genome.fa.s2.2.7.7.80.10.50.1000.39.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  39  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)
9995839--9995892	27	2.0	27	100	0	108	18	25	18	37	1.94
9998680--9998727	22	2.2	22	88	0	69	25	25	31	18	1.98
10001051--10001462	49	8.3	50	72	9	166	16	32	17	33	1.92
10001079--10001452	99	3.8	97	74	9	283	16	32	17	33	1.92
10001325--10001709	99	3.9	98	80	4	405	15	32	17	34	1.91
10001094--10001709	148	4.1	147	79	6	537	15	32	17	34	1.91
10001283--10001664	197	1.9	198	90	0	604	14	32	18	34	1.91
10001094--10001746	49	13.2	50	71	10	225	15	32	18	34	1.92
10002406--10002517	40	2.7	40	81	5	116	16	25	16	41	1.90
10008869--10009108	29	8.2	30	71	14	171	30	2	27	39	1.71
10008884--10009177	29	10.0	29	73	13	167	33	2	26	38	1.68
10008811--10009021	88	2.4	88	79	8	207	31	5	27	36	1.79
10009000--10009228	60	3.8	60	81	5	205	34	1	24	39	1.66
10008967--10009170	90	2.3	89	80	8	220	34	1	25	38	1.67
10009006--10009229	30	7.5	30	77	6	152	34	1	24	40	1.64
10009000--10009190	90	2.1	90	79	6	199	35	1	25	38	1.66
10009026--10009229	90	2.3	89	79	5	205	33	1	24	40	1.64
10013829--10013914	40	2.2	39	84	14	106	58	6	0	34	1.25
10016375--10016399	1	25.0	1	100	0	50	0	100	0	0	0.00
10017892--10017933	11	3.7	11	84	6	57	52	2	0	45	1.13
10018129--10018264	68	2.0	68	98	0	263	30	13	13	41	1.83
10018272--10018313	21	2.0	20	86	13	59	33	28	2	35	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10022202--10022229	2	14.0	2	100	0	56	50	0	0	50	1.00
10027063--10027187	23	5.5	22	82	4	115	40	23	23	12	1.89
10041389--10041594	95	2.2	95	78	6	220	26	16	8	48	1.75
10048505--10048536	12	2.4	14	90	10	50	56	3	0	40	1.15
10051746--10051771	13	2.0	13	100	0	52	69	0	7	23	1.14
10056151--10056187	18	1.9	19	89	10	58	51	0	2	45	1.15
10056489--10056523	18	1.9	18	88	0	52	71	2	2	22	1.13
10058257--10058287	13	2.4	13	100	0	62	16	32	19	32	1.94
10061268--10061307	19	2.2	19	86	8	57	45	40	5	10	1.60
10061823--10061852	14	2.2	14	94	5	53	40	0	0	60	0.97
10062825--10063264	29	15.0	30	77	11	314	37	26	1	35	1.64
10062834--10063233	118	3.4	117	84	5	434	37	26	1	35	1.64
10063242--10063301	29	2.1	29	87	0	84	35	20	1	43	1.62
10065140--10065186	21	2.2	21	88	0	67	78	6	4	10	1.06
10066100--10066233	67	2.0	67	97	0	250	34	26	8	29	1.87
10073619--10073652	16	2.1	16	100	0	68	50	17	5	26	1.69
10074094--10074249	82	1.9	82	90	0	249	30	26	21	21	1.99
10074265--10074426	79	2.2	69	74	20	173	31	27	20	20	1.98
10074103--10074469	181	2.0	184	90	3	580	29	26	22	21	1.99
10084228--10084302	6	12.5	6	82	0	69	41	4	6	48	1.48
10084228--10084302	8	9.4	8	77	0	69	41	4	6	48	1.48
10084251--10084313	14	4.5	14	77	0	63	39	4	9	46	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10086908--10087263	183	1.9	183	87	0	514	23	12	25	38	1.90
10091229--10091336	37	3.1	36	75	19	106	41	0	3	53	1.25
10091229--10091304	12	6.8	11	72	19	52	40	1	2	55	1.22
10091230--10091336	20	5.8	18	70	20	69	42	0	3	53	1.25
10098090--10098208	31	3.9	31	80	6	111	36	22	2	38	1.68
10098088--10098231	30	4.8	29	77	7	101	34	22	5	37	1.77
10100672--10100723	21	2.5	20	78	12	52	34	25	13	26	1.93
10106579--10106618	21	1.9	21	84	0	53	30	15	10	45	1.78
10107187--10107315	50	2.6	50	78	2	143	36	18	22	22	1.95
10107335--10107457	40	3.1	39	74	13	126	31	25	17	25	1.97
10107346--10107477	39	3.4	39	77	6	149	30	29	15	24	1.96
10107478--10107517	21	2.0	21	85	9	57	50	12	20	17	1.78
10109176--10109359	30	6.1	29	78	7	163	36	19	5	38	1.76
10109410--10109511	27	3.7	26	71	22	82	24	0	9	64	1.30
10109408--10109522	30	3.8	32	74	20	106	25	0	9	64	1.29
10109395--10109520	58	2.2	58	92	1	209	23	1	10	64	1.34
10109395--10109520	28	4.5	28	72	15	100	23	1	10	64	1.34
10109424--10109518	28	3.3	28	76	16	113	24	1	8	66	1.26
10109430--10109529	30	3.4	30	74	21	111	25	2	10	63	1.37
10111025--10111065	16	2.5	17	84	11	59	65	0	0	34	0.93
10115100--10115133	2	17.0	2	100	0	68	50	0	0	50	1.00
10134660--10134701	22	1.9	22	90	0	66	33	2	16	47	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10137067--10137122	20	2.8	20	83	0	76	35	14	8	41	1.77
10138727--10138789	31	2.0	31	90	0	99	57	6	7	28	1.52
10139312--10139352	17	2.3	19	87	8	59	26	0	2	70	0.99
10139312--10139353	18	2.3	19	80	12	52	26	0	2	71	0.98
10140597--10140636	14	2.7	15	84	11	55	52	0	0	47	1.00
10146860--10146911	16	3.2	16	76	10	61	15	23	0	61	1.33
10151235--10151294	19	3.3	18	75	13	61	26	25	20	28	1.99
10152669--10152699	14	2.2	14	94	0	53	12	9	3	74	1.19
10156727--10156797	25	2.7	27	76	12	76	35	18	23	22	1.96
10158065--10158205	67	2.1	68	89	6	216	29	26	16	26	1.97
10159584--10159636	18	2.8	18	88	8	61	30	20	9	39	1.84
10159599--10159636	18	2.1	18	100	0	76	31	21	5	42	1.75
10159604--10159642	18	2.4	16	87	12	53	25	25	5	43	1.75
10166270--10166346	33	2.3	33	97	0	145	22	20	9	48	1.77
10176174--10176207	18	1.9	17	88	5	50	14	0	14	70	1.17
10179805--10179947	57	2.4	58	91	4	234	28	20	14	36	1.92
10180670--10180725	17	3.5	17	66	28	50	62	7	3	26	1.38
10180622--10180743	30	4.1	30	91	0	163	62	3	5	28	1.34
10181162--10181195	12	2.8	12	90	0	59	0	20	50	29	1.49
10181771--10181820	25	2.0	25	88	0	73	52	4	6	38	1.45
10181771--10181929	68	2.3	68	86	2	230	49	3	7	39	1.49
10183303--10183359	30	1.9	30	89	3	89	31	19	10	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10183341--10183412	35	2.1	34	84	5	90	30	12	13	43	1.82
10199912--10199940	14	2.1	14	100	0	58	24	27	6	41	1.80
10200721--10200854	58	2.4	56	83	5	153	32	20	15	30	1.94
10207542--10207728	102	1.8	102	89	2	295	44	6	9	38	1.64
10212080--10212147	27	2.5	28	85	7	95	26	20	11	41	1.87
10222237--10222274	6	6.3	6	93	0	67	13	52	18	15	1.74
10223154--10223205	11	5.1	10	86	9	54	82	0	15	1	0.75
10223155--10223204	5	9.8	5	76	20	50	82	0	16	2	0.77
10225741--10225793	25	2.1	25	85	0	70	39	16	13	30	1.87
10233502--10233533	12	2.7	12	95	0	55	40	12	0	46	1.42
10235482--10235680	91	2.2	92	85	0	256	37	11	23	28	1.89
10235773--10235825	16	3.2	16	74	12	54	52	3	26	16	1.61
10239568--10239661	41	2.3	41	81	0	116	17	25	31	25	1.97
10248862--10248924	32	2.0	32	87	0	90	39	17	9	33	1.82
10248970--10249070	39	2.5	41	83	6	152	54	14	4	25	1.60
10255577--10255685	29	3.8	29	82	2	121	32	9	20	38	1.84
10255611--10255687	14	5.4	14	75	6	64	32	9	19	38	1.83
10257661--10257718	21	2.8	21	97	0	107	32	17	13	36	1.89
10271998--10272200	105	1.9	105	95	0	370	47	6	10	34	1.64
10272609--10272636	3	9.3	3	100	0	56	35	0	0	64	0.94
10274541--10274590	3	16.7	3	100	0	100	34	0	0	66	0.92
10274986--10275024	2	19.5	2	100	0	78	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10281749--10281773	12	2.1	12	100	0	50	36	0	24	40	1.55
10285053--10285082	10	3.0	10	95	0	51	16	3	60	20	1.50
10287764--10287883	63	1.9	63	82	3	152	30	35	9	24	1.87
10290922--10291014	44	2.1	46	84	11	122	32	3	26	37	1.73
10294730--10295607	439	2.0	439	100	0	1756	32	16	18	31	1.94
10296778--10296833	28	2.0	29	86	6	80	69	3	16	10	1.30
10301070--10301095	3	8.7	3	100	0	52	0	30	0	69	0.89
10301951--10301985	6	5.8	6	100	0	70	51	0	34	14	1.42
10302833--10302886	28	2.0	28	88	3	83	51	0	0	48	1.00
10302824--10302889	27	2.5	26	80	7	78	48	1	1	48	1.20

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