genome.fa.s5.2.7.7.80.10.50.1000.19.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: CP032249.1 Gossypioides kirkii chromosome KI_07
Parameters: 2 7 7 80 10 50 1000
Length:  37252039

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   

This is table  19  of  120  ( 14335 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)
5076265--5076448	30	6.2	29	80	10	185	33	7	22	36	1.82
5078973--5079010	19	2.0	20	89	5	60	52	5	2	39	1.38
5079339--5079398	31	1.9	31	93	0	102	36	11	6	45	1.67
5083537--5083591	23	2.4	23	84	0	74	29	25	21	23	1.99
5084328--5084361	17	2.0	17	88	0	50	58	0	2	38	1.13
5091869--5091904	19	1.9	19	88	5	56	63	5	2	27	1.30
5094425--5094459	16	2.1	17	89	5	54	34	8	11	45	1.71
5095712--5095842	67	2.1	62	84	11	169	51	2	1	45	1.23
5100582--5100678	51	1.9	51	83	8	126	65	2	0	31	1.04
5100582--5100678	43	2.3	42	81	12	117	65	2	0	31	1.04
5102725--5102802	29	2.7	30	82	4	97	29	15	24	30	1.95
5102725--5102819	15	6.5	15	75	9	90	28	16	25	29	1.97
5102782--5102875	28	3.4	28	83	2	100	21	20	30	27	1.98
5102777--5102876	14	7.2	14	69	9	62	22	20	29	29	1.98
5102867--5102911	23	2.0	23	86	4	65	26	17	24	31	1.97
5113250--5113294	21	2.1	21	87	0	63	0	24	0	75	0.80
5117713--5117749	18	2.1	18	89	0	56	24	27	0	48	1.51
5122537--5122625	44	2.0	44	95	0	160	40	16	12	30	1.86
5122665--5122697	2	16.5	2	100	0	66	51	0	0	48	1.00
5136004--5136079	34	2.2	34	97	0	143	50	0	21	28	1.49
5139390--5139442	21	2.5	21	77	17	56	54	9	0	35	1.33
5139463--5139526	16	4.1	15	84	13	85	21	9	14	54	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5139463--5139526	31	2.1	31	96	0	119	21	9	14	54	1.67
5140161--5140242	11	7.5	11	71	16	55	30	2	3	63	1.24
5140257--5140336	30	2.5	32	78	17	87	56	7	1	35	1.36
5149584--5149626	2	21.5	2	100	0	86	48	0	0	51	1.00
5152502--5152563	30	2.0	32	84	9	83	33	9	17	38	1.83
5152659--5152708	19	2.7	18	78	9	55	32	6	12	50	1.64
5155894--5155943	21	2.3	21	83	10	57	36	34	2	28	1.69
5155933--5155981	20	2.5	20	93	0	80	42	24	4	28	1.73
5155960--5155989	14	2.2	13	94	5	51	40	30	6	23	1.80
5167313--5167343	16	1.9	16	93	0	53	38	6	32	22	1.80
5167318--5167380	32	2.0	32	83	0	81	39	6	26	26	1.80
5177364--5177403	21	1.9	21	89	0	62	40	10	7	42	1.67
5183803--5184034	115	2.0	116	91	0	376	51	23	5	19	1.67
5183987--5184040	27	2.0	27	85	3	72	57	24	1	16	1.49
5187439--5187470	13	2.5	13	95	5	57	78	0	0	21	0.76
5195679--5195735	21	2.7	21	81	8	62	66	1	24	7	1.26
5195681--5195726	21	2.2	20	88	3	65	67	0	23	8	1.18
5196664--5196693	3	10.3	3	92	7	53	70	0	0	30	0.88
5197747--5197812	20	3.2	20	85	8	89	34	24	25	15	1.94
5197737--5197812	27	2.8	27	97	0	143	36	23	25	14	1.93
5197740--5197812	7	10.7	7	86	5	105	34	24	26	15	1.94
5197917--5197966	21	2.3	22	93	3	84	22	0	32	46	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5198334--5198408	11	6.5	11	73	14	62	69	0	25	5	1.09
5198334--5198406	23	3.1	23	75	11	67	69	0	24	5	1.09
5202536--5202625	45	2.0	45	80	6	101	43	8	15	32	1.78
5203433--5203508	40	1.9	40	94	0	134	51	11	10	26	1.71
5203660--5203711	24	2.2	24	89	0	77	57	7	1	32	1.38
5205626--5205670	23	2.0	23	90	0	72	53	8	4	33	1.52
5206176--5206241	28	2.4	27	90	9	100	34	1	0	63	1.04
5206176--5206240	18	3.6	18	76	13	62	33	1	0	64	1.03
5208555--5208614	25	2.3	26	82	8	68	43	5	1	50	1.34
5217709--5217745	17	2.2	17	90	0	56	59	2	0	37	1.12
5218476--5218515	21	1.9	21	84	0	53	42	0	5	52	1.23
5219700--5219967	29	9.1	30	69	23	119	32	28	3	34	1.75
5219692--5219985	59	5.0	59	87	2	394	31	29	4	35	1.77
5219689--5219985	117	2.5	118	87	5	440	31	29	4	35	1.77
5230934--5230960	11	2.5	11	100	0	54	92	0	7	0	0.38
5231801--5232907	200	5.5	200	93	0	1741	35	20	22	21	1.96
5234058--5234097	21	1.9	21	84	0	53	42	0	5	52	1.23
5234621--5234679	26	2.3	26	100	0	118	15	33	44	6	1.73
5235289--5235388	29	3.4	28	72	13	85	34	24	3	39	1.70
5235284--5235399	59	2.0	59	87	0	169	31	24	3	40	1.72
5244418--5244461	18	2.4	18	80	0	52	75	2	4	18	1.09
5244433--5244479	19	2.5	19	86	10	62	72	0	4	23	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5244501--5244606	9	11.8	9	74	14	69	58	2	0	38	1.13
5244499--5244586	17	5.1	17	78	17	74	60	3	0	36	1.14
5244502--5244575	17	4.1	19	79	11	93	62	4	0	33	1.14
5244499--5244583	27	3.2	25	79	15	84	61	3	0	35	1.13
5244499--5244586	34	2.5	36	78	10	101	60	3	0	36	1.14
5245056--5245209	10	15.7	9	70	16	85	32	2	3	61	1.28
5246583--5246638	15	3.9	15	83	6	80	46	8	7	37	1.63
5246583--5246649	15	4.6	14	79	15	66	44	8	10	35	1.70
5258387--5258438	18	3.1	17	77	5	52	32	0	3	63	1.12
5261013--5261056	18	2.3	20	81	14	58	34	0	2	63	1.07
5261013--5261056	10	4.8	9	81	15	54	34	0	2	63	1.07
5262548--5262631	42	2.0	42	88	4	125	30	0	21	47	1.51
5265998--5266023	11	2.4	11	100	0	52	26	0	0	73	0.84
5266304--5266387	28	2.9	29	78	16	93	55	1	0	42	1.07
5267467--5267543	37	2.1	37	100	0	154	46	7	14	31	1.72
5268481--5268551	4	17.2	4	84	5	88	26	0	2	70	1.01
5268474--5268551	25	3.1	24	83	3	93	25	0	3	70	1.04
5268495--5268553	29	2.0	29	93	0	100	28	0	1	69	0.98
5268481--5268551	21	3.5	20	84	5	97	26	0	2	70	1.01
5269966--5270012	19	2.5	19	86	6	60	59	0	0	40	0.97
5270196--5270242	20	2.4	20	75	13	53	51	0	8	40	1.33
5270351--5270387	10	3.5	11	85	10	51	27	5	0	67	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5270346--5270387	10	4.2	10	82	8	50	23	4	0	71	1.05
5275637--5275670	18	1.9	17	88	5	50	47	2	5	44	1.42
5276177--5276223	12	3.5	13	78	16	51	57	6	0	36	1.24
5278758--5278782	12	2.1	12	100	0	50	0	44	0	56	0.99
5278786--5278811	2	13.0	2	100	0	52	50	0	0	50	1.00
5280162--5280188	2	13.5	2	100	0	54	0	48	0	51	1.00
5282944--5282968	11	2.3	11	100	0	50	32	0	0	68	0.90
5287343--5287396	21	2.6	21	84	0	81	22	18	24	35	1.96
5287384--5287421	20	1.9	20	88	0	58	10	10	28	50	1.70
5287331--5287396	7	9.4	7	74	0	60	22	21	24	31	1.98
5288804--5288828	7	3.6	7	100	0	50	24	0	12	64	1.27
5292682--5293272	297	2.0	297	100	0	1182	32	12	16	38	1.86
5295010--5295090	30	2.7	30	92	0	126	23	8	14	53	1.69
5295411--5295462	22	2.3	22	83	9	61	32	15	25	26	1.95
5296303--5296499	59	3.3	57	76	9	189	37	3	29	29	1.74
5296473--5296777	30	10.3	29	83	6	335	36	3	22	37	1.73
5296473--5296776	59	5.1	59	83	8	375	36	3	22	37	1.73
5296467--5296777	89	3.5	89	86	3	412	35	3	22	37	1.73
5297540--5297567	14	2.0	14	100	0	56	35	21	21	21	1.96
5298517--5298565	6	7.5	6	80	17	53	32	0	4	63	1.13
5298538--5298617	6	13.3	6	81	15	76	48	0	2	48	1.14
5298540--5298617	11	7.1	11	75	8	61	48	0	2	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5298540--5298620	17	5.0	16	79	13	76	50	0	2	46	1.14
5298555--5298620	17	4.1	16	83	13	91	56	0	3	40	1.15
5298991--5299150	68	2.3	71	82	9	188	26	21	16	35	1.95
5299103--5299862	31	22.7	30	64	24	147	28	21	16	34	1.94
5299137--5299903	68	11.3	68	92	0	1241	28	21	16	34	1.94
5311400--5311601	59	3.4	57	72	12	183	37	3	28	30	1.74
5311577--5311699	30	4.1	30	85	2	149	34	1	23	40	1.65
5311574--5311720	60	2.5	59	85	5	181	34	2	23	39	1.67
5313454--5313521	6	11.3	6	77	17	70	51	0	2	45	1.16
5313463--5313515	11	5.1	10	77	22	56	54	0	3	41	1.18

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