genome.fa.s11.2.7.7.80.10.50.1000.5.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: Chr12
Parameters: 2 7 7 80 10 50 1000
Length:  24583705

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   

This is table  5  of  75  ( 8944 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)
1243919--1243965	24	2.0	23	87	4	67	51	2	0	46	1.13
1248467--1248513	23	2.0	23	84	8	60	57	25	4	12	1.54
1251693--1251736	22	1.9	24	86	9	65	29	0	2	68	1.02
1252790--1252855	29	2.2	30	84	7	82	45	6	1	46	1.37
1255047--1255083	2	18.5	2	100	0	74	48	0	0	51	1.00
1259752--1259790	20	1.9	20	84	5	51	71	5	12	10	1.28
1263923--1263970	18	2.6	19	77	9	55	45	0	8	45	1.33
1264050--1264095	20	2.3	20	100	0	92	39	4	32	23	1.75
1264070--1264190	63	1.9	63	100	0	242	40	1	18	39	1.60
1264612--1264695	39	2.2	39	100	0	168	23	9	14	52	1.71
1277862--1277897	18	2.0	18	94	0	63	30	5	13	50	1.65
1279570--1279616	2	23.5	2	91	0	76	0	48	4	46	1.21
1283437--1283602	79	2.1	79	90	2	262	38	12	13	35	1.82
1288069--1288106	16	2.4	16	86	8	51	57	5	0	36	1.21
1291363--1291441	4	18.0	4	74	19	61	72	2	24	1	1.05
1291389--1291441	9	6.2	8	79	18	54	73	0	26	0	0.83
1291363--1291441	34	2.4	33	87	8	115	72	2	24	1	1.05
1295427--1295465	12	3.2	12	85	3	51	69	2	2	25	1.14
1295460--1295495	15	2.5	15	86	4	56	44	0	0	55	0.99
1295589--1295628	8	4.8	8	84	9	53	40	0	0	60	0.97
1295588--1295628	16	2.4	18	84	12	59	41	0	0	58	0.98
1295600--1295656	30	1.9	29	85	3	78	33	0	3	63	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302314--1302353	1	40.0	1	84	0	53	92	5	2	0	0.45
1320389--1320681	111	2.7	108	87	5	400	34	18	15	31	1.93
1321428--1321474	18	2.5	20	73	20	55	61	6	4	27	1.39
1321432--1321500	18	3.9	16	78	14	50	59	5	5	28	1.44
1324822--1324875	25	2.2	25	83	6	65	24	27	24	24	2.00
1324855--1324917	25	2.5	26	87	5	87	19	25	23	31	1.98
1324873--1324945	25	2.9	25	81	4	67	15	28	19	36	1.92
1324980--1325066	27	3.3	27	84	4	99	19	31	16	33	1.94
1324997--1325138	24	5.7	25	73	14	98	19	31	16	32	1.94
1325031--1325184	25	6.3	25	71	10	104	22	27	18	31	1.97
1325031--1325184	48	3.2	46	77	10	114	22	27	18	31	1.97
1325193--1325231	19	2.2	19	86	9	55	41	5	17	35	1.72
1329949--1329990	15	2.6	16	81	7	50	54	0	0	45	0.99
1331516--1331546	4	7.8	4	92	0	53	48	3	0	48	1.17
1331698--1331727	15	1.9	16	93	6	53	40	0	6	53	1.27
1347735--1347760	2	13.0	2	100	0	52	50	0	0	50	1.00
1347998--1348027	14	2.1	15	93	6	53	53	0	0	46	1.00
1353343--1353381	18	2.2	18	85	0	51	33	5	0	61	1.18
1361680--1361773	21	4.5	21	69	0	62	21	52	7	19	1.70
1363259--1363304	14	3.3	14	84	0	56	36	0	13	50	1.41
1363259--1363296	16	2.4	16	100	0	76	34	0	15	50	1.45
1363259--1363300	18	2.3	18	87	0	66	35	0	14	50	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363608--1363638	16	2.0	16	93	6	55	22	19	0	58	1.40
1363612--1363646	16	2.2	16	89	0	52	31	17	2	48	1.61
1365998--1366028	2	15.5	2	100	0	62	48	0	0	51	1.00
1367723--1367773	26	2.0	26	92	0	84	37	5	1	54	1.36
1367740--1367796	22	2.5	22	85	5	69	43	1	1	52	1.21
1367740--1367802	24	2.7	24	82	9	76	42	1	3	52	1.27
1371204--1371253	16	3.2	16	72	13	50	48	2	2	48	1.24
1371642--1371686	23	2.0	23	100	0	90	37	17	17	26	1.93
1372946--1372994	11	4.5	11	94	5	82	48	0	2	48	1.12
1372932--1373018	11	8.1	11	78	13	74	52	0	2	44	1.13
1372958--1373023	21	3.2	19	79	18	62	56	0	1	42	1.08
1373354--1373378	11	2.3	11	100	0	50	44	16	16	24	1.86
1373894--1373925	11	2.8	12	90	9	50	71	0	0	28	0.86
1374004--1374068	3	21.7	3	73	17	55	61	3	1	33	1.21
1374004--1374068	19	3.4	18	70	29	55	61	3	1	33	1.21
1379175--1379238	23	2.8	23	92	0	110	35	17	18	28	1.93
1380541--1380612	31	2.4	30	88	6	103	59	0	1	38	1.06
1380575--1380621	18	2.7	17	80	6	58	57	0	0	42	0.98
1380577--1380614	18	2.1	19	90	5	60	65	0	0	34	0.93
1386102--1386132	12	2.6	12	94	0	53	45	0	3	51	1.17
1387641--1387723	31	2.8	30	81	7	80	38	14	10	36	1.81
1389152--1389183	16	2.0	16	93	0	55	0	15	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1389406--1389443	19	2.0	19	85	10	51	71	2	5	21	1.19
1392595--1392656	31	2.0	31	90	0	97	33	9	11	45	1.73
1395703--1395728	3	8.7	3	100	0	52	65	0	34	0	0.93
1398226--1398277	26	2.0	26	85	7	70	57	7	7	26	1.54
1398585--1398616	2	16.0	2	100	0	64	50	0	0	50	1.00
1417961--1418002	22	1.9	22	85	9	59	61	0	0	38	0.96
1417961--1418003	7	6.0	7	81	13	52	60	0	0	39	0.97
1421943--1421992	4	12.5	4	100	0	100	24	0	26	50	1.50
1428992--1429037	3	15.3	3	80	17	51	30	36	0	32	1.58
1431238--1431331	47	1.9	49	82	6	120	32	6	2	58	1.35
1431391--1431422	16	1.9	17	93	6	57	50	0	0	50	1.00
1445013--1445043	16	1.9	16	93	0	53	45	12	6	35	1.68
1445200--1445244	7	6.3	7	79	5	54	15	15	13	55	1.69
1445511--1445574	20	3.3	20	68	12	62	31	6	18	43	1.75
1445488--1445597	37	3.0	37	91	0	175	33	5	14	46	1.68
1445608--1445676	9	7.8	9	81	3	68	34	7	24	33	1.83
1445608--1445676	18	3.9	18	84	3	95	34	7	24	33	1.83
1445613--1445676	26	2.4	27	86	5	94	35	6	23	34	1.80
1445835--1445859	12	2.1	12	100	0	50	16	24	36	24	1.94
1449469--1449498	15	1.9	16	93	6	53	70	0	30	0	0.88
1449471--1449526	11	5.0	11	78	12	53	78	0	17	3	0.89
1449471--1449526	21	2.5	23	83	13	64	78	0	17	3	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1449470--1449526	24	2.4	25	77	16	59	77	0	19	3	0.92
1451451--1451995	271	2.0	272	99	0	1083	38	13	10	37	1.78
1483661--1483700	16	2.4	17	87	8	64	35	0	2	62	1.09
1483941--1483971	5	6.2	5	100	0	62	58	0	0	41	0.98
1487402--1487450	23	2.1	23	100	0	98	55	0	4	40	1.19
1490690--1490745	29	1.9	29	85	0	76	35	19	8	35	1.83
1503455--1503503	24	2.0	24	92	0	80	18	36	34	10	1.85
1507484--1507603	51	2.4	50	84	4	145	14	28	20	37	1.91
1509620--1510003	27	14.2	27	93	1	626	22	20	22	35	1.96
1513763--1513801	20	2.0	19	90	5	60	12	0	10	76	1.01
1516037--1516679	315	2.0	315	92	3	1071	36	11	13	38	1.81
1519049--1519111	30	2.1	30	85	2	83	36	7	7	47	1.62
1521503--1521532	6	5.0	6	100	0	60	83	0	0	16	0.65
1523755--1524019	132	2.0	133	99	0	523	30	9	9	50	1.67
1527890--1527929	20	2.0	20	85	9	55	47	0	35	17	1.48
1536334--1536421	22	4.2	22	90	9	141	32	6	3	56	1.42
1536333--1536418	20	4.2	20	88	7	120	33	6	3	55	1.44
1536333--1536418	42	2.1	39	93	6	145	33	6	3	55	1.44
1538248--1538288	21	2.0	21	85	0	55	39	0	2	58	1.11
1539957--1540018	30	2.1	30	100	0	124	25	9	12	51	1.70
1542931--1542992	18	3.3	18	76	15	54	24	64	0	11	1.26
1542937--1542986	12	4.1	12	81	2	55	24	64	0	12	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1543021--1543119	24	4.1	24	72	5	65	29	47	11	12	1.75
1543123--1543181	24	2.5	24	88	0	82	33	50	6	8	1.59
1543098--1543217	60	2.0	60	86	3	170	33	50	7	8	1.60
1543129--1543187	24	2.5	25	83	10	79	32	52	8	6	1.58
1543054--1543227	24	7.2	24	73	8	68	32	51	7	8	1.60
1548557--1548597	21	2.0	21	85	0	55	39	0	2	58	1.11
1552061--1552114	23	2.3	23	80	3	63	59	5	0	35	1.21
1554045--1554089	23	2.0	23	95	0	81	53	6	0	40	1.27
1554046--1554095	23	2.2	23	88	0	73	56	8	0	36	1.29
1568083--1568117	16	2.2	17	90	10	56	22	5	11	60	1.52

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