genome.fa.s5.2.7.7.80.10.50.1000.20.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  20  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)
5313459--5313524	17	4.1	16	83	13	91	56	0	3	40	1.15
5318161--5318191	3	10.3	3	100	0	62	0	32	0	67	0.91
5319481--5319509	14	2.0	15	93	6	51	13	6	10	68	1.37
5319626--5319699	30	2.5	30	80	6	80	37	2	5	54	1.38
5322616--5323094	242	2.0	242	100	0	958	16	22	20	40	1.91
5323706--5323782	9	8.0	9	69	13	55	63	1	2	32	1.16
5323699--5323741	19	2.3	18	80	11	50	60	2	2	34	1.22
5323691--5323762	30	2.4	30	78	0	81	65	1	1	31	1.10
5324334--5324388	22	2.6	21	82	5	58	34	1	7	56	1.38
5324317--5324654	10	35.0	9	66	21	109	36	2	4	57	1.31
5324440--5324511	28	2.6	28	72	18	69	36	2	2	58	1.27
5326796--5326940	64	2.3	65	92	3	242	47	11	4	36	1.60
5338935--5338969	14	2.5	14	90	0	52	20	5	11	62	1.48
5338994--5339056	30	2.1	30	93	0	108	22	6	15	55	1.63
5342446--5342512	22	3.1	21	72	14	64	37	0	5	56	1.24
5362090--5362128	20	2.0	20	89	0	60	38	28	5	28	1.78
5370458--5370518	29	2.1	29	87	0	86	52	0	4	42	1.23
5370546--5370576	15	2.1	15	93	0	53	58	0	6	35	1.24
5371221--5371365	46	3.2	46	65	21	126	52	11	6	29	1.63
5371225--5371361	42	3.2	42	64	22	102	52	11	7	28	1.64
5377159--5377206	21	2.3	21	82	7	53	27	12	33	27	1.92
5381724--5381775	24	2.2	24	82	0	59	57	7	1	32	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5381832--5381866	17	2.1	17	100	0	70	17	5	22	54	1.64
5381939--5381977	18	2.2	18	85	0	51	25	23	12	38	1.90
5382900--5382956	28	2.0	30	86	6	82	50	1	3	43	1.29
5391161--5391212	24	2.2	24	82	0	59	57	7	1	32	1.38
5394930--5394978	10	4.7	11	75	12	50	38	2	0	59	1.09
5395900--5395925	4	6.5	4	100	0	52	76	23	0	0	0.78
5402798--5402828	3	10.3	3	100	0	62	67	0	0	32	0.91
5404127--5404367	42	5.6	42	83	5	238	29	25	11	33	1.91
5420858--5420904	7	6.7	7	78	9	51	70	2	2	25	1.10
5420857--5420884	13	2.2	13	100	0	56	75	0	0	25	0.81
5422763--5422812	26	1.9	25	84	8	64	62	4	0	34	1.14
5422957--5422999	22	2.0	22	81	9	52	58	11	11	18	1.63
5424263--5424301	15	2.6	15	79	0	51	56	0	5	38	1.22
5429000--5429164	59	2.8	60	74	8	158	23	11	26	39	1.88
5436409--5436479	31	2.3	31	75	4	72	43	0	11	45	1.40
5436953--5436977	8	3.1	8	100	0	50	52	0	0	48	1.00
5437391--5437442	21	2.5	21	84	6	70	51	1	15	30	1.54
5437470--5437515	23	2.0	23	86	0	65	56	6	10	26	1.58
5440946--5440980	11	3.1	11	88	8	52	74	0	22	2	0.95
5442748--5442811	26	2.5	26	74	5	67	28	7	25	39	1.83
5447364--5447432	26	2.7	25	71	20	70	26	4	26	43	1.73
5448107--5448149	22	2.0	22	95	0	77	30	30	13	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5454736--5454784	21	2.3	21	89	0	71	26	10	28	34	1.89
5458706--5458750	19	2.4	19	82	14	58	62	4	2	31	1.27
5460626--5460666	3	13.7	3	100	0	82	65	0	0	34	0.93
5464376--5464428	24	2.0	28	86	13	78	43	5	0	50	1.25
5464385--5464447	24	2.6	26	78	14	71	50	3	1	44	1.27
5465317--5465378	24	2.5	25	77	12	65	35	1	4	58	1.29
5466148--5466284	67	2.0	67	100	0	274	35	16	13	35	1.87
5468667--5468700	17	2.1	17	94	5	61	20	8	29	41	1.82
5470462--5470524	31	2.0	31	87	6	92	47	7	7	36	1.62
5474154--5474190	12	3.1	12	84	0	56	32	21	24	21	1.98
5476075--5476099	13	1.9	13	100	0	50	84	16	0	0	0.63
5483052--5483141	20	4.4	20	78	5	92	11	28	20	40	1.86
5489966--5490104	40	3.5	40	95	2	244	23	25	8	43	1.82
5495234--5495445	24	8.3	24	68	12	109	34	15	26	23	1.95
5495228--5495434	52	4.0	52	86	0	270	34	15	25	24	1.94
5497687--5497741	28	2.0	27	92	3	92	34	5	9	50	1.57
5507348--5507412	21	3.2	21	66	16	64	35	3	12	49	1.56
5507333--5507412	40	2.0	40	100	0	160	35	5	12	47	1.63
5508440--5508478	20	2.0	20	84	0	51	30	2	12	53	1.52
5508786--5508823	20	1.9	20	88	0	58	34	2	10	52	1.50
5511927--5511971	24	1.9	23	86	4	63	55	2	4	37	1.32
5513002--5513050	15	3.1	16	79	8	55	8	12	2	77	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5513982--5514018	6	6.3	6	87	6	58	81	0	2	16	0.81
5513981--5514018	17	2.2	17	95	0	67	78	0	2	18	0.86
5514039--5514071	10	3.4	10	83	8	50	15	6	0	78	0.93
5514086--5514117	4	8.0	4	100	0	64	75	0	0	25	0.81
5516502--5516575	17	4.2	17	83	6	78	41	0	2	55	1.14
5516502--5516575	6	12.7	6	75	11	73	41	0	2	55	1.14
5516502--5516575	11	6.4	11	78	9	67	41	0	2	55	1.14
5516502--5516574	30	2.5	31	85	12	93	41	0	2	56	1.14
5518560--5518775	30	7.2	29	78	7	193	37	18	1	42	1.60
5518560--5518775	60	3.6	59	88	3	308	37	18	1	42	1.60
5518561--5518775	90	2.4	90	79	4	229	37	19	1	42	1.60
5528008--5528266	115	2.3	115	92	0	428	35	20	22	21	1.96
5528778--5528844	17	3.7	18	80	11	75	38	0	1	59	1.06
5528794--5528880	11	8.1	11	71	16	67	42	0	0	57	0.98
5528778--5528880	29	3.1	35	81	14	121	40	0	0	58	1.05
5528794--5528880	17	5.4	16	74	20	83	42	0	0	57	0.98
5528811--5528879	29	2.4	29	100	0	138	42	0	0	57	0.98
5529598--5529640	3	13.7	3	80	9	50	60	0	4	34	1.17
5530846--5531190	30	11.5	30	75	8	283	37	18	2	41	1.63
5530855--5531190	60	5.6	60	86	4	421	37	19	1	41	1.60
5530855--5531190	179	1.9	179	85	4	473	37	19	1	41	1.60
5531483--5531664	96	1.9	96	85	4	251	26	18	15	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5532582--5532611	10	2.9	10	95	5	51	73	0	0	26	0.84
5533664--5533710	23	2.0	25	87	8	71	53	4	4	38	1.40
5533772--5533805	13	2.6	13	85	0	50	58	11	0	29	1.33
5538814--5538851	15	2.6	15	83	4	51	76	2	2	18	1.02
5548969--5549005	2	18.5	2	100	0	74	48	0	0	51	1.00
5553704--5553764	25	2.4	26	80	5	70	45	1	1	50	1.21
5557579--5557634	21	2.7	21	72	13	53	32	28	8	30	1.88
5561589--5561658	36	1.9	36	97	0	131	34	17	17	31	1.93
5565014--5565079	22	3.2	21	70	16	57	63	1	0	34	1.04
5565565--5565605	20	2.0	20	95	0	73	31	4	17	46	1.69
5566574--5566607	16	2.1	16	88	0	50	70	0	0	29	0.87
5566874--5566918	20	2.2	20	80	0	54	22	4	6	66	1.33
5567268--5567299	6	5.3	6	100	0	64	50	15	0	34	1.45
5567909--5568002	20	4.8	20	70	13	54	38	2	3	56	1.27
5567964--5568001	19	2.0	20	85	15	53	36	0	2	60	1.11
5567964--5568021	31	1.9	30	86	13	84	34	0	3	62	1.12
5570086--5570225	69	2.0	69	92	0	235	40	24	12	22	1.89
5572267--5572307	20	2.0	20	100	0	82	14	19	9	56	1.66
5576943--5576977	18	1.9	18	88	0	52	40	0	5	54	1.24
5577566--5577620	11	5.5	11	75	16	57	65	0	0	34	0.93
5577585--5577624	19	2.2	19	86	4	55	60	0	0	40	0.97
5577629--5577755	60	2.1	60	81	5	141	40	14	8	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5581207--5581244	16	2.4	16	86	8	51	47	0	18	34	1.49
5582649--5582703	24	2.3	23	81	3	65	29	7	18	45	1.76
5586481--5586704	29	7.7	29	74	16	158	36	3	26	33	1.74
5586510--5586724	59	3.6	58	82	7	247	36	3	27	32	1.73
5586481--5586725	30	8.3	29	75	10	185	36	3	26	32	1.74
5587920--5587955	2	18.0	2	100	0	72	50	0	0	50	1.00
5588679--5588737	10	5.9	10	72	18	52	52	3	1	42	1.28
5588698--5588738	17	2.4	17	92	8	66	51	2	0	46	1.14
5589303--5589416	48	2.4	48	100	0	228	23	24	15	35	1.94
5590753--5590792	21	2.0	21	85	14	57	57	0	2	40	1.12

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