15	100	0	68	23	0	0	76	0.79
1664683--1664720	9	4.6	9	81	18	55	21	0	0	78	0.74
1664816--1664845	10	2.8	11	90	10	53	30	0	0	70	0.88
1665780--1665805	7	3.7	7	100	0	52	26	0	15	57	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1666452--1666494	18	2.4	18	88	0	59	18	27	9	44	1.80
1668216--1668260	14	3.1	14	87	6	63	46	28	0	24	1.53
1668216--1668260	7	6.3	7	80	14	56	46	28	0	24	1.53
1668216--1668253	15	2.6	15	91	4	60	47	28	0	23	1.52
1672614--1672638	12	2.1	12	100	0	50	8	52	16	24	1.70
1694295--1694338	19	2.2	20	84	8	54	36	0	2	61	1.09
1702315--1702379	32	2.1	30	82	5	76	32	9	1	56	1.40
1708412--1708460	22	2.1	24	85	7	66	26	4	4	65	1.29
1727390--1727428	18	2.2	18	90	0	60	38	15	20	25	1.92
1738933--1739076	45	3.2	44	78	15	152	27	13	23	36	1.92

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