genome.fa.s10.2.7.7.80.10.50.1000.25.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: CP032254.1 Gossypioides kirkii chromosome KI_12
Parameters: 2 7 7 80 10 50 1000
Length:  43711324

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  25  of  135  ( 16099 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)
10299598--10299654	25	2.3	26	85	11	75	61	3	1	33	1.23
10320778--10320838	30	2.0	29	84	12	79	39	0	1	59	1.08
10321435--10321525	39	2.3	38	83	3	110	38	15	6	39	1.73
10322738--10322840	52	2.0	52	92	3	172	28	20	15	35	1.93
10322790--10323157	58	6.1	59	78	9	372	28	21	16	32	1.95
10322790--10323157	116	3.1	117	85	5	477	28	21	16	32	1.95
10326884--10326910	12	2.2	12	100	0	54	59	0	0	40	0.98
10327684--10327790	25	4.4	25	78	9	116	45	20	20	13	1.84
10327697--10327769	23	3.1	23	69	21	69	46	20	17	15	1.84
10327664--10327790	48	2.7	46	89	7	191	46	20	20	12	1.83
10327663--10327789	25	5.5	22	68	16	78	47	19	20	12	1.82
10329603--10329960	83	4.3	83	94	0	626	37	5	4	52	1.46
10330146--10330191	20	2.3	20	92	0	83	10	34	23	30	1.89
10331037--10331072	18	1.9	19	88	5	56	25	2	2	69	1.15
10332396--10332487	30	3.1	30	81	6	105	28	6	4	60	1.40
10333314--10333639	59	5.6	60	81	9	354	33	18	20	27	1.96
10333314--10333632	120	2.7	118	84	7	364	32	17	21	27	1.96
10333438--10333651	54	3.8	54	78	14	166	33	17	19	29	1.95
10333622--10333739	43	2.8	42	84	6	157	33	16	13	35	1.88
10348411--10348702	162	1.8	161	87	2	442	19	17	18	43	1.88
10353462--10353533	19	3.7	19	81	3	90	30	2	15	51	1.57
10353459--10353534	39	1.9	39	94	0	134	28	3	14	52	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10360993--10361031	19	2.1	19	90	4	62	38	5	0	56	1.22
10362562--10362644	41	2.0	41	95	0	148	36	14	14	34	1.87
10362839--10363013	65	2.7	65	82	1	183	28	18	30	23	1.97
10363418--10363704	10	30.4	9	66	18	63	56	6	2	34	1.36
10363429--10363491	10	6.3	10	81	5	74	63	6	1	28	1.28
10363433--10363492	19	3.1	19	82	4	75	61	5	1	31	1.27
10363670--10363712	21	2.1	20	95	4	77	62	9	0	27	1.25
10366387--10366414	8	3.5	8	100	0	56	75	0	0	25	0.81
10366616--10366677	29	2.1	29	82	5	72	30	0	8	61	1.25
10366628--10366695	29	2.3	29	85	7	84	30	0	11	57	1.35
10366895--10367006	59	1.9	59	82	12	142	36	7	11	44	1.68
10368346--10368373	9	3.1	9	100	0	56	10	35	42	10	1.74
10372105--10372156	18	3.0	18	81	10	56	51	0	1	46	1.12
10373502--10373635	46	2.9	46	87	1	187	39	17	8	33	1.81
10379546--10379626	28	2.9	28	76	12	85	41	3	2	51	1.32
10379555--10379625	6	12.7	6	74	16	55	40	4	1	53	1.29
10379575--10379640	17	3.9	17	79	16	59	42	3	1	53	1.25
10379552--10379626	11	6.8	11	77	10	73	42	4	1	52	1.28
10379553--10379626	5	13.6	5	78	10	58	41	4	1	52	1.28
10380361--10380409	16	3.1	16	77	8	55	63	4	0	32	1.13
10381613--10381815	30	6.8	30	89	0	298	37	23	3	35	1.72
10381823--10381922	30	3.4	29	65	14	78	33	29	3	35	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10381832--10381922	29	3.1	29	68	13	87	31	28	3	36	1.74
10381823--10381965	58	2.4	59	83	5	175	29	32	5	32	1.81
10393021--10393443	31	12.4	31	64	22	120	34	16	20	28	1.94
10393052--10393975	106	8.9	105	68	21	386	34	16	19	29	1.94
10392972--10393975	68	14.5	68	81	11	903	34	16	19	29	1.94
10393121--10393668	174	3.1	174	92	4	852	34	15	19	30	1.93
10393651--10393966	31	9.5	31	66	18	116	35	17	19	27	1.94
10394258--10394338	28	2.9	28	76	12	85	41	3	2	51	1.32
10394267--10394337	6	12.7	6	74	16	55	40	4	1	53	1.29
10394287--10394352	17	3.9	17	79	16	59	42	3	1	53	1.25
10394264--10394338	11	6.8	11	77	10	73	42	4	1	52	1.28
10394265--10394338	5	13.6	5	78	10	58	41	4	1	52	1.28
10395056--10395104	16	3.1	16	77	8	55	63	4	0	32	1.13
10396299--10396505	30	6.9	30	90	2	299	38	23	2	35	1.68
10398292--10398346	13	4.2	13	80	2	65	49	5	12	32	1.64
10399768--10399805	19	2.1	18	90	5	58	55	2	0	42	1.14
10400724--10400748	3	8.3	3	100	0	50	68	0	32	0	0.90
10402613--10402671	31	1.9	31	86	6	84	62	0	0	37	0.95
10403806--10403843	19	2.0	19	85	10	51	47	31	5	15	1.68
10405585--10405933	58	6.0	57	86	5	391	34	2	29	34	1.69
10405620--10405933	116	2.7	115	86	6	443	33	0	30	34	1.65
10405620--10405989	30	12.7	29	69	20	204	33	1	28	35	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10407228--10407295	6	12.0	6	77	17	74	51	1	1	45	1.19
10407229--10407277	17	3.0	16	87	3	55	51	0	2	46	1.12
10407228--10407295	23	3.0	23	86	2	93	51	1	1	45	1.19
10407246--10407296	17	3.0	17	91	0	75	54	1	1	41	1.22
10409308--10409335	14	2.0	14	100	0	56	14	14	0	71	1.15
10415479--10415517	21	1.9	21	84	5	53	35	2	5	56	1.35
10417752--10417824	35	2.1	35	94	0	128	27	28	15	28	1.96
10427110--10427141	4	8.0	4	100	0	64	75	0	0	25	0.81
10431340--10431380	17	2.3	19	87	8	59	36	0	2	60	1.10
10431991--10432087	33	2.9	31	80	10	95	32	3	2	61	1.23
10432944--10432993	17	2.9	17	77	11	66	28	8	2	62	1.35
10433020--10433092	28	2.5	29	82	13	87	36	6	2	53	1.42
10433324--10433379	24	2.3	25	87	9	80	35	3	1	58	1.26
10437375--10437404	14	2.1	14	100	0	60	53	0	6	40	1.27
10439800--10439824	2	12.5	2	100	0	50	52	0	48	0	1.00
10440115--10440139	4	6.2	4	100	0	50	28	0	48	24	1.52
10442114--10442189	39	1.9	39	83	0	98	42	5	5	47	1.48
10443977--10444014	15	2.4	16	86	8	51	50	2	39	7	1.46
10445884--10445947	24	2.7	24	69	11	60	34	29	10	25	1.90
10448848--10448921	38	1.9	38	94	0	130	27	1	27	44	1.62
10448851--10448916	19	3.5	19	67	24	50	25	1	28	43	1.63
10460936--10461072	58	2.3	59	81	6	152	38	4	25	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10461002--10461072	29	2.4	29	81	4	81	42	4	19	33	1.71
10461031--10461162	30	4.4	29	79	8	131	40	1	17	40	1.59
10461055--10461214	30	5.3	29	73	13	137	38	3	20	38	1.70
10461054--10461226	60	2.9	59	84	5	213	37	4	19	38	1.71
10462415--10462471	19	3.1	18	75	12	53	36	3	5	54	1.40
10462464--10462495	16	2.0	16	93	0	55	34	6	0	59	1.23
10465050--10465100	16	3.2	15	76	18	50	56	1	5	35	1.35
10468024--10468095	31	2.2	33	82	4	94	27	5	5	61	1.41
10471823--10471912	34	2.6	32	74	10	81	46	1	3	48	1.25
10471823--10471898	17	4.5	17	76	15	68	43	1	3	51	1.28
10471885--10471922	19	2.1	18	90	5	58	55	0	0	44	0.99
10477470--10477510	21	2.0	21	85	4	57	48	19	12	19	1.80
10478140--10478209	23	3.0	23	82	2	95	41	17	12	28	1.86
10478299--10478343	12	3.8	12	88	5	65	57	17	11	13	1.64
10490415--10490638	29	7.7	29	67	21	112	37	2	29	31	1.70
10490406--10490637	59	3.9	59	86	3	308	35	3	30	31	1.73
10490630--10490721	29	3.1	30	75	13	82	34	4	20	40	1.73
10490643--10490742	31	3.3	30	80	6	121	38	5	21	36	1.75
10490643--10490742	30	3.3	29	83	6	119	38	5	21	36	1.75
10492367--10492403	14	2.6	15	83	12	51	29	5	13	51	1.63
10492412--10492509	17	5.7	17	81	1	106	56	5	1	37	1.28
10492418--10492481	6	11.0	6	74	12	53	54	4	1	39	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10492432--10492481	23	2.2	23	89	7	75	56	6	0	38	1.24
10493138--10493180	13	3.2	13	81	15	52	44	9	4	41	1.57
10493700--10493759	23	2.7	23	78	2	68	50	0	1	48	1.11
10499999--10500073	29	2.5	31	82	6	82	40	2	4	53	1.34
10500025--10500073	14	3.5	13	81	13	53	40	0	6	53	1.26
10512889--10512936	14	3.7	13	84	13	55	12	14	0	72	1.11
10515501--10515529	14	2.1	14	100	0	58	34	6	17	41	1.76
10515771--10515853	6	14.0	6	74	20	68	43	3	1	51	1.26
10515780--10515845	25	2.8	23	78	13	71	42	4	1	51	1.31
10516565--10516599	16	2.2	16	90	5	54	45	2	0	51	1.16

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