genome.fa.s2.2.7.7.80.10.50.1000.5.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: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Length:  42061019

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   

This is table  5  of  135  ( 16151 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)
1442022--1442091	33	2.1	34	81	2	79	30	22	21	25	1.99
1445618--1445648	14	2.2	14	100	0	62	29	45	6	19	1.75
1451043--1451092	24	2.1	24	84	0	64	16	42	0	42	1.47
1466042--1466098	22	2.6	22	81	10	55	45	7	14	33	1.71
1468165--1468203	15	2.4	16	87	8	53	35	0	0	64	0.94
1468164--1468234	9	8.2	9	68	13	51	39	0	0	60	0.97
1469258--1469301	21	2.1	21	100	0	88	54	36	4	4	1.41
1480232--1480274	18	2.4	18	88	7	61	53	0	0	46	1.00
1489867--1489902	3	12.0	3	87	0	54	38	0	0	61	0.96
1490703--1490740	17	2.1	17	90	9	58	44	0	0	55	0.99
1490922--1490954	17	2.0	17	94	5	59	24	0	15	60	1.35
1490928--1490969	21	2.0	20	86	9	57	23	0	9	66	1.21
1492368--1492403	17	2.1	17	90	10	56	36	0	0	63	0.94
1492372--1492464	28	3.3	29	78	18	83	38	0	1	60	1.04
1492394--1492464	30	2.4	30	86	13	94	40	0	1	57	1.07
1494853--1494958	48	2.2	48	96	0	194	40	10	28	20	1.85
1496717--1496773	24	2.4	24	82	14	73	40	0	0	59	0.97
1496718--1496772	21	2.4	24	82	14	64	38	0	0	61	0.96
1496716--1496786	21	3.6	19	74	14	56	45	0	0	54	0.99
1496826--1496895	29	2.5	26	77	18	70	42	4	1	51	1.30
1496836--1496893	29	2.0	30	83	10	75	44	5	1	48	1.35
1496948--1497004	15	3.5	15	69	17	51	50	1	0	47	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1496950--1496986	19	1.9	19	88	0	56	48	0	0	51	1.00
1497467--1497498	13	2.5	13	100	0	64	40	15	0	43	1.47
1503994--1504106	53	2.1	54	91	6	183	38	9	9	42	1.71
1506157--1506202	18	2.6	18	89	0	65	69	2	2	26	1.11
1506164--1506225	31	2.1	29	82	11	72	70	1	4	22	1.14
1506239--1506345	18	5.9	18	70	11	67	69	3	3	23	1.21
1506237--1506364	37	3.5	35	74	14	98	66	3	3	25	1.26
1507259--1507314	29	1.9	29	85	0	76	46	3	5	44	1.43
1530822--1530904	22	3.8	22	78	13	84	8	7	15	68	1.37
1530837--1530904	22	3.2	22	82	16	97	10	5	13	70	1.32
1530889--1531002	12	9.9	12	71	12	69	8	4	18	68	1.33
1530837--1530910	20	3.6	19	76	10	67	10	5	14	68	1.35
1530880--1531015	56	2.4	56	80	6	152	9	4	18	67	1.35
1530874--1531016	44	3.2	43	78	8	128	9	4	18	67	1.35
1537227--1537282	29	2.0	28	85	3	76	41	0	7	51	1.29
1549407--1549435	6	4.8	6	100	0	58	0	17	48	34	1.47
1555598--1555651	28	1.9	28	82	14	67	55	9	11	24	1.64
1555606--1555762	60	2.6	60	81	4	181	51	10	10	26	1.70
1556310--1556374	30	2.2	30	83	8	80	41	7	9	41	1.65
1556827--1556856	12	2.5	12	100	0	60	70	0	0	30	0.88
1559884--1559940	23	2.5	23	80	11	64	47	0	3	49	1.18
1560286--1560341	19	3.0	20	76	10	64	46	1	0	51	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560614--1560647	16	2.0	16	88	11	50	61	0	0	38	0.96
1561274--1561324	24	2.0	26	82	14	63	47	3	3	45	1.40
1571904--1572021	58	2.1	57	80	4	130	38	10	9	42	1.71
1580310--1580351	22	1.9	22	85	0	57	59	0	4	35	1.19
1581213--1581257	21	2.2	21	88	4	65	42	6	0	51	1.28
1584718--1584775	28	2.1	28	100	0	116	36	10	25	27	1.89
1588351--1588604	129	2.0	129	93	0	436	40	16	12	29	1.86
1589088--1589122	18	1.9	18	94	0	61	31	34	8	25	1.86
1589939--1589980	18	2.3	18	88	8	59	50	2	0	47	1.14
1595741--1595823	41	2.0	41	92	0	139	37	8	9	44	1.68
1595904--1595953	25	2.0	25	100	0	100	40	4	20	36	1.71
1607324--1607369	3	15.3	3	100	0	92	32	0	0	67	0.91
1615243--1615290	9	5.3	9	87	0	69	47	10	8	33	1.68
1619513--1619592	20	4.1	20	83	3	108	31	8	11	48	1.69
1619513--1619592	39	2.0	40	87	2	117	31	8	11	48	1.69
1620359--1620391	6	5.5	6	100	0	66	0	36	30	33	1.58
1627528--1627582	21	2.6	21	85	5	67	61	1	1	34	1.17
1633171--1633238	32	2.2	32	86	7	95	29	4	20	45	1.70
1638218--1638271	21	2.6	21	84	0	63	16	14	25	42	1.87
1637979--1638387	204	2.0	203	97	0	764	23	18	18	39	1.92
1638316--1638406	45	2.0	45	93	0	155	31	14	19	34	1.92
1638438--1638494	21	2.7	21	80	0	60	42	24	19	14	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1640407--1640485	40	2.0	40	87	0	113	20	21	10	48	1.79
1659887--1659918	16	2.0	16	93	0	55	15	18	34	31	1.93
1660081--1660113	16	2.1	16	100	0	66	30	18	0	51	1.46
1665808--1665863	19	3.1	19	80	12	64	55	3	0	41	1.17
1665822--1665863	8	4.9	8	83	16	57	50	2	0	47	1.14
1665940--1665991	25	2.1	25	92	0	86	32	7	7	51	1.59
1670874--1670941	3	23.0	3	96	3	129	66	0	0	33	0.92
1676814--1676901	44	2.1	41	82	12	108	25	20	10	44	1.83
1679713--1679753	16	2.6	16	88	0	64	24	4	12	58	1.53
1681518--1681619	6	17.0	6	75	9	66	43	1	3	50	1.31
1681515--1681559	13	3.4	13	90	3	72	46	2	0	51	1.13
1681525--1681603	17	4.5	17	82	4	86	39	1	3	55	1.26
1682885--1682962	40	1.9	41	94	2	140	35	1	24	38	1.64
1683295--1683548	59	4.4	58	77	11	200	35	27	3	33	1.74
1683283--1683578	88	3.4	86	81	9	255	36	27	3	33	1.73
1683283--1683610	29	11.2	30	76	10	220	35	25	3	34	1.74
1683339--1683578	59	4.1	58	77	11	188	37	27	2	32	1.70
1683370--1683610	88	2.7	88	83	6	240	37	26	2	33	1.71
1686347--1686401	22	2.5	22	85	8	69	76	0	1	21	0.88
1688792--1688819	6	4.7	6	100	0	56	50	0	32	17	1.47
1688792--1688836	18	2.5	17	85	7	54	48	0	28	22	1.50
1688938--1689038	38	2.6	40	71	10	100	21	19	28	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1694271--1694298	6	4.7	6	100	0	56	50	0	32	17	1.47
1694271--1694315	18	2.5	17	85	7	54	48	0	28	22	1.50
1698101--1698149	9	5.6	9	90	7	66	48	4	0	46	1.20
1698087--1698171	18	4.7	18	76	14	68	55	2	0	42	1.12
1698398--1698447	25	1.9	25	88	8	73	46	12	0	42	1.41
1704474--1704554	40	2.0	40	95	0	144	40	20	13	24	1.89
1706944--1707005	14	4.1	14	71	20	54	62	1	1	33	1.14
1707097--1707134	19	2.0	20	89	5	60	13	5	10	71	1.30
1721687--1721725	3	13.0	3	100	0	78	33	0	0	66	0.92
1723121--1723150	8	3.8	8	100	0	60	90	0	0	10	0.47
1734574--1734687	21	5.2	21	70	13	77	69	13	3	14	1.32
1734543--1734666	56	2.2	53	78	16	126	67	14	5	12	1.39
1734565--1734687	45	2.7	45	80	10	144	68	13	4	14	1.35
1734662--1734714	25	2.1	25	83	13	65	75	11	1	11	1.13
1748692--1748826	31	4.5	31	68	15	86	45	7	15	31	1.74
1756242--1756292	21	2.5	21	87	9	70	74	0	3	21	0.98
1764655--1764697	18	2.4	18	88	7	61	46	0	0	53	1.00
1765195--1765231	17	2.2	17	90	0	56	37	0	0	62	0.96
1765195--1765231	8	4.3	9	83	10	51	37	0	0	62	0.96
1765175--1765269	24	3.8	23	78	13	100	40	2	0	57	1.10
1767608--1767656	14	2.9	18	74	22	61	48	4	0	46	1.20
1768179--1768235	9	6.4	9	80	8	55	29	1	0	68	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1776305--1776355	15	3.5	15	76	15	61	54	5	7	31	1.53
1778811--1778840	2	15.0	2	92	0	51	50	3	0	46	1.18
1783110--1783182	29	2.4	30	80	10	87	34	6	12	46	1.68
1783313--1783402	31	2.9	29	74	8	81	42	11	11	35	1.76
1783358--1783436	31	2.6	30	82	8	79	40	15	10	34	1.81
1783509--1783546	18	2.1	19	85	5	51	31	5	7	55	1.51
1784935--1785009	28	2.8	26	84	9	105	37	21	29	12	1.89
1784944--1785009	28	2.4	28	92	2	116	34	22	30	12	1.91
1784991--1785071	23	3.6	22	89	3	117	35	28	23	12	1.91
1784987--1785109	23	5.4	22	80	9	108	40	24	23	11	1.87

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