genome.fa.s11.2.7.7.80.10.50.1000.4.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   142   143   

This is table  4  of  143  ( 17057 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)
1206948--1206972	10	2.5	10	100	0	50	20	8	0	72	1.10
1219712--1219748	16	2.2	17	90	4	58	56	2	0	40	1.13
1220058--1220104	22	2.1	22	84	0	58	40	2	2	55	1.24
1246507--1246583	40	1.9	39	82	7	93	44	18	14	23	1.86
1247650--1247710	31	2.0	31	83	6	79	36	6	8	49	1.59
1274793--1274884	45	2.0	45	95	0	166	28	22	20	28	1.99
1276753--1276939	92	2.0	92	96	2	349	26	23	15	34	1.95
1279573--1279625	26	2.0	26	92	0	88	35	9	13	41	1.76
1286941--1287003	33	1.9	33	93	0	108	53	1	1	42	1.19
1287102--1287126	2	12.5	2	100	0	50	52	0	0	48	1.00
1287920--1287969	17	2.9	17	93	0	82	32	0	6	62	1.20
1287938--1288004	24	2.8	23	76	14	73	34	1	8	55	1.40
1289735--1290073	29	11.6	29	75	13	189	36	24	2	35	1.70
1289735--1290084	57	6.0	57	73	13	234	37	24	2	35	1.69
1289770--1290084	29	10.9	29	75	11	213	37	25	2	34	1.70
1290358--1290550	96	2.0	97	90	1	307	27	16	17	38	1.90
1291136--1291365	113	2.0	113	93	0	388	30	20	8	40	1.82
1291438--1291465	6	4.7	6	100	0	56	53	0	32	14	1.41
1294397--1294439	2	21.5	2	100	0	86	48	0	0	51	1.00
1295743--1295793	15	3.5	15	81	5	68	33	1	1	62	1.17
1295921--1295963	18	2.4	18	88	7	61	53	0	0	46	1.00
1297165--1297208	14	3.0	14	81	18	54	43	0	2	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306601--1306646	13	3.5	13	77	11	58	65	2	15	17	1.37
1309543--1309681	72	1.9	72	95	0	251	27	20	7	45	1.77
1322596--1322641	24	1.9	24	82	8	58	52	6	4	36	1.47
1323013--1323057	21	2.1	21	84	8	56	40	13	2	44	1.56
1324809--1324845	15	2.5	15	95	0	65	32	8	27	32	1.86
1325377--1325444	16	4.2	16	70	14	50	44	0	0	55	0.99
1325464--1325517	24	2.2	24	84	12	67	35	9	3	51	1.52
1327745--1327805	28	2.1	29	85	8	81	37	13	6	42	1.70
1330692--1330771	38	2.1	38	88	4	115	45	1	2	51	1.22
1330707--1330792	38	2.2	37	84	10	102	41	3	2	52	1.31
1332300--1332379	28	2.7	30	79	11	85	40	5	1	53	1.31
1332358--1332416	27	2.2	27	79	11	68	38	3	1	55	1.26
1335739--1335763	2	12.5	2	100	0	50	48	0	0	52	1.00
1338032--1338071	16	2.5	17	80	19	50	32	0	2	65	1.06
1339661--1339719	22	2.8	21	74	5	57	40	0	3	55	1.16
1339652--1339703	20	2.7	18	74	25	52	36	0	3	59	1.16
1339893--1340039	10	15.2	10	70	14	60	30	1	4	63	1.21
1339918--1339999	39	2.2	37	82	12	96	30	1	3	64	1.18
1339884--1340028	29	5.1	27	71	16	98	28	1	4	65	1.19
1341627--1341662	17	2.2	16	90	5	54	33	0	0	66	0.92
1341673--1341726	18	3.0	18	71	10	56	48	1	1	48	1.23
1342312--1342382	24	3.0	24	85	0	97	28	12	7	52	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1342833--1342864	16	2.0	16	100	0	64	18	18	31	31	1.95
1344319--1344393	24	3.1	24	94	0	123	25	12	8	54	1.64
1345402--1345573	85	2.0	86	88	1	256	38	9	19	33	1.83
1346685--1347073	10	39.2	10	65	17	68	32	2	4	60	1.31
1346777--1346871	27	3.5	26	81	7	109	35	1	2	61	1.15
1346777--1346871	9	10.8	8	74	17	73	35	1	2	61	1.15
1346771--1346861	36	2.5	36	79	12	98	34	0	2	63	1.06
1346923--1346996	30	2.5	30	84	2	87	35	2	2	59	1.26
1346922--1346967	20	2.2	21	92	3	76	34	0	4	60	1.16
1347014--1347070	19	2.9	19	75	14	53	31	1	1	64	1.13
1346982--1347063	29	2.8	29	78	7	69	32	2	2	62	1.22
1346993--1347093	9	10.4	9	69	15	51	28	3	1	65	1.21
1347342--1347533	90	2.1	89	81	6	219	23	17	13	44	1.85
1347402--1347478	30	2.5	32	85	8	106	25	18	10	45	1.81
1347342--1347533	89	2.1	90	81	4	228	23	17	13	44	1.85
1347986--1348353	132	2.7	133	78	9	350	42	11	10	35	1.75
1348496--1348596	28	3.6	28	79	11	100	63	2	1	31	1.21
1348495--1348704	10	21.8	9	71	17	131	60	5	1	32	1.29
1349613--1349674	33	1.9	33	83	3	81	38	19	1	40	1.61
1350125--1350181	29	2.0	29	92	0	96	22	8	12	56	1.63
1350181--1350275	28	3.3	28	83	2	118	23	15	8	52	1.70
1352260--1352300	11	3.6	12	81	18	52	4	21	0	73	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1352267--1352303	11	3.3	11	85	7	56	2	21	0	75	0.92
1352675--1352721	21	2.2	22	96	3	87	44	31	0	23	1.54
1352705--1352734	15	2.0	15	93	0	51	43	33	3	20	1.68
1353892--1353945	3	18.3	3	96	3	101	31	0	0	68	0.90
1362698--1362729	3	10.7	3	100	0	64	31	0	0	68	0.90
1365386--1365420	13	2.8	13	86	4	54	51	0	48	0	1.00
1376602--1376631	15	2.1	14	93	6	51	53	0	0	46	1.00
1380078--1380116	18	2.2	18	85	0	51	30	2	7	58	1.39
1380596--1380633	20	1.9	20	94	0	67	47	0	0	52	1.00
1380597--1380655	30	2.0	28	81	15	66	40	1	0	57	1.09
1395625--1395713	12	7.7	12	80	6	103	70	16	5	6	1.28
1395621--1395713	36	2.7	35	86	6	127	72	16	5	6	1.25
1395678--1395791	38	2.9	38	83	6	131	70	16	6	7	1.31
1395689--1395791	20	5.4	18	81	12	116	70	16	5	6	1.28
1395665--1395804	58	2.3	60	84	12	187	68	17	6	7	1.35
1401594--1401651	30	1.9	31	82	10	75	43	8	20	27	1.81
1422631--1422696	31	2.1	31	88	0	96	50	12	4	33	1.60
1424131--1424179	24	2.1	22	81	7	53	36	0	0	63	0.95
1424144--1424181	16	2.4	17	82	13	53	39	0	0	60	0.97
1424741--1424780	20	2.0	20	85	0	53	37	0	7	55	1.29
1425114--1425200	39	2.2	39	95	0	156	35	8	11	44	1.70
1426515--1426548	18	1.9	17	88	5	50	35	5	20	38	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1426517--1426559	22	2.0	22	85	0	59	34	9	20	34	1.85
1428356--1428393	6	6.3	6	100	0	76	34	50	0	15	1.45
1432385--1432409	6	4.2	6	100	0	50	36	48	0	16	1.46
1455694--1455755	31	2.1	30	88	11	92	37	6	9	46	1.62
1455932--1456001	30	2.3	29	82	4	77	52	7	5	34	1.52
1456309--1456338	10	3.0	10	90	0	51	66	0	0	33	0.92
1469842--1469888	3	15.7	3	100	0	94	34	0	0	65	0.93
1475286--1475317	13	2.5	13	95	5	57	15	0	0	84	0.63
1481270--1481319	25	1.9	27	84	8	68	52	0	14	34	1.42
1490236--1490272	12	2.9	13	88	8	58	24	2	0	72	0.97
1510603--1510650	20	2.4	20	79	6	53	47	2	2	47	1.25
1519377--1519410	6	5.7	6	100	0	68	0	32	0	67	0.91
1527940--1528002	29	2.2	28	83	5	74	50	14	9	25	1.72
1529890--1529918	2	14.5	2	100	0	58	0	0	48	51	1.00
1537213--1537259	23	2.0	23	83	0	58	29	27	6	36	1.82
1543603--1543646	14	2.8	16	80	16	56	47	0	0	52	1.00
1544015--1544242	121	1.9	119	88	1	339	29	21	11	37	1.89
1546404--1546456	27	2.0	27	92	0	88	52	15	3	28	1.59
1546616--1546659	16	2.8	16	80	16	56	47	2	0	50	1.13
1546781--1546851	29	2.4	29	83	9	90	46	12	15	25	1.81
1547024--1547067	22	2.0	22	82	8	54	50	13	0	36	1.42
1553959--1553988	5	6.0	5	100	0	60	20	0	60	20	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1565472--1565513	20	2.1	20	100	0	84	38	14	14	33	1.86
1571503--1571543	16	2.6	16	88	0	55	29	2	0	68	1.03
1571514--1571629	58	2.0	58	81	6	135	40	3	0	55	1.23
1572380--1572452	33	2.2	33	92	0	119	34	15	15	35	1.88
1575742--1575797	21	2.7	20	78	8	67	39	0	0	60	0.97
1575904--1575953	23	2.2	22	82	10	57	66	2	6	26	1.26
1576194--1576248	22	2.6	21	80	5	58	38	0	3	58	1.16
1579871--1579909	17	2.3	17	90	0	60	61	7	2	28	1.37
1580192--1580216	2	12.5	2	100	0	50	52	0	0	48	1.00
1581138--1581172	14	2.3	15	90	9	54	40	5	0	54	1.24

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   142   143