genome.fa.s2.2.7.7.80.10.50.1000.36.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  36  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)
9250924--9250981	22	2.8	21	76	19	68	15	3	0	81	0.83
9250924--9250979	4	13.8	4	80	17	53	16	3	0	80	0.85
9251670--9251861	103	1.9	103	87	4	289	35	13	25	26	1.92
9252433--9252477	19	2.4	19	81	7	56	37	0	4	57	1.19
9252451--9252504	24	2.2	25	80	12	67	27	0	3	68	1.06
9253836--9253875	21	1.9	21	90	10	64	30	2	7	60	1.38
9260490--9260685	85	2.3	87	79	3	209	40	17	8	34	1.79
9260718--9260770	19	2.8	18	74	8	52	66	0	1	32	1.03
9260719--9260770	20	2.7	19	75	16	54	65	0	1	32	1.04
9260737--9260799	28	2.2	28	89	8	101	60	0	0	39	0.97
9260756--9260817	18	3.4	18	74	14	65	61	0	0	38	0.96
9260737--9260812	28	2.7	29	86	8	86	60	0	0	39	0.97
9260737--9260818	10	8.8	10	72	20	54	60	0	0	39	0.96
9261146--9261193	8	5.8	8	80	9	60	27	2	0	70	0.98
9261141--9261260	18	6.7	17	72	19	75	33	2	0	63	1.14
9261148--9261215	17	3.8	17	84	9	75	26	2	0	70	1.01
9261147--9261221	9	8.2	9	74	11	64	26	2	0	70	1.00
9261145--9261284	17	8.0	17	69	17	67	30	2	1	65	1.13
9261304--9261354	22	2.3	22	76	6	59	33	0	15	50	1.44
9266921--9267105	89	2.1	89	91	3	300	39	11	21	28	1.87
9272567--9272616	21	2.4	21	80	6	57	40	30	10	20	1.85
9273328--9273558	52	4.4	52	92	2	383	36	25	13	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9278899--9278987	1	89.0	1	72	0	70	86	0	13	0	0.57
9278872--9278987	26	4.6	24	77	16	101	82	1	15	0	0.74
9278900--9278987	38	2.4	35	85	11	113	86	0	13	0	0.57
9279929--9280100	50	3.5	50	72	12	140	31	11	34	23	1.89
9279940--9280167	98	2.3	98	83	3	298	30	14	33	21	1.93
9280452--9280581	41	3.2	41	91	1	190	31	18	20	30	1.96
9280881--9281047	87	2.0	84	84	5	219	35	16	24	23	1.94
9280716--9281369	210	3.1	206	82	4	794	36	16	22	24	1.94
9281172--9281495	123	2.6	125	85	2	429	37	16	22	24	1.93
9288733--9288893	24	6.7	24	82	2	171	26	26	14	32	1.95
9288731--9288892	72	2.2	72	83	4	218	26	26	14	32	1.95
9292027--9292064	16	2.2	18	90	9	62	39	0	0	60	0.97
9298164--9298201	18	2.1	18	85	9	51	21	23	0	55	1.44
9299645--9299684	21	1.9	21	94	0	71	7	22	5	65	1.38
9313890--9313918	2	14.5	2	100	0	58	0	48	0	51	1.00
9321515--9321552	19	2.0	18	90	10	58	76	2	0	21	0.91
9322597--9322651	13	4.2	13	75	11	58	43	23	18	14	1.87
9322599--9322651	20	2.7	20	82	11	81	41	24	18	15	1.89
9328639--9328849	29	7.2	28	67	15	106	40	5	23	30	1.77
9328639--9328940	59	5.2	58	82	4	324	37	4	25	32	1.76
9328641--9328863	30	7.6	29	69	14	118	39	5	23	30	1.77
9328846--9328925	29	2.8	29	69	16	76	32	0	28	38	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9328695--9328920	30	7.7	31	64	16	90	37	3	26	33	1.74
9328621--9328940	117	2.7	116	81	6	360	36	4	25	32	1.77
9329759--9330069	49	6.3	49	86	2	383	14	27	20	37	1.91
9329750--9330069	99	3.3	96	83	4	356	15	27	20	37	1.92
9329750--9330160	197	2.1	198	81	5	467	15	27	20	36	1.93
9336763--9336856	29	3.2	28	68	19	75	39	6	27	26	1.80
9336712--9337081	59	6.4	58	81	4	336	35	3	28	32	1.75
9336861--9337115	29	8.8	29	69	14	132	32	2	28	35	1.72
9337041--9337119	30	2.7	29	79	16	90	32	3	26	36	1.75
9337851--9337884	17	1.9	18	88	5	52	23	8	5	61	1.47
9338116--9338186	28	2.6	27	74	17	74	40	4	0	54	1.20
9338860--9338963	17	6.1	16	73	11	73	51	5	3	38	1.44
9346147--9346195	24	2.0	24	81	14	57	42	0	44	12	1.41
9346238--9346270	16	1.9	18	88	11	52	15	9	18	57	1.63
9349314--9349345	16	1.9	17	93	6	57	59	15	12	12	1.61
9359654--9359686	17	1.9	17	88	11	50	15	6	0	78	0.93
9375696--9375753	22	2.6	22	88	0	89	36	22	15	25	1.94
9378433--9378469	18	2.1	18	94	0	65	24	16	27	32	1.96
9378302--9379119	419	2.0	419	89	0	1244	28	15	21	34	1.94
9384163--9384215	24	2.2	24	96	0	97	15	20	18	45	1.85
9394221--9394260	19	2.1	19	85	4	53	7	15	12	65	1.47
9395660--9395705	24	2.0	24	82	4	58	23	6	10	58	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9398195--9398221	6	4.5	6	100	0	54	14	66	0	18	1.25
9398941--9399028	41	2.1	41	91	0	140	37	27	6	28	1.82
9399018--9399056	17	2.3	17	90	0	60	46	25	12	15	1.81
9401754--9401801	17	2.9	17	78	6	55	20	10	25	43	1.83
9401792--9401885	41	2.3	41	96	0	179	27	4	28	39	1.75
9404234--9404285	20	2.5	20	84	9	68	36	3	1	57	1.28
9404269--9404297	13	2.1	14	93	6	51	37	6	3	51	1.46
9406265--9406296	14	2.3	14	100	0	64	18	12	34	34	1.89
9409912--9410162	30	8.4	29	76	9	170	37	3	24	33	1.74
9409927--9410162	29	7.9	30	79	4	219	38	3	25	33	1.74
9409928--9410162	89	2.6	89	81	5	244	38	3	25	32	1.74
9409931--9410152	60	3.8	59	81	7	211	37	4	25	33	1.75
9409999--9410171	30	5.8	30	82	5	190	40	4	22	32	1.74
9411901--9412065	85	2.0	85	89	6	246	24	22	15	38	1.92
9411780--9412386	207	2.9	208	88	2	875	22	21	16	39	1.92
9412108--9412267	85	1.9	85	85	2	223	25	23	13	38	1.90
9412207--9412566	171	2.1	170	86	0	504	23	19	16	40	1.91
9412001--9412698	378	1.8	378	85	0	966	23	20	16	39	1.92
9412748--9413024	39	7.1	39	90	0	358	25	18	30	25	1.98
9413019--9413290	99	2.7	99	80	2	278	18	29	15	36	1.92
9413118--9413536	50	8.5	50	78	5	359	18	31	15	35	1.92
9413146--9413544	99	4.1	97	78	3	359	18	30	16	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9414454--9414483	13	2.3	13	94	0	51	0	16	0	83	0.65
9419953--9420149	29	6.8	29	81	8	222	37	3	22	36	1.72
9420818--9420850	2	16.5	2	100	0	66	48	0	0	51	1.00
9423506--9423834	30	11.0	30	83	5	407	35	3	23	37	1.71
9425602--9425663	28	2.2	28	97	0	115	14	14	22	48	1.80
9425706--9425770	17	4.0	17	78	11	73	53	0	4	41	1.21
9425719--9425789	11	6.5	11	72	15	58	56	0	4	39	1.19
9425690--9425787	31	3.3	29	81	6	99	53	0	4	42	1.20
9427969--9428011	23	1.9	22	90	4	68	13	30	0	55	1.39
9429780--9429840	2	32.0	2	90	9	101	50	0	49	0	1.00
9433674--9433719	15	3.1	15	84	6	58	67	0	0	32	0.91
9433862--9433956	31	3.4	28	73	17	90	41	2	3	53	1.28
9434131--9434177	19	2.5	19	79	3	60	44	8	4	42	1.54
9437612--9437658	21	2.2	22	88	3	69	21	8	0	70	1.14
9439339--9439428	23	3.9	23	73	2	83	36	11	17	34	1.86
9439334--9439435	46	2.2	46	85	0	141	35	12	17	34	1.88
9439474--9439514	15	2.7	15	84	0	55	26	19	24	29	1.98
9444394--9444490	45	2.2	45	92	0	158	34	5	15	45	1.68
9445795--9445858	27	2.4	26	86	2	83	42	1	3	53	1.26
9445968--9446048	35	2.4	34	79	10	85	46	7	18	27	1.75
9448683--9449130	45	10.2	45	78	5	450	34	5	15	44	1.70
9448630--9448888	83	3.0	83	70	15	247	33	5	15	44	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9448630--9449130	173	2.9	173	87	6	658	34	5	15	44	1.71
9450399--9450473	24	3.1	24	92	0	123	57	8	9	25	1.57
9452412--9452459	25	1.9	25	91	0	78	60	6	6	27	1.45
9452527--9452561	3	11.7	3	100	0	70	34	0	0	65	0.93
9454630--9454683	21	2.6	20	71	8	54	57	0	1	40	1.09
9456779--9456826	12	3.8	12	81	8	51	72	4	4	18	1.17
9458024--9458117	38	2.5	38	98	1	181	12	5	37	44	1.65
9458689--9458859	85	2.0	85	85	6	231	23	22	15	38	1.93
9458473--9459375	209	4.3	208	88	2	1265	22	22	16	38	1.93
9459516--9459977	50	9.3	50	75	4	328	18	29	17	34	1.94

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