genome.fa.s12.2.7.7.80.10.50.1000.4.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: Chr5
Parameters: 2 7 7 80 10 50 1000
Length:  43060996

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   

This is table  4  of  128  ( 15303 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)
1184089--1184123	17	2.1	17	88	0	52	25	5	17	51	1.67
1195286--1195381	50	1.9	50	86	0	138	30	19	26	23	1.98
1195964--1195996	17	2.0	17	88	5	50	24	15	18	42	1.88
1196376--1196428	26	2.0	27	88	3	81	28	13	11	47	1.77
1198067--1198283	108	2.0	109	99	0	427	47	8	9	35	1.66
1199265--1199301	9	4.1	9	92	0	65	45	13	10	29	1.77
1200025--1200050	5	5.2	5	100	0	52	19	19	19	42	1.90
1202064--1202183	40	3.2	40	61	18	101	29	7	10	52	1.63
1202057--1202206	74	2.0	75	98	1	293	30	9	10	50	1.67
1205700--1205733	16	2.1	16	88	0	50	44	35	5	14	1.70
1206991--1207275	141	2.0	142	97	2	547	54	10	2	31	1.49
1220654--1220718	31	2.1	31	82	2	78	49	13	1	35	1.52
1223463--1223531	31	2.2	31	84	0	84	36	17	10	36	1.84
1227312--1227339	3	9.3	3	100	0	56	67	0	0	32	0.91
1229588--1229617	11	2.7	11	94	0	51	23	0	6	70	1.11
1229914--1230061	73	2.0	74	97	1	280	50	4	7	38	1.50
1234000--1234034	18	2.0	18	88	5	54	22	8	31	37	1.85
1234045--1234078	12	2.8	12	86	13	52	64	0	0	35	0.94
1234045--1234074	11	2.6	11	94	5	51	63	0	0	36	0.95
1234059--1234098	15	2.5	17	76	23	50	67	0	5	27	1.11
1240750--1240789	20	2.0	20	90	0	62	30	25	35	10	1.88
1250223--1250249	3	9.0	3	100	0	54	33	0	33	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1252419--1252707	148	2.0	148	97	0	553	26	5	18	48	1.70
1254686--1254854	89	1.9	89	91	0	275	31	15	14	37	1.89
1259736--1259761	7	3.7	7	100	0	52	11	0	0	88	0.52
1259722--1259784	33	1.9	33	83	0	81	26	1	4	66	1.20
1260280--1260443	83	2.0	83	91	2	267	41	18	11	28	1.86
1261922--1261951	5	6.0	5	100	0	60	20	0	0	80	0.72
1263029--1263061	16	2.1	16	94	0	57	78	0	6	15	0.93
1266115--1266143	3	9.7	3	100	0	58	65	0	34	0	0.93
1266843--1266886	2	22.0	2	100	0	88	50	0	50	0	1.00
1269296--1269343	21	2.4	19	79	6	51	31	10	20	37	1.87
1270064--1270105	21	2.0	21	95	0	75	33	26	11	28	1.92
1270999--1271032	17	2.0	17	94	0	59	50	5	0	44	1.26
1271832--1271878	19	2.6	18	80	12	51	57	4	2	36	1.30
1274032--1274057	13	2.0	13	100	0	52	38	0	0	61	0.96
1274230--1274256	2	13.5	2	100	0	54	51	0	0	48	1.00
1286310--1286343	14	2.5	14	95	4	61	50	35	0	14	1.44
1289819--1290305	241	2.0	240	89	1	751	30	12	23	33	1.92
1294702--1294732	15	2.1	15	100	0	62	22	19	25	32	1.97
1298133--1298157	11	2.3	11	100	0	50	44	0	0	56	0.99
1301059--1301120	26	2.3	27	86	2	81	35	1	1	61	1.16
1303059--1303107	9	5.4	9	85	0	62	42	22	8	26	1.81
1307524--1307566	20	2.2	20	83	8	52	65	6	0	27	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308396--1308456	31	2.0	31	90	0	95	42	8	14	34	1.76
1315591--1315647	2	29.0	2	92	3	80	5	0	50	43	1.24
1315627--1315653	14	1.9	14	100	0	54	22	0	51	25	1.48
1315647--1315690	2	22.0	2	100	0	88	50	0	50	0	1.00
1315622--1315655	16	2.1	17	88	5	52	20	0	52	26	1.46
1318233--1318311	21	3.6	21	83	11	88	44	2	0	53	1.14
1318258--1318316	26	2.2	27	84	6	75	45	1	0	52	1.10
1328812--1328882	19	3.7	20	83	16	96	33	0	5	60	1.20
1329664--1329804	69	2.2	65	78	12	146	53	9	7	29	1.60
1342281--1342331	3	17.0	3	100	0	102	66	0	0	33	0.92
1345142--1345174	15	2.3	15	89	5	50	69	3	0	27	1.03
1346941--1346974	17	2.0	17	100	0	68	52	5	11	29	1.61
1352061--1352102	15	2.9	15	86	10	52	0	42	0	57	0.99
1352412--1352482	33	2.2	33	92	0	115	15	8	40	35	1.78
1353519--1353566	23	2.1	23	92	3	80	50	14	16	18	1.79
1366491--1366521	9	3.4	9	95	0	53	74	0	0	25	0.82
1367964--1368006	22	2.0	22	86	4	61	60	0	0	39	0.97
1374639--1374709	31	2.2	32	85	2	90	29	4	14	52	1.60
1378636--1378665	15	2.0	15	93	0	51	33	23	16	26	1.96
1378638--1378672	18	1.9	18	100	0	70	34	22	14	28	1.93
1379751--1380107	179	2.0	179	94	0	624	26	14	17	41	1.87
1387060--1387122	10	6.6	10	75	8	60	33	6	0	60	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1391487--1391558	7	10.4	7	81	10	60	66	0	1	31	1.00
1391491--1391558	28	2.4	28	87	4	93	67	0	1	30	0.99
1391487--1391558	15	5.2	14	76	12	60	66	0	1	31	1.00
1391652--1391709	22	2.8	21	82	10	66	67	0	1	31	1.01
1391649--1391711	21	3.0	21	83	4	81	65	0	1	33	1.03
1391410--1391714	160	1.9	158	93	3	522	53	7	4	33	1.51
1393555--1393584	15	1.9	15	93	6	51	70	0	6	23	1.11
1394063--1394155	29	3.4	26	77	15	89	63	2	0	34	1.07
1394096--1394155	27	2.2	27	85	5	77	63	0	0	36	0.95
1394080--1394150	19	3.7	19	78	17	60	61	2	0	35	1.10
1400485--1400586	51	2.0	51	84	0	132	44	16	0	38	1.55
1403029--1403094	29	2.4	27	82	7	78	66	0	3	30	1.06
1403945--1404004	27	2.2	27	85	5	77	61	0	1	36	1.06
1403960--1403999	18	2.2	19	86	4	55	62	0	0	37	0.95
1408560--1408597	18	2.1	19	90	5	60	52	5	21	21	1.66
1420016--1420055	20	2.0	20	90	0	62	50	12	10	27	1.72
1420004--1420070	34	1.9	35	90	3	109	46	13	8	31	1.74
1425817--1425884	3	22.7	3	100	0	136	67	0	0	32	0.91
1426676--1426705	15	1.9	16	93	6	53	10	23	0	66	1.21
1432553--1432649	51	1.9	51	84	0	131	42	16	3	38	1.64
1437056--1437082	11	2.5	11	100	0	54	40	0	0	59	0.98
1437024--1437120	37	2.7	35	74	16	92	32	0	1	65	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1438554--1438652	26	3.7	28	75	12	82	49	2	7	41	1.41
1438554--1438652	28	3.7	25	75	15	76	49	2	7	41	1.41
1438738--1438785	4	12.0	4	81	0	51	70	4	4	20	1.21
1443720--1443744	7	3.6	7	100	0	50	24	0	0	76	0.80
1457761--1457818	30	1.9	30	85	0	80	43	3	22	31	1.70
1462412--1462542	66	2.0	66	95	0	235	25	51	9	12	1.70
1462412--1462577	66	2.5	66	84	3	183	24	52	10	12	1.70
1462535--1462610	33	2.3	33	88	0	107	19	56	10	13	1.65
1462574--1462670	42	2.3	42	92	0	167	23	53	8	14	1.67
1462634--1462701	30	2.3	30	82	5	84	27	52	4	14	1.61
1468507--1468978	131	3.7	127	74	11	390	37	12	11	38	1.78
1478842--1478878	19	2.0	19	89	5	58	37	0	8	54	1.30
1478842--1478901	18	3.2	19	81	11	61	38	1	6	53	1.37
1484822--1484890	31	2.2	31	89	5	113	46	14	10	28	1.77
1498093--1498130	20	1.9	20	94	0	67	13	0	31	55	1.38
1505869--1505907	20	2.0	19	85	5	51	17	33	0	48	1.48
1516151--1516223	38	1.9	37	86	8	103	45	1	21	31	1.61
1519524--1519548	2	12.5	2	100	0	50	48	0	0	52	1.00
1521923--1521989	29	2.3	29	82	12	75	34	11	4	49	1.60
1522205--1522385	91	2.0	91	86	4	258	24	13	18	42	1.87
1528858--1528905	19	2.6	19	93	3	80	64	12	8	14	1.49
1533344--1533473	66	2.0	66	93	3	226	36	13	30	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1538406--1538589	84	2.2	84	97	1	343	41	17	4	36	1.69
1540246--1540389	55	2.6	55	76	9	148	41	15	12	29	1.84
1540247--1540399	57	2.7	56	78	6	150	40	15	12	31	1.85
1540720--1540839	30	4.0	31	74	14	108	35	25	2	37	1.69
1540703--1540796	30	3.2	28	75	13	82	37	23	1	38	1.62
1542054--1542094	20	2.0	21	86	13	59	43	4	9	41	1.59
1542080--1542132	16	3.2	17	81	7	65	30	9	11	49	1.70
1542112--1542154	21	2.0	21	86	4	59	41	9	6	41	1.64
1542131--1542272	62	2.3	62	80	10	157	27	11	10	50	1.72
1542138--1542229	44	2.1	44	82	8	107	21	13	10	54	1.69

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