genome.fa.s12.2.7.7.80.10.50.1000.5.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: CP032245.1 Gossypioides kirkii chromosome KI_2_4
Parameters: 2 7 7 80 10 50 1000
Length:  41238926

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   

This is table  5  of  132  ( 15769 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)
1205269--1205325	29	2.0	28	82	3	69	50	1	8	38	1.44
1205653--1205701	22	2.2	22	82	7	55	48	0	0	51	1.00
1206861--1206894	13	2.7	13	86	4	52	41	0	0	58	0.98
1207987--1208059	36	2.0	36	100	0	146	31	24	0	43	1.54
1208092--1208143	15	3.4	15	76	12	52	19	30	0	50	1.48
1210398--1210426	7	4.3	7	95	4	51	27	0	13	58	1.36
1210398--1210435	14	2.9	13	88	7	51	26	0	10	63	1.27
1211750--1211866	49	2.4	49	98	0	225	40	14	10	35	1.80
1212371--1212412	20	2.1	20	95	0	75	26	19	11	42	1.85
1214437--1214485	17	2.9	16	82	17	55	57	0	2	40	1.10
1214436--1214489	19	3.0	18	76	23	60	55	0	1	42	1.10
1215777--1215823	24	2.0	24	100	0	94	29	31	4	34	1.77
1215894--1216000	51	2.1	51	91	5	171	42	25	12	20	1.87
1216278--1216378	38	2.8	36	84	11	141	49	3	8	37	1.53
1216507--1216552	24	1.9	24	90	0	74	65	0	0	34	0.93
1223022--1223506	257	1.9	259	89	1	758	38	18	16	25	1.92
1223423--1223587	81	2.0	81	96	0	303	37	16	21	24	1.93
1228400--1228433	4	8.2	4	90	3	50	2	26	20	50	1.63
1228392--1228428	16	2.2	17	95	4	67	0	24	18	56	1.41
1234146--1234215	33	2.1	33	86	0	95	35	7	31	25	1.83
1243493--1243564	39	1.9	37	86	8	101	19	2	43	34	1.66
1244201--1244231	10	3.1	10	100	0	62	29	32	0	38	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248268--1248335	34	2.1	34	94	5	122	51	0	5	42	1.26
1248273--1248349	34	2.4	32	82	8	95	50	0	5	44	1.24
1252330--1252369	15	2.8	14	81	7	53	22	0	12	65	1.26
1266415--1266474	31	1.9	31	96	0	111	48	13	8	30	1.71
1266857--1266890	16	2.0	18	88	11	54	52	0	2	44	1.16
1275203--1275265	28	2.2	28	85	0	90	52	20	0	26	1.47
1277277--1277356	39	2.1	38	86	9	108	43	8	12	35	1.73
1284980--1285084	30	3.6	29	69	19	83	27	19	9	43	1.81
1284982--1285146	58	2.9	58	88	2	226	25	18	10	44	1.82
1286723--1286814	28	3.3	27	76	8	78	48	13	11	26	1.76
1288730--1288788	20	2.7	22	71	12	59	61	3	0	35	1.13
1297028--1297114	43	2.0	43	95	0	156	32	20	19	27	1.97
1299207--1299284	31	2.6	29	91	4	120	28	14	11	46	1.79
1299210--1299284	29	2.5	31	91	4	118	26	14	12	46	1.79
1299168--1299335	88	1.9	89	86	1	239	24	14	13	47	1.80
1299534--1299558	13	1.9	13	100	0	50	56	8	0	36	1.29
1299519--1299634	31	3.9	31	77	8	141	59	6	3	31	1.38
1307287--1307347	29	2.1	29	84	6	79	42	6	16	34	1.74
1310971--1311052	30	2.7	30	83	3	103	46	4	8	40	1.56
1323605--1323648	22	2.0	22	100	0	88	45	18	9	27	1.79
1331739--1331779	12	3.7	11	81	18	50	31	0	0	68	0.90
1331739--1331779	21	2.0	21	85	9	57	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344428--1344472	23	2.0	23	100	0	90	44	8	4	42	1.56
1348450--1348511	30	2.1	30	96	0	115	35	3	22	38	1.71
1348558--1348605	16	2.9	17	75	12	55	62	0	0	37	0.95
1360727--1360752	10	2.6	10	100	0	52	92	7	0	0	0.39
1360966--1360990	11	2.3	11	100	0	50	48	8	16	28	1.74
1364397--1364428	12	2.7	12	95	0	55	12	34	21	31	1.91
1368006--1368046	21	2.0	21	85	0	55	39	4	4	51	1.45
1373198--1373231	14	2.4	15	90	9	54	17	14	5	61	1.52
1373575--1373612	18	2.1	18	100	0	76	39	7	21	31	1.82
1377557--1377588	4	8.0	4	92	0	55	25	3	25	46	1.67
1380234--1380366	39	3.4	39	96	2	250	30	19	24	25	1.98
1382791--1382878	43	2.0	43	93	0	149	47	10	7	34	1.67
1383614--1383644	6	5.2	6	100	0	62	16	16	48	19	1.81
1385551--1385586	3	12.0	3	100	0	72	33	0	0	66	0.92
1387072--1387112	17	2.4	17	87	4	55	39	0	2	58	1.11
1394235--1394280	14	3.2	15	81	12	60	52	21	0	26	1.47
1396686--1397398	18	41.9	18	66	19	252	47	1	4	47	1.30
1396777--1396922	48	3.0	48	89	2	238	50	0	3	45	1.23
1396769--1396918	49	3.1	49	90	1	239	50	0	4	45	1.25
1396698--1397325	209	3.1	210	91	4	986	47	1	4	46	1.31
1396986--1397398	48	8.4	48	93	2	637	48	0	3	47	1.22
1397044--1397368	30	10.1	31	69	16	155	48	0	3	47	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1397041--1397400	4	83.2	4	65	18	100	48	0	3	48	1.19
1396965--1397403	49	9.2	45	80	14	206	48	0	3	47	1.22
1402919--1403066	66	2.2	66	86	2	208	44	14	23	16	1.85
1403061--1403103	21	2.0	21	86	0	59	27	20	48	2	1.62
1403429--1403551	43	2.9	41	91	4	192	25	25	30	18	1.98
1403431--1403568	42	3.3	42	93	1	231	23	25	31	18	1.98
1409454--1409493	2	20.0	2	100	0	80	50	0	0	50	1.00
1415253--1415291	20	2.0	19	85	5	51	58	5	5	30	1.41
1417855--1418122	92	2.9	91	85	5	310	15	11	16	56	1.66
1418979--1419090	56	2.0	57	83	3	145	32	11	21	34	1.89
1431293--1431326	18	1.9	18	88	5	52	29	0	5	64	1.17
1432121--1432156	19	1.9	19	88	5	56	25	8	13	52	1.68
1433760--1433838	28	2.8	28	73	9	88	39	3	20	36	1.71
1434331--1434429	49	2.0	49	98	0	189	33	22	16	28	1.95
1434748--1434782	14	2.5	14	100	0	70	37	0	0	62	0.95
1441773--1441802	14	2.1	14	100	0	60	46	13	10	30	1.75
1442230--1442298	31	2.3	31	87	12	99	20	14	20	44	1.86
1443591--1443624	17	2.0	17	88	11	52	41	0	2	55	1.15
1448591--1448629	20	2.0	20	89	0	60	41	2	7	48	1.45
1451874--1452022	23	6.5	23	80	9	144	11	23	21	43	1.85
1451875--1452022	69	2.1	69	86	9	205	11	23	20	43	1.84
1453340--1453505	23	7.4	23	74	14	150	42	22	24	11	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1453346--1453420	39	1.9	39	91	0	123	44	21	22	12	1.85
1453385--1453505	48	2.6	46	87	7	172	39	23	25	11	1.88
1457991--1458030	20	2.1	19	85	4	53	55	2	2	40	1.27
1458022--1458072	20	2.5	21	81	12	61	58	1	1	37	1.20
1458219--1458290	20	3.7	19	73	17	67	31	6	4	56	1.45
1459819--1459860	19	2.2	20	86	4	59	23	9	28	38	1.86
1463053--1463096	3	14.7	3	100	0	88	65	0	0	34	0.93
1465410--1465440	4	8.0	4	92	7	55	48	0	0	51	1.00
1470364--1470407	22	2.0	22	83	16	56	50	15	15	18	1.79
1473104--1473214	55	2.0	55	100	0	222	18	14	21	45	1.84
1483567--1483593	2	13.5	2	100	0	54	48	0	51	0	1.00
1485195--1485226	6	5.3	6	100	0	64	15	0	18	65	1.27
1485196--1485235	18	2.2	18	90	0	62	15	2	20	62	1.43
1485797--1485829	16	2.1	16	94	0	57	45	0	0	54	0.99
1495840--1495864	12	2.1	12	100	0	50	64	0	8	28	1.22
1496872--1496896	2	12.5	2	100	0	50	52	0	0	48	1.00
1505685--1505725	21	1.9	22	90	5	66	29	0	24	46	1.53
1507818--1507924	47	2.3	46	80	6	110	35	25	12	27	1.91
1507933--1507971	20	2.0	20	94	0	69	12	10	38	38	1.78
1507990--1508069	7	11.3	7	70	21	60	18	1	37	42	1.59
1507990--1508038	13	3.7	13	91	2	80	16	0	40	42	1.48
1509656--1509680	7	3.6	7	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1510818--1510895	7	11.4	7	77	13	65	33	29	12	24	1.92
1516479--1516525	18	2.5	19	80	12	53	55	8	2	34	1.42
1518491--1518534	18	2.4	18	80	3	52	52	11	13	22	1.72
1523250--1523333	3	28.0	3	100	0	168	66	0	33	0	0.92
1523890--1523914	12	2.1	12	100	0	50	64	0	8	28	1.22
1530001--1530070	23	3.0	23	82	0	95	32	14	27	25	1.94
1543244--1543313	23	3.0	23	82	0	95	32	14	27	25	1.94
1556347--1556371	12	2.1	12	100	0	50	28	8	0	64	1.22
1556929--1556997	3	23.0	3	100	0	138	0	33	0	66	0.92
1563156--1563222	23	2.9	23	88	0	107	35	14	23	25	1.94

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