genome.fa.s4.2.7.7.80.10.50.1000.146.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  146  of  193  ( 23090 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)
45546738--45546778	18	2.3	18	87	8	57	21	9	17	51	1.74
45553356--45553394	6	6.5	6	87	0	51	46	0	30	23	1.53
45561002--45561040	16	2.4	16	86	0	60	28	2	10	58	1.44
45569372--45569422	24	2.1	24	88	0	75	33	7	7	50	1.60
45570443--45570520	32	2.4	33	76	4	86	28	6	3	61	1.38
45589035--45589105	35	2.0	35	94	0	124	39	14	19	26	1.90
45591228--45591397	86	2.0	86	95	0	304	40	8	14	35	1.77
45593822--45593858	2	18.5	2	100	0	74	48	0	0	51	1.00
45595244--45595272	15	2.0	15	93	6	51	20	0	10	68	1.18
45597072--45597138	17	3.9	17	84	5	82	44	1	2	50	1.26
45597088--45597142	12	4.8	12	78	14	53	45	0	3	50	1.19
45597846--45597888	21	2.0	21	82	8	52	48	6	2	41	1.43
45598127--45598160	16	2.1	16	94	0	59	14	17	20	47	1.83
45598704--45599042	162	2.1	162	93	0	570	25	17	13	43	1.85
45599111--45599190	29	2.8	28	75	9	81	36	22	7	33	1.82
45599145--45599417	29	9.4	28	70	15	146	31	28	4	35	1.78
45599173--45599417	58	4.2	58	89	4	354	31	28	4	35	1.77
45599319--45599419	28	3.6	27	77	11	87	30	26	5	36	1.80
45604026--45604071	17	2.7	18	80	10	60	82	6	10	0	0.83
45604028--45604077	22	2.2	21	89	10	73	82	8	10	0	0.86
45606165--45606250	28	3.0	27	83	11	93	33	1	31	33	1.66
45606167--45606265	29	3.4	28	80	12	94	35	2	28	34	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45606367--45606709	163	2.1	163	87	2	483	42	13	18	26	1.87
45606959--45606988	9	3.3	9	95	0	51	6	46	0	46	1.29
45608235--45608310	11	6.8	11	76	8	73	55	1	2	40	1.22
45608219--45608310	17	5.5	16	76	15	71	54	1	2	42	1.19
45610665--45610709	6	7.5	6	85	9	65	46	0	31	22	1.52
45620751--45621172	58	7.2	58	83	8	468	35	4	27	32	1.76
45620744--45621172	232	1.8	233	88	4	661	34	4	28	32	1.77
45620856--45621215	29	12.4	27	69	19	132	34	3	29	32	1.76
45620744--45621228	232	2.1	233	85	6	646	34	4	28	32	1.78
45620751--45621228	58	8.2	57	82	7	455	34	4	28	32	1.76
45621014--45621228	28	7.4	28	70	18	111	33	3	29	33	1.75
45621361--45621678	163	1.9	164	90	0	503	42	12	18	25	1.86
45623221--45623310	6	15.8	6	69	21	52	54	1	2	42	1.20
45623222--45623313	17	5.5	16	79	15	80	53	1	2	43	1.20
45623238--45623313	11	6.8	11	76	8	73	53	1	2	42	1.23
45623224--45623290	34	2.0	34	85	5	91	55	1	1	41	1.18
45625035--45625222	25	7.5	25	84	2	225	22	14	26	36	1.93
45628680--45628736	17	3.5	17	69	13	57	17	33	3	45	1.65
45633578--45633867	43	6.8	42	88	5	397	20	30	22	27	1.98
45633578--45633867	85	3.4	84	91	2	447	20	30	22	27	1.98
45633578--45633867	128	2.3	129	88	4	426	20	30	22	27	1.98
45634150--45634202	21	2.5	21	90	0	79	0	45	18	35	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45634197--45634345	66	2.3	66	92	0	253	16	24	16	42	1.88
45639867--45639960	8	11.8	8	72	21	65	52	3	1	43	1.24
45639867--45639946	30	2.6	29	83	13	99	52	3	1	42	1.27
45639865--45639911	22	2.2	20	85	7	67	55	0	0	44	0.99
45639876--45640170	48	6.4	44	71	16	168	48	4	1	45	1.32
45640011--45640137	18	7.7	17	69	18	90	46	4	0	48	1.23
45640011--45640160	49	3.1	48	92	4	239	47	4	0	48	1.23
45640210--45640256	18	2.6	18	79	0	67	48	0	2	48	1.13
45640211--45640269	26	2.2	27	80	11	68	45	1	1	50	1.21
45640507--45640536	14	2.1	14	100	0	60	36	23	0	40	1.55
45641297--45641334	12	3.2	12	100	0	76	60	0	23	15	1.35
45642403--45642666	41	6.4	41	80	4	289	24	24	26	24	2.00
45642403--45642745	82	4.2	82	80	7	333	23	24	25	26	2.00
45642977--45643035	17	3.5	17	70	25	52	20	35	3	40	1.69
45642978--45643052	34	2.2	34	92	0	123	20	36	2	41	1.66
45642995--45643053	17	3.5	16	70	25	50	18	37	1	42	1.61
45643467--45643500	17	1.9	18	88	5	52	44	2	0	52	1.16
45651877--45651971	42	2.3	42	83	1	111	21	20	38	20	1.93
45652009--45652192	78	2.4	77	81	5	210	36	20	19	23	1.95
45656867--45656900	15	2.3	15	89	0	50	11	8	29	50	1.69
45663362--45663386	2	12.5	2	100	0	50	48	0	0	52	1.00
45664051--45664078	13	2.2	13	100	0	56	50	21	14	14	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45664075--45664169	22	4.3	22	73	0	91	27	26	27	18	1.98
45664073--45664171	33	3.0	33	77	0	108	27	25	27	20	1.99
45664234--45664295	23	2.7	23	94	2	106	29	3	24	43	1.70
45676219--45676439	110	2.0	110	100	0	442	33	22	15	28	1.95
45677989--45678030	19	2.2	20	83	12	52	23	4	4	66	1.30
45678566--45678596	2	15.5	2	100	0	62	51	0	0	48	1.00
45678942--45678975	16	2.1	16	94	0	59	32	5	14	47	1.69
45679165--45679210	23	2.0	23	83	8	58	28	10	2	58	1.43
45693868--45693896	14	2.1	14	100	0	58	34	20	6	37	1.80
45696074--45696134	30	2.0	30	100	0	122	60	9	9	19	1.56
45696291--45696393	50	2.0	51	84	1	136	24	28	13	33	1.93
45699442--45699500	28	2.1	27	84	12	75	44	0	0	55	0.99
45699463--45699505	20	2.1	21	95	4	79	51	0	0	48	1.00
45706666--45706726	29	2.1	29	87	9	88	29	1	27	40	1.66
45707673--45707730	30	1.9	30	86	13	84	44	3	1	50	1.29
45707705--45707790	21	4.2	21	77	4	86	44	6	2	46	1.43
45707703--45707770	20	3.6	18	75	16	57	44	7	1	47	1.40
45707684--45707771	41	2.2	39	84	8	106	43	6	2	47	1.42
45707698--45707811	41	2.8	41	76	9	99	43	6	1	48	1.38
45708101--45708161	26	2.3	26	77	0	68	26	6	27	39	1.81
45708599--45708630	16	1.9	16	93	6	55	59	0	0	40	0.97
45708598--45708639	17	2.5	16	84	7	57	54	7	0	38	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45723260--45723321	30	2.1	30	90	0	97	27	3	11	58	1.48
45733031--45733067	13	2.9	13	88	11	51	78	0	0	21	0.75
45735806--45735852	22	2.2	22	92	3	78	74	4	6	14	1.17
45750599--45750642	16	2.8	16	96	0	79	18	29	15	36	1.92
45752454--45752512	16	3.7	16	79	6	66	45	1	1	50	1.21
45753863--45753895	16	2.0	17	88	5	50	51	12	3	33	1.54
45755685--45755723	17	2.3	17	90	0	60	46	25	12	15	1.81
45762402--45762466	22	2.9	23	68	11	62	43	1	0	55	1.09
45767289--45767361	37	1.9	38	91	2	121	34	2	8	54	1.44
45769880--45769916	19	1.9	19	94	0	65	37	16	0	45	1.47
45770939--45770966	6	4.7	6	100	0	56	17	50	32	0	1.47
45783131--45783187	29	1.9	30	85	3	80	33	15	10	40	1.82
45784030--45784069	20	2.0	21	95	5	73	47	0	0	52	1.00
45786004--45786029	4	6.5	4	100	0	52	50	23	0	26	1.50
45787406--45787435	8	3.8	8	95	0	51	40	0	0	60	0.97
45787618--45787674	29	2.0	29	89	0	87	47	17	14	21	1.82
45787619--45787686	29	2.3	29	82	0	82	45	19	13	22	1.84
45787668--45787824	59	2.7	57	83	4	163	52	11	12	24	1.71
45787732--45787836	31	3.6	30	71	17	85	53	8	10	27	1.64
45787647--45787836	57	3.2	58	78	3	184	50	12	12	25	1.75
45798792--45798872	29	2.9	27	82	14	94	44	24	2	28	1.67
45799456--45799509	21	2.6	22	88	8	78	48	3	5	42	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45799652--45799678	7	3.9	7	100	0	54	85	0	0	14	0.61
45800292--45800328	6	6.2	6	96	0	65	0	18	51	29	1.47
45807551--45807608	4	13.5	4	76	20	55	24	5	0	70	1.07
45815872--45815910	6	6.5	6	87	0	51	23	30	0	46	1.53
45815974--45816016	21	2.0	22	86	8	63	46	23	0	30	1.52
45817918--45817984	24	2.6	26	76	11	75	53	4	1	40	1.30
45820314--45820363	2	25.0	2	100	0	100	50	0	0	50	1.00
45821812--45821871	23	2.6	23	71	10	59	36	8	15	40	1.77
45824270--45824324	24	2.3	24	84	6	76	27	12	9	50	1.70
45826233--45826295	24	2.6	24	87	0	81	26	15	9	47	1.76

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193