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: CP032252.1 Gossypioides kirkii chromosome KI_10
Parameters: 2 7 7 80 10 50 1000
Length:  47257441

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   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   

This is table  4  of  163  ( 19493 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)
1239461--1239487	3	9.0	3	100	0	54	66	0	33	0	0.92
1243435--1243478	17	2.5	17	85	3	52	40	11	0	47	1.39
1255126--1255199	9	8.1	9	84	1	85	21	29	12	36	1.90
1255126--1255199	27	2.7	27	85	2	103	21	29	12	36	1.90
1263718--1263760	18	2.3	18	88	4	59	51	0	0	48	1.00
1267164--1267210	9	5.2	9	94	0	76	23	27	10	38	1.88
1268332--1272884	438	10.4	439	90	2	6864	42	14	9	33	1.78
1268332--1272884	878	5.2	879	90	2	6888	42	14	9	33	1.78
1272450--1272495	25	1.9	24	82	8	58	63	0	8	28	1.24
1275178--1275224	23	2.1	23	84	7	62	40	17	2	40	1.61
1286539--1286745	50	4.1	50	82	3	243	38	16	24	21	1.93
1286539--1286722	24	7.2	26	66	10	110	38	15	23	21	1.92
1286545--1286745	52	3.9	52	82	3	246	37	15	24	21	1.93
1286533--1286729	102	1.9	101	87	1	286	38	16	24	21	1.93
1286661--1286745	24	3.4	24	75	9	80	35	17	27	20	1.95
1286705--1286757	24	2.2	24	86	0	70	35	18	28	16	1.93
1290046--1290079	3	11.3	3	100	0	68	32	0	35	32	1.58
1290317--1290373	29	2.0	29	86	6	80	43	0	7	49	1.29
1290380--1290418	16	2.3	18	82	13	55	58	0	0	41	0.98
1290931--1290994	25	2.5	26	79	5	85	59	0	1	39	1.07
1293178--1293214	15	2.5	15	95	0	65	35	10	0	54	1.36
1297468--1297508	17	2.5	17	92	4	66	21	2	0	75	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1299145--1299231	20	4.3	20	79	0	93	36	11	16	35	1.84
1299150--1299228	40	2.0	40	89	0	122	37	12	13	35	1.83
1308516--1308569	25	2.2	25	93	3	92	31	1	18	48	1.59
1309467--1309491	10	2.5	10	100	0	50	24	0	8	68	1.16
1310387--1310440	5	10.8	5	97	0	90	0	35	0	64	0.94
1312552--1312733	91	2.0	91	98	0	355	41	6	12	40	1.67
1314075--1314356	61	4.7	59	89	7	387	18	17	13	50	1.78
1314092--1314327	116	2.0	115	91	4	377	19	16	13	50	1.77
1321200--1321256	23	2.5	23	76	21	57	43	3	1	50	1.29
1323151--1323175	9	2.8	9	100	0	50	48	0	0	52	1.00
1323305--1323337	2	16.5	2	100	0	66	51	0	0	48	1.00
1323997--1324183	62	3.0	62	85	5	247	28	15	14	41	1.86
1324256--1324321	33	2.0	33	93	0	114	54	3	7	34	1.44
1327779--1327853	34	2.2	34	85	2	105	37	12	17	33	1.86
1335028--1335067	21	1.9	21	85	10	55	27	0	22	50	1.50
1337481--1337527	15	3.2	15	81	3	60	40	2	0	57	1.11
1348998--1349039	21	2.0	21	100	0	84	23	14	14	47	1.80
1352345--1352384	20	2.0	20	95	0	71	32	5	5	57	1.42
1353113--1353152	20	1.9	20	85	10	53	30	12	5	52	1.60
1355928--1356362	160	2.7	160	90	0	665	47	18	9	24	1.78
1359512--1359841	122	2.6	124	83	3	376	35	20	16	27	1.94
1360018--1360061	17	2.6	17	82	10	63	38	0	4	56	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1360036--1360082	25	2.0	25	87	8	71	40	2	2	55	1.24
1360859--1360901	19	2.3	19	88	8	61	62	0	0	37	0.95
1361935--1362190	29	8.9	28	67	17	89	33	27	2	35	1.71
1361985--1362290	29	10.7	27	67	17	100	33	26	2	37	1.69
1361976--1362350	58	6.4	58	85	4	427	32	26	3	38	1.72
1361923--1362350	172	2.5	173	82	6	506	32	26	3	37	1.73
1362328--1362390	27	2.3	27	81	5	74	31	30	11	26	1.91
1362603--1362788	97	1.9	99	84	4	252	27	18	12	41	1.87
1362957--1362995	19	2.0	20	85	5	53	38	10	5	46	1.60
1363798--1363827	15	2.0	15	93	0	51	76	3	20	0	0.92
1368574--1368649	23	3.4	23	74	16	63	1	21	10	67	1.28
1374723--1374774	26	2.0	26	92	0	86	17	38	7	36	1.78
1381084--1381122	21	1.9	21	89	5	62	58	15	2	23	1.49
1387482--1387522	4	10.2	4	100	0	82	26	0	24	48	1.51
1388226--1388283	18	3.3	18	81	9	59	50	0	0	50	1.00
1389164--1389211	25	1.9	25	83	8	62	62	6	4	27	1.38
1389803--1389832	15	2.0	15	93	0	51	53	16	0	30	1.44
1395083--1395107	12	2.1	12	100	0	50	44	24	0	32	1.54
1399262--1399543	141	2.0	143	83	5	365	25	12	22	39	1.89
1400911--1401206	148	2.0	149	92	3	490	23	15	15	44	1.85
1409275--1409346	29	2.4	29	86	2	99	41	19	9	29	1.83
1422221--1422294	38	1.9	38	88	0	112	25	4	13	56	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425173--1425241	34	2.0	34	89	10	106	47	14	18	18	1.82
1430298--1430326	15	1.9	15	100	0	58	6	34	3	55	1.44
1435252--1435319	34	2.0	34	86	11	95	51	16	14	17	1.77
1437330--1437357	11	2.5	11	100	0	56	50	7	0	42	1.30
1443363--1443423	22	2.7	23	78	12	65	47	0	3	49	1.18
1443754--1443822	33	2.2	32	84	5	86	52	1	1	44	1.19
1448642--1448724	25	3.3	25	91	1	130	13	28	22	34	1.92
1451919--1452044	23	5.4	23	87	1	180	12	21	23	42	1.87
1451919--1452094	69	2.5	68	84	8	203	13	22	21	43	1.87
1451897--1452046	23	6.4	23	83	4	167	12	22	22	43	1.86
1453648--1453695	23	2.1	23	88	0	69	10	29	20	39	1.86
1453684--1453763	23	3.5	22	79	5	88	16	20	26	37	1.93
1464241--1464299	23	2.6	23	83	2	75	33	28	20	16	1.95
1464315--1464385	23	3.1	23	83	0	97	43	18	25	12	1.85
1467357--1467493	31	4.6	30	73	12	102	26	17	10	45	1.81
1468853--1469321	201	2.3	203	90	2	730	36	24	14	24	1.92
1471968--1472005	18	2.2	18	90	4	60	34	2	2	60	1.24
1477758--1477789	10	2.8	12	81	18	50	21	0	28	50	1.49
1483350--1483382	16	1.9	18	88	11	52	36	3	0	60	1.12
1486553--1486727	82	2.1	84	84	6	232	52	11	1	34	1.48
1488026--1488087	31	2.0	31	90	6	99	48	11	6	33	1.65
1489863--1489894	15	2.1	15	100	0	64	12	12	6	68	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1490678--1490721	23	2.0	22	86	8	63	4	4	6	84	0.88
1496158--1496187	15	2.0	15	100	0	60	26	0	6	66	1.16
1496159--1496195	15	2.4	15	90	4	56	27	0	2	70	1.01
1496752--1496789	15	2.4	17	82	8	53	57	2	2	36	1.26
1499144--1499176	16	2.0	17	94	5	59	36	6	0	57	1.23
1499141--1499181	21	2.0	21	90	0	64	39	4	0	56	1.21
1499135--1499210	14	5.5	13	74	22	59	42	6	0	51	1.28
1499141--1499210	31	2.3	31	82	9	90	41	7	0	51	1.29
1507444--1507598	74	2.1	74	91	0	256	38	9	12	40	1.75
1507990--1508048	11	5.5	11	75	2	57	64	6	8	20	1.44
1511729--1511753	5	5.0	5	100	0	50	80	0	20	0	0.72
1512696--1512729	16	2.1	16	88	0	50	58	2	0	38	1.13
1516029--1516079	16	3.0	17	71	8	50	41	0	0	58	0.98
1524908--1524988	6	13.5	6	75	14	78	45	0	1	53	1.08
1524908--1524994	37	2.4	37	88	7	126	44	0	2	52	1.13
1524926--1524984	31	1.9	31	86	6	84	47	0	1	50	1.11
1524908--1525002	17	5.4	17	75	13	75	46	1	2	50	1.20
1525818--1525873	16	3.4	17	76	13	55	67	0	0	32	0.91
1526915--1527078	29	5.6	29	78	5	109	31	24	3	40	1.70
1526924--1527131	58	3.6	57	75	10	172	30	26	2	40	1.69
1527053--1527138	29	2.9	30	75	16	99	30	30	2	37	1.70
1547288--1547320	11	2.8	12	86	9	50	18	18	12	51	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1547410--1547469	24	2.5	24	83	2	77	25	13	20	41	1.88
1550854--1550886	11	2.8	12	86	9	50	18	18	12	51	1.76
1550976--1551035	24	2.5	24	83	2	77	25	13	20	41	1.88
1566295--1566327	11	2.8	12	86	9	50	18	18	12	51	1.76
1566417--1566476	24	2.5	24	83	2	77	25	13	20	41	1.88
1568858--1569429	69	8.5	69	89	4	787	30	20	14	34	1.92
1568855--1569433	205	2.9	205	88	3	822	30	20	14	34	1.93
1580953--1581087	58	2.4	57	87	3	182	34	2	33	30	1.70
1581075--1581416	30	11.4	30	85	4	415	35	3	22	38	1.71
1580978--1581092	57	2.1	56	88	6	153	33	1	33	31	1.68

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   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163