genome.fa.s1.2.7.7.80.10.50.1000.5.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: CP032244.1 Gossypioides kirkii chromosome KI_01
Parameters: 2 7 7 80 10 50 1000
Length:  38174113

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   

This is table  5  of  126  ( 15035 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)
1347803--1347861	31	1.9	31	89	0	91	69	6	1	22	1.21
1348949--1348996	23	2.1	23	84	3	62	64	12	0	22	1.27
1352170--1352216	22	2.1	22	96	0	85	38	27	19	14	1.91
1374840--1374903	21	3.0	21	76	15	69	26	9	0	64	1.24
1377220--1377256	2	18.5	2	100	0	74	51	0	0	48	1.00
1381738--1382118	130	2.9	132	87	4	529	43	20	13	21	1.86
1385894--1385999	53	2.0	53	100	0	212	33	13	20	32	1.91
1393265--1393298	13	2.7	12	90	9	50	64	0	0	35	0.94
1402939--1402987	17	2.9	18	77	22	61	8	20	0	71	1.11
1404843--1404968	61	2.1	61	89	3	191	38	7	11	42	1.70
1407535--1407565	8	3.9	8	95	0	53	83	0	0	16	0.64
1408111--1408718	40	15.2	40	71	13	432	25	19	23	32	1.97
1408071--1408722	79	8.2	80	93	1	1039	25	18	23	32	1.97
1416957--1416987	8	3.8	8	95	4	53	41	12	22	22	1.88
1422879--1422912	15	2.3	15	89	0	50	38	8	2	50	1.49
1423331--1423378	12	4.1	12	75	5	53	2	4	22	70	1.15
1423357--1423446	43	2.1	43	85	4	119	10	3	18	67	1.33
1425339--1425387	25	2.0	25	84	8	64	57	0	16	26	1.40
1426269--1426326	28	2.1	28	84	12	75	50	1	8	39	1.43
1430186--1430212	13	2.1	13	100	0	54	33	14	7	44	1.73
1431927--1431959	10	3.2	11	87	12	52	42	0	0	57	0.98
1432951--1433011	31	2.0	31	90	0	95	49	8	6	36	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1437520--1437563	17	2.5	18	81	3	54	15	4	9	70	1.30
1442321--1442363	4	11.0	4	87	5	61	25	2	2	69	1.12
1442321--1442363	15	2.8	16	85	7	61	25	2	2	69	1.12
1443042--1443071	15	2.0	15	93	0	51	10	20	50	20	1.76
1447917--1447955	20	2.0	20	85	10	53	69	10	2	17	1.28
1448111--1448180	24	2.9	24	78	4	61	72	10	5	11	1.26
1448174--1448243	30	2.2	32	87	7	99	75	14	2	7	1.12
1459665--1459732	24	2.9	24	91	2	102	25	13	11	50	1.75
1461662--1461748	24	3.6	24	85	0	111	26	14	9	49	1.74
1464555--1464675	58	2.1	58	84	6	156	33	0	19	47	1.49
1479883--1479987	39	2.7	39	89	2	149	22	32	10	34	1.88
1479972--1479999	6	4.7	6	100	0	56	17	35	0	46	1.49
1483221--1483286	31	2.1	31	83	5	80	48	9	3	39	1.50
1483232--1483302	31	2.3	31	85	7	92	42	8	4	45	1.54
1486089--1486132	22	2.0	22	91	4	72	25	45	0	29	1.54
1489212--1489264	15	3.5	15	74	5	52	28	3	3	64	1.28
1490941--1490971	6	5.2	6	92	0	53	29	0	16	54	1.42
1495864--1495902	21	1.9	20	89	5	60	53	0	0	46	1.00
1498180--1498217	14	2.8	14	85	14	53	34	0	0	65	0.93
1501043--1501216	70	2.5	70	73	4	152	44	16	8	31	1.77
1502677--1502731	8	6.8	8	87	2	56	25	12	25	36	1.91
1502677--1502721	12	3.8	12	87	0	54	24	13	26	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1503736--1503853	57	2.1	57	100	0	236	33	12	1	52	1.49
1504719--1504747	5	5.8	5	100	0	58	0	79	0	20	0.74
1505323--1505502	71	2.6	71	80	4	204	46	12	4	36	1.62
1507373--1507416	15	2.9	14	83	12	52	27	0	2	70	0.99
1508212--1508263	26	2.0	27	85	11	72	32	1	5	59	1.32
1509338--1509401	5	12.8	5	100	0	128	40	0	18	40	1.51
1510475--1510503	5	6.0	5	96	4	51	0	0	62	37	0.96
1523398--1523431	17	1.9	18	88	5	52	61	5	0	32	1.20
1526682--1526727	25	2.0	24	84	16	62	39	30	8	21	1.84
1531357--1531396	21	2.0	20	85	5	53	57	5	12	25	1.55
1535831--1535866	18	2.1	16	90	10	54	61	0	0	38	0.96
1537392--1537476	42	2.0	42	88	0	125	42	12	31	12	1.81
1553780--1553817	20	1.9	19	89	5	58	47	2	7	42	1.46
1563313--1563347	19	1.9	17	88	11	52	51	0	0	48	1.00
1563883--1563949	31	2.2	31	84	7	91	67	0	7	25	1.17
1564123--1564166	21	2.2	20	83	4	52	70	6	4	18	1.27
1566247--1566287	21	2.0	21	90	9	66	60	2	2	34	1.23
1568149--1568265	31	4.0	30	71	21	104	24	17	11	45	1.83
1570600--1570628	2	15.0	2	92	7	51	51	0	0	48	1.00
1570780--1570820	15	2.6	16	88	7	57	39	0	0	60	0.96
1570788--1570848	24	2.5	24	91	2	95	37	1	0	60	1.07
1579485--1579549	34	1.9	34	93	0	112	30	4	3	61	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1579492--1579543	17	3.0	18	75	8	63	28	5	3	61	1.37
1582391--1582452	31	2.0	31	90	0	97	40	12	6	40	1.69
1591303--1591357	5	11.8	5	78	18	57	45	0	0	54	0.99
1591303--1591353	18	2.7	19	82	11	70	45	0	0	54	0.99
1596232--1596294	29	2.2	28	80	2	72	44	20	4	30	1.72
1597874--1598406	268	2.0	268	88	3	804	22	18	21	36	1.95
1602657--1602922	138	1.9	136	81	6	322	46	18	9	26	1.79
1602818--1603216	163	2.5	155	86	5	532	44	15	11	29	1.80
1606367--1606729	159	2.3	162	78	8	375	43	18	14	23	1.87
1606362--1606807	79	5.6	78	77	8	328	43	19	14	22	1.87
1607543--1607582	14	2.9	14	80	0	53	35	0	0	65	0.93
1611807--1611835	14	2.0	15	93	6	51	72	20	6	0	1.07
1614349--1615083	150	4.9	150	79	6	650	51	16	14	18	1.77
1614349--1615083	151	4.9	150	80	5	693	51	16	14	18	1.77
1617325--1617352	14	2.0	14	100	0	56	42	21	7	28	1.79
1619450--1619477	2	14.0	2	100	0	56	50	0	0	50	1.00
1626250--1626311	31	2.0	31	84	6	81	46	3	1	48	1.28
1627839--1627920	29	2.8	28	81	10	92	56	14	1	28	1.47
1631211--1632041	234	3.6	235	84	4	1023	30	16	14	38	1.88
1651811--1651837	2	13.5	2	100	0	54	48	0	0	51	1.00
1658422--1658470	24	2.0	24	84	7	64	44	4	0	51	1.20
1663085--1663132	16	3.0	16	76	8	53	58	2	0	39	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1663289--1663327	21	2.0	18	85	14	51	35	7	0	56	1.28
1664861--1664922	24	2.6	24	81	0	79	35	12	17	33	1.88
1685548--1685629	42	2.0	42	83	9	105	45	10	12	31	1.76
1689745--1689799	27	2.0	28	85	3	76	50	7	10	30	1.64
1696072--1696105	15	2.3	15	89	0	50	41	0	0	58	0.98
1703318--1703511	100	1.9	100	95	0	352	35	18	11	34	1.87
1718273--1718304	3	10.7	3	93	0	55	31	0	3	65	1.08
1719874--1719930	29	2.0	29	82	6	71	38	10	12	38	1.77
1724213--1724258	16	2.7	17	83	12	51	8	17	2	71	1.21
1725591--1725983	132	3.0	129	83	4	491	30	20	20	28	1.98
1727434--1727484	25	2.0	25	88	7	77	27	19	19	33	1.96
1737093--1737135	20	2.1	21	82	4	52	55	2	16	25	1.53
1737132--1737160	3	9.7	3	100	0	58	65	0	34	0	0.93
1738301--1738338	17	2.2	18	90	4	60	28	0	2	68	1.03
1743881--1743922	20	2.1	20	82	8	50	59	2	16	21	1.48
1748337--1748396	31	1.9	31	86	0	84	48	15	8	28	1.73
1749161--1749256	31	3.1	30	73	13	88	46	3	11	38	1.56
1749175--1749256	31	2.6	31	79	11	96	43	3	10	41	1.57
1749277--1749341	29	2.2	30	83	10	89	44	7	13	33	1.73
1749753--1749787	18	1.9	18	94	0	61	42	14	5	37	1.69
1762272--1762314	2	21.5	2	100	0	86	0	0	51	48	1.00
1764145--1764206	31	2.0	30	84	3	79	50	9	3	37	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1764902--1764936	11	3.2	11	83	0	52	71	14	2	11	1.25
1767423--1767485	29	2.1	29	85	5	81	50	1	0	47	1.10
1767417--1767485	31	2.3	31	82	5	88	49	1	0	49	1.09
1770681--1770874	104	1.9	104	97	0	370	39	17	9	33	1.82
1775229--1775273	23	2.0	23	90	0	72	44	4	17	33	1.69
1779931--1779971	16	2.5	17	80	11	59	31	0	0	68	0.90
1789543--1789594	26	2.0	26	88	0	77	28	11	9	50	1.70
1795653--1795715	28	2.3	27	81	10	74	34	0	1	63	1.04
1800317--1800359	22	2.0	22	86	9	61	4	44	0	51	1.22
1801990--1802024	17	2.1	17	100	0	70	22	5	17	54	1.64

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